This document discusses the structure, composition, and assembly of ribosomes. It provides details on both prokaryotic and eukaryotic ribosomes. Some key points include:
- Ribosomes are composed of RNA and proteins and are found in the cytoplasm and organelles of cells. They are responsible for protein synthesis.
- Prokaryotic ribosomes are typically 70S and composed of 30S and 50S subunits, while eukaryotic ribosomes are larger at 80S and composed of 40S and 60S subunits.
- Ribosomes translate mRNA into polypeptide chains with the help of tRNA and link amino acids together to form proteins.
RNA is a polymer made of ribonucleotides linked together. There are three main classes of RNA - transfer RNA, ribosomal RNA, and messenger RNA. In eukaryotes, primary transcripts undergo processing including capping, polyadenylation, and splicing before being transported to the cytoplasm for translation. MicroRNAs and small interfering RNAs are types of small regulatory RNAs that cause inhibition of gene expression through post-transcriptional gene silencing. Both miRNAs and siRNAs have potential applications as therapeutic targets in humans.
The document summarizes the process of DNA replication in prokaryotes. It describes that replication initiates at the origin of replication (oriC) site and proceeds bidirectionally. There are three main steps - initiation, elongation, and termination. In initiation, proteins help unwind DNA at oriC. In elongation, primase synthesizes primers and DNA polymerase adds nucleotides to replicate both leading and lagging strands. In termination, RNA primers are removed and DNA ligase seals the replicated DNA, completing replication.
The document summarizes nuclear structure and transport. It discusses that the nucleus contains DNA and is surrounded by a double membrane nuclear envelope containing pores. It also contains non-membrane bound subcompartments like the nucleolus. Chromosomes occupy distinct territories in the nucleus. Large molecules are transported between the nucleus and cytoplasm through nuclear pores using nuclear import and export sequences. RNAs and ribosomal subunits use specific export receptors to move through the pores.
Nuclear transport involves the selective movement of proteins and RNA between the nucleus and cytoplasm. Large molecules are transported through the nuclear pore complex (NPC) in an energy-dependent manner mediated by transport receptors called karyopherins. Karyopherins recognize nuclear localization signals (NLS) or nuclear export signals (NES) on cargos and facilitate their transport through interactions with nucleoporins and regulation by the GTPase Ran. Different classes of RNA are exported by specific transport receptors along with RNA-binding proteins, while ribosomal subunits are assembled in the nucleolus and exported by exportin 1 after import of ribosomal proteins.
Gene mapping involves determining the physical location of genes on chromosomes. There are two main types of gene mapping: genetic mapping and physical mapping. Genetic mapping uses genetic techniques like linkage analysis to construct maps showing relative gene positions based on recombination frequencies. Physical mapping uses molecular biology techniques to directly examine DNA and determine absolute positions of genes and sequences. Key methods in physical mapping include restriction mapping, fluorescence in situ hybridization (FISH), and sequence tagged site (STS) mapping. Gene mapping is important for understanding genetic diseases and developing gene therapy methods.
Ribozymes are RNA molecules that act as enzymes and catalyze biochemical reactions. Some key points:
- Ribozymes were first proposed in the 1960s and discovered in the 1980s by Thomas Cech and Sidney Altman, who shared the 1989 Nobel Prize for the discovery.
- Common ribozyme activities include splicing and cleaving RNA and DNA. Ribozymes in the ribosome help link amino acids during protein synthesis.
- Major types of ribozymes include group I and group II introns, hammerhead, hairpin, and RNase P ribozymes. They use mechanisms like metal ion coordination and nucleophilic attacks to catalyze reactions.
- R
Protein targeting involves transporting proteins to their proper destinations after synthesis so they can perform their functions. There are two main pathways: co-translational targeting transports proteins during translation to the ER, Golgi and secretory pathway, while post-translational targeting transports proteins after translation to the nucleus, mitochondria and peroxisomes. Targeting sequences on the protein interact with receptors to mediate transport through membrane channels using energy from GTP or ATP hydrolysis. Defects in protein targeting can cause diseases like Zellweger syndrome, primary hyperoxaluria and cystic fibrosis.
This document summarizes the process of nuclear export of messenger RNA (mRNA). It begins with an introduction describing how mRNA must be exported from the nucleus to the cytoplasm to be translated into protein. It then discusses the importance of nuclear export and describes the nuclear pore complex that facilitates transport. The document outlines the roles of Ran GTPase and transport receptors in nuclear export. It provides details on the adaptor-receptor system and multistep process of mRNA export, including recruitment of export factors, translocation through the nuclear pore, and release into the cytoplasm. The summary concludes with sections on regulation and quality control of mRNA export.
RNA is a polymer made of ribonucleotides linked together. There are three main classes of RNA - transfer RNA, ribosomal RNA, and messenger RNA. In eukaryotes, primary transcripts undergo processing including capping, polyadenylation, and splicing before being transported to the cytoplasm for translation. MicroRNAs and small interfering RNAs are types of small regulatory RNAs that cause inhibition of gene expression through post-transcriptional gene silencing. Both miRNAs and siRNAs have potential applications as therapeutic targets in humans.
The document summarizes the process of DNA replication in prokaryotes. It describes that replication initiates at the origin of replication (oriC) site and proceeds bidirectionally. There are three main steps - initiation, elongation, and termination. In initiation, proteins help unwind DNA at oriC. In elongation, primase synthesizes primers and DNA polymerase adds nucleotides to replicate both leading and lagging strands. In termination, RNA primers are removed and DNA ligase seals the replicated DNA, completing replication.
The document summarizes nuclear structure and transport. It discusses that the nucleus contains DNA and is surrounded by a double membrane nuclear envelope containing pores. It also contains non-membrane bound subcompartments like the nucleolus. Chromosomes occupy distinct territories in the nucleus. Large molecules are transported between the nucleus and cytoplasm through nuclear pores using nuclear import and export sequences. RNAs and ribosomal subunits use specific export receptors to move through the pores.
Nuclear transport involves the selective movement of proteins and RNA between the nucleus and cytoplasm. Large molecules are transported through the nuclear pore complex (NPC) in an energy-dependent manner mediated by transport receptors called karyopherins. Karyopherins recognize nuclear localization signals (NLS) or nuclear export signals (NES) on cargos and facilitate their transport through interactions with nucleoporins and regulation by the GTPase Ran. Different classes of RNA are exported by specific transport receptors along with RNA-binding proteins, while ribosomal subunits are assembled in the nucleolus and exported by exportin 1 after import of ribosomal proteins.
Gene mapping involves determining the physical location of genes on chromosomes. There are two main types of gene mapping: genetic mapping and physical mapping. Genetic mapping uses genetic techniques like linkage analysis to construct maps showing relative gene positions based on recombination frequencies. Physical mapping uses molecular biology techniques to directly examine DNA and determine absolute positions of genes and sequences. Key methods in physical mapping include restriction mapping, fluorescence in situ hybridization (FISH), and sequence tagged site (STS) mapping. Gene mapping is important for understanding genetic diseases and developing gene therapy methods.
Ribozymes are RNA molecules that act as enzymes and catalyze biochemical reactions. Some key points:
- Ribozymes were first proposed in the 1960s and discovered in the 1980s by Thomas Cech and Sidney Altman, who shared the 1989 Nobel Prize for the discovery.
- Common ribozyme activities include splicing and cleaving RNA and DNA. Ribozymes in the ribosome help link amino acids during protein synthesis.
- Major types of ribozymes include group I and group II introns, hammerhead, hairpin, and RNase P ribozymes. They use mechanisms like metal ion coordination and nucleophilic attacks to catalyze reactions.
- R
Protein targeting involves transporting proteins to their proper destinations after synthesis so they can perform their functions. There are two main pathways: co-translational targeting transports proteins during translation to the ER, Golgi and secretory pathway, while post-translational targeting transports proteins after translation to the nucleus, mitochondria and peroxisomes. Targeting sequences on the protein interact with receptors to mediate transport through membrane channels using energy from GTP or ATP hydrolysis. Defects in protein targeting can cause diseases like Zellweger syndrome, primary hyperoxaluria and cystic fibrosis.
This document summarizes the process of nuclear export of messenger RNA (mRNA). It begins with an introduction describing how mRNA must be exported from the nucleus to the cytoplasm to be translated into protein. It then discusses the importance of nuclear export and describes the nuclear pore complex that facilitates transport. The document outlines the roles of Ran GTPase and transport receptors in nuclear export. It provides details on the adaptor-receptor system and multistep process of mRNA export, including recruitment of export factors, translocation through the nuclear pore, and release into the cytoplasm. The summary concludes with sections on regulation and quality control of mRNA export.
