5JOM Oxygen Storage date May 02, 2016
title X-Ray Structure Of Co-Bound Sperm Whale Myoglobin Using A Fi Crystallography Chip
authors S.Oghbaey, A.Sarracini, H.M.Ginn, O.Pare-Labrosse, A.Kuo, A.Marx, D.A.Sherrell, B.T.Eger, Y.Zhong, R.Loch, V.Mariani, R.Alonso-Mor S.Nelson, H.T.Lemke, R.L.Owen, A.R.Pearson, D.I.Stuart, O.P.Erns H.M.Mueller-Werkmeister, R.J.D.Miller
compound source
Molecule: Myoglobin
Chain: A
Engineered: Yes
 Organism_scientific: Physeter Catodon
Organism_common: Sperm Whale
Organism_taxid: 9755
Gene: Mb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.212 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.130 46.483 84.521 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand CMO, HEM, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceFixed target combined with spectral mapping: approaching 100% hit rates for serial crystallography., Oghbaey S, Sarracini A, Ginn HM, Pare-Labrosse O, Kuo A, Marx A, Epp SW, Sherrell DA, Eger BT, Zhong Y, Loch R, Mariani V, Alonso-Mori R, Nelson S, Lemke HT, Owen RL, Pearson AR, Stuart DI, Ernst OP, Mueller-Werkmeister HM, Miller RJ, Acta Crystallogr D Struct Biol. 2016 Aug;72(Pt 8):944-55. doi:, 10.1107/S2059798316010834. Epub 2016 Jul 27. PMID:27487825
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (31 Kb) [Save to disk]
  • Biological Unit Coordinates (5jom.pdb1.gz) 26 Kb
  • LPC: Ligand-Protein Contacts for 5JOM
  • CSU: Contacts of Structural Units for 5JOM
  • Structure Factors (560 Kb)
  • Retrieve 5JOM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JOM from S2C, [Save to disk]
  • Re-refined 5jom structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5JOM 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 5JOM
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jom] [5jom_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5JOM
  • Community annotation for 5JOM at PDBWiki (http://pdbwiki.org)

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