1AMX | pdb_00001amx

COLLAGEN-BINDING DOMAIN FROM A STAPHYLOCOCCUS AUREUS ADHESIN

• PDB DOI: https://doi.org/10.2210/pdb1AMX/pdb

• Classification: BACTERIAL ADHESIN
• Organism(s): Staphylococcus aureus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1997-06-19 Released: 1998-06-24 
• Deposition Author(s): Symersky, J., Narayana, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.249 (Depositor), 0.255 (DCC) 
• R-Value Work: 
  0.200 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Literature

Structure of the collagen-binding domain from a Staphylococcus aureus adhesin.

Symersky, J., Patti, J.M., Carson, M., House-Pompeo, K., Teale, M., Moore, D., Jin, L., Schneider, A., DeLucas, L.J., Hook, M., Narayana, S.V.

(1997) Nat Struct Biol 4: 833-838

• PubMed: 9334749 
• DOI: https://doi.org/10.1038/nsb1097-833
• Primary Citation Related Structures: 
  1AMX


• PubMed Abstract: 
  

  The crystal structure of the recombinant 19,000 M(r) binding domain from the Staphylococcus aureus collagen adhesin has been determined at 2 A resolution. The domain fold is a jelly-roll, composed of two antiparallel beta-sheets and two short alpha-helices. Triple-helical collagen model probes were used in a systematic docking search to identify the collagen-binding site. A groove on beta-sheet I exhibited the best surface complementarity to the collagen probes. This site partially overlaps with the peptide sequence previously shown to be critical for collagen binding. Recombinant proteins containing single amino acid mutations designed to disrupt the surface of the putative binding site exhibited significantly lower affinities for collagen. Here we present a structural perspective for the mode of collagen binding by a bacterial surface protein.

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Organizational Affiliation: 
• Center for Macromolecular Crystallography, University of Alabama at Birmingham 35294, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 20.31 kDa 
• Atom Count: 1,332 
• Modeled Residue Count: 150 
• Deposited Residue Count: 180 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COLLAGEN ADHESIN	A	180	Staphylococcus aureus	Mutation(s): 0  Gene Names: CNA
UniProt
Find proteins for Q53654 (Staphylococcus aureus) Explore Q53654  Go to UniProtKB:  Q53654

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.249 (Depositor), 0.255 (DCC) 
• R-Value Work:  0.200 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74	α = 90
b = 74	β = 90
c = 56.7	γ = 120

Software Package:

Software Name	Purpose
PHASES	phasing
X-PLOR	model building
XTALVIEW	refinement
X-PLOR	refinement
X-GEN	data reduction
X-GEN	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-06-24 
Deposition Author(s): Symersky, J., Narayana, S.

Revision History  

• Version 1.0: 1998-06-24
  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: 2024-02-07
  Changes: Data collection, Database references