1SGM

Crystal Structure of Hypothetical Protein YXAF

PDB DOI: https://doi.org/10.2210/pdb1SGM/pdb

Classification: TRANSCRIPTION
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2004-02-24 Released: 2004-08-17
Deposition Author(s): Seetharaman, J., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.294
R-Value Work: 0.233
R-Value Observed: 0.249

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Crystal structure of a putative HTH-type transcriptional regulator yxaF from Bacillus subtilis.

Seetharaman, J., Kumaran, D., Bonanno, J.B., Burley, S.K., Swaminathan, S.

(2006) Proteins 63: 1087-1091

PubMed: 16475182 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1002/prot.20924
Primary Citation of Related Structures:
1SGM

Organizational Affiliation

Biology Department, Brookhaven National Laboratory, Upton, New York 11973, USA.

Macromolecule Content

Total Structure Weight: 42.09 kDa
Atom Count: 3,076
Modelled Residue Count: 368
Deposited Residue Count: 382
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative HTH-type transcriptional regulator yxaF	A, B	191	Bacillus subtilis	Mutation(s): 0 Gene Names: YXAF, S14F, BSU39990
UniProt
Find proteins for P42105 (Bacillus subtilis (strain 168)) Explore P42105 Go to UniProtKB: P42105
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P42105
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.294
R-Value Work: 0.233
R-Value Observed: 0.249
Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.356	α = 90
b = 38.956	β = 101.26
c = 95.705	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
CBASS	data collection
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2004-08-17

Deposition Author(s):

Seetharaman, J.

Swaminathan, S.

New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History (Full details and data files)

Version 1.0: 2004-08-17
Type: Initial release
Version 1.1: 2008-04-29
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2017-10-11
Changes: Data collection
Version 1.4: 2021-02-03
Changes: Database references, Structure summary
Version 1.5: 2024-02-14
Changes: Data collection, Database references

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.