3SZQ Hydrolase Dna date Jul 19, 2011
title Structure Of An S. Pombe Aptxdnaampzn Complex
authors P.Tumbale, J.Krahn, R.S.Williams
compound source
Molecule: Aprataxin-Like Protein
Chain: A
Fragment: Aptx Hit-Znf Catalytic Domain (Unp Residues 31-23
Synonym: Hit Family Protein 3
Ec: 3.-.-.-
Engineered: Yes
Organism_scientific: Schizosaccharomyces Pombe
Organism_common: Fission Yeast
Organism_taxid: 284812
Strain: Atcc 38366 972
Gene: Hnt3, Spcc18.09c
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 5'-D(Cpcpcptpg)-3'
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Tpaptpcpgpgpapaptpcpapgpgpg)-3
Chain: C
Engineered: Yes

Synthetic: Yes
symmetry Space Group: I 4 3 2
R_factor 0.165 R_Free 0.211
crystal
cell
length a length b length c angle alpha angle beta angle gamma
157.050 157.050 157.050 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand AMP, BME, ZN enzyme Hydrolase E.C.3 BRENDA
Primary referenceStructure of an aprataxin-DNA complex with insights into AOA1 neurodegenerative disease., Tumbale P, Appel CD, Kraehenbuehl R, Robertson PD, Williams JS, Krahn J, Ahel I, Williams RS, Nat Struct Mol Biol. 2011 Oct 9;18(11):1189-95. doi: 10.1038/nsmb.2146. PMID:21984210
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (50 Kb) [Save to disk]
  • Biological Unit Coordinates (3szq.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 3SZQ
  • CSU: Contacts of Structural Units for 3SZQ
  • Structure Factors (193 Kb)
  • Retrieve 3SZQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3SZQ from S2C, [Save to disk]
  • Re-refined 3szq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3SZQ 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 3SZQ
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3SZQ, from MSDmotif at EBI
  • Fold representative 3szq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3szq] [3szq_A] [3szq_C] [3szq_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3SZQ
  • Community annotation for 3SZQ at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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