3ISZ Hydrolase date Aug 27, 2009
title Crystal Structure Of Mono-Zinc Form Of Succinyl-Diaminopimel Desuccinylase From Haemophilus Influenzae
authors B.P.Nocek, D.M.Gillner, R.C.Holz, A.Joachimiak, Midwest Center F Structural Genomics (Mcsg)
compound source
Molecule: Succinyl-Diaminopimelate Desuccinylase
Chain: A, B
Synonym: Sdap Desuccinylase, N-Succinyl-Ll-2,6-Diaminohepta Amidohydrolase;
Ec: 3.5.1.18
Engineered: Yes
Organism_scientific: Haemophilus Influenzae
Organism_taxid: 71421
Strain: Rd Kw20
Gene: Dape, Hi0102
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.202 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.176 95.709 181.179 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand SO4, ZN enzyme Hydrolase E.C.3.5.1.18 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for catalysis by the mono- and dimetalated forms of the dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase., Nocek BP, Gillner DM, Fan Y, Holz RC, Joachimiak A, J Mol Biol. 2010 Apr 2;397(3):617-26. Epub 2010 Feb 4. PMID:20138056
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (126 Kb) [Save to disk]
  • Biological Unit Coordinates (3isz.pdb1.gz) 121 Kb
  • LPC: Ligand-Protein Contacts for 3ISZ
  • CSU: Contacts of Structural Units for 3ISZ
  • Structure Factors (626 Kb)
  • Retrieve 3ISZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ISZ from S2C, [Save to disk]
  • Re-refined 3isz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ISZ 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 3ISZ
  • 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
  • 3D motif for 3ISZ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3isz_A] [3isz_B] [3isz]
  • SWISS-PROT database: [P44514]
  • Domain organization of [DAPE_HAEIN] by SWISSPFAM
  • Other resources with information on 3ISZ
  • Community annotation for 3ISZ at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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