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4/3/2019POLYMER CHEMISRTY1
4/3/2019POLYMER CHEMISRTY2
X-Ray Diffraction (XRD)
Presented By : Sagar Kumar Assigned By : Prof Dr. Shahbuddin Memon
Content:
4/3/2019POLYMER CHEMISRTY3
Introduction
Historical Perspective
How XRD Works
Analyzing a Diffraction Pattern
Solving DNA
Application
Summary And Conclusion
Acknowledgement
Reference
X-Ray Diffraction (XRD)
4/3/2019POLYMER CHEMISRTY4
X-Rays
4/3/2019POLYMER CHEMISRTY5
Introduction
4/3/2019POLYMER CHEMISRTY6
 Motivation:
 X-ray diffraction is used to obtain structural information about
crystalline solids.
 Useful in biochemistry to solve the 3D structures of complex
biomolecules.
 Bridge the gaps between physics, chemistry and biology.
 X-ray diffraction is important for:
 Solid-state physics
 Biophysics
 Medical physics
 Chemistry and Biochemistry.
History of X-Ray Diffraction
4/3/2019POLYMER CHEMISRTY7
1895 X-rays discovered by Roentgen
1914 First diffraction pattern of a crystal
made by Knipping and von Laue
1915 Theory to determine crystal structure
from diffraction pattern developed by Bragg.
1953 DNA structure solved by Watson and
Crick
Now Diffraction improved by computer
technology; methods used to determine
atomic structures and in medical applications
How Diffraction Works
4/3/2019POLYMER CHEMISRTY8
Wave Interacting with a Single Particle
 Incident beams scattered uniformly in all
directions
Wave Interacting with a Solid
 Scattered beams interfere constructively in some
directions, producing diffracted beams
 Random arrangements cause beams to randomly
interfere and no distinctive pattern is produced
Crystalline Material
 Regular pattern of crystalline atoms produces
regular diffraction pattern.
 Diffraction pattern gives information on crystal
structure
How Diffraction Works: Bragg’s Law
4/3/2019POLYMER CHEMISRTY9
 Crystalline substances (e.g. minerals) consist of parallel rows of
atoms separated by a ‘unique’ distance
 Diffraction occurs when radiation enters a crystalline substance
and is scattered
 Direction and intensity of diffraction depends on orientation of
crystal lattice with radiation
nl=2dsin(Q)
Schematic X-Ray Diffractometer
4/3/2019POLYMER CHEMISRTY10
X-Ray
Source
Powdered
sample
Detector
Sample XRD Pattern
4/3/2019POLYMER CHEMISRTY11
4/3/2019POLYMER CHEMISRTY12
background radiation
strong intensity = prominent crystal
planeweak intensity = subordinate crystal plane
4/3/2019POLYMER CHEMISRTY13
Determine D-Spacing from XRD Patterns
Bragg’s Law
nλ = 2dsinθ
 n = reflection order (1,2,3,4,etc…)
 λ = radiation wavelength (1.54 angstroms)
 d = spacing between planes of atoms (angstroms)
 θ = angle of incidence (degrees)
4/3/2019POLYMER CHEMISRTY14
background radiation
strong intensity = prominent crystal plane
nλ = 2dsinθ
(1)(1.54) = 2dsin(15.5 degrees)
1.54 = 2d(0.267)
d = 2.88 angstroms
4/3/2019POLYMER CHEMISRTY15
d-spacing Intensity
2.88 100
2.18 46
1.81 31
1.94 25
2.10 20
1.75 15
2.33 10
2.01 10
1.66 5
1.71 5
Factors that affect XRD data
4/3/2019POLYMER CHEMISRTY16
 Sample not powdered fine enough
 May not give all d-spacing data (not random
enough)
 Analysis too fast (degrees/minute)
 May not give accurate peak data
 Mixture of minerals??
 Not crystalline – glass!!
