1BKV | pdb_00001bkv

COLLAGEN

• PDB DOI: https://doi.org/10.2210/pdb1BKV/pdb

• Classification: STRUCTURAL PROTEIN
• Mutation(s): No 


• Deposited: 1998-07-13 Released: 1999-02-16 
• Deposition Author(s): Kramer, R.Z., Bella, J., Mayville, P., Brodsky, B., Berman, H.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.277 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.228 (Depositor), 0.225 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Starting Model: in silico

Literature

Sequence dependent conformational variations of collagen triple-helical structure.

Kramer, R.Z., Bella, J., Mayville, P., Brodsky, B., Berman, H.M.

(1999) Nat Struct Biol 6: 454-457

• PubMed: 10331873 
• DOI: https://doi.org/10.1038/8259
• Primary Citation Related Structures: 
  1BKV


• PubMed Abstract: 
  

  The 2 A crystal structure reported here of the collagen-like model peptide, T3-785, provides the first visualization of how the sequence of collagen defines distinctive local conformational variations in triple-helical structure.

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Organizational Affiliation: 
• Department of Chemistry, Rutgers University, Piscataway, New Jersey 08854-8087, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 8.36 kDa 
• Atom Count: 692 
• Modeled Residue Count: 89 
• Deposited Residue Count: 90 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
T3-785	A, B, C	30	N/A	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACY	D [auth B], E [auth B], F [auth B], G [auth B], H [auth C]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HYP	A, B, C	L-PEPTIDE LINKING	C5 H9 N O3		PRO

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.277 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.228 (Depositor), 0.225 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.09	α = 90
b = 15.629	β = 104.46
c = 39.715	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-02-16 
Deposition Author(s): Kramer, R.Z., Bella, J., Mayville, P., Brodsky, B., Berman, H.M.

Revision History  

• Version 1.0: 1999-02-16
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-04-03
  Changes: Data collection, Database references, Derived calculations, Refinement description