1PJJ Hydrolase Dna date Jun 03, 2003
title Complex Between The Lactococcus Lactis Fpg And An Abasic Sit Containing Dna.
authors L.Serre, K.Pereira De Jesus, S.Boiteux, C.Zelwer, B.Castaing
compound source
Molecule: Dna (5'-D(Cptpcptptptp(3dr)Ptptptpcpt 3');
Chain: D
Engineered: Yes
Synthetic: Yes

Molecule: Dna (5'-D(Gpcpgpapgpapapapcpapapapgp
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Formamidopyrimidine-Dna Glycosylase
Chain: A
Synonym: Fapy-Dna Glycosylase
Ec: 3.2.2.23
Engineered: Yes
Mutation: Yes

Organism_scientific: Lactococcus Lactis
Organism_taxid: 1358
Gene: Mutm Or Fpg
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmal-C
symmetry Space Group: P 41 21 2
R_factor 0.202 R_Free 0.220
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.892 91.892 142.420 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand 3DR, GOL, ZN enzyme Hydrolase E.C.3.2.2.23 BRENDA
related structures by homologous chain: 1PJI, 1TDZ
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural insights into abasic site for Fpg specific binding and catalysis: comparative high-resolution crystallographic studies of Fpg bound to various models of abasic site analogues-containing DNA., Pereira de Jesus K, Serre L, Zelwer C, Castaing B, Nucleic Acids Res. 2005 Oct 20;33(18):5936-44. Print 2005. PMID:16243784
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (1pjj.pdb1.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 1PJJ
  • CSU: Contacts of Structural Units for 1PJJ
  • Likely Quarternary Molecular Structure file(s) for 1PJJ
  • Structure Factors (393 Kb)
  • Retrieve 1PJJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PJJ from S2C, [Save to disk]
  • Re-refined 1pjj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PJJ 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 1PJJ
  • 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 1PJJ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pjja2, region A:1-131 [Jmol] [rasmolscript] [script source]
        - Domain d1pjja1, region A:132-223 [Jmol] [rasmolscript] [script source]
        - Domain d1pjja3, region A:224-271 [Jmol] [rasmolscript] [script source]
  • Fold representative 1pjj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1pjj_D] [1pjj_A] [1pjj] [1pjj_E]
  • SWISS-PROT database: [P42371]
  • Domain organization of [FPG_LACLC] by SWISSPFAM
  • Domains found in 1PJJ: [Fapy_DNA_glyco] [H2TH ] by SMART
  • Other resources with information on 1PJJ
  • Community annotation for 1PJJ 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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