1D8T Hydrolase Antibiotic date Oct 25, 1999
title Crystal Structure Of Elongation Factor, Tu (Ef-Tu-Mggdp) Com With Ge2270a, A Thiazolyl Peptide Antibiotic
authors S.E.Heffron, F.Jurnak
compound source
Molecule: Elongation Factor Tu
Chain: A, B
 Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Thiocillin Ge2270
Chain: C, D
Synonym: Ge2270a
Organism_scientific: Planobispora Rosea
Organism_taxid: 35762
symmetry Space Group: C 1 2 1
R_factor 0.200 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
133.470 45.170 144.000 90.00 94.64 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand ACT, BB6, BB7, BB8, BB9, GDP, MEN, MG, MH6, NH2 enzyme
related structures by homologous chain: 1DG1, 1EFC
Gene
Ontology
ChainFunctionProcessComponent
A, B


D, C


Primary referenceStructure of an EF-Tu complex with a thiazolyl peptide antibiotic determined at 2.35 A resolution: atomic basis for GE2270A inhibition of EF-Tu., Heffron SE, Jurnak F, Biochemistry 2000 Jan 11;39(1):37-45. PMID:10625477
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (147 Kb) [Save to disk]
  • Biological Unit Coordinates (1d8t.pdb1.gz) 74 Kb
  • Biological Unit Coordinates (1d8t.pdb2.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 1D8T
  • CSU: Contacts of Structural Units for 1D8T
  • Likely Quarternary Molecular Structure file(s) for 1D8T
  • Retrieve 1D8T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D8T from S2C, [Save to disk]
    • View 1D8T in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 1D8T
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1D8T, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d8ta1, region A:205-296 [Jmol] [rasmolscript] [script source]
        - Domain d1d8ta2, region A:297-393 [Jmol] [rasmolscript] [script source]
        - Domain d1d8ta3, region A:3-204 [Jmol] [rasmolscript] [script source]
        - Domain d1d8tb1, region B:205-296 [Jmol] [rasmolscript] [script source]
        - Domain d1d8tb2, region B:297-393 [Jmol] [rasmolscript] [script source]
        - Domain d1d8tb3, region B:9-204 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1d8t] [1d8t_A] [1d8t_C] [1d8t_D] [1d8t_B]
  • SWISS-PROT database: [P0CE47]
  • Domain organization of [EFTU1_ECOLI] by SWISSPFAM
    • Other resources with information on 1D8T
  • Community annotation for 1D8T at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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