5KB3 Hydrolase date Jun 02, 2016
title 1.4 A Resolution Structure Of Helicobacter Pylori Mtan In Co With P-Clph-Dadme-Imma
authors M.T.Banco, D.R.Ronning
compound source
Molecule: Aminodeoxyfutalosine Nucleosidase
Chain: A
Synonym: Aminofutalosine Nucleosidase,5'-Methylthioadenosin Adenosylhomocysteine Nucleosidase,Mtan,6-Amino-6-Deoxyfutal Ribosylhydrolase;
Ec: 3.2.2.30,3.2.2.9
Engineered: Yes
Organism_scientific: Helicobacter Pylori (Strain J99 Atcc
Organism_taxid: 85963
Strain: J99 Atcc 700824
Gene: Mtnn, Mtn, Jhp_0082
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 32 2 1
R_factor 0.139 R_Free 0.170
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.207 81.207 67.254 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.40 Å
ligand 4CT, MG enzyme Hydrolase E.C.3.2.2.30 BRENDA
Gene JHP
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceNeutron structures of the Helicobacter pylori 5'-methylthioadenosine nucleosidase highlight proton sharing and protonation states., Banco MT, Mishra V, Ostermann A, Schrader TE, Evans GB, Kovalevsky A, Ronning DR, Proc Natl Acad Sci U S A. 2016 Nov 29;113(48):13756-13761. Epub 2016 Nov 16. PMID:27856757
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (5kb3.pdb1.gz) 151 Kb
  • LPC: Ligand-Protein Contacts for 5KB3
  • CSU: Contacts of Structural Units for 5KB3
  • Structure Factors (380 Kb)
  • Retrieve 5KB3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KB3 from S2C, [Save to disk]
  • Re-refined 5kb3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
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  • Visual 3D analysis of 5KB3
  • 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: [5kb3] [5kb3_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5KB3
  • Community annotation for 5KB3 at PDBWiki (http://pdbwiki.org)

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