3TN4

Crystal structure of GkaP mutant G209D from Geobacillus kaustophilus HTA426

PDB DOI: https://doi.org/10.2210/pdb3TN4/pdb

Classification: HYDROLASE
Organism(s): Geobacillus kaustophilus HTA426
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2011-09-01 Released: 2012-09-19
Deposition Author(s): An, J., Zhang, Z., Zhang, Y., Feng, Y., Wu, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.198
R-Value Work: 0.181
R-Value Observed: 0.182

wwPDB Validation 3D Report Full Report

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

Literature

Engineering a thermostable lactonase for enhanced phosphotriesterase activity against organophosphate pesticides

An, J., Zhang, Z., Zhang, Y., Feng, Y., Wu, G.

To be published.

Macromolecule Content

Total Structure Weight: 80.42 kDa
Atom Count: 6,011
Modelled Residue Count: 648
Deposited Residue Count: 720
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphotriesterase	A, B	360	Geobacillus kaustophilus HTA426	Mutation(s): 1 Gene Names: GK1506 EC: 3.5
UniProt
Find proteins for Q5KZU5 (Geobacillus kaustophilus (strain HTA426)) Explore Q5KZU5 Go to UniProtKB: Q5KZU5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q5KZU5
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CO Query on CO Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth B] SDF format, chain F [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth B] MOL2 format, chain F [auth B]	C [auth A], D [auth A], E [auth B], F [auth B]	COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N		Ligand Interaction

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
KCX Query on KCX	A, B	L-PEPTIDE LINKING	C₇ H₁₄ N₂ O₄		LYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.198
R-Value Work: 0.181
R-Value Observed: 0.182
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.302	α = 90
b = 88.378	β = 99.06
c = 89.684	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2012-09-19

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2012-09-19
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.