3G1J | pdb_00003g1j

Structure from the mobile metagenome of Vibrio cholerae. Integron cassette protein VCH_CASS4.

• PDB DOI: https://doi.org/10.2210/pdb3G1J/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Vibrio cholerae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-01-30 Released: 2009-02-24 
• Deposition Author(s): Deshpande, C.N., Sureshan, V., Harrop, S.J., Boucher, Y., Xu, X., Cui, H., Edwards, A., Savchenko, A., Joachimiak, A., Tan, K., Stokes, H.W., Curmi, P.M.G., Mabbutt, B.C., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.219 (Depositor), 0.216 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Literature

Structure from the mobile metagenome of Vibrio cholerae. Integron cassette protein VCH_CASS4.

Deshpande, C.N., Sureshan, V., Harrop, S.J., Boucher, Y., Xu, X., Cui, H., Edwards, A., Savchenko, A., Joachimiak, A., Tan, K., Stokes, H.W., Curmi, P.M.G., Mabbutt, B.C.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 22.29 kDa 
• Atom Count: 1,696 
• Modeled Residue Count: 177 
• Deposited Residue Count: 186 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Integron cassette protein	A, B	93	Vibrio cholerae	Mutation(s): 0
UniProt
Find proteins for D0VX16 (Vibrio cholerae) Explore D0VX16  Go to UniProtKB:  D0VX16

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.219 (Depositor), 0.216 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.043	α = 90
b = 121.043	β = 90
c = 27.014	γ = 120

Software Package:

Software Name	Purpose
HKL-3000	data collection
PHENIX	model building
PHENIX	refinement
DENZO	data reduction
SCALEPACK	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-02-24 
Deposition Author(s): Deshpande, C.N., Sureshan, V., Harrop, S.J., Boucher, Y., Xu, X., Cui, H., Edwards, A., Savchenko, A., Joachimiak, A., Tan, K., Stokes, H.W., Curmi, P.M.G., Mabbutt, B.C., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2009-02-24
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-09
  Changes: Data collection, Database references, Derived calculations, Structure summary