2ZBT

Crystal structure of pyridoxine biosynthesis protein from Thermus thermophilus HB8

Structural Biology Knowledgebase: 2ZBT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.194

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2ZBT

Classification: LYASE

Total Structure Weight: 130251.77

Macromolecule Entities
Molecule Chains Length Organism Details
Pyridoxal biosynthesis lyase pdxS A, B, C, D 297 Thermus thermophilus EC#: 4 IUBMB
Gene Name(s): pdxS TTHA0704

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MPD
Query on MPD

A, B, C, D (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.210
  • R-Value Work: 0.194
  • Space Group: H 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 180.97 α = 90.00
b = 180.97 β = 90.00
c = 100.75 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-10-29
  • Released Date: 2007-12-18
  • Deposition author(s): Manzoku, M., Ebihara, A., Fujimoto, Y., Yokoyama, S., Kuramitsu, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4