3BP1

Crystal structure of putative 7-cyano-7-deazaguanine reductase QueF from Vibrio cholerae O1 biovar eltor

Structural Biology Knowledgebase: 3BP1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.183
  • R-Value Work: 0.143

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3BP1

Classification: OXIDOREDUCTASE

Total Structure Weight: 134837.30

Macromolecule Entities
Molecule Chains Length Organism Details
NADPH-dependent 7-cyano-7-deazaguanine reductase A, B, C, D 290 Vibrio cholerae EC#: 1.7.1.13 IUBMB
Gene Name(s): queF VC_0902
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
POP
Query on POP

B, C PYROPHOSPHATE 2-
H2 O7 P2
XPPKVPWEQAFLFU-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GUN
Query on GUN

A, B, C, D GUANINE
C5 H5 N5 O
UYTPUPDQBNUYGX-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B, C, D PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B, C, D L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.53 Å
  • R-Value Free: 0.183
  • R-Value Work: 0.143
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.52 α = 119.25
b = 71.58 β = 110.18
c = 71.51 γ = 99.58

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-12-18
  • Released Date: 2008-01-08
  • Deposition author(s): Kim, Y., Zhou, M., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

  • 2012-10-17
    Type: Citation | Details: Citation update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4