6SXH | pdb_00006sxh

Crystal structure of the accessory translocation ATPase, SecA2, from Clostridium difficile

• PDB DOI: https://doi.org/10.2210/pdb6SXH/pdb

• Classification: PROTEIN TRANSPORT
• Organism(s): Clostridioides difficile 630
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-09-26 Released: 2020-10-07 
• Deposition Author(s): Lindic, N., Loboda, J., Usenik, A., Turk, D.
• Funding Organization(s): Slovenian Research Agency

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.274 (Depositor), 0.248 (DCC) 
• R-Value Work: 
  0.243 (Depositor), 0.241 (DCC) 
• R-Value Observed: 
  0.243 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the accessory translocation ATPase, SecA2, from Clostridium difficile

Lindic, N., Loboda, J., Usenik, A., Turk, D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 89.66 kDa 
• Atom Count: 6,489 
• Modeled Residue Count: 769 
• Deposited Residue Count: 786 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein translocase subunit SecA 2	A	786	Clostridioides difficile 630	Mutation(s): 0  Gene Names: secA2, CD630_27920 EC: 7.4.2.8
UniProt
Find proteins for Q183M9 (Clostridioides difficile (strain 630)) Explore Q183M9  Go to UniProtKB:  Q183M9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.274 (Depositor), 0.248 (DCC) 
• R-Value Work:  0.243 (Depositor), 0.241 (DCC) 
• R-Value Observed: 0.243 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.99	α = 90
b = 96.85	β = 90
c = 114.74	γ = 90

Software Package:

Software Name	Purpose
MAIN	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-10-07 
Deposition Author(s): Lindic, N., Loboda, J., Usenik, A., Turk, D.

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Funding Organization	Location	Grant Number
Slovenian Research Agency	Slovenia	P1-0048

Revision History  

• Version 1.0: 2020-10-07
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Advisory, Data collection, Database references, Refinement description