3IMI | pdb_00003imi

2.01 Angstrom resolution crystal structure of a HIT family protein from Bacillus anthracis str. 'Ames Ancestor'

• PDB DOI: https://doi.org/10.2210/pdb3IMI/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Bacillus anthracis str. 'Ames Ancestor
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-08-10 Released: 2009-08-18 
• Deposition Author(s): Halavaty, A.S., Wawrzak, Z., Skarina, T., Onopriyenko, O., Gordon, E., Papazisi, L., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.01 Å
• R-Value Free: 
  0.198 (Depositor), 0.217 (DCC) 
• R-Value Work: 
  0.161 (Depositor), 0.182 (DCC) 
• R-Value Observed: 
  0.163 (Depositor) 

Literature

2.01 Angstrom resolution crystal structure of a HIT family protein from Bacillus anthracis str. 'Ames Ancestor'

Halavaty, A.S., Wawrzak, Z., Skarina, T., Onopriyenko, O., Gordon, E., Papazisi, L., Savchenko, A., 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: 66.63 kDa 
• Atom Count: 4,969 
• Modeled Residue Count: 569 
• Deposited Residue Count: 588 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HIT family protein	A, B, C, D	147	Bacillus anthracis str. 'Ames Ancestor	Mutation(s): 0  Gene Names: BAS0978, BA_1047, GBAA1047, GBAA_1047, YP_017672
UniProt
Find proteins for A0A6L7HN72 (Bacillus anthracis) Explore A0A6L7HN72  Go to UniProtKB:  A0A6L7HN72

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	F [auth A], G [auth A], I [auth B], K [auth C], M [auth D]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ZN	E [auth A], H [auth B], J [auth C], L [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.01 Å
• R-Value Free:  0.198 (Depositor), 0.217 (DCC) 
• R-Value Work:  0.161 (Depositor), 0.182 (DCC) 
• R-Value Observed: 0.163 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m33imi

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 156.276	α = 90
b = 46.434	β = 100.61
c = 84.291	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
CRANK	phasing
SHELXCD	phasing
SHELXE	model building
bp3	model building
SOLOMON	phasing
ARP/wARP	model building
BUCCANEER	model building
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
bp3	phasing
BUCCANEER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-08-18 
Deposition Author(s): Halavaty, A.S., Wawrzak, Z., Skarina, T., Onopriyenko, O., Gordon, E., Papazisi, L., Savchenko, A., Anderson, W.F., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2009-08-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary