1RQD Transferase date Dec 04, 2003
title Deoxyhypusine Synthase Holoenzyme In Its Low Ionic Strength, Crystal Form With The Inhibitor Gc7 Bound In The Active Sit
authors T.C.Umland, E.C.Wolff, M.H.Park, D.R.Davies
compound source
Molecule: Deoxyhypusine Synthase
Chain: A, B
Synonym: Dhs
Ec: 2.5.1.46
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dhps, Ds
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-11a
symmetry Space Group: P 32 2 1
R_factor 0.196 R_Free 0.232
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.780 104.780 159.250 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.00 Å
ligand GC7, NAD BindingDB enzyme Transferase E.C.2.5.1.46 BRENDA
related structures by homologous chain: 1ROZ
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA new crystal structure of deoxyhypusine synthase reveals the configuration of the active enzyme and of an enzyme.NAD.inhibitor ternary complex., Umland TC, Wolff EC, Park MH, Davies DR, J Biol Chem. 2004 Jul 2;279(27):28697-705. Epub 2004 Apr 20. PMID:15100216
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (113 Kb) [Save to disk]
  • Biological Unit Coordinates (1rqd.pdb1.gz) 212 Kb
  • LPC: Ligand-Protein Contacts for 1RQD
  • CSU: Contacts of Structural Units for 1RQD
  • Likely Quarternary Molecular Structure file(s) for 1RQD
  • Structure Factors (268 Kb)
  • Retrieve 1RQD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RQD from S2C, [Save to disk]
  • Re-refined 1rqd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RQD 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 1RQD
  • 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 1RQD, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rqda_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1rqdb_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1rqd 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: [1rqd_B] [1rqd_A] [1rqd]
  • SWISS-PROT database: [P49366]
  • Domain organization of [DHYS_HUMAN] by SWISSPFAM
  • Other resources with information on 1RQD
  • Community annotation for 1RQD 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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