1HSB

DIFFERENT LENGTH PEPTIDES BIND TO HLA-AW68 SIMILARLY AT THEIR ENDS BUT BULGE OUT IN THE MIDDLE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Work: 0.220 
  • R-Value Observed: 0.220 

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This is version 1.2 of the entry. See complete history


Literature

Different length peptides bind to HLA-Aw68 similarly at their ends but bulge out in the middle.

Guo, H.C.Jardetzky, T.S.Garrett, T.P.Lane, W.S.Strominger, J.L.Wiley, D.C.

(1992) Nature 360: 364-366

  • DOI: 10.1038/360364a0
  • Primary Citation of Related Structures:  
    1HSB

  • PubMed Abstract: 
  • We report here the determination and refinement to 1.9 A resolution by X-ray cryo-crystallography the structure of HLA-Aw68. The averaged image from the collection of bound, endogenous peptides clearly shows the atomic structure at the first three an ...

    We report here the determination and refinement to 1.9 A resolution by X-ray cryo-crystallography the structure of HLA-Aw68. The averaged image from the collection of bound, endogenous peptides clearly shows the atomic structure at the first three and last two amino acids in the peptides but no connected electron density in between. This suggests that bound peptides, held at both ends, take alternative pathways and could be of different lengths by bulging out in the middle. Peptides eluted from HLA-Aw68 include peptides of 9, 10 and 11 amino acids, a direct indication of the length heterogeneity of tightly bound peptides. Peptide sequencing shows relatively conserved 'anchor' residues at position 2 and the carboxy-terminal residue. Conserved binding sites for the peptide N and C termini at the ends of the class I major histocompatibility complex binding groove are apparently dominant in producing the long half-lives of peptide binding and the peptide-dependent stabilization of the class I molecule's structure.


    Related Citations: 
    • Comparison of a Specificity Pocket in Three Human Histocompatibility Antigens: Hla-Aw68, Hla-A2 and Hla-B27
      Guo, H.-C., Madden, D.R., Strominger, J.L., Wiley, D.C.
      () To be published --: --
    • Different Length Peptides Bind to Hla-Aw68 Similarly at Their Ends But Bulge Out in the Middle
      Guo, H.-C., Jardetzky, T.S., Garrett, T.P.J., Lane, W.S., Strominger, J.L., Wiley, D.C.
      (1992) Nature 360: 364
    • Atomic Structure of a Human Mhc Molecule Presenting an Influenza Virus Peptide
      Silver, M.L., Guo, H.-C., Strominger, J.L., Wiley, D.C.
      (1992) Nature 360: 367
    • The Three-Dimensional Structure of Hla-B27 at 2.1 Angstroms Resolution Suggests a General Mechanism for Tight Peptide Binding to Mhc
      Madden, D.R., Gorga, J.C., Strominger, J.L., Wiley, D.C.
      (1992) Cell 70: 1035
    • Refined Structure of the Human Histocompatibility Antigen Hla-A2 at 2.6 Angstroms Resolution
      Saper, M.A., Bjorkman, P.J., Wiley, D.C.
      (1991) J Mol Biol 219: 277
    • The Structure of Hla-B27 Reveals Nonamer Self-Peptides Bound in an Extended Conformation
      Madden, D.R., Gorga, J.C., Strominger, J.L., Wiley, D.C.
      (1991) Nature 353: 321
    • Specificity Pockets for the Side Chains of Peptide Antigens in Hla-Aw68
      Garrett, T.P.J., Saper, M.A., Bjorkman, P.J., Strominger, J.L., Wiley, D.C.
      (1989) Nature 342: 692
    • Structure of the Human Class I Histocompatibility Antigen, Hla-A2
      Bjorkman, P.J., Saper, M.A., Samraoui, B., Bennett, W.S., Strominger, J.L., Wiley, D.C.
      (1987) Nature 329: 506
    • The Foreign Antigen Binding Site and T Cell Recognition Regions of Class I Histocompatibility Antigens
      Bjorkman, P.J., Saper, M.A., Samraoui, B., Bennett, W.S., Strominger, J.L., Wiley, D.C.
      (1987) Nature 329: 512
    • Crystallization and X-Ray Diffraction Studies on the Histocompatibility Antigens Hla-A2 and Hla-A28 from Human Cell Membranes
      Bjorkman, P.J., Strominger, J.L., Wiley, D.C.
      (1985) J Mol Biol 186: 205

    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Harvard University, Cambridge, Massachusetts 02138.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CLASS I HISTOCOMPATIBILITY ANTIGEN (HLA-AW68.1)A270Homo sapiensMutation(s): 0 
Gene Names: HLA-AHLAA
Find proteins for P04439 (Homo sapiens)
Explore P04439 
Go to UniProtKB:  P04439
NIH Common Fund Data Resources
PHAROS  P04439
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
BETA 2-MICROGLOBULINB99Homo sapiensMutation(s): 0 
Gene Names: B2MCDABP0092HDCMA22P
Find proteins for P61769 (Homo sapiens)
Explore P61769 
Go to UniProtKB:  P61769
NIH Common Fund Data Resources
PHAROS  P61769
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
BOUND PEPTIDE FRAGMENTC3N/AMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ARG
Query on ARG

Download CCD File 
A
ARGININE
C6 H15 N4 O2
ODKSFYDXXFIFQN-BYPYZUCNSA-O
 Ligand Interaction
ALA
Query on ALA

Download CCD File 
A
ALANINE
C3 H7 N O2
QNAYBMKLOCPYGJ-REOHCLBHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Work: 0.220 
  • R-Value Observed: 0.220 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.43α = 90
b = 78.469β = 90
c = 111.904γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-10-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance