1BD7 | pdb_00001bd7

CIRCULARLY PERMUTED BB2-CRYSTALLIN

• PDB DOI: https://doi.org/10.2210/pdb1BD7/pdb

• Classification: EYE-LENS PROTEIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1998-05-12 Released: 1998-10-21 
• Deposition Author(s): Wright, G., Basak, A.K., Mayr, E.-M., Glockshuber, R., Slingsby, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free: 
  0.278 (Depositor), 0.268 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.187 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Starting Model: experimental

Literature

Circular permutation of betaB2-crystallin changes the hierarchy of domain assembly.

Wright, G., Basak, A.K., Wieligmann, K., Mayr, E.M., Slingsby, C.

(1998) Protein Sci 7: 1280-1285

• PubMed: 9655330 
• DOI: https://doi.org/10.1002/pro.5560070602
• Primary Citation Related Structures: 
  1BD7


• PubMed Abstract: 
  

  The betagamma-crystallins form a superfamily of eye lens proteins comprised of multiple Greek motifs that are symmetrically organized into domains and higher assemblies. In the betaB2-crystallin dimer each polypeptide folds into two similar domains that are related to monomeric gamma-crystallin by domain swapping. The crystal structure of the circularly permuted two-domain betaB2 polypeptide shows that permutation converts intermolecular domain pairing into intramolecular pairing. However, the dimeric permuted protein is, in fact, half a native tetramer. This result shows how the sequential order of domains in multi-domain proteins can affect quaternary domain assembly.

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Organizational Affiliation: 
• Birkbeck College, Department of Crystallography, London, United Kingdom.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 40.31 kDa 
• Atom Count: 2,817 
• Modeled Residue Count: 347 
• Deposited Residue Count: 352 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CIRCULARLY PERMUTED BB2-CRYSTALLIN	A, B	176	Rattus norvegicus	Mutation(s): 0
UniProt
Find proteins for P62697 (Rattus norvegicus) Explore P62697  Go to UniProtKB:  P62697

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free:  0.278 (Depositor), 0.268 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.187 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39	α = 66.7
b = 48.5	β = 74.9
c = 54.5	γ = 77.5

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
DENZO	data reduction
CCP4	data scaling
ROTAVATA	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-10-21 
Deposition Author(s): Wright, G., Basak, A.K., Mayr, E.-M., Glockshuber, R., Slingsby, C.

Revision History  

• Version 1.0: 1998-10-21
  Type: Initial release
  
• Version 1.1: 2008-03-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-02-07
  Changes: Data collection, Database references, Other, Refinement description
• Version 1.4: 2024-04-03
  Changes: Refinement description