8WMP | pdb_00008wmp

Crystal Structure of Mutant HisB from Mycobacterium tuberculosis

PDB DOI: https://doi.org/10.2210/pdb8WMP/pdb

Classification: LYASE
Organism(s): Mycobacterium tuberculosis
Expression System: Mycolicibacterium smegmatis
Mutation(s): Yes

Deposited: 2023-10-04 Released: 2024-10-09
Deposition Author(s): Tiwari, S., Mohini, M., Ahmad, M., Pal, R.K., Biswal, B.K.
Funding Organization(s): Department of Biotechnology (DBT, India)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free:
0.169 (Depositor), 0.143 (DCC)
R-Value Work:
0.149 (Depositor)
R-Value Observed:
0.150 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 8WMP

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

Literature

Crystal Structure of Mutant HisB from Mycobacterium tuberculosis

Tiwari, S., Mohini, M., Ahmad, M., Kumar, D., Pal, R.K., Biswal, B.K.

To be published.

Macromolecule Content

Total Structure Weight: 24.05 kDa
Atom Count: 1,698
Modeled Residue Count: 191
Deposited Residue Count: 217
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Imidazoleglycerol-phosphate dehydratase	A	217	Mycobacterium tuberculosis	Mutation(s): 2 Gene Names: hisB EC: 4.2.1.19
UniProt
Find proteins for P9WML9 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WML9 Go to UniProtKB: P9WML9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P9WML9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain E [auth A]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain F [auth A] MOL2 format, chain F [auth A] mmCIF format, chain F [auth A]	F [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain F [auth A]
MN (Subject of Investigation/LOI) Query on MN Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.169 (Depositor), 0.143 (DCC)
R-Value Work: 0.149 (Depositor)
R-Value Observed: 0.150 (Depositor)

Space Group: P 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.537	α = 90
b = 112.537	β = 90
c = 112.537	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-10-09

Deposition Author(s):

Funding Organization	Location	Grant Number
Department of Biotechnology (DBT, India)	India	--

Revision History (Full details and data files)

Version 1.0: 2024-10-09
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.