- Proteins are composed of amino acid polymers called polypeptides linked by peptide bonds. They form complex 3D structures through folding at various levels - primary, secondary, tertiary, and quaternary.
- Secondary structure includes alpha helices, beta sheets, and beta turns formed by hydrogen bonding between amino acids in the polypeptide chain.
- Tertiary structure is the overall 3D shape of a protein formed by interactions between amino acid side chains. Quaternary structure involves the assembly of multiple protein subunits.
- Myoglobin and hemoglobin are oxygen-binding proteins with heme prosthetic groups. Hemoglobin has a cooperative binding mechanism that allows for oxygen delivery and release in tissues.
This document discusses the limits on rotation in protein backbones and defines the psi (ψ) and phi (φ) angles. It introduces the Ramachandran plot, which maps allowed combinations of ψ and φ angles based on steric constraints. The plot reveals preferred regions that correspond to common secondary structures like alpha helices and beta sheets. Understanding the steric limits on individual amino acid residues provides insight into how proteins fold into their specific three-dimensional shapes.
Biochemistry - Ch4 protein structure , and function Areej Abu Hanieh
This document discusses the structure of proteins at multiple levels. It explains that a protein's amino acid sequence determines its 3D structure, and its structure dictates its function. Noncovalent interactions like hydrogen bonds, hydrophobic interactions, and electrostatic interactions are important forces that stabilize a protein's native structure. The peptide bond is rigid and planar, limiting the possible conformations of the polypeptide backbone. Common secondary structures like alpha helices and beta sheets form due to favorable hydrogen bonding patterns between peptide bonds.
Chapter 19 - Oxidative Phosphorylation and Photophosphorylation- BiochemistryAreej Abu Hanieh
The document discusses two processes that cells use to synthesize ATP - oxidative phosphorylation and photophosphorylation. Both processes involve the flow of electrons through electron transport chains to establish a proton gradient across a membrane. In oxidative phosphorylation, the proton gradient is used by ATP synthase to phosphorylate ADP, while in photophosphorylation light provides the energy to drive the process in chloroplasts. The chemiosmotic theory proposes that it is the flow of protons back through ATP synthase, not a direct chemical reaction, that provides the energy for ATP synthesis.
Some proteins are composed of multiple polypeptide chains that interact with each other through noncovalent bonds like hydrogen bonds and hydrophobic interactions to form a quaternary structure. The quaternary structure stabilizes the overall protein complex and the subunits may function independently or cooperatively, as seen in hemoglobin where the binding of oxygen to one subunit increases oxygen binding in the other subunits.
The document discusses various topics related to protein structure and function. It defines different types of bonds in proteins including peptide bonds, disulfide bonds, and hydrogen bonds. It describes the 20 common amino acids that make up proteins and different secondary structures such as alpha helices and beta sheets. It discusses the four levels of protein structure - primary, secondary, tertiary, and quaternary structure. It also covers protein folding driven by hydrophobic interactions and hydrogen bonding, as well as denaturation of proteins.
This document describes the characteristics of different DNA structures - A-DNA, B-DNA, C-DNA, and Z-DNA. It provides details on their helical structure, conditions for formation, dimensions including helix diameter, rise per base pair, and base pairs per turn. Key differences are that A-DNA is the broadest and most compact, B-DNA is the most common, C-DNA is narrow with no grooves, and Z-DNA has a left-handed helical rotation and one deep groove.
Secondary Structure Of Protein (Repeating structure of protein)Amrutha Hari
This document discusses the structure of proteins at various levels. It describes the primary, secondary, tertiary, and quaternary structures. The secondary structures discussed in detail include the alpha helix, beta pleated sheet, random coil, collagen helix, and beta turn. The alpha helix and beta pleated sheet are stabilized by hydrogen bonding between amino acids. The collagen helix structure provides strength and is the main component of connective tissues. Genetic disorders like Ehlers-Danlos syndrome and osteogenesis imperfecta result from defects in collagen structures. Ramachandran plots are used to visualize allowed backbone dihedral angles in protein structures.
This document discusses the limits on rotation in protein backbones and defines the psi (ψ) and phi (φ) angles. It introduces the Ramachandran plot, which maps allowed combinations of ψ and φ angles based on steric constraints. The plot reveals preferred regions that correspond to common secondary structures like alpha helices and beta sheets. Understanding the steric limits on individual amino acid residues provides insight into how proteins fold into their specific three-dimensional shapes.
Biochemistry - Ch4 protein structure , and function Areej Abu Hanieh
This document discusses the structure of proteins at multiple levels. It explains that a protein's amino acid sequence determines its 3D structure, and its structure dictates its function. Noncovalent interactions like hydrogen bonds, hydrophobic interactions, and electrostatic interactions are important forces that stabilize a protein's native structure. The peptide bond is rigid and planar, limiting the possible conformations of the polypeptide backbone. Common secondary structures like alpha helices and beta sheets form due to favorable hydrogen bonding patterns between peptide bonds.
Chapter 19 - Oxidative Phosphorylation and Photophosphorylation- BiochemistryAreej Abu Hanieh
The document discusses two processes that cells use to synthesize ATP - oxidative phosphorylation and photophosphorylation. Both processes involve the flow of electrons through electron transport chains to establish a proton gradient across a membrane. In oxidative phosphorylation, the proton gradient is used by ATP synthase to phosphorylate ADP, while in photophosphorylation light provides the energy to drive the process in chloroplasts. The chemiosmotic theory proposes that it is the flow of protons back through ATP synthase, not a direct chemical reaction, that provides the energy for ATP synthesis.
Some proteins are composed of multiple polypeptide chains that interact with each other through noncovalent bonds like hydrogen bonds and hydrophobic interactions to form a quaternary structure. The quaternary structure stabilizes the overall protein complex and the subunits may function independently or cooperatively, as seen in hemoglobin where the binding of oxygen to one subunit increases oxygen binding in the other subunits.
The document discusses various topics related to protein structure and function. It defines different types of bonds in proteins including peptide bonds, disulfide bonds, and hydrogen bonds. It describes the 20 common amino acids that make up proteins and different secondary structures such as alpha helices and beta sheets. It discusses the four levels of protein structure - primary, secondary, tertiary, and quaternary structure. It also covers protein folding driven by hydrophobic interactions and hydrogen bonding, as well as denaturation of proteins.
This document describes the characteristics of different DNA structures - A-DNA, B-DNA, C-DNA, and Z-DNA. It provides details on their helical structure, conditions for formation, dimensions including helix diameter, rise per base pair, and base pairs per turn. Key differences are that A-DNA is the broadest and most compact, B-DNA is the most common, C-DNA is narrow with no grooves, and Z-DNA has a left-handed helical rotation and one deep groove.
