Macromolecule Content

Total Structure Weight: 46.95 kDa
Atom Count: 3,468
Modelled Residue Count: 407
Deposited Residue Count: 420
Unique protein chains: 1

4I1U

Apo crystal structure of a dephospho-CoA kinase from Burkholderia vietnamiensis

PDB DOI: https://doi.org/10.2210/pdb4I1U/pdb

Classification: TRANSFERASE
Organism(s): Burkholderia vietnamiensis G4
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-11-21 Released: 2013-01-09
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.234
R-Value Work: 0.201
R-Value Observed: 0.203

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Apo crystal structure of a dephospho-CoA kinase from Burkholderia vietnamiensis

Edwards, T.E., Abendroth, J., Seattle Structural Genomics Center for Infectious Disease (SSGCID)

To be published.

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dephospho-CoA kinase	A, B	210	Burkholderia vietnamiensis G4	Mutation(s): 0 Gene Names: Bcep1808_0550, coaE EC: 2.7.1.24
UniProt
Find proteins for A4JBA9 (Burkholderia vietnamiensis (strain G4 / LMG 22486)) Explore A4JBA9 Go to UniProtKB: A4JBA9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A4JBA9
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain G [auth B] SDF format, chain H [auth B] SDF format, chain I [auth B] SDF format, chain J [auth B] SDF format, chain K [auth B] SDF format, chain L [auth B] SDF format, chain M [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain G [auth B] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B] MOL2 format, chain J [auth B] MOL2 format, chain K [auth B] MOL2 format, chain L [auth B] MOL2 format, chain M [auth B]	C [auth A], D [auth A], E [auth A], G [auth B], H [auth B], C [auth A], D [auth A], E [auth A], G [auth B], H [auth B], I [auth B], J [auth B], K [auth B], L [auth B], M [auth B]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Ligand Interaction
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain N [auth B] MOL2 format, chain N [auth B]	N [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Ligand Interaction
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A]	F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.234
R-Value Work: 0.201
R-Value Observed: 0.203
Space Group: P 3₂ 2 1
Diffraction Data: https://doi.org/10.18430/M34I1U

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.42	α = 90
b = 116.42	β = 90
c = 89.97	γ = 120

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
StructureStudio	data collection
XDS	data reduction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2013-01-09

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History (Full details and data files)

Version 1.0: 2013-01-09
Type: Initial release

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.