The document discusses the differences between prokaryotic and eukaryotic genomes. Prokaryotes generally have a single, circular chromosome while eukaryotes have multiple linear chromosomes within a membrane-bound nucleus. The human genome contains around 3 billion base pairs divided between nuclear and mitochondrial DNA. The nuclear genome encodes around 20,000-25,000 protein-coding genes and is inherited equally from both parents, while mitochondrial DNA is maternally inherited.
This document summarizes RNA splicing. It begins with a brief history of the discovery of RNA splicing and defines key terms like intron, exon, and spliceosome. The main part of the document describes the process of RNA splicing, where the spliceosome removes introns from pre-mRNA and joins the exons to produce mRNA. Finally, it discusses some applications of RNA splicing in gene expression, protein diversity, and cancer.
Nucleosomes are the fundamental repeating subunits of eukaryotic chromatin that package DNA into a compact structure. They are composed of 146 base pairs of DNA wrapped around an octamer of histone proteins, resembling beads on a string. This represents the first order of DNA compaction. Higher orders of compaction involve the nucleosomes winding further to form solenoid fibers, scaffold loops, chromatids, and finally full chromosomes. Nucleosomes allow the long DNA molecules to fit within cell nuclei while also regulating genetic expression.
1) Eukaryotic genes can be organized in complex ways, including overlapping genes where coding sequences partially overlap, and split genes where coding sequences are interrupted by non-coding intron sequences.
2) Overlapping genes were discovered in bacteriophage X174, where the coding sequences of genes D and E overlap but are translated in different reading frames.
3) Split genes have exons, which are the coding sequences included in mRNA, and introns, which are intervening non-coding sequences not included in mRNA. Split genes were first observed in animal viruses in 1977.
CBCS 4TH SEM ,
CHARGING, STRUCTURE AND FUNCTION OF tRNA,
AMINOACYL RNA SYNTHETASE(ASR) PROOFREADING AND EDITING
https://www.youtube.com/watch?v=YzOVMWYLiCE
1) Eukaryotic gene expression is regulated at multiple levels including transcription, chromatin structure, post-transcriptional processing, and translation.
2) Regulation allows for adaptation and tissue-specific gene expression during development. Key differences from prokaryotes include the lack of operons and more complex regulation in eukaryotes.
3) Gene expression can be regulated short-term through transcriptional control, as seen in yeast galactose-utilizing genes, or long-term for development through mechanisms like chromatin remodeling.
The document discusses operons, which are groups of prokaryotic genes that are transcribed together to serve a single purpose. Jacob and Monod discovered the operon concept in 1961 while studying E. coli metabolism. An operon contains an operator, promoter, and genes. Regulatory proteins can control operon transcription by repressing or inducing it. Examples discussed include the lac and trp operons, which use different mechanisms of negative and positive induction/repression to control gene expression based on environmental conditions.
RNA polymerases are enzymes that transcribe DNA into RNA. In prokaryotes, a single RNA polymerase synthesizes RNA, while eukaryotes contain three RNA polymerases that synthesize different RNA molecules. RNA polymerases are large complex protein machines made of multiple subunits that work together to unwind DNA, add nucleotides, and proofread the newly synthesized RNA. The transcription process involves initiation, elongation, and termination stages that are regulated by various transcription factors.
The document discusses three models of DNA replication:
1) Asymmetric replication - the leading and lagging strands are replicated differently due to the 5' to 3' directionality of DNA polymerase. The leading strand replicates continuously while the lagging strand replicates discontinuously in short Okazaki fragments.
2) D-loop model - replication in mitochondria where one strand is displaced to form a D-loop and replicates first before the other strand.
3) Rolling circle model - used by plasmids and viruses where one strand is nicked and displaced to be used as a template, forming multiple copies linked together in a concatemer.
transcription activators, repressors, & control RNA splicing, procesing and e...ranjithahb ranjithahbhb
RNA processing involves several steps to convert primary transcripts into mature mRNA in eukaryotic cells. These include 5' capping, 3' cleavage and polyadenylation, and RNA splicing. RNA splicing involves two transesterification reactions that remove introns and join exons. Alternative splicing allows a single gene to produce multiple protein variants. Eukaryotic gene expression is regulated by transcriptional activators and repressors that bind cis-regulatory elements like promoters and enhancers. Activators recruit transcriptional machinery while repressors inhibit transcription. Chromatin structure also influences transcription with acetylation associated with active genes.
Histone proteins package DNA into nucleosomes and facilitate chromatin formation. There are two main classes of histones - core histones like H2A, H2B, H3, and H4 which assemble around DNA, and linker histone H1 which binds nucleosomes. Post-translational modifications of histone tails like acetylation and methylation regulate gene expression by altering chromatin structure. Genomic imprinting is an epigenetic process where gene expression depends on parental origin through histone modifications and other epigenetic markers without changing DNA sequence.
DNA replication is the process by which a cell makes an identical copy of its DNA. It involves unwinding the double helix at an origin of replication and using each parental strand as a template to synthesize new daughter strands. This results in two identical copies of the DNA molecule. Replication is semi-conservative, meaning each new DNA molecule contains one original parental strand and one newly synthesized strand. It is also bidirectional and semi-discontinuous. The leading strand is copied continuously while the lagging strand is copied discontinuously in fragments that are later joined.
Ribosomes are the cell's sites of protein synthesis. They are composed of ribosomal RNA and proteins and exist as large and small subunits. Ribosomes were first observed in the 1950s and can be either membrane-bound or free in the cytoplasm. They translate mRNA into proteins through the attachment of amino acids. Ribosomes require mRNA, tRNAs carrying amino acids, and the proper subunits coming together to produce proteins, which are then released into the cell. Antibiotics can inhibit bacterial ribosomes and disrupt protein synthesis. Disorders of ribosome biogenesis can also cause diseases.
RNA splicing is the process by which introns, or non-coding sequences, are removed from pre-messenger RNA (pre-mRNA) to produce mature mRNA that can be translated into protein. Most genes contain introns that are removed by a spliceosome, a complex of RNA and proteins, leaving just the coding exons to form mRNA. Alternative splicing allows one gene to encode multiple proteins by selecting different combinations of exons. Errors in splicing can cause diseases if they result in truncated or abnormal proteins.
Rolling circle replication is a process that can rapidly synthesize multiple copies of circular DNA or RNA molecules. It involves the unidirectional replication of circular nucleic acids. The process begins with an initiator protein nicking one strand of the circular DNA. DNA polymerase then uses the 3' end of the nicked strand to initiate replication, displacing the 5' end. Replication continues around the circle to produce a long concatemer of copies. The concatemer is then cleaved and ligated to form multiple double-stranded circular DNA molecules. Rolling circle replication is used by some viruses and plasmids to replicate their genomes and can be harnessed for applications like signal amplification in biosensing.
Ribozymes are RNA molecules that can catalyze biochemical reactions like protein enzymes. The first ribozyme was discovered in 1980. There are two main classes of natural ribozymes - self-cleaving ribozymes like hammerhead and hairpin ribozymes, and self-splicing ribozymes like group I and group II introns and RNase P. Ribozymes are being investigated for their potential in gene therapy applications by specifically cleaving target mRNA molecules.
The document summarizes DNA replication. It describes that DNA replication produces two identical copies of DNA from one original molecule through a semi-conservative process. This involves unwinding of DNA at origins of replication by helicase to form replication forks that grow bidirectionally. DNA polymerase then synthesizes new strands using the original strands as templates. Replication occurs through initiation, elongation, and termination steps mediated by various proteins at the replication fork. The Meselson-Stahl experiment provided evidence that DNA replication is semi-conservative through density gradient centrifugation of parental and progeny DNA.
The document discusses protein synthesis and post-translational modification. It describes how translation involves mRNA, ribosomes, tRNA, and release factors to synthesize proteins. The process involves initiation, elongation, and termination. After synthesis, the peptide undergoes folding, modification like phosphorylation, and can be transported to organelles. Post-translational modifications are important for diversity and regulating protein function, and involve processes like methylation, ubiquitination, and glycosylation. Diseases like atherosclerosis and fibrosis are related to disorders of collagen deposition and modification.
This document provides information about ribosomes, mitochondria, and lysosomes. It describes them as follows:
Ribosomes are complex molecular machines found in all cells that function to synthesize proteins. They consist of RNA and proteins arranged into small and large subunits. Mitochondria are organelles that generate energy for cells through ATP production. They contain inner and outer membranes, intermembrane space, cristae, and matrix. Lysosomes contain enzymes that digest unwanted materials inside and outside of cells through autophagy and heterophagy.
