6B1H Hydrolase Hydrolase Inhibitor date Sep 18, 2017
title Crystal Structure Kpc-2 Beta-Lactamase Complexed With Wck 42 Crystallization
authors F.Van Den Akker, N.Q.Nhuyen
compound source
Molecule: Carbapenem-Hydrolyzing Beta-Lactamase Kpc
Chain: A, B
Synonym: Carbapenem-Hydrolyzing Beta-Lactamase Kpc-1
Ec: 3.5.2.6
Engineered: Yes
Organism_scientific: Klebsiella Pneumoniae
Organism_taxid: 573
Gene: Bla, Kpc, Kpc1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.162 R_Free 0.210
crystal
cell
length a length b length c angle alpha angle beta angle gamma
34.487 37.372 81.831 87.78 89.96 84.53
method X-Ray Diffractionresolution 1.80 Å
ligand ACT, C8Y, CL, SO4 enzyme Hydrolase E.C.3.5.2.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStrategic Approaches to Overcome Resistance against Gram-Negative Pathogens Using beta-Lactamase Inhibitors and beta-Lactam Enhancers: Activity of Three Novel Diazabicyclooctanes WCK 5153, Zidebactam (WCK 5107), and WCK 4234., Papp-Wallace KM, Nguyen NQ, Jacobs MR, Bethel CR, Barnes MD, Kumar V, Bajaksouzian S, Rudin SD, Rather PN, Bhavsar S, Ravikumar T, Deshpande PK, Patil V, Yeole R, Bhagwat SS, Patel MV, van den Akker F, Bonomo RA, J Med Chem. 2018 May 10;61(9):4067-4086. doi: 10.1021/acs.jmedchem.8b00091. Epub , 2018 Apr 20. PMID:29627985
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk]
  • Biological Unit Coordinates (6b1h.pdb1.gz) 45 Kb
  • Biological Unit Coordinates (6b1h.pdb2.gz) 46 Kb
  • LPC: Ligand-Protein Contacts for 6B1H
  • CSU: Contacts of Structural Units for 6B1H
  • Structure Factors (1008 Kb)
  • Retrieve 6B1H in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6B1H from S2C, [Save to disk]
  • View 6B1H 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 6B1H
  • 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: [6b1h_A] [6b1h_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6B1H
  • Community annotation for 6B1H at PDBWiki (http://pdbwiki.org)

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