1D4O Oxidoreductase date Oct 04, 1999
title Crystal Structure Of Transhydrogenase Domain III At 1.2 Angs Resolution
authors G.S.Prasad, V.Sridhar, M.Yamaguchi, Y.Hatefi, C.D.Stout
compound source
Molecule: Nadp(H) Transhydrogenase
Chain: A
Fragment: Nadp(H) Binding Domain
Engineered: Yes
Organism_scientific: Bos Taurus
Organism_common: Cattle
Organism_taxid: 9913
Cellular_location: Mitochondria
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
length a length b length c angle alpha angle beta angle gamma
33.660 36.730 38.490 68.36 87.99 74.80
method X-Ray Diffractionresolution 1.21 Å
ligand NAP enzyme Oxidoreductase E.C. BRENDA
note 1D4O is a representative structure
related structures by homologous chain: 1DJL
Primary referenceCrystal structure of transhydrogenase domain III at 1.2 A resolution., Prasad GS, Sridhar V, Yamaguchi M, Hatefi Y, Stout CD, Nat Struct Biol 1999 Dec;6(12):1126-31. PMID:10581554
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk]
  • Biological Unit Coordinates (1d4o.pdb1.gz) 33 Kb
  • LPC: Ligand-Protein Contacts for 1D4O
  • CSU: Contacts of Structural Units for 1D4O
  • Likely Quarternary Molecular Structure file(s) for 1D4O
  • Structure Factors (148 Kb)
  • Retrieve 1D4O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1D4O from S2C, [Save to disk]
  • Re-refined 1d4o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1D4O 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 1D4O
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1D4O from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1D4O, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1d4oa_, region A [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: [1d4o_A] [1d4o]
  • SWISS-PROT database: [P11024]
  • Belongs to the proton-translocating transhydrogenase (pth) family according to TCDB.
  • Domain organization of [NNTM_BOVIN] by SWISSPFAM
  • Other resources with information on 1D4O
  • Community annotation for 1D4O 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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