3FMS Transcription Regulator date Dec 22, 2008
title Crystal Structure Of Tm0439, A Gntr Transcriptional Regulato
authors M.Zheng, D.R.Cooper, M.Yu, L.W.Hung, U.Derewenda, Z.S.Derewenda, Integrated Center For Structure And Function Innovation (Is
compound source
Molecule: Transcriptional Regulator, Gntr Family
Chain: A
Engineered: Yes
Mutation: Yes
Organism_scientific: Thermotoga Maritima Msb8
Organism_taxid: 243274
Strain: Msb8 Dsm 3109 Jcm 10099
Gene: Tm_0439
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
symmetry Space Group: C 1 2 1
R_factor 0.157 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.188 71.718 43.323 90.00 104.59 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand ACT, MSE, NI enzyme
note 3FMS supersedes 3DBW
Gene TM
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of Thermotoga maritima TM0439: implications for the mechanism of bacterial GntR transcription regulators with Zn2+-binding FCD domains., Zheng M, Cooper DR, Grossoehme NE, Yu M, Hung LW, Cieslik M, Derewenda U, Lesley SA, Wilson IA, Giedroc DP, Derewenda ZS, Acta Crystallogr D Biol Crystallogr. 2009 Apr;65(Pt 4):356-65. Epub 2009, Mar 19. PMID:19307717
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (113 Kb) [Save to disk]
  • Biological Unit Coordinates (3fms.pdb1.gz) 209 Kb
  • LPC: Ligand-Protein Contacts for 3FMS
  • CSU: Contacts of Structural Units for 3FMS
  • Likely Quarternary Molecular Structure file(s) for 3FMS
  • Structure Factors (191 Kb)
  • Retrieve 3FMS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FMS from S2C, [Save to disk]
  • Re-refined 3fms structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3FMS 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 3FMS
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3FMS, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fms] [3fms_A]
  • SWISS-PROT database: [Q9WYS0]
  • Domain organization of [Q9WYS0_THEMA] by SWISSPFAM
  • Domains found in 3FMS: [FCD] [HTH_GNTR ] by SMART
  • Other resources with information on 3FMS
  • Community annotation for 3FMS 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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