1J40 Oxygen Storage Transport date Feb 21, 2003
title Direct Observation Of Photolysis-Induced Tertiary Structural Changes In Human Haemoglobin; Crystal Structure Of Alpha(Ni)-Beta(Fe-Co) Hemoglobin (Laser Unphotolysed)
authors S.Adachi, S.Y.Park, J.R.H.Tame, Y.Shiro, N.Shibayama, Riken Structural 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 0.165 R_Free 0.197
length a length b length c angle alpha angle beta angle gamma
64.708 94.860 99.730 90.00 101.97 90.00
method X-Ray Diffractionresolution 1.45 Å
ligand 2FU, CMO, HEM, HNI enzyme
related structures by homologous chain: 1IRD, 1J41
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] (233 Kb) [Save to disk]
  • Biological Unit Coordinates (1j40.pdb1.gz) 118 Kb
  • Biological Unit Coordinates (1j40.pdb2.gz) 112 Kb
  • LPC: Ligand-Protein Contacts for 1J40
  • CSU: Contacts of Structural Units for 1J40
  • Likely Quarternary Molecular Structure file(s) for 1J40
  • Retrieve 1J40 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1J40 from S2C, [Save to disk]
  • View 1J40 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 1J40
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1J40 1J40A 1J40B 1J40C 1J40D 1J40E 1J40F 1J40G 1J40H from the CEP Server.
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1J40, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1j40a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1j40b_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1j40c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1j40d_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1j40e_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1j40f_, region F [Jmol] [rasmolscript] [script source]
        - Domain d1j40g_, region G [Jmol] [rasmolscript] [script source]
        - Domain d1j40h_, region H [Jmol] [rasmolscript] [script source]
  • Fold representative 1j40 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: [1j40] [1j40_A] [1j40_E] [1j40_F] [1j40_C] [1j40_D] [1j40_B] [1j40_G] [1j40_H]
  • 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 1J40
  • Community annotation for 1J40 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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