5T3D Biosynthetic Protein date Aug 25, 2016
title Crystal Structure Of Holo-Entf A Nonribosomal Peptide Synthe The Thioester-Forming Conformation
authors B.R.Miller, E.J.Drake, J.A.Sundlov, A.M.Gulick
compound source
Molecule: Enterobactin Synthase Component F
Chain: A
Synonym: Enterochelin Synthase F,Serine-Activating Enzyme,S Ligase;
Ec: 2.7.7.-
Engineered: Yes
 Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Entf, B0586, Jw0578
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: P 41 21 2
R_factor 0.185 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.711 127.711 186.940 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand 75C enzyme Transferase E.C.2.7.7 BRENDA
note 5T3D supersedes 4ZXJ
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of two distinct conformations of holo-non-ribosomal peptide synthetases., Drake EJ, Miller BR, Shi C, Tarrasch JT, Sundlov JA, Allen CL, Skiniotis G, Aldrich CC, Gulick AM, Nature. 2016 Jan 14;529(7585):235-8. doi: 10.1038/nature16163. PMID:26762461
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (346 Kb) [Save to disk]
  • Biological Unit Coordinates (5t3d.pdb1.gz) 338 Kb
  • LPC: Ligand-Protein Contacts for 5T3D
  • CSU: Contacts of Structural Units for 5T3D
  • Structure Factors (2282 Kb)
  • Retrieve 5T3D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5T3D from S2C, [Save to disk]
  • Re-refined 5t3d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5T3D 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 5T3D
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5t3d] [5t3d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5T3D
  • Community annotation for 5T3D at PDBWiki (http://pdbwiki.org)

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