104M Oxygen Transport date Dec 18, 1997
title Sperm Whale Myoglobin N-Butyl Isocyanide At Ph 7.0
authors R.D.Smith, J.S.Olson, G.N.Phillips Jr.
compound source
Molecule: Myoglobin
Chain: A
Organism_scientific: Physeter Catodon
Organism_common: Sperm Whale
Organism_taxid: 9755
Organ: Skeletal
Tissue: Skeletal Muscle
Cellular_location: Cytoplasm
symmetry Space Group: P 1 21 1
R_factor 0.154 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.730 30.910 34.828 90.00 105.41 90.00
method X-Ray Diffractionresolution 1.71 Å
ligand HEM, NBN, SO4 enzyme
related structures by homologous chain: 1JP9, 1MYG
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (104m.pdb1.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 104M
  • CSU: Contacts of Structural Units for 104M
  • Likely Quarternary Molecular Structure file(s) for 104M
  • Structure Factors (96 Kb)
  • Retrieve 104M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 104M from S2C, [Save to disk]
  • Re-refined 104m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 104M 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 104M
  • 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 104M, from MSDmotif at EBI
  • Genome occurence of 104M's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d104m__, region [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: [104m] [104m_A]
  • SWISS-PROT database: [P02185]
  • Domain organization of [MYG_PHYCA] by SWISSPFAM
  • Other resources with information on 104M
  • Community annotation for 104M at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 104M from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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