5NI0 Hydrolase date Mar 22, 2017
title Vim-2_10c. Metallo-Beta-Lactamase Inhibitors By Bioisosteric Replacement: Preparation, Activity And Binding
authors S.Skagseth, S.Akhter, M.H.Paulsen, O.Samuelsen, Z.Muhammad, H.K. A.Bayer
compound source
Molecule: Beta-Lactamase Class B Vim-2
Chain: A, E
Synonym: Blavim-2,Class B Carbapenemase Vim-2,Metallo Beta- Metallo-Beta Lactamase Protein,Metallo-Beta-Lactamase Vim-2 Vim-2 Beta-Lactamase,Vim-2 Class B Metallo B-Lactamase,Vim- Metallo-Beta-Lactamase;
Engineered: Yes
Organism_scientific: Pseudomonas Aeruginosa
Organism_taxid: 287
Gene: Blavim-2, Bla Vim-2, Bla-Vim-2, Blasvim-2, Blavim2, B 2, Vim-2, Paerug_p32_london_17_vim_2_10_11_06255;
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.178 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.716 91.070 122.912 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.67 Å
ligand 8XW, ZN enzyme
Gene PAERUG
Primary referenceMetallo-beta-lactamase inhibitors by bioisosteric replacement: Preparation, activity and binding., Skagseth S, Akhter S, Paulsen MH, Muhammad Z, Lauksund S, Samuelsen O, Leiros HS, Bayer A, Eur J Med Chem. 2017 Apr 14;135:159-173. doi: 10.1016/j.ejmech.2017.04.035. PMID:28445786
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk]
  • Biological Unit Coordinates (5ni0.pdb1.gz) 73 Kb
  • Biological Unit Coordinates (5ni0.pdb2.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 5NI0
  • CSU: Contacts of Structural Units for 5NI0
  • Structure Factors (1527 Kb)
  • Retrieve 5NI0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NI0 from S2C, [Save to disk]
  • Re-refined 5ni0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5NI0 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 5NI0
  • 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: [5ni0] [5ni0_E] [5ni0_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5NI0
  • Community annotation for 5NI0 at PDBWiki (http://pdbwiki.org)

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