3EOO | pdb_00003eoo

2.9A crystal structure of methyl-isocitrate lyase from Burkholderia pseudomallei

PDB DOI: https://doi.org/10.2210/pdb3EOO/pdb

Classification: LYASE
Organism(s): Burkholderia pseudomallei 1655
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-09-28 Released: 2008-10-21
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.299 (Depositor), 0.300 (DCC)
R-Value Work:
0.237 (Depositor), 0.240 (DCC)
R-Value Observed:
0.240 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structures of isocitrate lyase from Brucella melitensis

SSGCID

To be published.

Macromolecule Content

Total Structure Weight: 512.15 kDa
Atom Count: 34,623
Modeled Residue Count: 4,596
Deposited Residue Count: 4,768
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methylisocitrate lyase	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P	298	Burkholderia pseudomallei 1655	Mutation(s): 0 Gene Names: BURPS1655_C0444, BURPS1710B_2458, BURPS1710b_3237, MSRB, prpB EC: 4.1.3.30
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.299 (Depositor), 0.300 (DCC)
R-Value Work: 0.237 (Depositor), 0.240 (DCC)
R-Value Observed: 0.240 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 163.807	α = 90
b = 172.404	β = 90
c = 179.277	γ = 90

Software Package:

Software Name	Purpose
d*TREK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2008-10-21

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History (Full details and data files)

Version 1.0: 2008-10-21
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-11-06
Changes: Data collection, Database references, Refinement description, Structure summary

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.