Secondary Structure Of Protein (Repeating structure of protein)Amrutha Hari
This document discusses the structure of proteins at various levels. It describes the primary, secondary, tertiary, and quaternary structures. The secondary structures discussed in detail include the alpha helix, beta pleated sheet, random coil, collagen helix, and beta turn. The alpha helix and beta pleated sheet are stabilized by hydrogen bonding between amino acids. The collagen helix structure provides strength and is the main component of connective tissues. Genetic disorders like Ehlers-Danlos syndrome and osteogenesis imperfecta result from defects in collagen structures. Ramachandran plots are used to visualize allowed backbone dihedral angles in protein structures.
Gives in detail primary, secondary, tertiary and Quaternary structure of proteins. Gives classification of secondary structure: alpha helix, beta pleated sheet and different types of tight turns and explains most commonly found tight turn in proteins i.e. beta turn. Briefs about the Ramachandran plot of proteins, dihedral or torsion angles and explains why glycine and proline act as alpha helix breakers. Explains tertiary structure of proteins and different covalent and non covalent bonds in the tertiary structure and relative importance of these bonding interactions. Details about the quaternary structure of proteins and explains why hemoglobin is a quaternary protein and insulin is not.
Introduction
History
Experiment of Ramachandran
Structure of protein
Primary structure
Secondary structure
Tertiary structure
Quaternary structure
Peptide bond is rigid & planar
Torsion angle (Φ and Ψ)
Ramachandran plot
For helices
For β strands
Significance of Ramachandran plot
Conclusion
Reference
The active site of an enzyme is the region that binds substrates and contains catalytic groups that directly participate in bond making and breaking. It takes the form of a cleft or pocket formed by amino acid residues far apart in the primary structure. The active sites of multimeric enzymes are located at interfaces between subunits and recruit residues from multiple monomers. Enzymes use an induced-fit or lock-and-key model to bind substrates specifically through weak interactions like hydrogen bonds and van der Waals forces at their active sites.
The document discusses the Ramachandran plot, which shows statistically probable combinations of the phi and psi backbone torsion angles in proteins. It describes how these two angles describe rotations around bonds in the polypeptide backbone and influence protein folding. The plot reveals allowed and disallowed regions based on steric clashes between atoms at different angle combinations. Common structures like alpha helices and beta sheets correspond to allowed regions in the plot.
The following slides contains a brief comparison of the different forms of the DNA. It includes A-DNA, B-DNA , and Z-DNA.
It also briefs about the conditions that would favor the transition from one form to the another
The document discusses different types of biomolecular interactions that are essential for living systems, including protein-protein, protein-ligand, antigen-antibody, and enzyme-inhibitor interactions. It describes the kinetics of protein-ligand interactions using binding affinity, association and dissociation rate constants, and equilibrium dissociation constants. Methods for determining the dissociation constant through fitting binding saturation curves to a hyperbolic model are also presented. Hemoglobin and myoglobin are discussed as examples of proteins that interact with oxygen through cooperative and non-cooperative binding, respectively.
This ppt is about helicase enzyme totally. It is about types of helicase , mechanism of helicase action, hoe it works and about the disease due to helicase deficiency and there is conclusion of all data.
Proteins have four levels of structure: primary, secondary, tertiary, and quaternary. The primary structure is the amino acid sequence. Secondary structures include alpha helices and beta sheets formed by hydrogen bonding of the polypeptide chain. Tertiary structure refers to the overall three-dimensional shape that results from interactions between amino acid side chains. Quaternary structure involves interactions between multiple protein subunits.
Structure and functions of glycoplipids and glycoproteinsIrene Daniel
Glycoproteins and glycolipids are glycoconjugates that contain carbohydrate chains covalently bonded to lipids or proteins. Glycolipids are composed of a monosaccharide unit joined to a hydrophobic lipid moiety, forming amphiphilic molecules that aggregate in aqueous environments into bilayers, micelles, or lamellar structures. Glycoproteins can be O-linked via hydroxyl side chains of serine or threonine or N-linked via amide nitrogen of asparagine. Glycoproteins function in secretions, cell membranes, and as receptors. Abnormalities in glycoconjugate synthesis can lead to diseases like cancer metastasis.
A molecule that carries most of the genetic instructions used in the development, functioning and reproduction of all known living organisms.
DNA is a nucleic acid; alongside proteins and carbohydrates, nucleic acids compose the three major macro-molecules essential for all known forms of life. Most DNA molecules consist of two bio-polymer strands coiled around each other to form a double helix.
The document discusses the determination of the primary structure of proteins. It begins by explaining that proteins are composed of amino acid residues linked by peptide bonds to form a polypeptide chain. The primary structure refers to the specific sequence of amino acids in this chain. Mass spectrometry and tandem mass spectrometry techniques are used to analyze protein fragments obtained through enzymatic or chemical cleavage to determine the amino acid sequence and thereby elucidate the primary structure.
The document discusses DNA binding proteins. It describes how DNA is wrapped around histone proteins to form nucleosomes, which resemble "beads on a string". There are five main types of histone proteins - H1, H2A, H2B, H3, and H4. Histone proteins can be modified through processes like acetylation and methylation, which affect gene expression. Other non-histone proteins use motifs like zinc fingers and helix-turn-helix to bind DNA in a sequence-specific manner and regulate transcription.
THE MECHANISM OF DNA POLYMERASE & CHEMICAL NATURTE TOPIC OF MOLECULAR BIOLOG...Lucky234529
WELCOME TO LOVYANSH LIFE SCIENCE
DETAIL EXPLANATION OF DNA POLYMERASE IN WHICH MY YOU TUBE LECTURE PLEASE CLICK A LINK & SEE YOU TUBE VIDEO .
https://youtu.be/kKFOHcq6nTM
Nucleic acids are polymers of nucleotides linked by phosphodiester bonds. There are two types: DNA and RNA. DNA contains the genetic information and directs protein synthesis. It exists as a double helix with nucleotides paired through hydrogen bonds between complementary bases (A-T and G-C). RNA is single-stranded and also involved in protein synthesis.
1. Proteins in eukaryotic cells are synthesized in the cytosol but must be targeted to various intracellular destinations like organelles. They use signal sequences and membrane receptors to direct their transport.
2. In the ER, proteins are modified through glycosylation and folding before being sent to the Golgi apparatus for further processing and sorting to their final locations like the plasma membrane or lysosomes.
