1D8T

CRYSTAL STRUCTURE OF ELONGATION FACTOR, TU (EF-TU-MGGDP) COMPLEXED WITH GE2270A, A THIAZOLYL PEPTIDE ANTIBIOTIC

Structural Biology Knowledgebase: 1D8T SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.200

Literature

Macromolecules
Sequence Display for 1D8T

Classification: HYDROLASE / ANTIBIOTIC

Total Structure Weight: 92095.12

Macromolecule Entities
Molecule Chains Length Organism Details
ELONGATION FACTOR TU A, B 393 Escherichia coli Mutation: S393G
Gene Name(s): tufA b3339 JW3301
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
THIOCILLIN GE2270 C, D 15 Planobispora rosea Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000225
Query on PRD_000225
C, D GE2270a Thiopeptide /
Antibiotic
Ligand Explorer

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.200
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 133.47 α = 90.00
b = 45.17 β = 94.64
c = 144.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-10-25
  • Released Date: 2000-10-25
  • Deposition author(s): Heffron, S.E., Jurnak, F.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2012-04-18
    Type: Polymer description | Details: --
  • 2011-07-27
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-27
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-27
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-27
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-27
    Type: Linkage | Details: Linkage
  • 2011-07-27
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-27
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4