Ribosomes are tiny spheroidal particles found in cells that are the sites of protein synthesis. They are composed of RNA and proteins and exist as two subunits - a smaller subunit that binds to mRNA and a larger subunit that binds tRNAs and amino acids. Ribosomes link amino acids together according to the sequence specified by mRNA to assemble proteins. They serve as catalysts for two processes essential to protein synthesis. The structure and location of ribosomes determine whether the proteins they synthesize are used inside or outside the cell.
The document discusses the differences between prokaryotic and eukaryotic genomes. Prokaryotes generally have a single, circular chromosome while eukaryotes have multiple linear chromosomes within a membrane-bound nucleus. The human genome contains around 3 billion base pairs divided between nuclear and mitochondrial DNA. The nuclear genome encodes around 20,000-25,000 protein-coding genes and is inherited equally from both parents, while mitochondrial DNA is maternally inherited.
This document summarizes RNA splicing. It begins with a brief history of the discovery of RNA splicing and defines key terms like intron, exon, and spliceosome. The main part of the document describes the process of RNA splicing, where the spliceosome removes introns from pre-mRNA and joins the exons to produce mRNA. Finally, it discusses some applications of RNA splicing in gene expression, protein diversity, and cancer.
Nucleosomes are the fundamental repeating subunits of eukaryotic chromatin that package DNA into a compact structure. They are composed of 146 base pairs of DNA wrapped around an octamer of histone proteins, resembling beads on a string. This represents the first order of DNA compaction. Higher orders of compaction involve the nucleosomes winding further to form solenoid fibers, scaffold loops, chromatids, and finally full chromosomes. Nucleosomes allow the long DNA molecules to fit within cell nuclei while also regulating genetic expression.
1) Eukaryotic genes can be organized in complex ways, including overlapping genes where coding sequences partially overlap, and split genes where coding sequences are interrupted by non-coding intron sequences.
2) Overlapping genes were discovered in bacteriophage X174, where the coding sequences of genes D and E overlap but are translated in different reading frames.
3) Split genes have exons, which are the coding sequences included in mRNA, and introns, which are intervening non-coding sequences not included in mRNA. Split genes were first observed in animal viruses in 1977.
CBCS 4TH SEM ,
CHARGING, STRUCTURE AND FUNCTION OF tRNA,
AMINOACYL RNA SYNTHETASE(ASR) PROOFREADING AND EDITING
https://www.youtube.com/watch?v=YzOVMWYLiCE
1) Eukaryotic gene expression is regulated at multiple levels including transcription, chromatin structure, post-transcriptional processing, and translation.
2) Regulation allows for adaptation and tissue-specific gene expression during development. Key differences from prokaryotes include the lack of operons and more complex regulation in eukaryotes.
3) Gene expression can be regulated short-term through transcriptional control, as seen in yeast galactose-utilizing genes, or long-term for development through mechanisms like chromatin remodeling.
The document discusses operons, which are groups of prokaryotic genes that are transcribed together to serve a single purpose. Jacob and Monod discovered the operon concept in 1961 while studying E. coli metabolism. An operon contains an operator, promoter, and genes. Regulatory proteins can control operon transcription by repressing or inducing it. Examples discussed include the lac and trp operons, which use different mechanisms of negative and positive induction/repression to control gene expression based on environmental conditions.
RNA polymerases are enzymes that transcribe DNA into RNA. In prokaryotes, a single RNA polymerase synthesizes RNA, while eukaryotes contain three RNA polymerases that synthesize different RNA molecules. RNA polymerases are large complex protein machines made of multiple subunits that work together to unwind DNA, add nucleotides, and proofread the newly synthesized RNA. The transcription process involves initiation, elongation, and termination stages that are regulated by various transcription factors.
The document discusses three models of DNA replication:
1) Asymmetric replication - the leading and lagging strands are replicated differently due to the 5' to 3' directionality of DNA polymerase. The leading strand replicates continuously while the lagging strand replicates discontinuously in short Okazaki fragments.
2) D-loop model - replication in mitochondria where one strand is displaced to form a D-loop and replicates first before the other strand.
3) Rolling circle model - used by plasmids and viruses where one strand is nicked and displaced to be used as a template, forming multiple copies linked together in a concatemer.
transcription activators, repressors, & control RNA splicing, procesing and e...ranjithahb ranjithahbhb
RNA processing involves several steps to convert primary transcripts into mature mRNA in eukaryotic cells. These include 5' capping, 3' cleavage and polyadenylation, and RNA splicing. RNA splicing involves two transesterification reactions that remove introns and join exons. Alternative splicing allows a single gene to produce multiple protein variants. Eukaryotic gene expression is regulated by transcriptional activators and repressors that bind cis-regulatory elements like promoters and enhancers. Activators recruit transcriptional machinery while repressors inhibit transcription. Chromatin structure also influences transcription with acetylation associated with active genes.
Histone proteins package DNA into nucleosomes and facilitate chromatin formation. There are two main classes of histones - core histones like H2A, H2B, H3, and H4 which assemble around DNA, and linker histone H1 which binds nucleosomes. Post-translational modifications of histone tails like acetylation and methylation regulate gene expression by altering chromatin structure. Genomic imprinting is an epigenetic process where gene expression depends on parental origin through histone modifications and other epigenetic markers without changing DNA sequence.
DNA replication is the process by which a cell makes an identical copy of its DNA. It involves unwinding the double helix at an origin of replication and using each parental strand as a template to synthesize new daughter strands. This results in two identical copies of the DNA molecule. Replication is semi-conservative, meaning each new DNA molecule contains one original parental strand and one newly synthesized strand. It is also bidirectional and semi-discontinuous. The leading strand is copied continuously while the lagging strand is copied discontinuously in fragments that are later joined.
Ribosomes are the cell's sites of protein synthesis. They are composed of ribosomal RNA and proteins and exist as large and small subunits. Ribosomes were first observed in the 1950s and can be either membrane-bound or free in the cytoplasm. They translate mRNA into proteins through the attachment of amino acids. Ribosomes require mRNA, tRNAs carrying amino acids, and the proper subunits coming together to produce proteins, which are then released into the cell. Antibiotics can inhibit bacterial ribosomes and disrupt protein synthesis. Disorders of ribosome biogenesis can also cause diseases.
RNA splicing is the process by which introns, or non-coding sequences, are removed from pre-messenger RNA (pre-mRNA) to produce mature mRNA that can be translated into protein. Most genes contain introns that are removed by a spliceosome, a complex of RNA and proteins, leaving just the coding exons to form mRNA. Alternative splicing allows one gene to encode multiple proteins by selecting different combinations of exons. Errors in splicing can cause diseases if they result in truncated or abnormal proteins.
Rolling circle replication is a process that can rapidly synthesize multiple copies of circular DNA or RNA molecules. It involves the unidirectional replication of circular nucleic acids. The process begins with an initiator protein nicking one strand of the circular DNA. DNA polymerase then uses the 3' end of the nicked strand to initiate replication, displacing the 5' end. Replication continues around the circle to produce a long concatemer of copies. The concatemer is then cleaved and ligated to form multiple double-stranded circular DNA molecules. Rolling circle replication is used by some viruses and plasmids to replicate their genomes and can be harnessed for applications like signal amplification in biosensing.
Ribozymes are RNA molecules that can catalyze biochemical reactions like protein enzymes. The first ribozyme was discovered in 1980. There are two main classes of natural ribozymes - self-cleaving ribozymes like hammerhead and hairpin ribozymes, and self-splicing ribozymes like group I and group II introns and RNase P. Ribozymes are being investigated for their potential in gene therapy applications by specifically cleaving target mRNA molecules.
The document summarizes DNA replication. It describes that DNA replication produces two identical copies of DNA from one original molecule through a semi-conservative process. This involves unwinding of DNA at origins of replication by helicase to form replication forks that grow bidirectionally. DNA polymerase then synthesizes new strands using the original strands as templates. Replication occurs through initiation, elongation, and termination steps mediated by various proteins at the replication fork. The Meselson-Stahl experiment provided evidence that DNA replication is semi-conservative through density gradient centrifugation of parental and progeny DNA.
The document discusses protein synthesis and post-translational modification. It describes how translation involves mRNA, ribosomes, tRNA, and release factors to synthesize proteins. The process involves initiation, elongation, and termination. After synthesis, the peptide undergoes folding, modification like phosphorylation, and can be transported to organelles. Post-translational modifications are important for diversity and regulating protein function, and involve processes like methylation, ubiquitination, and glycosylation. Diseases like atherosclerosis and fibrosis are related to disorders of collagen deposition and modification.