Mixture of 2
4/3/2019POLYMER CHEMISRTY17
How Diffraction Works: Schematic:
4/3/2019POLYMER CHEMISRTY18
How Diffraction Works: Schematic:
4/3/2019POLYMER CHEMISRTY19
Analyzing Diffraction Patterns
4/3/2019POLYMER CHEMISRTY20
 Data is taken from a full range of angles
 For simple crystal structures, diffraction patterns are
easily recognizable
 Phase Problem
 Only intensities of diffracted beams are measured
 Phase info is lost and must be inferred from data
 For complicated structures, diffraction patterns at
each angle can be used to produce a 3-D electron
density map
Analyzing Diffraction Patterns
4/3/2019POLYMER CHEMISRTY21
nl=2dsin(Q)
Solving the Structure of DNA: History
4/3/2019POLYMER CHEMISRTY22
 Rosalind Franklin- physical
chemist and x-ray
crystallographer who first
crystallized and photographed
BDNA
 Maurice Wilkins- collaborator of
Franklin
 Watson & Crick- chemists who
combined the information from
Photo 51 with molecular
modeling to solve the structure
of DNA in 1953
Rosalind Franklin
Solving the Structure of DNA
4/3/2019POLYMER CHEMISRTY23
 Photo 51 Analysis
 “X” pattern
characteristic of helix
 Diamond shapes
indicate long,
extended molecules
 Smear spacing
reveals distance
between repeating
structures
 Missing smears
indicate interference
from second helix.
Photo 51- The x-ray diffraction image that
allowed Watson and Crick to solve the
structure of DNA
www.pbs.org/wgbh/nova/photo51
Solving the Structure of DNA
4/3/2019POLYMER CHEMISRTY24
 Photo 51 Analysis
 “X” pattern
characteristic of helix
 Diamond shapes
indicate long,
extended molecules
 Smear spacing
reveals distance
between repeating
structures
 Missing smears
indicate interference
from second helix.
Photo 51- The x-ray diffraction image that
allowed Watson and Crick to solve the
structure of DNA
www.pbs.org/wgbh/nova/photo51
Solving the Structure of DNA
4/3/2019POLYMER CHEMISRTY25
 Photo 51 Analysis
 “X” pattern
characteristic of helix
 Diamond shapes
indicate long,
extended molecules
 Smear spacing
reveals distance
between repeating
structures
 Missing smears
indicate interference
from second helix.
Photo 51- The x-ray diffraction image that
allowed Watson and Crick to solve the
structure of DNA
www.pbs.org/wgbh/nova/photo51
Solving the Structure of DNA
4/3/2019POLYMER CHEMISRTY26
 Photo 51 Analysis
 “X” pattern
characteristic of helix
 Diamond shapes
indicate long,
extended molecules
 Smear spacing
reveals distance
between repeating
structures
 Missing smears
indicate interference
from second helix.
Photo 51- The x-ray diffraction image that
allowed Watson and Crick to solve the
structure of DNA
www.pbs.org/wgbh/nova/photo51
Solving the Structure of DNA
4/3/2019POLYMER CHEMISRTY27
 Photo 51 Analysis
 “X” pattern
characteristic of helix
 Diamond shapes
indicate long,
extended molecules
 Smear spacing
reveals distance
between repeating
structures
 Missing smears
indicate interference
from second helix.
Photo 51- The x-ray diffraction image that
allowed Watson and Crick to solve the
structure of DNA
www.pbs.org/wgbh/nova/photo51
Solving the Structure of DNA
4/3/2019POLYMER CHEMISRTY28
 Information Gained from Photo 51
 Double Helix
 Radius: 10 angstroms
 Distance between bases: 3.4 angstroms
 Distance per n: 34 angstroms
 Combining Data with Other Information
 DNA made from:
sugar
phosphates
4 nucleotides (A,C,G,T)
 Chargaff’s Rules
 %A=%T
 %G=%C
 Molecular Modeling
Watson and Crick’s model
Applications of X-Ray Diffraction
4/3/2019POLYMER CHEMISRTY29
Convenient three letter acronym: XRD
Distinguish between different crystal
structures with identical compositions
Find structure to determine function of
proteins
Study crystal deformation and stress
properties
Study of rapid biological and chemical
processes
…and much more!
Summary and Conclusions
4/3/2019POLYMER CHEMISRTY30
 X-ray diffraction is a technique for analyzing structures of
biological molecules
 X-ray beam hits a crystal, scattering the beam in a manner
characterized by the atomic structure
 Even complex structures can be analyzed by x-ray
diffraction, such as DNA and proteins
 This will provide useful in the future for combining
knowledge from physics, chemistry, and biology.
