3BJ3 Oxygen Binding date Dec 02, 2007
title Met-Perch Hemoglobin At Ph 8.0
authors R.Aranda Iv, H.Cai, E.J.Levin, M.P.Richards, G.N.Phillips Jr.
compound source
Molecule: Hemoglobin Alpha
Chain: A, C
 Organism_scientific: Perca Flavescens
Organism_common: Yellow Perch
Organism_taxid: 8167

Molecule: Hemoglobin Beta
Chain: B, D
Organism_scientific: Perca Flavescens
Organism_common: Yellow Perch
Organism_taxid: 8167
symmetry Space Group: P 21 21 21
R_factor 0.204 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.730 84.897 121.475 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand ACE, HEM enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceStructural analysis of fish versus mammalian hemoglobins: Effect of the heme pocket environment on autooxidation and hemin loss., Aranda R 4th, Cai H, Worley CE, Levin EJ, Li R, Olson JS, Phillips GN Jr, Richards MP, Proteins. 2008 Sep 2. PMID:18831041
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (3bj3.pdb1.gz) 96 Kb
  • LPC: Ligand-Protein Contacts for 3BJ3
  • CSU: Contacts of Structural Units for 3BJ3
  • Likely Quarternary Molecular Structure file(s) for 3BJ3
  • Structure Factors (521 Kb)
  • Retrieve 3BJ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BJ3 from S2C, [Save to disk]
  • Re-refined 3bj3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3BJ3 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 3BJ3
  • 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
  • 3D motif for 3BJ3, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bj3_A] [3bj3_B] [3bj3] [3bj3_C] [3bj3_D]
  • SWISS-PROT database: [A8HTG8] [D0VWS3] [D0VWV3]
  • Domain organization of [A8HTG8_PERFV] [D0VWS3_PERFV] [D0VWV3_PERFV] by SWISSPFAM
    • Other resources with information on 3BJ3
  • Community annotation for 3BJ3 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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