1C1D Oxidoreductase date Jul 21, 1999
title L-Phenylalanine Dehydrogenase Structure In Ternary Complex W And L-Phenylalanine
authors J.L.Vanhooke, J.B.Thoden
compound source
Molecule: L-Phenylalanine Dehydrogenase
Chain: A
Engineered: Yes
Organism_scientific: Rhodococcus Sp.
Organism_taxid: 1831
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Plasmid
Expression_system_plasmid: Pbl-1b

Molecule: L-Phenylalanine Dehydrogenase
Chain: B
Engineered: Yes

Organism_scientific: Rhodococcus Sp.
Organism_taxid: 1831
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector: Plasmid
Expression_system_plasmid: Pbl-1b
symmetry Space Group: P 21 21 21
R_factor 0.193 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.800 110.600 113.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.25 Å
ligand IPA, K, NA, NAI, PHE, PO4 enzyme
related structures by homologous chain: 1C1X
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceRhodococcus L-phenylalanine dehydrogenase: kinetics, mechanism, and structural basis for catalytic specificity., Brunhuber NM, Thoden JB, Blanchard JS, Vanhooke JL, Biochemistry 2000 Aug 8;39(31):9174-87. PMID:10924111
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk]
  • Biological Unit Coordinates (1c1d.pdb1.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 1C1D
  • CSU: Contacts of Structural Units for 1C1D
  • Likely Quarternary Molecular Structure file(s) for 1C1D
  • Retrieve 1C1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1C1D from S2C, [Save to disk]
  • View 1C1D 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 1C1D
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1C1D 1C1DA 1C1DB from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1C1D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c1da2, region A:1-148 [Jmol] [rasmolscript] [script source]
        - Domain d1c1da1, region A:149-349 [Jmol] [rasmolscript] [script source]
        - Domain d1c1db2, region B:1-148 [Jmol] [rasmolscript] [script source]
        - Domain d1c1db1, region B:149-348 [Jmol] [rasmolscript] [script source]
  • Fold representative 1c1d 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: [1c1d] [1c1d_A] [1c1d_B]
  • SWISS-PROT database: [Q59771]
  • Domain organization of [Q59771_RHOSO] by SWISSPFAM
  • Domain found in 1C1D: [ELFV_dehydrog ] by SMART
  • Other resources with information on 1C1D
  • Community annotation for 1C1D 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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