7X3H | pdb_00007x3h

The structure of Clostridium botulinum ParM in the apo conformation

PDB DOI: https://doi.org/10.2210/pdb7X3H/pdb

Classification: STRUCTURAL PROTEIN
Organism(s): Clostridium botulinum
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-03-01 Released: 2023-03-08
Deposition Author(s): Robinson, R.C., Ali, S., Narita, A.
Funding Organization(s): Japan Society for the Promotion of Science (JSPS), Japan Science and Technology

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free:
0.224 (Depositor), 0.220 (DCC)
R-Value Work:
0.192 (Depositor), 0.190 (DCC)

wwPDB Validation 3D Report Full Report

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

Literature

Structure of tubulin H393D mutant from Odinarchaeota

Robinson, R.C., Ali, S., Narita, A.

To be published.

Macromolecule Content

Total Structure Weight: 32.89 kDa
Atom Count: 2,563
Modeled Residue Count: 276
Deposited Residue Count: 290
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CBg-ParM triple mutant R204D, K230D and N234D	A	290	Clostridium botulinum	Mutation(s): 0
UniProt
Find proteins for A0A9Y2YAC3 (Clostridium botulinum) Explore A0A9Y2YAC3 Go to UniProtKB: A0A9Y2YAC3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A9Y2YAC3
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.224 (Depositor), 0.220 (DCC)
R-Value Work: 0.192 (Depositor), 0.190 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.635	α = 90
b = 51.103	β = 115.28
c = 64.917	γ = 90

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-03-08

Deposition Author(s):

Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	18H02410
Japan Society for the Promotion of Science (JSPS)	Japan	21H02440
Japan Science and Technology	Japan	JPMJCR19S5

Revision History (Full details and data files)

Version 1.0: 2023-03-08
Type: Initial release
Version 1.1: 2024-05-29
Changes: Data collection

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.