5GWD Hydrolase date Sep 10, 2016
title Structure Of Myroilysin
authors D.Xu, T.Ran, W.Wang
compound source
Molecule: Myroilysin
Chain: A, B
Fragment: Unp Residues 31-273
Engineered: Yes
 Organism_scientific: Myroides Sp. Cslb8
Organism_taxid: 1736763
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.182 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.223 35.486 93.757 90.00 101.41 90.00
method X-Ray Diffractionresolution 1.89 Å
ligand MLY, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceMyroilysin is a New Bacterial Member of the M12A Family of Metzincin Metallopeptidases and Activated by a Cysteine-switch Mechanism., Xu D, Zhou J, Lou X, He J, Ran T, Wang W, J Biol Chem. 2017 Feb 9. pii: jbc.M116.758110. doi: 10.1074/jbc.M116.758110. PMID:28188295
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (87 Kb) [Save to disk]
  • Biological Unit Coordinates (5gwd.pdb1.gz) 42 Kb
  • Biological Unit Coordinates (5gwd.pdb2.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 5GWD
  • CSU: Contacts of Structural Units for 5GWD
  • Structure Factors (2539 Kb)
  • Retrieve 5GWD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5GWD from S2C, [Save to disk]
  • Re-refined 5gwd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5GWD 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 5GWD
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5gwd_B] [5gwd] [5gwd_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5GWD
  • Community annotation for 5GWD at PDBWiki (http://pdbwiki.org)

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