3. Mitochondria and chloroplasts import proteins using signal sequences after full synthesis, while nuclear transport relies on non-cleaved NLS sequences and importin proteins.
4. Bacteria also use cleaved signal sequences and chaperones to transport proteins through membrane complexes. Cells import proteins through receptor-mediated
G.N. Ramachandran developed the Ramachandran plot in 1963 to visualize allowed backbone dihedral angles (phi and psi) of amino acid residues in protein structures. The plot shows sterically allowed and disallowed regions for phi-psi torsion angles based on collisions between atoms treated as hard spheres. It has since been used for protein structure validation and improvement of structure determination methods. The favored regions correspond to common secondary structure motifs like alpha helices and beta sheets.
1) Allosteric enzymes have additional sites called allosteric sites that are distinct from the active site. Binding of an effector molecule to these sites can induce a conformational change in the active site, increasing or decreasing the enzyme's activity.
2) There are two main models that describe allosteric regulation - the concerted model where binding causes simultaneous changes in all subunits, and the sequential model where changes occur sequentially.
3) Allosteric enzymes exhibit sigmoidal kinetics curves rather than traditional hyperbolic curves due to their cooperative binding behavior. Positive allosteric effectors increase enzyme activity while negative effectors decrease it.
Proteins have four levels of structure: primary, secondary, tertiary, and quaternary. The primary structure is the linear sequence of amino acids. Regular patterns of hydrogen bonding in the primary structure give rise to secondary structures like alpha helices and beta sheets. The overall three-dimensional folded structure of a protein is its tertiary structure, stabilized by interactions between R groups. Quaternary structure involves the assembly of multiple protein subunits. Common protein structures were discussed including fibrous proteins, globular proteins, and structural elements like helices and sheets.
Gives in detail primary, secondary, tertiary and Quaternary structure of proteins. Gives classification of secondary structure: alpha helix, beta pleated sheet and different types of tight turns and explains most commonly found tight turn in proteins i.e. beta turn. Briefs about the Ramachandran plot of proteins, dihedral or torsion angles and explains why glycine and proline act as alpha helix breakers. Explains tertiary structure of proteins and different covalent and non covalent bonds in the tertiary structure and relative importance of these bonding interactions. Details about the quaternary structure of proteins and explains why hemoglobin is a quaternary protein and insulin is not.
Introduction
History
Experiment of Ramachandran
Structure of protein
Primary structure
Secondary structure
Tertiary structure
Quaternary structure
Peptide bond is rigid & planar
Torsion angle (Φ and Ψ)
Ramachandran plot
For helices
For β strands
Significance of Ramachandran plot
Conclusion
Reference
The active site of an enzyme is the region that binds substrates and contains catalytic groups that directly participate in bond making and breaking. It takes the form of a cleft or pocket formed by amino acid residues far apart in the primary structure. The active sites of multimeric enzymes are located at interfaces between subunits and recruit residues from multiple monomers. Enzymes use an induced-fit or lock-and-key model to bind substrates specifically through weak interactions like hydrogen bonds and van der Waals forces at their active sites.
The document discusses the Ramachandran plot, which shows statistically probable combinations of the phi and psi backbone torsion angles in proteins. It describes how these two angles describe rotations around bonds in the polypeptide backbone and influence protein folding. The plot reveals allowed and disallowed regions based on steric clashes between atoms at different angle combinations. Common structures like alpha helices and beta sheets correspond to allowed regions in the plot.
The following slides contains a brief comparison of the different forms of the DNA. It includes A-DNA, B-DNA , and Z-DNA.
It also briefs about the conditions that would favor the transition from one form to the another
The document discusses different types of biomolecular interactions that are essential for living systems, including protein-protein, protein-ligand, antigen-antibody, and enzyme-inhibitor interactions. It describes the kinetics of protein-ligand interactions using binding affinity, association and dissociation rate constants, and equilibrium dissociation constants. Methods for determining the dissociation constant through fitting binding saturation curves to a hyperbolic model are also presented. Hemoglobin and myoglobin are discussed as examples of proteins that interact with oxygen through cooperative and non-cooperative binding, respectively.
This ppt is about helicase enzyme totally. It is about types of helicase , mechanism of helicase action, hoe it works and about the disease due to helicase deficiency and there is conclusion of all data.
Proteins have four levels of structure: primary, secondary, tertiary, and quaternary. The primary structure is the amino acid sequence. Secondary structures include alpha helices and beta sheets formed by hydrogen bonding of the polypeptide chain. Tertiary structure refers to the overall three-dimensional shape that results from interactions between amino acid side chains. Quaternary structure involves interactions between multiple protein subunits.
Structure and functions of glycoplipids and glycoproteinsIrene Daniel
Glycoproteins and glycolipids are glycoconjugates that contain carbohydrate chains covalently bonded to lipids or proteins. Glycolipids are composed of a monosaccharide unit joined to a hydrophobic lipid moiety, forming amphiphilic molecules that aggregate in aqueous environments into bilayers, micelles, or lamellar structures. Glycoproteins can be O-linked via hydroxyl side chains of serine or threonine or N-linked via amide nitrogen of asparagine. Glycoproteins function in secretions, cell membranes, and as receptors. Abnormalities in glycoconjugate synthesis can lead to diseases like cancer metastasis.
A molecule that carries most of the genetic instructions used in the development, functioning and reproduction of all known living organisms.
DNA is a nucleic acid; alongside proteins and carbohydrates, nucleic acids compose the three major macro-molecules essential for all known forms of life. Most DNA molecules consist of two bio-polymer strands coiled around each other to form a double helix.
The document discusses the determination of the primary structure of proteins. It begins by explaining that proteins are composed of amino acid residues linked by peptide bonds to form a polypeptide chain. The primary structure refers to the specific sequence of amino acids in this chain. Mass spectrometry and tandem mass spectrometry techniques are used to analyze protein fragments obtained through enzymatic or chemical cleavage to determine the amino acid sequence and thereby elucidate the primary structure.
The document discusses DNA binding proteins. It describes how DNA is wrapped around histone proteins to form nucleosomes, which resemble "beads on a string". There are five main types of histone proteins - H1, H2A, H2B, H3, and H4. Histone proteins can be modified through processes like acetylation and methylation, which affect gene expression. Other non-histone proteins use motifs like zinc fingers and helix-turn-helix to bind DNA in a sequence-specific manner and regulate transcription.
