1J3Y Oxygen Storage Transport date Feb 21, 2003
title Direct Observation Of Photolysis-Induced Tertiary Structural In Human Hemoglobin; Crystal Structure Of Alpha(Fe)-Beta(Ni Hemoglobin (Laser Photolysed)
authors S.Adachi, S.Y.Park, J.R.H.Tame, Y.Shiro, N.Shibayama, Riken Stru Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Hemoglobin Alpha Chain
Chain: A, C, E, G
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Hemoglobin Beta Chain
Chain: B, D, F, H
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.162 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.494 94.012 100.111 90.00 101.65 90.00
method X-Ray Diffractionresolution 1.55 Å
ligand 2FU, CMO, HEM, HNI enzyme
related structures by homologous chain: 1IWH, 1THB
Gene
Ontology
ChainFunctionProcessComponent
A, E, C, G
  • peroxidase activity


    • F, B, H, D
  • peroxidase activity


    • Primary referenceDirect observation of photolysis-induced tertiary structural changes in hemoglobin., Adachi S, Park SY, Tame JR, Shiro Y, Shibayama N, Proc Natl Acad Sci U S A 2003 Jun 10;100(12):7039-44. Epub 2003 May 28. PMID:12773618
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (230 Kb) [Save to disk]
  • Biological Unit Coordinates (1j3y.pdb1.gz) 114 Kb
  • Biological Unit Coordinates (1j3y.pdb2.gz) 112 Kb
  • LPC: Ligand-Protein Contacts for 1J3Y
  • CSU: Contacts of Structural Units for 1J3Y
  • Likely Quarternary Molecular Structure file(s) for 1J3Y
  • Retrieve 1J3Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1J3Y from S2C, [Save to disk]
    • View 1J3Y 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 1J3Y
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1J3Y, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1j3ya_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1j3yb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1j3yc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1j3yd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1j3ye_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1j3yf_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1j3yg_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1j3yh_, region H [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: [1j3y] [1j3y_H] [1j3y_G] [1j3y_E] [1j3y_F] [1j3y_C] [1j3y_B] [1j3y_A] [1j3y_D]
  • SWISS-PROT database: [P69905] [P68871]
  • Belongs to the pore-forming globin (globin) family according to TCDB.
  • Belongs to the pore-forming globin (globin) family according to TCDB.
  • Domain organization of [HBA_HUMAN] [HBB_HUMAN] by SWISSPFAM
    • Other resources with information on 1J3Y
  • Community annotation for 1J3Y 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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