4XHO | pdb_00004xho

Bacillus thuringiensis ParM with ATP

PDB DOI: https://doi.org/10.2210/pdb4XHO/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Bacillus thuringiensis serovar kurstaki str. YBT-1520
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2015-01-06 Released: 2016-03-09
Deposition Author(s): Jiang, S.M., Robinson, R.C.
Funding Organization(s): Agency for Science, Technology and Research (A*STAR)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free:
0.271 (Depositor), 0.214 (DCC)
R-Value Work:
0.203 (Depositor), 0.215 (DCC)
R-Value Observed:
0.210 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4XHO

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

A novel plasmid-segregating actin-like protein from Bacillus thuringiensis forms dynamically unstable tubules

Jiang, S.M., Narita, A., Popp, D., Ghoshdastider, U., Lee, L.J., Srinivasan, R., Balasubramanian, M.K., Oda, T., Koh, F.J., Larsson, M., Robinson, R.C.

To be published.

Macromolecule Content

Total Structure Weight: 48.01 kDa
Atom Count: 3,061
Modeled Residue Count: 369
Deposited Residue Count: 423
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein	A	423	Bacillus thuringiensis serovar kurstaki str. YBT-1520	Mutation(s): 2 Gene Names: YBT1520_33546

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP Query on ATP Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-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: 2.65 Å
R-Value Free: 0.271 (Depositor), 0.214 (DCC)
R-Value Work: 0.203 (Depositor), 0.215 (DCC)
R-Value Observed: 0.210 (Depositor)

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.83	α = 90
b = 73.156	β = 90
c = 113.726	γ = 90

Software Package:

Software Name	Purpose
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

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Ligand Structure Quality Assessment

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2016-03-09

Deposition Author(s):

Funding Organization	Location	Grant Number
Agency for Science, Technology and Research (A*STAR)	Singapore	12302FG012

Revision History (Full details and data files)

Version 1.0: 2016-03-09
Type: Initial release
Version 1.1: 2024-02-28
Changes: Data collection, Database references, Derived calculations

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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.