References
4/3/2019POLYMER CHEMISRTY31
www.matter.org.uk/diffraction
www.embo.or/projects/scisoc/download/TW02weiss.pdf
www.branta.connectfree.co.uk/x-ray_diffraction.htm
www.xraydiffrac.com/xrd.htm
www.samford.edu/~gekeller/casey.html
neon.mems.cmu.edu/xray/Introduction.html
www.omega.dawsoncollege.qc.ca/ray/dna/franklin.htm
mrsec.wisc.edu/edetc/modules/xray/X-raystm.pdf
Exploring the Nanoworld
www.eserc.stonybrook.edu/ProjectJava/Bragg/
www.pbs.org/wgbh/nova/photo51
Acknowledgement
4/3/2019POLYMER CHEMISRTY32
I am very much Thankful To Allah Almighty for blessing me to
this honor to present my presentation in front of you
I am pretty much Thankful my kind parents for their soulful
support
Lastly I am very glade to pay much gratitude to our humble Pro.
Dr. Shahbuddin Memon for his wonderful support that enthused
us for this presentation
4/3/2019POLYMER CHEMISRTY33
4/3/2019POLYMER CHEMISRTY34

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Xrd presentation

  • 2. 4/3/2019POLYMER CHEMISRTY2 X-Ray Diffraction (XRD) Presented By : Sagar Kumar Assigned By : Prof Dr. Shahbuddin Memon
  • 3. Content: 4/3/2019POLYMER CHEMISRTY3 Introduction Historical Perspective How XRD Works Analyzing a Diffraction Pattern Solving DNA Application Summary And Conclusion Acknowledgement Reference
  • 6. Introduction 4/3/2019POLYMER CHEMISRTY6  Motivation:  X-ray diffraction is used to obtain structural information about crystalline solids.  Useful in biochemistry to solve the 3D structures of complex biomolecules.  Bridge the gaps between physics, chemistry and biology.  X-ray diffraction is important for:  Solid-state physics  Biophysics  Medical physics  Chemistry and Biochemistry.
  • 7. History of X-Ray Diffraction 4/3/2019POLYMER CHEMISRTY7 1895 X-rays discovered by Roentgen 1914 First diffraction pattern of a crystal made by Knipping and von Laue 1915 Theory to determine crystal structure from diffraction pattern developed by Bragg. 1953 DNA structure solved by Watson and Crick Now Diffraction improved by computer technology; methods used to determine atomic structures and in medical applications
  • 8. How Diffraction Works 4/3/2019POLYMER CHEMISRTY8 Wave Interacting with a Single Particle  Incident beams scattered uniformly in all directions Wave Interacting with a Solid  Scattered beams interfere constructively in some directions, producing diffracted beams  Random arrangements cause beams to randomly interfere and no distinctive pattern is produced Crystalline Material  Regular pattern of crystalline atoms produces regular diffraction pattern.  Diffraction pattern gives information on crystal structure
  • 9. How Diffraction Works: Bragg’s Law 4/3/2019POLYMER CHEMISRTY9  Crystalline substances (e.g. minerals) consist of parallel rows of atoms separated by a ‘unique’ distance  Diffraction occurs when radiation enters a crystalline substance and is scattered  Direction and intensity of diffraction depends on orientation of crystal lattice with radiation nl=2dsin(Q)
  • 10. Schematic X-Ray Diffractometer 4/3/2019POLYMER CHEMISRTY10 X-Ray Source Powdered sample Detector
  • 12. 4/3/2019POLYMER CHEMISRTY12 background radiation strong intensity = prominent crystal planeweak intensity = subordinate crystal plane
  • 13. 4/3/2019POLYMER CHEMISRTY13 Determine D-Spacing from XRD Patterns Bragg’s Law nλ = 2dsinθ  n = reflection order (1,2,3,4,etc…)  λ = radiation wavelength (1.54 angstroms)  d = spacing between planes of atoms (angstroms)  θ = angle of incidence (degrees)
  • 14. 4/3/2019POLYMER CHEMISRTY14 background radiation strong intensity = prominent crystal plane nλ = 2dsinθ (1)(1.54) = 2dsin(15.5 degrees) 1.54 = 2d(0.267) d = 2.88 angstroms
  • 15. 4/3/2019POLYMER CHEMISRTY15 d-spacing Intensity 2.88 100 2.18 46 1.81 31 1.94 25 2.10 20 1.75 15 2.33 10 2.01 10 1.66 5 1.71 5
  • 16. Factors that affect XRD data 4/3/2019POLYMER CHEMISRTY16  Sample not powdered fine enough  May not give all d-spacing data (not random enough)  Analysis too fast (degrees/minute)  May not give accurate peak data  Mixture of minerals??  Not crystalline – glass!!
