4DNR | pdb_00004dnr

Crystal structure of the CusBA heavy-metal efflux complex from Escherichia coli, E716F mutant

• PDB DOI: https://doi.org/10.2210/pdb4DNR/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21, Escherichia coli
• Mutation(s): Yes 
• Membrane Protein: Yes  PDBTMMemProtMD


• Deposited: 2012-02-08 Released: 2013-02-13 
• Deposition Author(s): Su, C.-C., Long, F., Yu, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.68 Å
• R-Value Free: 
  0.272 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.244 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.246 (Depositor) 

Literature

Crystal structures of the pre-extrusion and extrusion states of the CusBA adaptor-transporter complex

Su, C.-C., Long, F., Yu, E.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 9-mer - A6B3 

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

Macromolecule Content 

• Total Structure Weight: 206.22 kDa 
• Atom Count: 12,887 
• Modeled Residue Count: 1,677 
• Deposited Residue Count: 1,880 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cation efflux system protein CusB	A [auth B], B [auth C]	413	Escherichia coli K-12	Mutation(s): 0  Gene Names: cusB, ylcD, b0574, JW0563 Membrane Entity: Yes
UniProt
Find proteins for P77239 (Escherichia coli (strain K12)) Explore P77239  Go to UniProtKB:  P77239

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cation efflux system protein CusA	C [auth A]	1,054	Escherichia coli K-12	Mutation(s): 1  Gene Names: cusA, ybdE, b0575, JW0564 Membrane Entity: Yes
UniProt
Find proteins for P38054 (Escherichia coli (strain K12)) Explore P38054  Go to UniProtKB:  P38054

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CU	D [auth A]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.68 Å
• R-Value Free:  0.272 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.244 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.246 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 159.594	α = 90
b = 159.594	β = 90
c = 689.652	γ = 120

Software Package:

Software Name	Purpose
SCALA	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
DENZO	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-02-13 
Deposition Author(s): Su, C.-C., Long, F., Yu, E.

Revision History  

• Version 1.0: 2013-02-13
  Type: Initial release
  
• Version 1.1: 2024-02-28
  Changes: Data collection, Database references, Derived calculations