THE MECHANISM OF DNA POLYMERASE & CHEMICAL NATURTE TOPIC OF MOLECULAR BIOLOG...Lucky234529
WELCOME TO LOVYANSH LIFE SCIENCE
DETAIL EXPLANATION OF DNA POLYMERASE IN WHICH MY YOU TUBE LECTURE PLEASE CLICK A LINK & SEE YOU TUBE VIDEO .
https://youtu.be/kKFOHcq6nTM
Nucleic acids are polymers of nucleotides linked by phosphodiester bonds. There are two types: DNA and RNA. DNA contains the genetic information and directs protein synthesis. It exists as a double helix with nucleotides paired through hydrogen bonds between complementary bases (A-T and G-C). RNA is single-stranded and also involved in protein synthesis.
1. Proteins in eukaryotic cells are synthesized in the cytosol but must be targeted to various intracellular destinations like organelles. They use signal sequences and membrane receptors to direct their transport.
2. In the ER, proteins are modified through glycosylation and folding before being sent to the Golgi apparatus for further processing and sorting to their final locations like the plasma membrane or lysosomes.
3. Mitochondria and chloroplasts import proteins using signal sequences after full synthesis, while nuclear transport relies on non-cleaved NLS sequences and importin proteins.
4. Bacteria also use cleaved signal sequences and chaperones to transport proteins through membrane complexes. Cells import proteins through receptor-mediated
G.N. Ramachandran developed the Ramachandran plot in 1963 to visualize allowed backbone dihedral angles (phi and psi) of amino acid residues in protein structures. The plot shows sterically allowed and disallowed regions for phi-psi torsion angles based on collisions between atoms treated as hard spheres. It has since been used for protein structure validation and improvement of structure determination methods. The favored regions correspond to common secondary structure motifs like alpha helices and beta sheets.
1) Allosteric enzymes have additional sites called allosteric sites that are distinct from the active site. Binding of an effector molecule to these sites can induce a conformational change in the active site, increasing or decreasing the enzyme's activity.
2) There are two main models that describe allosteric regulation - the concerted model where binding causes simultaneous changes in all subunits, and the sequential model where changes occur sequentially.
3) Allosteric enzymes exhibit sigmoidal kinetics curves rather than traditional hyperbolic curves due to their cooperative binding behavior. Positive allosteric effectors increase enzyme activity while negative effectors decrease it.
Proteins have four levels of structure: primary, secondary, tertiary, and quaternary. The primary structure is the linear sequence of amino acids. Regular patterns of hydrogen bonding in the primary structure give rise to secondary structures like alpha helices and beta sheets. The overall three-dimensional folded structure of a protein is its tertiary structure, stabilized by interactions between R groups. Quaternary structure involves the assembly of multiple protein subunits. Common protein structures were discussed including fibrous proteins, globular proteins, and structural elements like helices and sheets.
In this pdf amino acid and protein classification is given in excellent manner.
Amino acids are molecules that combine to form proteins. Amino acids and proteins are the building blocks of life.When proteins are digested or broken down, amino acids are left. The human body uses amino acids to make proteins to help the body:Break down food,Grow,Repair body tissue,Perform many other body functions.Amino acids can also be used as a source of energy by the body.
Amino acids are classified into three groups:
Essential amino acids
Nonessential amino acids....
Function and Classification of protein given in this pdf .
Structure of proteins given in this pdf with different types of interaction between amino acids like hydrogen bonding , intermolecular and intramolecular bondings. Also structure of protein given in primary, secondary, tertiary and quarternary forms.
Physicochemical properties of protein also given in this pdf.
The document discusses protein structure and stability. It describes the four levels of protein structure: primary, secondary, tertiary, and quaternary. The primary structure is the amino acid sequence. Secondary structures include alpha helices and beta sheets formed by hydrogen bonding. Tertiary structure involves folding influenced by interactions between R groups. Quaternary structure results from interactions between multiple polypeptide chains, as in hemoglobin. The document also discusses factors that stabilize protein structures such as disulfide bonds and noncovalent interactions, and how denaturation and renaturation can alter protein structure.
The document discusses protein structure and functions. It begins by defining proteins as polymers of amino acids that are essential building blocks of the human body. It then describes the four levels of protein structure - primary, secondary, tertiary, and quaternary. Primary structure refers to the amino acid sequence. Secondary structure involves folding into structures like alpha helices and beta sheets. Tertiary structure describes the 3D conformation determined by interactions between amino acid side chains. Quaternary structure refers to interactions between multiple polypeptide subunits. The document concludes by classifying proteins as either fibrous or globular and providing some examples of different proteins and their functions.
Here are the key points about the effects on hemoglobin's O2 affinity:
a) Drop in pH of blood plasma - O2 affinity decreases, as H+ competes with O2 binding sites
b) Decrease in partial pressure of CO2 in lungs - O2 affinity increases, as less CO2 means less competition
c) Increase in BPG levels - O2 affinity decreases, as BPG binds allosterically and induces a shape change
d) Increase in CO - O2 affinity decreases greatly, as CO has a much higher affinity for heme than O2
The document describes the four levels of protein structure:
1) Primary structure is the linear sequence of amino acids joined by peptide bonds.
2) Secondary structure involves localized patterns like alpha helices and beta sheets formed by hydrogen bonds.
3) Tertiary structure is the overall 3D shape of the polypeptide chain formed by interactions like disulfide bridges, hydrogen bonds, and hydrophobic interactions.
4) Quaternary structure refers to complexes of multiple polypeptide subunits.
Protein structures determine their functions. There are four levels of protein structure:
1) Primary structure is the amino acid sequence
2) Secondary structure involves local patterns like alpha helices and beta sheets
3) Tertiary structure describes the overall 3D shape formed by secondary structures
4) Quaternary structure refers to the arrangement of multiple polypeptide chains
The most common secondary structures are alpha helices, stabilized by hydrogen bonds between amino acids i and i+4, and beta sheets formed by hydrogen bonding between strands. Protein structure enables functions like catalysis, transport, and information transfer.
Proteins have a three-dimensional structure that reflects their function. This structure is stabilized by weak interactions like hydrogen bonds and hydrophobic interactions. There are three main protein secondary structures: alpha helices, where the backbone is tightly coiled; beta sheets, where polypeptide chains form hydrogen-bonded zigzag pleats; and turn structures that connect alpha helices and beta sheets.
This document provides an overview of protein structure and function. It discusses the central dogma of life, the 20 common amino acids that make up proteins, and how they fold into defined structures like alpha helices and beta sheets. Key concepts covered include the hydrophobic effect that drives protein folding, domains as fundamental units of structure, and the three main classes of protein structures - alpha, beta, and alpha/beta domains. Real-world protein examples are also briefly mentioned.
