1F5O Oxygen Storage Transport date Jun 15, 2000
title 2.9 Angstrom Crystal Structure Of Deoxygenated Lamprey Hemog The Space Group P2(1)2(1)2(1)
authors H.A.Heaslet, W.E.Royer Jr.
compound source
Molecule: Hemoglobin V
Chain: A, B, C, D, E, F
 Organism_scientific: Petromyzon Marinus
Organism_common: Sea Lamprey
Organism_taxid: 7757
symmetry Space Group: P 21 21 21
R_factor 0.192 R_Free 0.234
crystal
cell
length a length b length c angle alpha angle beta angle gamma
82.500 96.200 146.100 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand HEM enzyme
related structures by homologous chain: 1F5P, 3LHB
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceCrystalline ligand transitions in lamprey hemoglobin. Structural evidence for the regulation of oxygen affinity., Heaslet HA, Royer WE Jr, J Biol Chem 2001 Jul 13;276(28):26230-6. PMID:11340069
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk]
  • Biological Unit Coordinates (1f5o.pdb1.gz) 46 Kb
  • Biological Unit Coordinates (1f5o.pdb2.gz) 45 Kb
  • Biological Unit Coordinates (1f5o.pdb3.gz) 45 Kb
  • LPC: Ligand-Protein Contacts for 1F5O
  • CSU: Contacts of Structural Units for 1F5O
  • Likely Quarternary Molecular Structure file(s) for 1F5O
  • Structure Factors (187 Kb)
  • Retrieve 1F5O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1F5O from S2C, [Save to disk]
  • Re-refined 1f5o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1F5O 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 1F5O
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1F5O, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f5oa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1f5ob_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1f5oc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1f5od_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1f5oe_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1f5of_, region F [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: [1f5o_E] [1f5o_A] [1f5o_D] [1f5o] [1f5o_B] [1f5o_F] [1f5o_C]
  • SWISS-PROT database: [P02208]
  • Domain organization of [GLB5_PETMA] by SWISSPFAM
    • Other resources with information on 1F5O
  • Community annotation for 1F5O 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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