1DBU

Crystal structure of cysteinyl-tRNA(Pro) deacylase protein from H. influenzae (HI1434)

Structural Biology Knowledgebase: 1DBU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.262
  • R-Value Work: 0.193

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1DBU

Classification: HYDROLASE

Total Structure Weight: 17474.39

Macromolecule Entities
Molecule Chains Length Organism Details
cysteinyl-tRNA(Pro) deacylase A 158 Haemophilus influenzae EC#: 4.2 IUBMB
Mutation: M69M, M86M, K117N
Gene Name(s): ybaK HI_1434

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

A MERCURY (II) ION
Hg
BQPIGGFYSBELGY-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 L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.262
  • R-Value Work: 0.193
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 102.57 α = 90.00
b = 42.49 β = 104.17
c = 32.54 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-11-03
  • Released Date: 2000-06-14
  • Deposition author(s): Zhang, H., Huang, K., Li, Z., Herzberg, O., Structure 2 Function Project (S2F)

Revision History

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