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)

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)

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

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.

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

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| 3D Structure

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
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	D0VX16
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on 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

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Entry History

Deposition Data

Released Date: 2009-02-24

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

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