4NV4 | pdb_00004nv4

1.8 Angstrom Crystal Structure of Signal Peptidase I from Bacillus anthracis.

• PDB DOI: https://doi.org/10.2210/pdb4NV4/pdb

• Classification: HYDROLASE
• Organism(s): Bacillus anthracis str. Ames
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2013-12-04 Released: 2013-12-18 
• Deposition Author(s): Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Shatsman, S., Kwon, K., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.199 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.173 (Depositor) 
• R-Value Observed: 
  0.174 (Depositor) 

Starting Model: experimental

Literature

1.8 Angstrom Crystal Structure of Signal Peptidase I from Bacillus anthracis.

Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Shatsman, S., Kwon, K., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 41.43 kDa 
• Atom Count: 2,258 
• Modeled Residue Count: 227 
• Deposited Residue Count: 352 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Signal peptidase I	A, B	176	Bacillus anthracis str. Ames	Mutation(s): 0  Gene Names: BAS1059, BA_1140, GBAA_1140, sipT EC: 3.4.21.89
UniProt
Find proteins for A0A6L7HM74 (Bacillus anthracis) Explore A0A6L7HM74  Go to UniProtKB:  A0A6L7HM74

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	C [auth A], F [auth B], G [auth B]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
PEG	D [auth A], H [auth B]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
EDO	E [auth A], I [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.199 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.173 (Depositor) 
• R-Value Observed: 0.174 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m34nv4

Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.225	α = 90
b = 80.225	β = 90
c = 174.25	γ = 120

Software Package:

Software Name	Purpose
Blu-Ice	data collection
PHASER	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-12-18 
Deposition Author(s): Minasov, G., Shuvalova, L., Dubrovska, I., Winsor, J., Shatsman, S., Kwon, K., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2013-12-18
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description