2DN1 Oxygen Storage Transport date Apr 25, 2006
title 1.25a Resolution Crystal Structure Of Human Hemoglobin In Th
authors S.Y.Park, T.Yokoyama, N.Shibayama, Y.Shiro, J.R.Tame
compound source
Molecule: Hemoglobin Alpha Subunit
Chain: A
Synonym: Hemoglobin Alpha Chain, Alpha-Globin
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Red Cell

Molecule: Hemoglobin Beta Subunit
Chain: B
Synonym: Hemoglobin Beta Chain, Beta-Globin
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Tissue: Red Cell
symmetry Space Group: P 41 21 2
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.435 53.435 191.709 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.25 Å
ligand HEM, MBN, OXY enzyme
note 2DN1 supersedes 2DFO
Gene
Ontology
ChainFunctionProcessComponent
A
  • peroxidase activity


    • B
  • peroxidase activity


    • Primary reference1.25 a resolution crystal structures of human haemoglobin in the oxy, deoxy and carbonmonoxy forms., Park SY, Yokoyama T, Shibayama N, Shiro Y, Tame JR, J Mol Biol. 2006 Jul 14;360(3):690-701. Epub 2006 May 30. PMID:16765986
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (2dn1.pdb1.gz) 199 Kb
  • LPC: Ligand-Protein Contacts for 2DN1
  • CSU: Contacts of Structural Units for 2DN1
  • Likely Quarternary Molecular Structure file(s) for 2DN1
  • Structure Factors (512 Kb)
  • Retrieve 2DN1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DN1 from S2C, [Save to disk]
  • Re-refined 2dn1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2DN1 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 2DN1
  • 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 2DN1, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dn1] [2dn1_B] [2dn1_A]
  • 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 2DN1
  • Community annotation for 2DN1 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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