2HBU Oxidoreductase date Jun 14, 2006
title Crystal Structure Of Hif Prolyl Hydroxylase Egln-1 In Complex With A Biologically Active Inhibitor
authors A.G.Evdokimov, R.L.Walter, M.Mekel, M.E.Pokross, R.Kawamoto, A.Boyer
compound source
Molecule: Egl Nine Homolog 1
Chain: A
Fragment: Catalytic Domain
Synonym: Hypoxia-Inducible Factor Prolyl Hydroxylase 2, Hif-Prolyl Hydroxylase 2, Hif-Ph2, Hph-2, Prolyl Hydroxylase Domain-Containing Protein 2, Phd2, Sm-20;
Ec: 1.14.11.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Egln1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet45-Dest
symmetry Space Group: P 63
R_factor 0.179 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
111.045 111.045 40.126 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.85 Å
ligand FE2, UN9 BindingDB enzyme Oxidoreductase E.C.1.14.11 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (2hbu.pdb1.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 2HBU
  • CSU: Contacts of Structural Units for 2HBU
  • Likely Quarternary Molecular Structure file(s) for 2HBU
  • Structure Factors (174 Kb)
  • Retrieve 2HBU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2HBU from S2C, [Save to disk]
  • Re-refined 2hbu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2HBU 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 2HBU
  • 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 2HBU, from MSDmotif at EBI
  • Fold representative 2hbu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2hbu] [2hbu_A]
  • SWISS-PROT database: [Q9GZT9]
  • Domain organization of [EGLN1_HUMAN] by SWISSPFAM
  • Domain found in 2HBU: [P4Hc ] by SMART
  • Alignments of the sequence of 2HBU with the sequences similar proteins can be viewed for 2HBU's classification [EGLN1_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [EGLN1_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2HBU
  • Community annotation for 2HBU 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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