Levels of protein structure include primary, secondary, tertiary, and quaternary. The primary structure is the amino acid sequence. Secondary structure involves hydrogen bonding between amino acids to form alpha helices and beta sheets. Tertiary structure describes how secondary structures fold in 3D space, stabilized by noncovalent bonds. Quaternary structure involves the interaction of multiple polypeptide chains. Protein folding is assisted by chaperone proteins and errors can lead to diseases like Alzheimer's and prion diseases.
Levels of protein structure include primary, secondary, tertiary, and quaternary. The primary structure is the amino acid sequence. Secondary structure involves hydrogen bonding between amino acids to form alpha helices and beta sheets. Tertiary structure describes how secondary structures fold in 3D space, stabilized by noncovalent bonds. Quaternary structure involves the interaction of multiple polypeptide chains. Protein folding is assisted by chaperone proteins and errors can lead to diseases like Alzheimer's and prion diseases.
Proteins are large biomolecules composed of amino acid chains that fold into complex three-dimensional structures. They perform essential functions in the body such as structure, metabolism, transport, and defense. There are four levels of protein structure: primary, secondary, tertiary, and quaternary. The primary structure is the amino acid sequence. Secondary structures include alpha helices and beta sheets. Tertiary structure involves folding into a three-dimensional shape. Quaternary structure involves multiple polypeptide subunits. Proteins can be classified by function, conjugation with other groups, or derivation from other proteins. Denaturation involves unfolding the structure without breaking covalent bonds. Common denaturing agents are heat, pH changes
Structure of protiens and the applied aspectsMohit Adhikary
The slides explain the structures of proteins, the bond stabilizing the structure of amino acids, the different types of protein structures, the applied aspects and the newer advances in the protein structure.
Dystrophin is a high molecular weight cytoskeletal protein that localizes to the cytoplasmic face of the sarcolemma. It has four domains - an actin binding domain, a central rod domain composed of spectrin-like repeats, a cysteine-rich domain, and a carboxy-terminal domain. Dystrophin forms the dystrophin-glycoprotein complex with other proteins like dystroglycans and sarcoglycans to connect the actin cytoskeleton to the extracellular matrix. Mutations in dystrophin cause Duchenne/Becker muscular dystrophy by disrupting this connection and leading to muscle degeneration.
B.Sc. Biochem II Biomolecule I U 3.1 Structure of ProteinsRai University
This document discusses the different levels of protein structure:
- Primary structure is the amino acid sequence of the protein chain. Secondary structure describes regular structures like alpha helices and beta sheets formed by hydrogen bonds. Tertiary structure describes the overall 3D shape formed by interactions between amino acid side chains. Quaternary structure describes how multiple protein subunits assemble into larger structures. Examples like collagen, insulin, and hemoglobin are provided to illustrate these levels of structure.
This document provides an overview of proteins. It defines proteins as macromolecules composed of amino acids that mediate virtually every cellular process. The 20 amino acids that make up proteins can assemble into different structures to form molecules like hormones, enzymes, and muscle fibers. Proteins are synthesized through translation of mRNA in the ribosome. Their primary structure is determined by the linear sequence of amino acids. Secondary structures like alpha helices and beta sheets form through hydrogen bonding between peptide bonds in the polypeptide chain. Tertiary structure arises from folding of the secondary structure into a compact 3D shape stabilized by hydrophobic interactions and disulfide bridges. Some proteins have quaternary structure as multisubunit complexes. The document discusses several
This document discusses the structure of proteins at various levels:
1) Primary structure is the amino acid sequence of a polypeptide chain.
2) Secondary structure includes alpha helices and beta pleated sheets formed by hydrogen bonding between amino acids in the backbone.
3) Tertiary structure is the three-dimensional folding of the entire polypeptide chain, stabilized by interactions between amino acid side chains.
4) Quaternary structure refers to the association of multiple polypeptide subunits in a protein.
The document outlines techniques like X-ray crystallography and NMR that are used to determine protein structures at high resolution.
Remote Sensing and Computational, Evolutionary, Supercomputing, and Intellige...University of Maribor
Slides from talk:
Aleš Zamuda: Remote Sensing and Computational, Evolutionary, Supercomputing, and Intelligent Systems.
11th International Conference on Electrical, Electronics and Computer Engineering (IcETRAN), Niš, 3-6 June 2024
Inter-Society Networking Panel GRSS/MTT-S/CIS Panel Session: Promoting Connection and Cooperation
https://www.etran.rs/2024/en/home-english/
The binding of cosmological structures by massless topological defectsSérgio Sacani
Assuming spherical symmetry and weak field, it is shown that if one solves the Poisson equation or the Einstein field
equations sourced by a topological defect, i.e. a singularity of a very specific form, the result is a localized gravitational
field capable of driving flat rotation (i.e. Keplerian circular orbits at a constant speed for all radii) of test masses on a thin
spherical shell without any underlying mass. Moreover, a large-scale structure which exploits this solution by assembling
concentrically a number of such topological defects can establish a flat stellar or galactic rotation curve, and can also deflect
light in the same manner as an equipotential (isothermal) sphere. Thus, the need for dark matter or modified gravity theory is
mitigated, at least in part.
ESPP presentation to EU Waste Water Network, 4th June 2024 “EU policies driving nutrient removal and recycling
and the revised UWWTD (Urban Waste Water Treatment Directive)”
The debris of the ‘last major merger’ is dynamically youngSérgio Sacani
The Milky Way’s (MW) inner stellar halo contains an [Fe/H]-rich component with highly eccentric orbits, often referred to as the
‘last major merger.’ Hypotheses for the origin of this component include Gaia-Sausage/Enceladus (GSE), where the progenitor
collided with the MW proto-disc 8–11 Gyr ago, and the Virgo Radial Merger (VRM), where the progenitor collided with the
MW disc within the last 3 Gyr. These two scenarios make different predictions about observable structure in local phase space,
because the morphology of debris depends on how long it has had to phase mix. The recently identified phase-space folds in Gaia
DR3 have positive caustic velocities, making them fundamentally different than the phase-mixed chevrons found in simulations
at late times. Roughly 20 per cent of the stars in the prograde local stellar halo are associated with the observed caustics. Based
on a simple phase-mixing model, the observed number of caustics are consistent with a merger that occurred 1–2 Gyr ago.
We also compare the observed phase-space distribution to FIRE-2 Latte simulations of GSE-like mergers, using a quantitative
measurement of phase mixing (2D causticality). The observed local phase-space distribution best matches the simulated data
1–2 Gyr after collision, and certainly not later than 3 Gyr. This is further evidence that the progenitor of the ‘last major merger’
did not collide with the MW proto-disc at early times, as is thought for the GSE, but instead collided with the MW disc within
the last few Gyr, consistent with the body of work surrounding the VRM.
