5TK2 | pdb_00005tk2

Crystal Structure of Uncharacterized Cupredoxin-like domain protein from Bacillus anthracis

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 
    0.166 (Depositor), 0.174 (DCC) 
  • R-Value Work: 
    0.135 (Depositor) 
  • R-Value Observed: 
    0.136 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.7 of the entry. See complete history. 

Literature

Crystal Structure of Uncharacterized Cupredoxin-like domain protein from Bacillus anthracis

Kim, Y., Maltseva, N., Shatsman, S., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

To be published.

Macromolecule Content 

  • Total Structure Weight: 45.31 kDa 
  • Atom Count: 3,278 
  • Modeled Residue Count: 351 
  • Deposited Residue Count: 400 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Cytochrome B
A, B, C, D
100Bacillus anthracis str. AmesMutation(s): 0 
UniProt
Find proteins for A0A6L7H6L8 (Bacillus anthracis)
Explore A0A6L7H6L8 
Go to UniProtKB:  A0A6L7H6L8
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A6L7H6L8
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MLT

Query on MLT


Download:Ideal Coordinates CCD File
F [auth A],
I [auth B],
M [auth D]		D-MALATE
C4 H6 O5
BJEPYKJPYRNKOW-UWTATZPHSA-N
CD

Query on CD


Download:Ideal Coordinates CCD File
E [auth A],
G [auth B],
J [auth C],
K [auth D]		CADMIUM ION
Cd
WLZRMCYVCSSEQC-UHFFFAOYSA-N
EDO

Query on EDO


Download:Ideal Coordinates CCD File
H [auth B]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
FMT

Query on FMT


Download:Ideal Coordinates CCD File
L [auth D]FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free:  0.166 (Depositor), 0.174 (DCC) 
  • R-Value Work:  0.135 (Depositor) 
  • R-Value Observed: 0.136 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.226α = 90
b = 58.023β = 90
c = 108.796γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
HKL-3000phasing

Structure Validation

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View more in-depth experimental data

Entry History 

& Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2016-11-16
    Type: Initial release
  • Version 1.1: 2016-12-14
    Changes: Database references, Structure summary
  • Version 1.2: 2017-02-08
    Changes: Database references, Structure summary
  • Version 1.3: 2017-09-27
    Changes: Author supporting evidence
  • Version 1.4: 2019-12-04
    Changes: Author supporting evidence
  • Version 1.5: 2023-10-04
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.6: 2023-11-15
    Changes: Data collection
  • Version 1.7: 2024-11-06
    Changes: Structure summary