1ZVW

The Crystal Structure of TrpD (Rv2192c) from Mycobacterium tuberculosis in Complex with PRPP and Magnesium

Structural Biology Knowledgebase: 1ZVW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.194

Literature

Macromolecules
Sequence Display for 1ZVW

Classification: TRANSFERASE

Total Structure Weight: 79008.63

Macromolecule Entities
Molecule Chains Length Organism Details
Anthranilate phosphoribosyltransferase A, B 378 Mycobacterium tuberculosis EC#: 2.4.2.18 IUBMB
Mutation: M1M, M49M, M53M, M69M, M71M, M86M, M121M, M230M
Gene Name(s): trpD Rv2192c MTCY190.03c
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A ALPHA-PHOSPHORIBOSYLPYROPHOSPHORIC ACID
C5 H13 O14 P3
PQGCEDQWHSBAJP-TXICZTDVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BAM
Query on BAM

A BENZAMIDINE
C7 H9 N2
PXXJHWLDUBFPOL-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.194
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 80.42 α = 90.00
b = 82.08 β = 90.00
c = 118.87 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-06-02
  • Released Date: 2006-01-17
  • Deposition author(s): Lee, C.E., Lott, J.S., Baker, E.N., Arcus, V.L., Javid-Majd, F., Goodfellow, C., Hung, L.-W., TB Structural Genomics Consortium (TBSGC)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4