5I5Q Hydrolase date Feb 15, 2016
title Re Refinement Of 4mwn.
authors J.R.Helliwell
compound source
Molecule: Lysozyme C
Chain: A
Synonym: 1,4-Beta-N-Acetylmuramidase C,Allergen Gal D Iv
Ec: 3.2.1.17
 Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Tissue: Egg White
symmetry Space Group: P 1
R_factor 0.185 R_Free 0.237
crystal
cell
length a length b length c angle alpha angle beta angle gamma
27.346 32.134 34.296 88.04 71.17 68.35
method X-Ray Diffractionresolution 1.42 Å
ligand DMS, NO3, PT enzyme Hydrolase E.C.3.2.1.17 BRENDA
note 5I5Q supersedes 4MWN
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceComment on "Structural dynamics of cisplatin binding to histidine in a protein" [Struct. Dyn. 1, 034701 (2014)]., Tanley SW, Helliwell JR, Struct Dyn. 2016 May 9;3(3):037101. doi: 10.1063/1.4948613. eCollection 2016 May. PMID:27226979
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (5i5q.pdb1.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 5I5Q
  • CSU: Contacts of Structural Units for 5I5Q
  • Structure Factors (553 Kb)
  • Retrieve 5I5Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5I5Q from S2C, [Save to disk]
  • Re-refined 5i5q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5I5Q 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 5I5Q
  • 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: [5i5q] [5i5q_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5I5Q: [LYZ1 ] by SMART
    • Other resources with information on 5I5Q
  • Community annotation for 5I5Q at PDBWiki (http://pdbwiki.org)

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