This document provides information about ribosomes, mitochondria, and lysosomes. It describes them as follows:
Ribosomes are complex molecular machines found in all cells that function to synthesize proteins. They consist of RNA and proteins arranged into small and large subunits. Mitochondria are organelles that generate energy for cells through ATP production. They contain inner and outer membranes, intermembrane space, cristae, and matrix. Lysosomes contain enzymes that digest unwanted materials inside and outside of cells through autophagy and heterophagy.
Ribosomes are tiny spheroidal particles found in cells that are the sites of protein synthesis. They are composed of RNA and proteins and exist as two subunits - a smaller subunit that binds to mRNA and a larger subunit that binds tRNAs and amino acids. Ribosomes link amino acids together according to the sequence specified by mRNA to assemble proteins. They serve as catalysts for two processes essential to protein synthesis. The structure and location of ribosomes determine whether the proteins they synthesize are used inside or outside the cell.
INTRODUCTION OF MACROMOLECULE
HISTORY OF MACROMOLECULE
PROPERTIES
TYPES OF MACROMOLECULE
COMPLEX FORMATION
EXAMPLE-
Chromatin
Ribosome
CONCLUSION
REFERENCES
STRUCTURE & FUNCTION OF MAJOR ORGANELLES RIBOSOMES,LYSOSOMES,PEROXISOMES & EN...AJAYSOJITRA6
STRUCTURE AND FUCTION OF CELL ORGANELLES
INTRODUCTION:
While examining the animal and plant cell through a microscope, we might have seen numerous organelles that work together to complete the cell activities.
Ribosomes are cell structures composed of RNA and proteins that synthesize proteins. They were discovered in plant and animal cells in the 1950s. Ribosomes can be found floating in the cytoplasm or attached to the endoplasmic reticulum, and their location determines whether proteins are used inside or outside the cell. Ribosomes consist of two subunits that come together to translate mRNA into proteins according to the genetic code.
The document discusses why cells are small and how their size relates to surface area to volume ratio. As cells increase in size, their surface area does not increase as quickly as their volume, limiting nutrient exchange. The document then describes how light microscopes and electron microscopes are used to study cells given their small size. It provides an overview of the key organizational differences between prokaryotic and eukaryotic cells, including the presence of membrane-bound organelles in eukaryotes. Several organelles are then described in more detail, including their structure and function.
Functionasites of ribosomes By KK Sahu SirKAUSHAL SAHU
Ribosomes are complexes of RNA and proteins found in all cells that are the sites of protein synthesis. There are two main types: 70S prokaryotic ribosomes and 80S eukaryotic ribosomes. Ribosomes have a small and large subunit that assemble together. The subunits contain rRNA and different proteins. Ribosomes contain three tRNA binding sites that facilitate the addition of amino acids to a growing polypeptide chain. They play a key role in protein synthesis by linking amino acids together according to mRNA instructions.
Ribosomes are non-membrane bound structures found in all cells that are made of ribonucleic proteins. They consist of three sites - the A site for aminoacyl t-RNA binding, the P site for peptide transfer, and the E site for exit. Ribosomes can be found floating freely in the cytoplasm or attached to the endoplasmic reticulum, and their location determines whether they make proteins for internal cell use or external cell use and secretion. Ribosomes are essential for all cells as they produce proteins, which are needed for many cellular functions.
ultra structure of Ribosome, Prokaryotic Ribosome, Eukaryotic Ribosome, Svedberg unit, Centrifugal force, assembly of Ribosome, functions of Ribosome, models of Ribosomes, fine structure of Ribosome, Discovery of Ribosome,
Animal cells are eukaryotic cells or cells with a membrane-bound nucleus.
DNA in animal cells is housed within the nucleus.
In addition to having nucleus animal cells also contain other membrane-bound organelles.
Organelles have a wide range of responsibilities that include everything from producing hormones and enzymes to providing energy for animal cells.
All living things are made up of cells that make up their body structure. Some of these living things are single-celled and other organisms are made up of more than one cell.
1. Cells are the basic structural and functional units of life. All cells arise from existing cells through cell division.
2. Cells contain a nucleus surrounded by cytoplasm, which includes organelles that perform specific functions. The plasma membrane encloses the cell and regulates what enters and exits.
3. The nucleus houses genetic material and controls cellular activities like protein synthesis. It contains chromatin, which packages DNA, and the nucleolus, where ribosomes are produced.
This document provides information on different molecular techniques used in fisheries. It begins with basic differences between eukaryotes and prokaryotes. It then defines molecular biology and its main components like DNA, RNA, and proteins. It describes the roles and structures of DNA, RNA, and the processes of DNA replication, transcription, translation, and reverse transcription. The key molecular biology components are DNA, which holds genetic information; RNA, which acts as intermediary between DNA and protein synthesis; and proteins, the major functional molecules in cells.
Ribosomes are complex cellular structures found in the cytoplasm and endoplasmic reticulum of cells that translate genetic code from messenger RNA into chains of amino acids known as proteins. They are composed of two subunits - a smaller subunit that binds to mRNA and decodes its genetic information, and a larger subunit where amino acids are added together. Ribosomes exist in both prokaryotic and eukaryotic cells, varying slightly in size between the two, and play an essential role in protein synthesis by reading mRNA sequences and assembling polypeptide chains.
A ribosome is a complex cellular mechanism used to translate genetic code into chains of amino acids.
Long chains of amino acids fold and function as proteins in cells.
Ribosomes are small organelles found in both prokaryotic and eukaryotic cells that are involved in protein synthesis. They are composed of ribosomal RNA and proteins. In prokaryotes, ribosomes are 70S and consist of a 50S and 30S subunit. In eukaryotes, ribosomes are 80S and consist of a 60S and 40S subunit. Ribosomes link amino acids together through peptide bonds to synthesize proteins using instructions from mRNA. They protect mRNA and the growing protein chain during the translation process.
Ribosomes are tiny organelles found in both prokaryotic and eukaryotic cells that serve as the site of biological protein synthesis. They were first observed in the 1930s-1950s using microscopy and electron microscopy. Ribosomes have two subunits - a large subunit and a small subunit - and are composed of RNA and proteins. They can be free in the cytoplasm or bound to the endoplasmic reticulum. Ribosomes translate mRNA into proteins through the three steps of initiation, elongation, and termination.
The document summarizes the structure and function of eukaryotic cells. It describes the basic components of cells including organelles like the nucleus, mitochondria, endoplasmic reticulum, Golgi apparatus, lysosomes, peroxisomes, and cytoskeleton. It explains that eukaryotic cells have a nucleus surrounded by cytoplasm that contains various membrane-bound organelles that carry out specialized functions. The plasma membrane forms the boundary between the cell and its external environment.
Rolling circle replication is a form of DNA replication that occurs in circular DNA like plasmids, bacteriophages, and viroids. It involves five key steps: 1) a circular double-stranded DNA template is nicked at a single origin site, 2) the exposed 3' end is used to initiate replication of the leading strand while displacing the 5' end, 3) the displaced single-stranded DNA acts as the lagging strand and is replicated through Okazaki fragments, 4) both the displaced and unnicked strands are fully replicated, and 5) the displaced strand is rejoined to form a circular DNA product.
S1 nuclease mapping is a laboratory technique used to locate the 5' end of an RNA transcript within a mixture by using the S1 nuclease. The S1 nuclease is an endonuclease that degrades single-stranded DNA and RNA but does not degrade double-stranded DNA or RNA-DNA hybrids. In S1 mapping, a transcript is hybridized to a DNA template and treated with S1 nuclease, which degrades any unhybridized RNA. This allows mapping the 5' end of the transcript to the DNA template. S1 nuclease mapping can determine the exact locations of start and end points of transcription and any splice points within transcripts.
The document summarizes the Ramachandran plot, which is a plot of the phi and psi dihedral angles of amino acid residues in protein structures. It was originally developed in 1963 to show possible conformations of phi and psi angles for amino acid residues and the empirical distribution of these angles observed in protein structures. The plot takes advantage of the circular nature of dihedral angles, with edges wrapping from right to left and bottom to top. It can be used to determine amino acid preferences and how the presence or absence of groups like a methylene group at C-beta affect the angles.
