6WJE

Copper resistance protein copG- Form 2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The bacterial copper resistance protein CopG contains a cysteine-bridged tetranuclear copper cluster.

Hausrath, A.C.Ramirez, N.A.Ly, A.T.McEvoy, M.M.

(2020) J Biol Chem 295: 11364-11376

  • DOI: https://doi.org/10.1074/jbc.RA120.013907
  • Primary Citation of Related Structures:  
    6WIS, 6WJE

  • PubMed Abstract: 

    CopG is an uncharacterized protein ubiquitous in Gram-negative bacteria whose gene frequently occurs in clusters of copper resistance genes and can be recognized by the presence of a conserved CxCC motif. To investigate its contribution to copper resistance, here we undertook a structural and biochemical characterization of the CopG protein from Pseudomonas aeruginosa Results from biochemical analyses of CopG purified under aerobic conditions indicate that it is a green copper-binding protein that displays absorbance maxima near 411, 581, and 721 nm and is monomeric in solution. Determination of the three-dimensional structure by X-ray crystallography revealed that CopG consists of a thioredoxin domain with a C-terminal extension that contributes to metal binding. We noted that adjacent to the CxCC motif is a cluster of four copper ions bridged by cysteine sulfur atoms. Structures of CopG in two oxidation states support the assignment of this protein as an oxidoreductase. On the basis of these structural and spectroscopic findings and also genetic evidence, we propose that CopG has a role in interconverting Cu(I) and Cu(II) to minimize toxic effects and facilitate export by the Cus RND transporter efflux system.


  • Organizational Affiliation

    Institute for Society and Genetics, University of California, Los Angeles, California, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DUF411 domain-containing protein
A, B, E, F
126Pseudomonas aeruginosaMutation(s): 0 
Gene Names: FQ758_25220
UniProt
Find proteins for Q9HV84 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9HV84 
Go to UniProtKB:  Q9HV84
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HV84
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DUF411 domain-containing protein
C, D
126Pseudomonas aeruginosaMutation(s): 0 
Gene Names: FQ758_25220
UniProt
Find proteins for Q9HV84 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9HV84 
Go to UniProtKB:  Q9HV84
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HV84
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
AB [auth E]
BB [auth E]
CB [auth E]
DA [auth C]
DB [auth E]
AB [auth E],
BB [auth E],
CB [auth E],
DA [auth C],
DB [auth E],
EA [auth C],
EB [auth E],
FA [auth C],
GA [auth C],
HA [auth C],
IB [auth F],
J [auth A],
JB [auth F],
K [auth A],
KA [auth C],
KB [auth F],
L [auth A],
LB [auth F],
M [auth A],
N [auth A],
OA [auth D],
P [auth A],
PA [auth D],
Q [auth A],
QA [auth D],
RA [auth D],
TA [auth D],
U [auth B],
UA [auth D],
V [auth B],
W [auth B],
X [auth B],
Y [auth B],
YA [auth E],
ZA [auth E]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
CU (Subject of Investigation/LOI)
Query on CU

Download Ideal Coordinates CCD File 
AA [auth C]
BA [auth C]
CA [auth C]
FB [auth F]
G [auth A]
AA [auth C],
BA [auth C],
CA [auth C],
FB [auth F],
G [auth A],
GB [auth F],
H [auth A],
HB [auth F],
I [auth A],
JA [auth C],
LA [auth D],
MA [auth D],
NA [auth D],
R [auth B],
S [auth B],
T [auth B],
VA [auth E],
WA [auth E],
XA [auth E],
Z [auth C]
COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
ACT
Query on ACT

Download Ideal Coordinates CCD File 
IA [auth C],
O [auth A],
SA [auth D]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
OMT
Query on OMT
C, D
L-PEPTIDE LINKINGC5 H11 N O4 SMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.194 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.7α = 90
b = 87.46β = 90
c = 143.27γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM079192

Revision History  (Full details and data files)

  • Version 1.0: 2020-06-24
    Type: Initial release
  • Version 1.1: 2020-07-08
    Changes: Database references
  • Version 1.2: 2020-08-19
    Changes: Database references, Derived calculations
  • Version 1.3: 2023-10-18
    Changes: Data collection, Database references, Refinement description