Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 57824.15 
• Atom Count: 4027 
• Residue Count: 507 
• Unique protein chains: 1

5YH5

The crystal structure of Staphylococcus aureus CntA in apo form

• DOI: 10.2210/pdb5YH5/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Staphylococcus aureus (strain NCTC 8325)
• Expression System: Escherichia coli


• Deposited: 2017-09-27 Released: 2018-03-28 
• Deposition Author(s): Song, L., Ji, Q.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.9 Å
• R-Value Free: 0.264 
• R-Value Work: 0.190 

Literature

Mechanistic insights into staphylopine-mediated metal acquisition

Song, L., Zhang, Y., Chen, W., Gu, T., Zhang, S.Y., Ji, Q.

(2018) Proc. Natl. Acad. Sci. U.S.A. 115: 3942-3947

• PubMed: 29581261 
• Primary Citation of Related Structures:  
  5YHG, 5YHE, 5YH8

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Nickel ABC transporter substrate-binding protein	A	507	Staphylococcus aureus (strain NCTC 8325)	Mutation(s): 0
Find proteins for Q2FVE7 (Staphylococcus aureus (strain NCTC 8325)) Go to UniProtKB:  Q2FVE7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
EDO	A	1,2-ETHANEDIOL ETHYLENE GLYCOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
PEG	A	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.9 Å
• R-Value Free: 0.264 
• R-Value Work: 0.190 
• Space Group: P 6₁

Unit Cell:

Length (Å)	Angle (°)
a = 149.395	α = 90.00
b = 149.395	β = 90.00
c = 53.635	γ = 120.00

Software Package:

Software Name	Purpose
REFMAC	refinement
PHASER	phasing
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2017-09-27 
• Released Date: 2018-03-28 
• Deposition Author(s): Song, L., Ji, Q.

Revision History 

• Version 1.0: 2018-03-28
  Type: Initial release
• Version 1.1: 2018-04-11
  Type: Data collection, Database references, Derived calculations, Structure summary
• Version 1.2: 2018-04-25
  Type: Data collection, Database references, Derived calculations, Structure summary