The document discusses the mechanism of ascent of sap in plants. It describes several experiments that were conducted to study this process, including the eosin experiment and ringing experiment. It also discusses and rejects several proposed theories for the ascent of sap, such as the root pressure theory, vital theories, and imbibition theory. The document concludes that the transpiration pull and cohesive properties of water theory provides the most convincing explanation for how water moves upwards in plants. According to this theory, transpiration from leaves creates tension in the xylem vessels that pulls water upwards through the plant.
Transport in plants occurs over long distances through the vascular system or within cells. Materials move in and out of cells by diffusion, facilitated diffusion, or active transport. Diffusion is a passive, slow movement along a concentration gradient without energy expenditure. Facilitated diffusion uses helper proteins like porins and aquaporins to selectively transport hydrophilic substances without expending energy. Active transport moves substances against a concentration gradient faster than passive transport by utilizing ATP as an energy source.
Methods of illustrating evolutionary relationshipEmaSushan
Phylogenetic trees illustrate evolutionary relationships between individuals or species. There are several methods to construct phylogenetic trees, including distance-matrix methods like Neighbor Joining and UPGMA, as well as Maximum Parsimony, Maximum Likelihood, and Bayesian Inference. These methods analyze genetic distances and sequences to determine which individuals or species share a common evolutionary ancestor based on their similarities and differences. Accurately depicting evolutionary relationships is important for fields like medicine to discover new treatments from closely-related species.
The document discusses several examples of coevolution between species:
1. Predator-prey relationships like between predators and their prey lead to an evolutionary arms race as each evolves adaptations to hunt or avoid being caught.
2. Herbivores and the plants they eat also coevolve, as seen with lodgepole pine cones adapting differently depending on whether squirrels or crossbills are present.
3. Acacia ants and acacia plants have a mutualistic relationship where the ants protect the plants and the plants provide food and shelter for the ants.
4. Flowering plants and their pollinators like bees, birds and insects have coevolved mutual adaptations - flowers attract
This document summarizes key aspects of angiosperms including their evolution, life cycle, and the field of systematic botany. It discusses how angiosperms evolved diversified forms and efficient reproduction mechanisms. Their life cycle involves an alternation between a dominant sporophyte generation and a reduced parasitic gametophyte generation. Systematic botany aims to classify and name all plant species based on their morphology and relationships, which is important for fields like agriculture, forestry, and ecology.
An operational taxonomic unit (OTU) is a pragmatic definition used to group closely related organisms or unknown microbes based on DNA sequence similarity. OTUs cluster sequences of a marker gene, like 16S rRNA for prokaryotes, according to a similarity threshold chosen by the researcher, usually 97%. This operational definition allows the study and classification of microbes lacking traditional taxonomy and serves as a proxy for "species" when analyzing sequence datasets.
Numerical taxonomy refers to the application of mathematical and computational methods to analyze taxonomic data and evaluate the similarities between organisms. It involves assigning numerical values to characterize similarities between organisms based on many descriptive characters. The taxa are then organized based on their calculated affinities. Numerical taxonomy aims to provide more objective and data-driven classifications compared to traditional taxonomy.
Cluster analysis is an unsupervised machine learning technique used to group similar objects together. It partitions data into clusters where objects within a cluster are as similar as possible to each other, and as dissimilar as possible to objects in other clusters. There are several clustering methods including partitioning, hierarchical, density-based, grid-based, and model-based. Clustering is widely used in applications such as market segmentation, document classification, and fraud detection.
Cladistics is a biological classification system that groups organisms based on shared traits and evolutionary relationships. It aims to trace ancestry back to common ancestors by constructing phylogenetic trees based on morphological and molecular data. Key terms in cladistics include plesiomorphy (ancestral traits), apomorphy (derived traits that define groups), and homoplasy (traits that evolved separately in different groups). Together, analysis of character states helps determine evolutionary relationships between taxa.
This document discusses energy flow and nutrient cycling in ecosystems. It can be summarized as follows:
1. Energy from the sun enters ecosystems through photosynthesis, where it is converted to chemical energy in plants. This energy then passes through food chains to consumers, with some energy lost as heat at each trophic level.
2. Nutrients cycle through ecosystems, moving between biotic and abiotic components. Major nutrient cycles include carbon, nitrogen, and phosphorus, which cycle globally or locally between organisms, soils, water, and the atmosphere.
3. Energy and matter transfer with low efficiencies between trophic levels, with around 10% of energy typically transferred between each level according to Lindeman's law
Cot value and Cot Curve analysis is a technique for measuring DNA complexity based on renaturation kinetics. DNA is denatured and allowed to reanneal, with larger DNA taking longer. Cot value accounts for DNA concentration, time, and buffer effects, representing repetitive sequences - lower Cot means more repeats. Examples show bacteria have nearly all single-copy DNA, while mouse has varying proportions of single-copy, middle repetitive, and highly repetitive sequences. Cot curve analysis provides information on genome size, complexity, and proportions of sequence types.
DNA replicates through a process called semiconservative replication, where each parental DNA strand serves as a template to produce two identical daughter double helices, each with one parental and one new strand. The Meselson-Stahl experiment demonstrated this by growing E. coli in heavy nitrogen, then transferring to light nitrogen and analyzing DNA density over generations, finding bands matching semiconservative replication but not other models like conservative or dispersive replication.
1. There are four main models of DNA replication: rolling circle replication, theta replication, bidirectional replication of linear DNA, and telomere replication.
2. Rolling circle replication involves nicking circular DNA and using one strand as a template to produce multiple copies of the original circular DNA.
3. Theta replication occurs in prokaryotes and involves unwinding circular DNA at an origin of replication and replicating bi-directionally to form a theta-shaped structure.
4. Bidirectional replication of linear DNA involves unwinding DNA at origins of replication and using leading and lagging strand synthesis to replicate in both directions until the ends of the linear genome are reached.
DNA replication is the process by which a cell makes an identical copy of its DNA. It begins at specific locations in the genome called origins of replication. Enzymes such as helicase unwind and separate the double helix, while DNA polymerase adds complementary nucleotides to each strand to synthesize new daughter strands. The two resulting DNA molecules are identical to the original. Replication occurs through three coordinated steps - initiation, elongation, and termination. Initiation involves binding of proteins to origins of replication to form complexes. Elongation is catalyzed by DNA polymerase adding nucleotides to growing strands. There are two mechanisms for elongation - continuous synthesis of the leading strand and discontinuous synthesis of the lagging strand in fragments called Okazaki fragments.
DNA replicates through a process called semiconservative replication, where each parental DNA strand serves as a template to produce two identical daughter double helices, each with one parental and one new strand. The Meselson-Stahl experiment demonstrated this by growing E. coli in heavy nitrogen, then transferring to light nitrogen and analyzing DNA density over generations, finding bands matching semiconservative replication.
Telomeres are repetitive non-coding sequences at the ends of chromosomes that protect genes from being deleted during DNA replication. In humans, the telomere sequence is TTAGGG repeated 100 to 1000 times. With each cell division, some telomeric sequences are lost but this does not initially harm the cell. However, telomeres cannot be replicated indefinitely and will eventually be completely lost without a mechanism to maintain their length. The enzyme telomerase was discovered to attach to chromosome ends and uses its internal RNA template to add telomeric repeats to the 3' end of DNA strands, allowing chromosome ends to be fully replicated.
This document summarizes DNA replication in eukaryotic cells. It begins with an overview of DNA replication, including that it occurs during S phase and produces two identical DNA molecules from one original. It then describes the process of initiation, elongation, and termination of DNA replication. Initiation involves unwinding of DNA and formation of replication forks. Elongation involves continuous synthesis of the leading strand and discontinuous synthesis of the Okazaki fragments on the lagging strand. The document discusses several models of replication, including rolling circle replication, theta replication in prokaryotes, and replication of linear and telomeric DNA. It highlights key aspects like semiconservative replication being shown by Meselson-Stahl experiments. In
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Group Presentation 2 Economics.Ariana Buscigliopptx
Ribosome
1. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 1
Ribosomes: Structure, Composition, and Assembly
Unit-6| Core Course- 8
• The ribosomes are present in cytoplasmic organelles (e.g., chloroplast and mitochondrial
ribosomes).
• Although they are functionally similar, but there are many differences exist between the
prokaryotic ribosomal cells and eukaryotic ribosomal cells.
• The structure and composition of bacterial ribosomes are more known compare to
ribosomes of eukaryotic cells.
• Maximum experimental work has been carried out on prokaryotic ribosomes using
Escherichia coli.
• Ribosomes in the cytoplasm of eukaryotic cells have a sedimentation coefficient of about
80 S (MW about 4.5 x 106
) and are composed of 40 S and 60 S subunits.
