2TMD Oxidoreductase date Oct 15, 1993
title Correlation Of X-Ray Deduced And Experimental Amino Acid Seq Trimethylamine Dehydrogenase
authors F.S.Mathews, L.W.Lim, S.White
compound source
Molecule: Trimethylamine Dehydrogenase
Chain: A, B
Ec: 1.5.99.7
Engineered: Yes
Organism_scientific: Methylophilus Methylotrophus
Organism_taxid: 2327
Strain: W3a1
symmetry Space Group: P 1 21 1
R_factor 0.154 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
147.750 71.950 83.820 90.00 97.69 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand ADP, FMN, SF4 enzyme Oxidoreductase E.C.1.5.99.7 BRENDA
related structures by homologous chain: 1DJQ
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCorrelation of x-ray deduced and experimental amino acid sequences of trimethylamine dehydrogenase., Barber MJ, Neame PJ, Lim LW, White S, Matthews FS, J Biol Chem 1992 Apr 5;267(10):6611-9. PMID:1551870
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (245 Kb) [Save to disk]
  • Biological Unit Coordinates (2tmd.pdb1.gz) 239 Kb
  • LPC: Ligand-Protein Contacts for 2TMD
  • CSU: Contacts of Structural Units for 2TMD
  • Likely Quarternary Molecular Structure file(s) for 2TMD
  • Retrieve 2TMD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2TMD from S2C, [Save to disk]
  • View 2TMD 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 2TMD
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2TMD, from MSDmotif at EBI
  • Genome occurence of 2TMD's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d2tmda1, region A:1-340 [Jmol] [rasmolscript] [script source]
        - Domain d2tmda3, region A:341-489,A:646-729 [Jmol] [rasmolscript] [script source]
        - Domain d2tmda2, region A:490-645 [Jmol] [rasmolscript] [script source]
        - Domain d2tmdb1, region B:1-340 [Jmol] [rasmolscript] [script source]
        - Domain d2tmdb3, region B:341-489,B:646-729 [Jmol] [rasmolscript] [script source]
        - Domain d2tmdb2, region B:490-645 [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: [2tmd_B] [2tmd_A] [2tmd]
  • SWISS-PROT database: [P16099]
  • Domain organization of [DHTM_METME] by SWISSPFAM
  • Other resources with information on 2TMD
  • Community annotation for 2TMD 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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