Comparing Evolved Extractive Text Summary Scores of Bidirectional Encoder Rep...University of Maribor
Slides from:
11th International Conference on Electrical, Electronics and Computer Engineering (IcETRAN), Niš, 3-6 June 2024
Track: Artificial Intelligence
https://www.etran.rs/2024/en/home-english/
Unlocking the mysteries of reproduction: Exploring fecundity and gonadosomati...AbdullaAlAsif1
The pygmy halfbeak Dermogenys colletei, is known for its viviparous nature, this presents an intriguing case of relatively low fecundity, raising questions about potential compensatory reproductive strategies employed by this species. Our study delves into the examination of fecundity and the Gonadosomatic Index (GSI) in the Pygmy Halfbeak, D. colletei (Meisner, 2001), an intriguing viviparous fish indigenous to Sarawak, Borneo. We hypothesize that the Pygmy halfbeak, D. colletei, may exhibit unique reproductive adaptations to offset its low fecundity, thus enhancing its survival and fitness. To address this, we conducted a comprehensive study utilizing 28 mature female specimens of D. colletei, carefully measuring fecundity and GSI to shed light on the reproductive adaptations of this species. Our findings reveal that D. colletei indeed exhibits low fecundity, with a mean of 16.76 ± 2.01, and a mean GSI of 12.83 ± 1.27, providing crucial insights into the reproductive mechanisms at play in this species. These results underscore the existence of unique reproductive strategies in D. colletei, enabling its adaptation and persistence in Borneo's diverse aquatic ecosystems, and call for further ecological research to elucidate these mechanisms. This study lends to a better understanding of viviparous fish in Borneo and contributes to the broader field of aquatic ecology, enhancing our knowledge of species adaptations to unique ecological challenges.
The use of Nauplii and metanauplii artemia in aquaculture (brine shrimp).pptxMAGOTI ERNEST
Although Artemia has been known to man for centuries, its use as a food for the culture of larval organisms apparently began only in the 1930s, when several investigators found that it made an excellent food for newly hatched fish larvae (Litvinenko et al., 2023). As aquaculture developed in the 1960s and ‘70s, the use of Artemia also became more widespread, due both to its convenience and to its nutritional value for larval organisms (Arenas-Pardo et al., 2024). The fact that Artemia dormant cysts can be stored for long periods in cans, and then used as an off-the-shelf food requiring only 24 h of incubation makes them the most convenient, least labor-intensive, live food available for aquaculture (Sorgeloos & Roubach, 2021). The nutritional value of Artemia, especially for marine organisms, is not constant, but varies both geographically and temporally. During the last decade, however, both the causes of Artemia nutritional variability and methods to improve poorquality Artemia have been identified (Loufi et al., 2024).
Brine shrimp (Artemia spp.) are used in marine aquaculture worldwide. Annually, more than 2,000 metric tons of dry cysts are used for cultivation of fish, crustacean, and shellfish larva. Brine shrimp are important to aquaculture because newly hatched brine shrimp nauplii (larvae) provide a food source for many fish fry (Mozanzadeh et al., 2021). Culture and harvesting of brine shrimp eggs represents another aspect of the aquaculture industry. Nauplii and metanauplii of Artemia, commonly known as brine shrimp, play a crucial role in aquaculture due to their nutritional value and suitability as live feed for many aquatic species, particularly in larval stages (Sorgeloos & Roubach, 2021).
The ability to recreate computational results with minimal effort and actionable metrics provides a solid foundation for scientific research and software development. When people can replicate an analysis at the touch of a button using open-source software, open data, and methods to assess and compare proposals, it significantly eases verification of results, engagement with a diverse range of contributors, and progress. However, we have yet to fully achieve this; there are still many sociotechnical frictions.
Inspired by David Donoho's vision, this talk aims to revisit the three crucial pillars of frictionless reproducibility (data sharing, code sharing, and competitive challenges) with the perspective of deep software variability.
Our observation is that multiple layers — hardware, operating systems, third-party libraries, software versions, input data, compile-time options, and parameters — are subject to variability that exacerbates frictions but is also essential for achieving robust, generalizable results and fostering innovation. I will first review the literature, providing evidence of how the complex variability interactions across these layers affect qualitative and quantitative software properties, thereby complicating the reproduction and replication of scientific studies in various fields.
I will then present some software engineering and AI techniques that can support the strategic exploration of variability spaces. These include the use of abstractions and models (e.g., feature models), sampling strategies (e.g., uniform, random), cost-effective measurements (e.g., incremental build of software configurations), and dimensionality reduction methods (e.g., transfer learning, feature selection, software debloating).
I will finally argue that deep variability is both the problem and solution of frictionless reproducibility, calling the software science community to develop new methods and tools to manage variability and foster reproducibility in software systems.
Exposé invité Journées Nationales du GDR GPL 2024
This presentation explores a brief idea about the structural and functional attributes of nucleotides, the structure and function of genetic materials along with the impact of UV rays and pH upon them.
Nucleophilic Addition of carbonyl compounds.pptxSSR02
Nucleophilic addition is the most important reaction of carbonyls. Not just aldehydes and ketones, but also carboxylic acid derivatives in general.
Carbonyls undergo addition reactions with a large range of nucleophiles.
Comparing the relative basicity of the nucleophile and the product is extremely helpful in determining how reversible the addition reaction is. Reactions with Grignards and hydrides are irreversible. Reactions with weak bases like halides and carboxylates generally don’t happen.
Electronic effects (inductive effects, electron donation) have a large impact on reactivity.
Large groups adjacent to the carbonyl will slow the rate of reaction.
Neutral nucleophiles can also add to carbonyls, although their additions are generally slower and more reversible. Acid catalysis is sometimes employed to increase the rate of addition.
hematic appreciation test is a psychological assessment tool used to measure an individual's appreciation and understanding of specific themes or topics. This test helps to evaluate an individual's ability to connect different ideas and concepts within a given theme, as well as their overall comprehension and interpretation skills. The results of the test can provide valuable insights into an individual's cognitive abilities, creativity, and critical thinking skills
ANAMOLOUS SECONDARY GROWTH IN DICOT ROOTS.pptxRASHMI M G
Abnormal or anomalous secondary growth in plants. It defines secondary growth as an increase in plant girth due to vascular cambium or cork cambium. Anomalous secondary growth does not follow the normal pattern of a single vascular cambium producing xylem internally and phloem externally.
2. • Proteins are major components of all
cellular systems
• Proteins consist of one or more
linear polymers called polypeptides
• Proteins are linear and never
branched
• Different AA’s are linked together
via PEPTIDE bonds
• The individual amino acids within a
protein are known as RESIDUES
• The smallest known Peptide is just
nine residues long - oxytocin
• The largest is over 25,000 residues -
the structural protein titin
Introduction
3. Classification of proteins
A. Functional Basis
Nothing can compare with the versatility of proteins. Their functionality and usage
in organisms is unrivalled.
• Enzymes: Catalytic activity Carbonic Anhydrase, Lipases
• Structural: Provide support collagen fibers, elastin, keratin
• Contractile Proteins: Actin and Mayosin
• Storage Proteins: Ovalbumin, ferritin, Casein
• Blood clotting: Fibrinogen
• Cytoskeleton: Tubulin
• Hormones: Insulin and Glucagon
• Transportation: bind and carry ligand molecules. Hemoglobin
• Defense Mechanism: Antibodies
4. B. Structural Basis :
Globular: Complex folds, irregularly shaped tertiary structures
Fibrous: Extended, simple folds -- generally structural proteins
C. Cellular localization definition:
Membrane: In direct physical contact with a membrane;
generally water insoluble.
Soluble: Water soluble; can be anywhere in the cell.
D. Structural Composition:
Non Conjugated: No prosthetic Group
Conjugated: Proteins associated with organic or non organic
non proteinous part
• Glycoproteins
• Metalloproteins
• Phophoproteins
• Lipoproteins
• flavoproteins
7. Amino Acids Are Joined By Peptide
Bonds In Peptides
- a-carboxyl of one amino acid is joined to a-amino of a
second amino acid (with removal of water)
- only a-carboxyl and a-amino groups are used, not R-
group carboxyl or amino groups
8. Properties of Peptide Bond
•Bond Length: 1.32A (Double bond:1.21A, Single bond: 1.47A) due
to resonance or partial sharing of electrons.
* Resonance: state of adjustment that produces resonance in a system
•Planar: On one side of the Plane.
•Rigid: not able to move or orient itself (due to planner
Hence, it posses 40% double bond characters
9. Conformation of Polypeptide Chain is defined by:
2 Torsion Angle/Dihedral angles: Angles between two planes
1.Φ (phi): rotation around alpha carbon and nitrogen
2.Ψ (psi): rotation around alpha carbon and carbon
•Ψ and φ angles will cause the hydrogen and oxygen and other
residue to collide
•Many chain rotations are restricted to Ψ and φ.
•This restricts the number of conformations in proteins
10. • Many angles of rotation are possible only a few are energetically
favorable
• By convention Ψ and φ are 180° (or –180°) when the first and
fourth atoms are farthest apart and the peptide is fully extended.
• In a protein, some of the conformations shown here (e.g., 0°)
are prohibited by steric overlap of atoms.
11. • Every amino acid has its own set of angles
defining direction of possible rotation
within the molecule.
Ramachandran plots
•Ramachandran plot shows the distribution of f and y dihedral angles that
are found in a protein
•Some Ψ and φ combinations are very unfavorable because of steric crowding of
backbone atoms with other atoms in the backbone or side-chains.
•Some Ψ and φ combinations are more favorable because of chance to form
favorable H-bonding interactions along the backbone (Blue-shaded areas).
•shows the common secondary structure elements reveals regions with unusual
backbone structure
12. Secondary Structure: = local folding of residues into regular patterns
• The chains of amino acids fold or turn upon themselves
• Held together by hydrogen bonds between (non-adjacent) amine
(N-H) and carboxylic (C-O) groups
• H-bonds provide a level of structural stability Secondary structure
• For example Fibrous proteins
3 Major Types
• α-Helix
• β-Conformation or Sheets
• β-Turns
13. The a-helix • In the a-helix, the carbonyl oxygen of
residue “i” forms a hydrogen bond with
the amide of residue “i+4”.
• Although each hydrogen bond is
relatively weak in isolation, the sum of
the hydrogen bonds in a helix makes it
quite stable.
• The propensity of a peptide for forming
an a-helix also depends on its sequence.
• Right-handed helix with 3.6 residues (5.4
Å) per turn
• Peptide bonds are aligned roughly parallel
with the helical axis
• Side chains point out and are roughly
perpendicular with the helical axis
14. • Not all polypeptide sequences adopt a helical structures
• Small hydrophobic residues such as Ala and Leu are strong helix formers
• Pro acts as a helix breaker because the rotation around the N-Ca bond is
impossible
• Gly acts as a helix breaker because the tiny R group supports other conformations
ΔΔG is the difference in free-energy change relative to that for alanine
15. The b-sheet
• The backbone is more extended, the planarity of the peptide
bond and tetrahedral geometry of the a-carbon create a pleated
sheetlike structure
• Sheet-like arrangement of backbone is held together by
hydrogen bonds between the more distal backbone amides and
carbonyl oxygen.
• Side chains protrude from the sheet alternating in up and down
direction
16. • Core of many proteins is the b sheet
• Parallel or antiparallel orientation
of two chains within a sheet are
possible
• In parallel b sheets the H-bonded
strands run in the same direction
• In antiparallel b sheets the H-bonded
strands run in opposite directions
Beta strand is an extended structure
3.5A between R groups in sheet
compared to 1.5 in alpha helix
• The propensity of a peptide for
forming b-sheet also depends on its
sequence.
• Most ß strands in proteins are 5 to 8
AA long.
17. b turns
b -turns occur frequently whenever strands in b sheets change the direction
• The 180° turn is accomplished over four amino acids
• The turn is stabilized by a hydrogen bond from a carbonyl oxygen to amide
proton three residues down the sequence.
• ß Turns consist of 3-4 amino acids that form tight bends.
• Glycine and proline are common in turns. Longer connecting segments
between ß strands are called loops.
• Proline in position 2 or glycine in position 3 are common in b-turns
b-turns allow the protein backbone to make abrupt turns.
• Again, the propensity of a peptide for forming b-turns depends on its
sequence.
19. Tertiary structure = global folding of a protein chain
• The polypeptide folds and coils to form a complex 3D shape
• Caused by interactions between R groups (H-bonds, disulphide bridges, ionic
bonds and hydrophilic / hydrophobic interactions)
• Tertiary structure may be important for the function (e.g. specificity of active
site in enzymes)
20. Proteins are commonly described as either being fibrous or
globular in nature.
1. Fibrous proteins: typically insoluble; made from a single
secondary structure
2. Globular proteins: water-soluble globular proteins, multiple
secondary structure are involved
21. Fibrous proteins
• The fundamental structural unit is a simple
repeating element of secondary structure.
