5BQM Hydrolase date May 29, 2015
title Crystal Structure Of Sxn101959, A Clostridium Botulinum Neur Type D Derivative And Targeted Secretion Inhibitor
authors G.Masuyer, J.R.Davies, K.Moore, J.A.Chaddock, K.R.Acharya
compound source
Molecule: Botulinum Neurotoxin Type D
Chain: A, C
Synonym: Bontd,Bontoxilysin-D
Ec: 3.4.24.69
Engineered: Yes
Other_details: Correspond To The Catalytic Domain Of Lhnd. Molecule Is Expressed As A Single Polypeptide Cleaved Into Di-Chain Using An Engineered Protease Recognition Site;
Organism_scientific: Clostridium Botulinum
Organism_taxid: 1491
Gene: Botd
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Somatoliberin,Botulinum Neurotoxin Type D
Chain: B, D
Synonym: Growth Hormone-Releasing Factor,Grf,Growth Hormone Hormone,Ghrh,Somatocrinin,Somatorelin,Bontd,Bontoxilysin-D
Ec: 3.4.24.69
Engineered: Yes
Other_details: Correspond To The Catalytic Domain Of Lhnd. Molecule Is Expressed As A Single Polypeptide Cleaved Into Di-Chain Using An Engineered Protease Recognition Site

Organism_scientific: Homo Sapiens, Clostridium Botulinum
Organism_common: Human
Organism_taxid: 9606, 1491
Gene: Ghrh, Ghrf, Botd
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: P 21 21 21
R_factor 0.250 R_Free 0.295
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.201 143.916 172.762 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
ligand ZN enzyme Hydrolase E.C.3.4.24.69 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceStructural analysis of Clostridium botulinum neurotoxin type D as a platform for the development of targeted secretion inhibitors., Masuyer G, Davies JR, Moore K, Chaddock JA, Ravi Acharya K, Sci Rep. 2015 Sep 1;5:13397. doi: 10.1038/srep13397. PMID:26324071
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (556 Kb) [Save to disk]
  • Biological Unit Coordinates (5bqm.pdb1.gz) 276 Kb
  • Biological Unit Coordinates (5bqm.pdb2.gz) 277 Kb
  • LPC: Ligand-Protein Contacts for 5BQM
  • CSU: Contacts of Structural Units for 5BQM
  • Structure Factors (1766 Kb)
  • Retrieve 5BQM in mmCIF format [Save to disk]
  • Re-refined 5bqm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5BQM 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 5BQM
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5bqm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5bqm_D] [5bqm_C] [5bqm] [5bqm_B] [5bqm_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5BQM: [GLUCA ] by SMART
  • Other resources with information on 5BQM
  • Community annotation for 5BQM at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science