5VH1 | pdb_00005vh1

Crystal Structure of Chicken Gamma S Crystallin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 
    0.202 (Depositor), 0.203 (DCC) 
  • R-Value Work: 
    0.132 (Depositor), 0.132 (DCC) 
  • R-Value Observed: 
    0.136 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.3 of the entry. See complete history

Literature

Crystal Structure of Chicken gamma S-Crystallin Reveals Lattice Contacts with Implications for Function in the Lens and the Evolution of the beta gamma-Crystallins.

Sagar, V.Chaturvedi, S.K.Schuck, P.Wistow, G.

(2017) Structure 25: 1068-1078.e2

  • DOI: https://doi.org/10.1016/j.str.2017.05.015
  • Primary Citation Related Structures: 
    5VH1

  • PubMed Abstract: 

    Previous attempts to crystallize mammalian γS-crystallin were unsuccessful. Native L16 chicken γS crystallized avidly while the Q16 mutant did not. The X-ray structure for chicken γS at 2.3 Å resolution shows the canonical structure of the superfamily plus a well-ordered N arm aligned with a β sheet of a neighboring N domain. L16 is also in a lattice contact, partially shielded from solvent. Unexpectedly, the major lattice contact matches a conserved interface (QR) in the multimeric β-crystallins. QR shows little conservation of residue contacts, except for one between symmetry-related tyrosines, but molecular dipoles for the proteins with QR show striking similarities while other γ-crystallins differ. In γS, QR has few hydrophobic contacts and features a thin layer of tightly bound water. The free energy of QR is slightly repulsive and analytical ultracentrifugation confirms no dimerization in solution. The lattice contacts suggest how γ-crystallins allow close packing without aggregation in the crowded environment of the lens.


  • Organizational Affiliation
    • Section on Molecular Structure and Functional Genomics, National Eye Institute, National Institutes of Health, Building 6, Room 106, Bethesda, MD 20892, USA.

Macromolecule Content 

  • Total Structure Weight: 20.7 kDa 
  • Atom Count: 1,627 
  • Modeled Residue Count: 177 
  • Deposited Residue Count: 178 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Gamma S-crystallin178Gallus gallusMutation(s): 0 
Gene Names: CRYGS
UniProt
Find proteins for D0UYB8 (Gallus gallus)
Explore D0UYB8 
Go to UniProtKB:  D0UYB8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupD0UYB8
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free:  0.202 (Depositor), 0.203 (DCC) 
  • R-Value Work:  0.132 (Depositor), 0.132 (DCC) 
  • R-Value Observed: 0.136 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 86.91α = 90
b = 41.01β = 113.2
c = 49.46γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-05-24
    Type: Initial release
  • Version 1.1: 2017-07-12
    Changes: Database references
  • Version 1.2: 2017-07-19
    Changes: Database references
  • Version 1.3: 2023-10-04
    Changes: Data collection, Database references, Refinement description