• All fibrous proteins are insoluble in water, a
property conferred by a high concentration of
hydrophobic amino acid residues both in the
interior of the protein and on its surface.
• These hydrophobic surfaces are largely
buried as many similar polypeptide chains
are packed together to form elaborate
supramolecular complexes.
22. Globular proteins
Protein Folding
• Non-covalent bonds within and between Peptide chains are
as important in their overall conformation and function
• Weak non-covalent interactions including IONIC,
HYDROGEN, and other HYDRPHOBIC INTERACTIONS
will hold the protein in its functional shape
• Disulfide bonds (S-S) form between adjacent -SH groups on
the amino acid cysteine AND these Cross linkages can be
between 2 parts of a protein or between 2 subunits
• The peptide bond allows for rotation around it and therefore the protein can fold
and orient the R groups in favorable positions
23. Motif, also called a super secondary
structure or fold. A motif is simply a
recognizable folding pattern involving two
or more elements of secondary structure
and the connection(s) between them.
It is a folding pattern that can describe a
small part of a protein or an entire
polypeptide chain
Domain
A domain, is a part of a polypeptide chain that
is independently stable or could undergo
movements as a single entity with respect to the
entire protein.
Polypeptides with more than a few hundred
amino acid residues often fold into two or more
domains, sometimes with different functions
24. Quaternary structure = Higher-order assembly of proteins
• Quaternary structure is formed by spontaneous assembly of individual
polypeptides into a larger functional cluster
• Oligomeric Subunits (protomers) are arranged in Symmetric Patterns
* protomer is the structural unit of an oligomeric protein.
• The interaction between multiple polypeptides or prosthetic groups
• A prosthetic group is an inorganic compound involved in a protein (e.g.
the heme group in haemoglobin)
25. Examples of other quaternary structures
Tetramer Hexamer Filament
SSB DNA helicase Recombinase
Allows coordinated Allows coordinated DNA binding Allows complete
DNA binding and ATP hydrolysis coverage of an
extended molecule
26. • Myoglobin is an iron- and oxygen-
binding protein found in the muscle
tissue .
• It is distantly related to hemoglobin
which is the iron- and oxygen-binding
protein in blood, specifically in the red
blood cells
• Å single subunit 153 amino acid residues
• 121 residues are in an a helix. Helices
are named A, B, C, …F. The heme
pocket is surrounded by E and F but not
B, C, G, also H is near the heme.
• Non-polar R-groups tend to be buried in
the cores of soluble proteins
Blue = non-polar R-group
Red = Heme
Myoglobin
27. Myoglobin facilitates rapidly respiring muscle tissue
➢ The rate of O2 diffusion from capillaries to tissue is slow because of the
solubility of oxygen.
➢ Myoglobin increases the solubility of oxygen, and also facilitates oxygen
diffusion.
➢ Oxygen transported over large distances by iron, incorporated into a protein-
bound prosthetic group called heme (or haem) having high oxygen carrying
capacity.
➢ Heme consists of a complex organic ring structure, protoporphyrin, to which is
bound a single iron atom in its ferrous (Fe'*) state.
➢ The iron atom has six coordination bonds, four to nitrogen atoms that are part
of the flat porphyrin ring system and two perpendicular to the porphyrin. The
coordinated nitrogen atoms (which have an electron-donating character) help
prevent conversion of the heme iron to the ferric (Fe3+) state.
➢ Iron in the ferrous (Fe2+) state binds oxygen reversibly; in the Fe3+ state it does
not bind oxygen. Heme is also found in many oxygen-transporting proteins, as
well as in some proteins, such as the cytochromes that participate in oxidation-
reduction (electron-transfer) reactions.
➢ Oxygen storage is also a function because Myoglobin concentrations are 10-
fold greater in whales and seals than in land mammals
28. Hemoglobin
• Different Subunit Proteins (heteromeric), 2 a globin subunits and 2 b globin subunits
• Composed of four subunits, each containing a heme group: a ring-like structure Porphyrin
with a central iron atom that binds oxygen.
• Extensive interactions between unlike subunits a2-b2 or a1-b1 interface has 35 residues
while a1-b2 and a2-b1 have 19 residue contact.
• a2,b2 dimer which are structurally similar to myoglobin
• Transports oxygen from lungs to tissues. O2 diffusion alone is too poor for transport in
larger animals.
• Solubility of O2 is low in plasma i.e. 10-4 M. But bound to hemoglobin, [O2] = 0.01 M or
that of air.
• Two alternative O2 transporters are;
Hemocyanin, a Cu containing protein (Found in Arthropods and Mollusca).
Hemoerythrin , a non-heme containing protein (marine invertebrate).
29. • Protoporphyrin binds oxygen to the sixth ligand of Fe(II) out of the plane of
the heme. The fifth ligand is a Histidine, F8 on the side across the heme
plane.
• His F8 binds to the proximal side and the oxygen binds to the distal side.
• The heme alone interacts with oxygen such that the Fe(II) becomes oxidized
to Fe(III) and no longer binds oxygen.
• The heme group is nonplanar when it is not bound to oxygen; the iron atom is
pulled out of the plane of the porphyrin, toward the histidine residue to which
it is attached.
• This nonplanar configuration is characteristic of the deoxygenated heme
group, and is commonly referred to as a "domed" shape.
• However, when the Fe in the heme group binds to an oxygen molecule, the
porphyrin ring adopts a planar configuration and hence the Fe lies in the plane
of the porphyrin ring
Function of the Hemoglobin
30. Mechanism of Oxygen binding to
hemoglobin
Tense “T” state
• Binds oxygen with low affinity
• Favoured at low oxygen concentration
Relaxed “R” State
• Binds oxygen with high affinity
• Binding energy with oxygen stabilizes R state
• Becomes predominant as oxygen concentration
increases
31. • As each O2 molecule binds, it alters the conformation of haemoglobin, making
subsequent binding easier (cooperative binding)
• This means haemoglobin will have a higher affinity for O2 in oxygen-rich areas (like the
lung), promoting oxygen loading
• Conversely, haemoglobin will have a lower affinity for O2 in oxygen-starved areas (like
muscles), promoting oxygen unloading
• The oxygen dissociation curve for adult haemoglobin is sigmoidal (i.e. S-shaped) due to
cooperative binding
• There is a low saturation of haemoglobin when oxygen levels are low (haemoglobin
releases O2 in hypoxic tissues)
• There is a high saturation of haemoglobin when oxygen levels are high (haemoglobin
binds O2 in oxygen-rich tissues)