1OMD Calcium Binding Protein date Apr 19, 1990
title Structure Of Oncomodulin Refined At 1.85 Angstroms Resolutio Example Of Extensive Molecular Aggregation Via Ca2+
authors F.R.Ahmed, M.Przybylska, D.R.Rose, G.I.Birnbaum, M.E.Pippy, J.P.M
compound source
Molecule: Oncomodulin
Chain: A
Engineered: Yes
 Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
symmetry Space Group: P 21 21 21
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.590 64.280 33.070 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand CA enzyme
related structures by homologous chain: 1RRO, 1TTX
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure of oncomodulin refined at 1.85 A resolution. An example of extensive molecular aggregation via Ca2+., Ahmed FR, Przybylska M, Rose DR, Birnbaum GI, Pippy ME, MacManus JP, J Mol Biol 1990 Nov 5;216(1):127-40. PMID:2231727
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (24 Kb) [Save to disk]
  • Biological Unit Coordinates (1omd.pdb1.gz) 19 Kb
  • LPC: Ligand-Protein Contacts for 1OMD
  • CSU: Contacts of Structural Units for 1OMD
  • Likely Quarternary Molecular Structure file(s) for 1OMD
  • Structure Factors (104 Kb)
  • Retrieve 1OMD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OMD from S2C, [Save to disk]
  • Re-refined 1omd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1OMD 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 1OMD
  • 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 1OMD, from MSDmotif at EBI
  • Genome occurence of 1OMD's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1omd__, 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: [1omd_A] [1omd]
  • SWISS-PROT database: [P02631]
  • Domain organization of [ONCO_RAT] by SWISSPFAM
  • Domain found in 1OMD: [EFh ] by SMART
    • Other resources with information on 1OMD
  • Community annotation for 1OMD 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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