4GCX

tRNA-guanine transglycosylase Y106F, C158V, V233G mutant in complex with preQ1

Structural Biology Knowledgebase: 4GCX SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.42 Å
  • R-Value Free: 0.161
  • R-Value Work: 0.131

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4GCX

Classification: TRANSFERASE

Total Structure Weight: 43476.90

Macromolecule Entities
Molecule Chains Length Organism Details
Queuine tRNA-ribosyltransferase A 386 Zymomonas mobilis EC#: 2.4.2.29 IUBMB
Mutation: Y106F, C158V, V233G, T312K
Gene Name(s): tgt ZMO0363

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

A 7-DEAZA-7-AMINOMETHYL-GUANINE
C7 H9 N5 O
MEYMBLGOKYDGLZ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.42 Å
  • R-Value Free: 0.161
  • R-Value Work: 0.131
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 91.19 α = 90.00
b = 65.05 β = 96.14
c = 70.62 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-31
  • Released Date: 2012-08-29
  • Deposition author(s): Schmidt, I., Tidten-Luksch, N., Heine, A., Reuter, K., Klebe, G.

Revision History

  • 2013-07-17
    Type: Citation | Details: Citation update