1KQF Oxidoreductase date Jan 05, 2002
title Formate Dehydrogenase N From E. Coli
authors M.Jormakka, S.Tornroth, B.Byrne, S.Iwata
compound source
Molecule: Formate Dehydrogenase, Nitrate-Inducible, Major S
Chain: A
Synonym: Formate Dehydrogenase-N Alpha Subunit; Fdh-N Alpha Anaerobic Formate Dehydrogenase Major Subunit;
Ec: 1.2.1.2
Other_details: Native (Oxidized) Structure
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Gl101

Molecule: Formate Dehydrogenase, Nitrate-Inducible, Iron-Su Subunit;
Chain: B
Synonym: Formate Dehydrogenase-N Beta Subunit; Fdh-N Beta S Anaerobic Formate Dehydrogenase Iron-Sulfur Subunit;
Ec: 1.2.1.2
Other_details: Native (Oxidized) Structure

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Gl101

Molecule: Formate Dehydrogenase, Nitrate-Inducible, Cytochr B556(Fdn) Subunit;
Chain: C
Synonym: Formate Dehydrogenase-N Gamma Subunit; Fdh-N Gamma Anaerobic Formate Dehydrogenase Cytochrome B556 Subunit;
Ec: 1.2.1.2
Other_details: Native (Oxidized) Structure

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Gl101
symmetry Space Group: P 21 3
R_factor 0.177 R_Free 0.195
crystal
cell
length a length b length c angle alpha angle beta angle gamma
203.000 203.000 203.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand 6MO, CDL, HEM, MGD, SF4 enzyme Oxidoreductase E.C.1.2.1.2 BRENDA
related structures by homologous chain: 1KQG
Gene
Ontology
ChainFunctionProcessComponent
A


B
  • electron transfer activity


  • C


    Primary referenceMolecular basis of proton motive force generation: structure of formate dehydrogenase-N., Jormakka M, Tornroth S, Byrne B, Iwata S, Science 2002 Mar 8;295(5561):1863-8. PMID:11884747
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (285 Kb) [Save to disk]
  • Biological Unit Coordinates (1kqf.pdb1.gz) 816 Kb
  • LPC: Ligand-Protein Contacts for 1KQF
  • CSU: Contacts of Structural Units for 1KQF
  • Likely Quarternary Molecular Structure file(s) for 1KQF
  • Structure Factors (2999 Kb)
  • Retrieve 1KQF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KQF from S2C, [Save to disk]
  • Re-refined 1kqf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KQF 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 1KQF
  • 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 1KQF, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kqfa2, region A:34-850 [Jmol] [rasmolscript] [script source]
        - Domain d1kqfa1, region A:851-1015 [Jmol] [rasmolscript] [script source]
        - Domain d1kqfb1, region B:2-245 [Jmol] [rasmolscript] [script source]
        - Domain d1kqfb2, region B:246-290 [Jmol] [rasmolscript] [script source]
        - Domain d1kqfc_, region C [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: [1kqf_B] [1kqf] [1kqf_A] [1kqf_C]
  • SWISS-PROT database: [P24183] [P0AAJ3] [P0AEK7]
  • Belongs to the prokaryotic molybdopterin-containing oxidoreductase (pmo) family according to TCDB.
  • Domain organization of [FDNG_ECOLI] [FDNH_ECOLI] [FDNI_ECOLI] by SWISSPFAM
  • Domain found in 1KQF: [Molybdop_Fe4S4 ] by SMART
  • Other resources with information on 1KQF
  • Community annotation for 1KQF at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1KQF from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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