8BJP

The N288D mutant cytoplasmic PAS domain of Geobacillus thermodenitrificans histidine kinase CitA

PDB DOI: https://doi.org/10.2210/pdb8BJP/pdb

Classification: SIGNALING PROTEIN
Organism(s): Geobacillus thermodenitrificans
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2022-11-04 Released: 2023-11-15
Deposition Author(s): Becker, S.
Funding Organization(s): Max Planck Society

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.233
R-Value Work: 0.195

wwPDB Validation 3D Report Full Report

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

Literature

The N288D mutant cytoplasmic PAS domain of Geobacillus thermodenitrificans histidine kinase CitA

Becker, S.

To be published.

Macromolecule Content

Total Structure Weight: 24.92 kDa
Atom Count: 1,647
Modelled Residue Count: 219
Deposited Residue Count: 224
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
cytoplasmic PAS domain of CitA from Geobacillus thermodenitrificans	A [auth AAA], B [auth BBB]	112	Geobacillus thermodenitrificans	Mutation(s): 1
UniProt
Find proteins for A0A1W6VSR4 (Geobacillus thermodenitrificans) Explore A0A1W6VSR4 Go to UniProtKB: A0A1W6VSR4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A1W6VSR4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain C [auth AAA] MOL2 format, chain C [auth AAA]	C [auth AAA]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain C [auth AAA] Interactions & Density Focus chain C [auth AAA]

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.233
R-Value Work: 0.195
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.166	α = 90
b = 49.295	β = 90
c = 92.199	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SADABS	data scaling
SHELXDE	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-11-15

Deposition Author(s):

Funding Organization	Location	Grant Number
Max Planck Society	Germany	--

Revision History (Full details and data files)

Version 1.0: 2023-11-15
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 R01GM133198.