1PT9 Oxidoreductase date Jun 23, 2003
title Crystal Structure Analysis Of The Diii Component Of Transhyd With A Thio-Nicotinamide Nucleotide Analogue
authors A.Singh, J.D.Venning, P.G.Quirk, G.I.Van Boxel, D.J.Rodrigues, S. J.B.Jackson
compound source
Molecule: Nad(P) Transhydrogenase, Mitochondrial
Chain: A, B
Fragment: Residues 880-1086
Synonym: Pyridine Nucleotide Transhydrogenase, Nicotinamide Nucleotide Transhydrogenase;
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Heart
symmetry Space Group: P 41 2 2
R_factor 0.219 R_Free 0.278
length a length b length c angle alpha angle beta angle gamma
57.400 57.400 251.130 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.42 Å
ligand GOL, SO4, TAP enzyme Oxidoreductase E.C. BRENDA
related structures by homologous chain: 1U31
Primary referenceInteractions between transhydrogenase and thio-nicotinamide Analogues of NAD(H) and NADP(H) underline the importance of nucleotide conformational changes in coupling to proton translocation., Singh A, Venning JD, Quirk PG, van Boxel GI, Rodrigues DJ, White SA, Jackson JB, J Biol Chem 2003 Aug 29;278(35):33208-16. Epub 2003 Jun 5. PMID:12791694
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (1pt9.pdb1.gz) 32 Kb
  • Biological Unit Coordinates (1pt9.pdb2.gz) 32 Kb
  • Biological Unit Coordinates (1pt9.pdb3.gz) 123 Kb
  • Biological Unit Coordinates (1pt9.pdb4.gz) 63 Kb
  • Biological Unit Coordinates (1pt9.pdb5.gz) 63 Kb
  • Biological Unit Coordinates (1pt9.pdb6.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 1PT9
  • CSU: Contacts of Structural Units for 1PT9
  • Likely Quarternary Molecular Structure file(s) for 1PT9
  • Structure Factors (142 Kb)
  • Retrieve 1PT9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PT9 from S2C, [Save to disk]
  • Re-refined 1pt9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PT9 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 1PT9
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1PT9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pt9a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pt9b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1pt9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1pt9_A] [1pt9_B] [1pt9]
  • SWISS-PROT database: [Q13423]
  • Domain organization of [NNTM_HUMAN] by SWISSPFAM
  • Other resources with information on 1PT9
  • Community annotation for 1PT9 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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