• In prokaryotic cells, ribosomes are typically about 70 S (MW about 2.7 x 106
) and are
formed from 30 S and 50 S subunits.
• The complete ribosome formed by combination of the subunits is also referred to as a
monomer.
• Although ribosomes from both prokaryotic and eukaryotic sources are about 30 to 45%
protein (by weight).
• Magnesium ions play an important role in maintaining the structure of the ribosome.
• Dissociation into subunits occurs when Mg2+
is removed. The precise role of
Mg2+
remains uncertain, although interaction with ionized phosphate of subunit RNA is
believed.
• There are two major types of cells: prokaryotic and eukaryotic cells.
2. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 2
• Ribosomes are cell organelles that consist of RNA and proteins. They are responsible for
assembling the proteins of the cell. Depending on the protein production level of a
particular cell, ribosomes may number in the millions.
Distinguishing Characteristics
• Ribosomes are typically composed of two
subunits: a large subunit and a small subunit.
• Eukarotic ribosomes (80S), such as those
in plant cells and animal cells, are larger in
size than prokaryotic ribosomes (70S), such
as those in bacteria.
• Ribosomal subunits are synthesized in
the nucleolus and cross over the nuclear
membrane to the cytoplasm through nuclear pores.
• Both ribosomal subunits join together when the ribosome attaches to messenger RNA
(mRNA) during protein synthesis.
• Ribosomes along with another RNA molecule, transfer RNA (tRNA), help to translate
the protein-coding genes in mRNA into proteins.
• Ribosomes link amino acids together to form polypeptide chains, which are further
modified before becoming functional proteins.
Location in the Cell
• There are two places where ribosomes
commonly exist within a eukaryotic cell:
suspended in the cytosol and bound to
the endoplasmic reticulum. These
ribosomes are called free
3. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 3
ribosomes and bound ribosomes respectively.
• In both cases, the ribosomes usually form aggregates called polysomes or polyribosomes
during protein synthesis.
• Polyribosomes are clusters of ribosomes that attach to a mRNA molecule during protein
synthesis. This allows for multiple copies of a protein to be synthesized at once from a
single mRNA molecule.
• Free ribosomes usually make proteins that will function in the cytosol (fluid component
of the cytoplasm), while bound ribosomes usually make proteins that are exported from
the cell or included in the cell's membranes. Interestingly enough, free ribosomes and
bound ribosomes are interchangeable and the cell can change their numbers according to
metabolic needs.
• Organelles such as mitochondria and chloroplasts in eukaryotic organisms have their own
ribosomes. Ribosomes in these organelles are more like ribosomes found in bacteria with
regard to size. The subunits comprising ribosomes in mitochondria and chloroplasts are
smaller (30S to 50S) than the subunits of ribosomes found throughout the rest of the cell
(40S to 60S).
Ribosomes and Protein Assembly
• Protein synthesis occurs by the processes
of transcription and translation.
• In transcription, the genetic code contained
within DNA is transcribed into
an RNA version of the code known as
messenger RNA (mRNA).
• The mRNA transcript is transported from the
nucleus to the cytoplasm where it undergoes
translation.
4. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 4
• In translation, a growing amino acid chain, also called a polypeptide chain, is produced.
Ribosomes help to translate mRNA by binding to the molecule and linking amino acids
together to produce a polypeptide chain.
• The polypeptide chain eventually becomes a fully functioning protein. Proteins are very
important biological polymers in our cells as they are involved in virtually
all cell functions.
• There are some differences between protein synthesis in eukaryotes and prokaryotes.
• Since eukaryotic ribosomes are larger than those in prokaryotes, they require more
protein components.
• Other differences include different initiator amino acid sequences to start protein
synthesis as well as different elongation and termination factors.
Eukaryotic Cell Structures
Ribosomes are only one type of cell organelle. The following cell structures can also be
found in a typical animal eukaryotic cell:
• Centrioles - help to organize the
assembly of microtubules.
• Chromosomes - house cellular DNA.
• Cilia and Flagella - aid in cellular
locomotion.
• Cell Membrane - protects the
integrity of the interior of the cell.
• Endoplasmic Reticulum -
synthesizes carbohydrates and lipids.
• Golgi complex - manufactures stores
5. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 5
and ships certain cellular products.
• Lysosomes - digest cellular macromolecules.
• Mitochondria - provide energy for the cell.
• Nucleus - controls cell growth and reproduction.
• Peroxisomes - detoxify alcohol, form bile acid, and use oxygen to break down fats.
Prokaryotic Ribosomes:
• RNA Content The small subunit of prokaryote ribosomes contains one molecule of an RNA
called 16 S RNA (MW 0.6 x 106
), and the large subunit contains two RNA molecules, a 23 S
RNA (MW 1.1 x 106) and a 5 S RNA (MW 3.2 x 104
).
• All three rRNAs are products of closely linked genes transcribed by RNA polymerase in the
sequence 16 S 23 S 5 S. This assures an equal proportion of each RNA.
• The rRNA operon also contains genes for some tRNAs (Fig. 22-2).
• The transcription product of the rRNA operon consists of a 30 S RNA; this transcript is
successively cleaved and trimmed to produce the final 16 S, 23 S, and 5 S RNAs that are
incorporated into the small and large ribosomal subunits. Figure 22-2 presents the scheme of
maturation of the prokaryotic rRNAs.
• For clarity, the incorporation of the ribosomal proteins is not shown. Ribosomal proteins
combine with the rRNAs at various stages of subunit assembly: some are incorporated during
transcription, others following release of the primary transcript and during processing, and
still others once the mature rRNA products are formed.
• Certain proteins bind to the rRNAs only transiently and are not found in the fully assembled
subunits.
6. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 6
• Multiple copies of the rRNA genes occur in the genomes of prokaryotic (and eukaryotic)
cells (Table 22-3); this is known as reiteration.
• In E. coli the number of rRNA genes is estimated to be between 5 and 10 and accounts
for about 0.4% of the cell’s total DNA. The primary structures of the three prokaryotic
rRNAs have been extensively studied. 5 S RNA was identified in 1963 and, being the
smallest of the three rRNAs (about 120 nucleotides), was sequenced first (in 1967).
7. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 7
• Analyses of the nucleotide sequence of the E.
coli 16 S RNA (1542 nucleotides) and 23 S
RNA (2904 nucleotides) have recently been
completed and the secondary structure of the 16
S RNA is shown in Figure 22-3. Methylation of
certain bases in the sequence of 16 S RNA (and
also in the sequence of 23 S RNA) occurs while
transcription is taking place. No methylation of
5 S RNA nucleotides occurs.
• Unlike 5 S RNA in which duplication of certain
sequences occurs, no repeated sequences are
found in 16 S and 23 S RNA. The rRNAs
contain a number of double-helical regions that
are stabilized by conventional, complementary
base pairing. In E. coli 16 S rRNA, about half
of all nucleotides present are involved in base
pairing. Several palindromes (base sequences
reading the same from either the 5′ or 3′ ends)
exist in 16 S RNA, and these may play a role in
restricting the formation of the double-helical
regions.
• In 16 S RNA, a seven-nucleotide segment of
the chain at the 3′ end is believed to interact
with mRNA, leading to its binding during the
initiation of translation. The 5 S and 23 S RNAs
interact with one another in the large subunit,
and both appear to be involved in aminoacyl-
tRNA and peptidyl-tRNA binding during
polypeptide chain elongation. Because the 16 S
RNA as well as several proteins of the small
8. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 8
subunit interact with 23 S RNA, the latter RNA may also have a role in subunit associ-
ation.
• Ribosomal RNA transcripts are not translated into proteins (i.e., rRNAs cannot serve as
messengers), however, ribosomal proteins are the products of a typical transcription-
translation process. Protein Content Nomura, Kurland, and others have established that
the small prokaryotic ribosomal subunit contains 21 different protein molecules; these are
identified as S1, S2, S3 . . . S21. The large subunit contains 34 proteins (L1, L2, L3 . . .
L34) but only 31 are different, that is, four copies of one of the proteins are present.
• The genes for the 52 different ribosomal proteins together with those for the three RNAs
constitute about 5% of the genome of the bacterial cell. All the ribosomal proteins have
been isolated and characterized, and nearly all have been fully sequenced. The small
subunit proteins range in molecular weight from 10,900 to 65,000 and the large subunit
proteins vary in molecular weight from 9600 to 31,500 (Table 22-4). Most of the
ribosomal proteins are basic in nature, being rich in basic amino acids and having
isoelectric points around pH 10 or higher.
