9BCE

Shewanella oneidensis LysR family regulator SO0839 regulatory domain

PDB DOI: https://doi.org/10.2210/pdb9BCE/pdb

Classification: TRANSCRIPTION
Organism(s): Shewanella oneidensis
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-04-08 Released: 2024-11-20
Deposition Author(s): Han, S.R., Liang, H.H., Lin, Z.H., Fan, Y.L., Ye, K., Gao, H.G., Tao, Y.J., Jin, M.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free: 0.196
R-Value Work: 0.170
R-Value Observed: 0.171

wwPDB Validation 3D Report Full Report

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

Literature

A bacterial transcription activator dedicated to the expression of the enzyme catalyzing the first committed step in fatty acid biosynthesis

Xu, Y., Lin, Z., Hou, J., Ye, K., Han, S., Liang, Y., Liang, H., Wu, S., Tao, Y.J., Gao, H.

(2024) Nucleic Acids Res

DOI: https://doi.org/10.1093/nar/gkae960

Macromolecule Content

Total Structure Weight: 47.91 kDa
Atom Count: 3,907
Modelled Residue Count: 419
Deposited Residue Count: 428
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator LysR family	A, B	214	Shewanella oneidensis	Mutation(s): 0 Gene Names: SO_0839
UniProt
Find proteins for Q8EIK0 (Shewanella oneidensis (strain ATCC 700550 / JCM 31522 / CIP 106686 / LMG 19005 / NCIMB 14063 / MR-1)) Explore Q8EIK0 Go to UniProtKB: Q8EIK0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8EIK0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.40 Å
R-Value Free: 0.196
R-Value Work: 0.170
R-Value Observed: 0.171
Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.04	α = 90
b = 42.962	β = 104.15
c = 112.092	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2024-11-20

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	508104-N12002ZJ

Revision History (Full details and data files)

Version 1.0: 2024-11-20
Type: Initial release

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.