5FF4 Oxidoreductase date Dec 17, 2015
title Hyde From T. Maritima In Complex With (2r,4r)-Tmetda
authors R.Rohac, P.Amara, A.Benjdia, L.Martin, P.Ruffie, A.Favier, O.Berte J.M.Mouesca, J.C.Fontecilla-Camps, Y.Nicolet
compound source
Molecule: [Fefe] Hydrogenase Maturase Subunit Hyde
Chain: A
Ec: 1.8.-.-
Engineered: Yes
Organism_scientific: Thermotoga Maritima
Organism_taxid: 2336
Gene: Tm_1269, Thema_07990, Tmari_1274
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.116 R_Free 0.153
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.110 79.380 86.160 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.35 Å
ligand 5ZZ, CL, CPS, SAH, SE, SFS enzyme Oxidoreductase E.C.1.8 BRENDA
Gene THEMA ; TMARI ; TM
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCarbon-sulfur bond-forming reaction catalysed by the radical SAM enzyme HydE., Rohac R, Amara P, Benjdia A, Martin L, Ruffie P, Favier A, Berteau O, Mouesca JM, Fontecilla-Camps JC, Nicolet Y, Nat Chem. 2016 May;8(5):491-500. doi: 10.1038/nchem.2490. Epub 2016 Apr 4. PMID:27102684
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (156 Kb) [Save to disk]
  • Biological Unit Coordinates (5ff4.pdb1.gz) 147 Kb
  • LPC: Ligand-Protein Contacts for 5FF4
  • CSU: Contacts of Structural Units for 5FF4
  • Structure Factors (2014 Kb)
  • Retrieve 5FF4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5FF4 from S2C, [Save to disk]
  • Re-refined 5ff4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5FF4 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 5FF4
  • 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: [5ff4_A] [5ff4]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5FF4: [BATS] [Elp3 ] by SMART
  • Other resources with information on 5FF4
  • Community annotation for 5FF4 at PDBWiki (http://pdbwiki.org)

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