• An exhaustive analysis of the primary structures of prokaryotic ribosomal proteins done
in order to evaluate their degree of homology indicates that these proteins did not have a
common evolutionary ancestor. Homologies among them do not occur more often than
would be expected on a random basis.
tRNA-Protein Interaction:
• Lake, Nomura, Wittmann, Traut, Stoffler, Kurland, and others have studied the
relationships between the three rRNAs and the ribosomal proteins and have shown that
about 30 proteins bind specifically and directly to the rRNAs; these are the primary
binding proteins.
9. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 9
• Those proteins that do not bind directly to rRNA (i.e., the secondary binding proteins)
interact with the primary binding proteins in the assembled ribosome. Figure 22-4 shows
that approximate regions of 16 S RNA with which the small subunit proteins associate. It
is believed that the backbone of the 16 S RNA polynucleotide winds its way among the
proteins, with interactions occurring between hairpin turns of the RNA and surface
residues of the protein molecules.
Assembly of Prokaryotic Ribosomes:
• Because all of the proteins and RNAs of the prokaryotic ribosome subunits may be
isolated, it is possible through recombination studies to examine the assembly process.
Nomura and others have shown that the assembly of individual subunits and their
association to form functional ribosomes (i.e., ribosomes capable of translating mRNA
into protein) occur spontaneously in vitro when all the individual rRNAs and protein
components are available.
• Thus the ribosome is capable of self-assembly, and this is believed to be the mechanism
in situ. The assembly is promoted by the unique and complementary structures of the
ribosomal protein and RNA molecules and proceeds through the formation of hydrogen
bonds and hydrophobic interactions. There is order to the assembly in that certain
proteins combine with the rRNAs prior to the addition of others. Cooperativity also
exists, because addition of certain proteins to the growing subunit facilitates addition and
binding of others.
• No self-assembly takes place when L proteins are added to 16 S RNA or when S proteins
are added to 5 S and 23 S RNA. However, it is interesting to note that RNA from the 30 S
subunit of one prokaryotic species will combine with the S proteins of another prokaryote
to form functional subunits. The same is true for 50 S subunit proteins and RNAs from
different prokaryotes.
• Assembly of hybrid subunits and formation of functional monomers from these occur in
spite of the fact that ribosomal proteins and RNAs from different prokaryotes have
different primary structures. It is clear that their secondary and tertiary structures, which
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Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 10
are very similar, are more important in guiding rRNA-protein interactions. Although
some proteins from yeast, reticulocyte, and rat liver cell ribosomes can be replaced by E.
coli ribo- somal proteins, hybrid monomers formed from these prokaryotic-eukaryotic
subunits will not function in protein synthesis.
Model of the Prokaryotic Ribosome:
• Based on the available electron-microscopic data, results of small-angle X-ray analysis,
and, of course, chemical studies, and several proposals can be made about the structure of
the ribosome monomer and its sub- units. The 30 S subunit approximates a prolate ellip-
soid of revolution (Fig. 22-5a).
• A transverse partition or groove encircles the long axis of the subunit, dividing it into
segments of one-third (i.e., the head) and two-thirds (i.e., the base). A small protuberance
called a platform extends from the base. The 50 S subunit is somewhat more spherical
and possesses a flattened region on one surface (Fig. 22-5a). Extending from the main
body of the large subunit are a stalk and central protuberance. Association of the subunits
to form the 70 S monomer is depicted in Figure 22-5b.
• There is considerable morphological and biochemical evidence supporting the idea that
the small tunnel formed between the two subunits upon their association (Fig. 22-5b) is
the site of mRNA and aminoacyl- tRNA binding during protein synthesis (Fig. 22-5c).
For example,
(1) In many electron photomicVographs of polyribosomes, the thin mRNA’ strand seems
to “disappear” into the ribosomes;
(2) In vitro experiments have shown that when the synthetic messenger polyU is
associated with the 70 S monomer, the polynucleotide is protected from ribonuclease
attack over a length of about 70 to 120 nucleotides; and
(3) Transfer RNA is protected from cleavage by nuclease when associated with the
ribosome. The observation that small nascent (i.e., growing) polypeptides are protected
from proteolysis suggests that a stretch of the polypeptide chain may be enclosed within a
second tunnel formed in the large subunit.
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Genes for Ribosomal RNA and Protein:
• The genome of E. coli and other prokaryotes consists of a single, long, circular DNA
molecule supercoiled and packed into the “nuclear” region of the cell. The E. coli
chromosome is about 1100 nm long and appears to contain at least three separate regions
coding for rRNA. Each region contains closely linked 5 S, 23 S, and 16 S rDNA genes.
• Because some 5 to 10 copies of each gene occur in the genome, more than one copy of
each gene is likely present in each rDNA region. Genes coding for ribosomal proteins are
present in at least two separate regions of the E. coli chromosome. The same regions also
appear to contain genes for RNA polymerase, some transfer RNAs, and the elongation
factors required for protein biosynthesis.
• Lake, Nomura, and others have employed the techniques of immune electron microscopy
and neutron diffraction to map the surface of the ribosomal sub- units and identify the
positions of the ribosomal proteins (Fig. 22-6).
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Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 12
Eukaryotic Ribosomes:
• The cytoplasmic ribosomes of eukaryotic cells differ from those of prokaryotes in both
size and chemical composition (Table 22-2, Fig. 22-1). The monomer has a
sedimentation coefficient of 80 S and is formed from 40 S and 60 S subunits. In addition,
ribosomes occur in two states in the cytoplasm.
• They may be associated with cellular membranes such as those of the endoplasmic
reticulum (i.e., “attached” ribosomes) and engaged in the synthesis of secretory,
lysosomal, or membrane proteins or they may be freely distributed in the cytosol. The
functional differences between attached and free ribosomes will be pursued later, but let
us turn first to a consideration of the chemical and morphological characteristics of
eukaryotic ribosomes.
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Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 13
RNA Content:
• The small subunit of the eukaryotic ribosome contains one molecule of 18 S RNA (MW
0.7 x 106
) and large subunit contains 28 S (MW 1.7 x 106
), 5 S (MW 3.2×104
), and 5.8 S
(MW 5 x 1(H) RNAs. Hence, in addition to molecular weight or size differences, a major
distinction between the RNA complements of prokaryotic and eukaryotic ribosomes is
the presence of an additional molecule of RNA (i.e., 5.8 S RNA) in the large subunit of
eukaryotes.
• 18 S, 5.8 S, and 28 S rRNAs are the transcription products of closely linked genes in the
chromosomes of the nucleolar organizing region (NOR) of the cell nucleus. Considerable
redundancy exists as hundreds, perhaps even thousands, of copies of these rRNA genes
are believed to be present (see Table 22-3). The genes for 5 S RNA are not present in the
NOR but occur elsewhere in the nucleus. Consequently, unlike prokaryotes in which the
5 S RNA genes are linked to the genes for other rRNAs, the 5 S RNA genes of
eukaryotes occur separately in the nucleus.
14. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 14
• Figure 22-7 depicts the transcription and post- transcriptional processing of eukaryotic
rRNAs. As in prokaryotes, transcription of DNA is mediated by the enzyme RNA
polymerase; however, in eukaryotes there are three forms of this enzyme, each producing
different transcription products.
• The RNA polymerases of, prokaryotes and eukaryotes are compared in Table 22-5. The
high-molecular-weight primary transcript, 45 S RNA, contains the precursors of 18 S, 5.8
S, and 28 S rRNAs. About half of the 45 S RNA molecule is represented by spacer
sequences at the 5′ end of the transcript and between the presumptive rRNAs. The
spacers are removed during processing.
• As shown in Figure 22-7, the 5.8 S RNA produced during processing becomes hydrogen
bonded to the 28 S RNA and the complex is incorporated into the 60 S subunit. Not
shown in Figure 22-7 but discussed later is the incorporation of the ribosomal proteins. It
should be noted that 5 S RNA is a primary transcription product and is not the product of
posttranscriptional trimming.
Protein Content:
Various studies have established that the small subunits of eukaryotic ribosomes contain
about 33 proteins (S1, S2, S3, etc.) and the large subunits 45 proteins (L1, L2, L3, etc.). The
proteins of eukaryotic ribosomes are not only more numerous but also have greater average
molecular weights than those of prokaryotic ribosomes (Table 22-4). From a chemical
standpoint, eukaryotic ribosomal proteins have similar general properties as those in prokaryotes
(e.g., rich in basic amino acids, high isoelectric point, etc.). Certain eukaryotic and prokaryotic
ribosomal proteins reveal homologous regions, and these homologous proteins appear also to be
functionally similar.
