3ERV | pdb_00003erv

Crystal structure of an putative C39-like peptidase from Bacillus anthracis

• PDB DOI: https://doi.org/10.2210/pdb3ERV/pdb

• Classification: structural genomics, unknown function
• Organism(s): Bacillus anthracis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-10-03 Released: 2008-10-14 
• Deposition Author(s): Bonanno, J.B., Rutter, M., Bain, K.T., Iizuka, M., Ozyurt, S., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.272 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

Crystal structure of an putative C39-like peptidase from Bacillus anthracis

Bonanno, J.B., Rutter, M., Bain, K.T., Iizuka, M., Ozyurt, S., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C.

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)

Macromolecule Content 

• Total Structure Weight: 26.93 kDa 
• Atom Count: 1,662 
• Modeled Residue Count: 200 
• Deposited Residue Count: 236 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
putative C39-like peptidase	A	236	Bacillus anthracis	Mutation(s): 0  Gene Names: BA_0574, GBAA0574
UniProt
Find proteins for Q81VC3 (Bacillus anthracis) Explore Q81VC3  Go to UniProtKB:  Q81VC3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	B [auth A], C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.272 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.167	α = 90
b = 117.167	β = 90
c = 36.575	γ = 120

Software Package:

Software Name	Purpose
SCALA	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
MAR345	data collection
MOSFLM	data reduction
SHELXCD	phasing
SHELXE	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-10-14 
Deposition Author(s): Bonanno, J.B., Rutter, M., Bain, K.T., Iizuka, M., Ozyurt, S., Wasserman, S., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2008-10-14
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.5: 2023-12-27
  Changes: Data collection, Database references