4S3F Oxidoreductase date Jan 26, 2015
title Ispg In Complex With Inhibitor 8 (Compound 1077)
authors F.Quitterer, A.Frank, K.Wang, G.Rao, B.O'Dowd, J.Li, F.Guerra, S.Ab Azeim, A.Bacher, J.Eppinger, E.Oldfield, M.Groll
compound source
Molecule: 4-Hydroxy-3-Methylbut-2-En-1-Yl Diphosphate Synth
Chain: A
Synonym: 1-Hydroxy-2-Methyl-2-(E)-Butenyl 4-Diphosphate Syn
Engineered: Yes
Organism_scientific: Thermus Thermophilus Hb8
Organism_taxid: 300852
Strain: Hb8dsm 579
Atcc: 27634
Gene: Ispg, Ttha0305
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet28b
symmetry Space Group: C 1 2 1
R_factor 0.132 R_Free 0.179
length a length b length c angle alpha angle beta angle gamma
111.370 62.340 86.370 90.00 127.15 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand 43W, F3S, KCX enzyme Oxidoreductase E.C. BRENDA

Primary referenceAtomic-Resolution Structures of Discrete Stages on the Reaction Coordinate of the [FeS] Enzyme IspG (GcpE)., Quitterer F, Frank A, Wang K, Rao G, O'Dowd B, Li J, Guerra F, Abdel-Azeim S, Bacher A, Eppinger J, Oldfield E, Groll M, J Mol Biol. 2015 Apr 11. pii: S0022-2836(15)00225-9. doi:, 10.1016/j.jmb.2015.04.002. PMID:25868383
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (146 Kb) [Save to disk]
  • Biological Unit Coordinates (4s3f.pdb1.gz) 281 Kb
  • LPC: Ligand-Protein Contacts for 4S3F
  • CSU: Contacts of Structural Units for 4S3F
  • Structure Factors (920 Kb)
  • Retrieve 4S3F in mmCIF format [Save to disk]
  • Re-refined 4s3f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4S3F 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 4S3F
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4S3F, from MSDmotif at EBI
  • Fold representative 4s3f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4s3f_A] [4s3f]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4S3F
  • Community annotation for 4S3F at PDBWiki (http://pdbwiki.org)

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