5AF3

X-RAY CRYSTAL STRUCTURE OF RV2018 FROM MYCOBACTERIUM TUBERCULOSIS

PDB DOI: https://doi.org/10.2210/pdb5AF3/pdb

Classification: DNA BINDING
Organism(s): Mycobacterium tuberculosis H37Rv
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-01-18 Released: 2016-01-27
Deposition Author(s): Holton, S.J., Wilmanns, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.78 Å
R-Value Free: 0.254
R-Value Work: 0.210
R-Value Observed: 0.213

wwPDB Validation 3D Report Full Report

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

Literature

Crystal Structure and DNA Binding Ability of Myco Tuberculosis Vapbc49 Anti-Toxin Protein Bacterium

Holton, S.J., Pogenberg, V., Iborra, V., Wilmanns, M.

To be published.

Macromolecule Content

Total Structure Weight: 52.47 kDa
Atom Count: 3,599
Modelled Residue Count: 428
Deposited Residue Count: 482
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
VAPBC49	A, B	241	Mycobacterium tuberculosis H37Rv	Mutation(s): 0
UniProt
Find proteins for O53464 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore O53464 Go to UniProtKB: O53464
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O53464
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A]	C [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.78 Å
R-Value Free: 0.254
R-Value Work: 0.210
R-Value Observed: 0.213
Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.935	α = 90
b = 81.935	β = 90
c = 75.361	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2016-01-27

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-01-27
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.