Nucleolar Organizing Region:
• Eukaryotic cells contain several hundred copies of the genes encoding rRNA.
• These genes are arranged in a tandem fashion on one or more chromosomes of the
nucleus.
15. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 15
• The DNA sequences between successive rDNA regions are not transcribed and represent
spacer DNA.
• The rRNA genes and the spacer segments are usually looped off the main axis of the
chromosome and are referred to as the nucleolar organizing region. It is here that most of
the rRNA is synthesized. The NOR coalesces with nuclear proteins and forms visible
bodies known as nucleoli.
• Most eukaryotic cells contain one or a few nucleoli, but certain egg cells are a striking
exception.
• The oocytes of amphibians (e.g., the clawed toad, Xenopus laevis) are extremely large
cells and are engaged in the synthesis of especially large quantities of cellular protein.
• These cells produce large numbers of ribosomes in order to provide the means to sustain
such quantitative protein synthesis.
• Accordingly, it is not unusual to find hundreds or thousands of nucleoli (and NORs) in
the nuclei of these cells.
• Such large numbers of nucleoli are
the result of gene amplification—the
differential replication of the rRNA
genes of the genome.
• The ribosomes produced in the
oocyte serve its needs for protein
synthesis from the period prior to
fertilization through the first few
weeks of embryonic development.
• By gently dispersing nuclear
fractions isolated from oocytes of the
16. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 16
amphibian Triturus viridescens and “spreading” the material on grids, 0. L. Miller and B.
R. Beatty in 1969 were able to obtain photomicrographs showing transcription in
progress.
• Since then, a number of other investigators have extended the same approach to
mammalian oocytes and to spermatocytes and embryo cells from various organisms.
• The visualization of transcriptional activity is achieved most easily with spread nucleoli
because of the high degree of rDNA gene amplification (Fig. 22-8).
• The tandem rDNA genes are serially transcribed by RNA polymerases to produce 45 S
rRNA. The rRNA (apparently complexed with protein) appears as a series of fibrils of
varying length extending radially from an axial, linear DNA fiber (Fig. 22-9).
• This feather- shaped or “Christmas tree” regions are called matrix units.
• The spaces between successive
matrix units are nontranscribed
spacer DNA segments.
• The ribonucleoprotein (RNP)
fibrils are seen to be in various
stages of completion.
• The short fibrils near the tip of
each feather are RNA molecules
whose synthesis has only just
begun and the longest fibrils
represent RNA molecules whose
synthesis is almost complete.
17. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 17
• Hence, the direction of rDNA transcription is apparent in the photomicrograph. In high
magnification views (Fig. 22-9), even the RNA polymerase enzyme molecules carrying
out the transcription of the DNA are visible along the axial DNA fiber.
• Success in visualizing transcription has not been restricted to nucleolar genes.
• Almost identical results have been obtained with non-nucleolar chromatin. Here,
however, the RNA transcripts represent messenger RNA.
• Dispersed and spread nuclear fractions contain non- transcribing DNA as well as matrix
units (Fig. 22-9).
• The succession of nucleosomes
reveals itself as a series of beadlike
structures along the DNA fiber.
Regions in which DNA is
undergoing replication (called
replicons) can also be seen (Fig.
22-10).
• S. L. McKnight and O. L. Miller
have shown that DNA of
homologous “daughter” fibers of
the replicon also occurs as chains
of nucleosomes, suggesting that
replication may not require dissociation of nucleosomes or that nucleosomes are almost
immediately reformed.
• Transcriptional activity can be identified within a replicon (Fig. 22-11), indicating that
the newly synthesized DNA is almost immediately available for transcription.
• The growing RNA fibrils are seen in homologous regions of both chromatid arms of the
replicon.
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Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 18
Assembly of Eukaryotic Ribosomes:
• The assembly of eukaryotic ribosomes is more complex than that of prokaryotic
ribosomes. The principal stages of the process are outlined in Figure 22-12.
• Transcribed 45 S RNA combines with proteins in the nucleolus to form ribonucleoprotein
complexes.
• However, not all the protein molecules of the
complex become a part of the completed
ribosomal subunit.
• Instead, certain proteins are released as RNA
processing ensues; these “nucleolar proteins”
return to a nucleolar pool and are reutilized.
• Those proteins that are retained during
processing and become part of the completed
subunits are, of course, legiti mately called
“ribosomal proteins.”
• In the same sense, not all of the RNA of the
complex becomes part of the ribsomal
subunits, for the spacer is also processed out.
(It should be noted that the spacer RNA is
produced by transcription of rDNA and not the spacer DNA between genes.) Processing
produces three classes of fragments. One class contains spacer RNA and nucleolar
proteins.
• The spacer RNA is hydrolyzed and the free nucleolar proteins return to the pool. A
second class of RNP fragments contains a complex of 18 S RNA and certain ribosomal
proteins that give rise to 40 S subunits.
19. St.Xavier’s College, Mahuadanr
Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 19
• The third class of RNP fragments, which contains 38 S and 5.8 S RNA and ribosomal
proteins, combines with 5 S RNA transcribed from extranucleolar rRNA genes and gives
rise to 60 S subunits.
• Like the genes for 45 S RNA, the extranucleolar 5 S RNA genes occur in multiple
tandem copies. Among the various proteins synthesized in the cytoplasm using ribosome
subunits derived from the nucleus are the ribosomal proteins themselves. These
apparently reenter the nucleus for incorporation into new RNP complexes.
Model of the Eukaryotic Cytoplasmic Ribosome:
• In spite of the differences in overall sizes (as
manifested in the greater molecular weights,
sedimentation constants, sizes, and numbers
of RNAs and proteins), the cytoplasmic
ribosomes of eukaryotes are remarkably
similar in morphology to those of prokaryotes.
• As in 20 S subunits of prokaryote ribosomes,
the 40 S eukaryote subunit is divided into
head and base segments by a transverse
groove.
• The 60 S subunit is generally rounder in shape than the small subunit, although one side
is flattened; this is the side that becomes confluent with the small sub- unit during the
formation of the monomer.
• The synthesis of proteins that are to be dispatched into the intracisternal space of the
endoplasmic reticulum (ER) is carried out by ribosomes that attach to the membranes of
the ER.
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Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 20
Free and Attached Ribosomes:
• The cytoplasmic ribosomes of eukaryotic cells can be divided into two classes:
(1) Attached ribosomes and
(2) Free ribosomes
• Attached ribosomes are ribosomes associated with intracellular membranes, primarily the
endoplasmic reticulum, whereas free ribosomes are distributed through the hyaloplasm or
cytosol.
• Attached and free ribosomes are chemically the same.
• Although all animal and plant cells contain both attached and free ribosomes, the
proportion of each varies from one tissue to another and can be caused to shift within a
tissue in response to the administration of certain substances, notably hormones and
growth factors.
• Membranes of the endoplasmic reticulum that contain attached ribosomes constitute what
is called “rough” ER (or RER) and membranes that are devoid of ribosomes are called
“smooth” ER (SER).
• For many years, there has been considerable controversy about the functions of attached
and free ribosomes.
• The currently accepted view suggests that proteins destined to be secreted from the cell or
to be incorporated into such intracellular structures as lysosomes (which may or may not
release their contents to the cell exterior) are synthesized on attached ribosomes.
• For example, many of the proteins circulating in the blood plasma are derived via
secretion by the liver, and these plasma proteins are known to be synthesized exclusively
by the attached ribosomes of the liver cells. Most proteins destined to become
constituents of the ER membranes or the plasma membranes are also synthesized by
attached ribosomes.
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Dr. Emasushan Minj (Assistant Professor), Dept. of Botany Page 21
• Most, but not all, proteins destined for use in the cytosol are synthesized by free
ribosomes. Exceptions include certain hormones like thyroglobulin, which is secreted by
the thyroid gland and is synthesized by free ribosomes. Milk proteins produced by
mammary gland cells are also synthesized by free ribosomes.
Key Takeaways: Ribosomes
• Ribosomes are cell organelles that function in protein synthesis. Ribosomes in plant and
animals cells are larger than those found in bacteria.
• Ribosomes are composed of RNA and proteins that form ribosome subunits: a large
ribosome subunit and small subunit. These two subunits are produced in the nucleus and
unite in the cytoplasm during protein synthesis.
• Free ribosomes are found suspended in the cytosol, while bound ribosomes are attached
to the endoplasmic reticulum.
• Mitochondria and chloroplasts are capable of producing their own ribosomes.