  • 18. How Diffraction Works: Schematic: 4/3/2019POLYMER CHEMISRTY18
  • 19. How Diffraction Works: Schematic: 4/3/2019POLYMER CHEMISRTY19
  • 20. Analyzing Diffraction Patterns 4/3/2019POLYMER CHEMISRTY20  Data is taken from a full range of angles  For simple crystal structures, diffraction patterns are easily recognizable  Phase Problem  Only intensities of diffracted beams are measured  Phase info is lost and must be inferred from data  For complicated structures, diffraction patterns at each angle can be used to produce a 3-D electron density map
  • 22. Solving the Structure of DNA: History 4/3/2019POLYMER CHEMISRTY22  Rosalind Franklin- physical chemist and x-ray crystallographer who first crystallized and photographed BDNA  Maurice Wilkins- collaborator of Franklin  Watson & Crick- chemists who combined the information from Photo 51 with molecular modeling to solve the structure of DNA in 1953 Rosalind Franklin
  • 23. Solving the Structure of DNA 4/3/2019POLYMER CHEMISRTY23  Photo 51 Analysis  “X” pattern characteristic of helix  Diamond shapes indicate long, extended molecules  Smear spacing reveals distance between repeating structures  Missing smears indicate interference from second helix. Photo 51- The x-ray diffraction image that allowed Watson and Crick to solve the structure of DNA www.pbs.org/wgbh/nova/photo51
  • 24. Solving the Structure of DNA 4/3/2019POLYMER CHEMISRTY24  Photo 51 Analysis  “X” pattern characteristic of helix  Diamond shapes indicate long, extended molecules  Smear spacing reveals distance between repeating structures  Missing smears indicate interference from second helix. Photo 51- The x-ray diffraction image that allowed Watson and Crick to solve the structure of DNA www.pbs.org/wgbh/nova/photo51
  • 25. Solving the Structure of DNA 4/3/2019POLYMER CHEMISRTY25  Photo 51 Analysis  “X” pattern characteristic of helix  Diamond shapes indicate long, extended molecules  Smear spacing reveals distance between repeating structures  Missing smears indicate interference from second helix. Photo 51- The x-ray diffraction image that allowed Watson and Crick to solve the structure of DNA www.pbs.org/wgbh/nova/photo51
  • 26. Solving the Structure of DNA 4/3/2019POLYMER CHEMISRTY26  Photo 51 Analysis  “X” pattern characteristic of helix  Diamond shapes indicate long, extended molecules  Smear spacing reveals distance between repeating structures  Missing smears indicate interference from second helix. Photo 51- The x-ray diffraction image that allowed Watson and Crick to solve the structure of DNA www.pbs.org/wgbh/nova/photo51
  • 27. Solving the Structure of DNA 4/3/2019POLYMER CHEMISRTY27  Photo 51 Analysis  “X” pattern characteristic of helix  Diamond shapes indicate long, extended molecules  Smear spacing reveals distance between repeating structures  Missing smears indicate interference from second helix. Photo 51- The x-ray diffraction image that allowed Watson and Crick to solve the structure of DNA www.pbs.org/wgbh/nova/photo51
  • 28. Solving the Structure of DNA 4/3/2019POLYMER CHEMISRTY28  Information Gained from Photo 51  Double Helix  Radius: 10 angstroms  Distance between bases: 3.4 angstroms  Distance per n: 34 angstroms  Combining Data with Other Information  DNA made from: sugar phosphates 4 nucleotides (A,C,G,T)  Chargaff’s Rules  %A=%T  %G=%C  Molecular Modeling Watson and Crick’s model
  • 29. Applications of X-Ray Diffraction 4/3/2019POLYMER CHEMISRTY29 Convenient three letter acronym: XRD Distinguish between different crystal structures with identical compositions Find structure to determine function of proteins Study crystal deformation and stress properties Study of rapid biological and chemical processes …and much more!
  • 30. Summary and Conclusions 4/3/2019POLYMER CHEMISRTY30  X-ray diffraction is a technique for analyzing structures of biological molecules  X-ray beam hits a crystal, scattering the beam in a manner characterized by the atomic structure  Even complex structures can be analyzed by x-ray diffraction, such as DNA and proteins  This will provide useful in the future for combining knowledge from physics, chemistry, and biology.
  • 32. Acknowledgement 4/3/2019POLYMER CHEMISRTY32 I am very much Thankful To Allah Almighty for blessing me to this honor to present my presentation in front of you I am pretty much Thankful my kind parents for their soulful support Lastly I am very glade to pay much gratitude to our humble Pro. Dr. Shahbuddin Memon for his wonderful support that enthused us for this presentation