4CIS Hydrolase date Dec 15, 2013
title Structure Of Mutm In Complex With Carbocyclic 8-Oxo-G Contai
authors S.Schneider, K.Sadeghian, D.Flaig, I.D.Blank, R.Strasser, D.Stath M.Winnacker, T.Carell, C.Ochsenfeld
compound source
Molecule: Formamidopyrimidin Dna Glycosylase
Chain: A, B
Synonym: Fapy-Dna Glycosylase, Dna-(Apurinic Or Apyrimidini Lyase Mutm, Formamidopyrimidin Dna Glycosylase;
Ec: 3.2.2.23
Engineered: Yes
Organism_scientific: Lactococcus Lactis Subsp. Cremoris
Organism_taxid: 1359
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_plasmid: Ppsg-Iba3

Molecule: Dna
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.214 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.063 112.692 132.882 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand 68Z, BU3, ZN enzyme Hydrolase E.C.3.2.2.23 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceRibose-Protonated DNA Base Excision Repair: A Combined Theoretical and Experimental Study., Sadeghian K, Flaig D, Blank ID, Schneider S, Strasser R, Stathis D, Winnacker M, Carell T, Ochsenfeld C, Angew Chem Int Ed Engl. 2014 Jul 25. doi: 10.1002/anie.201403334. PMID:25065673
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (214 Kb) [Save to disk]
  • Biological Unit Coordinates (4cis.pdb1.gz) 204 Kb
  • LPC: Ligand-Protein Contacts for 4CIS
  • CSU: Contacts of Structural Units for 4CIS
  • Structure Factors (372 Kb)
  • Retrieve 4CIS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4CIS from S2C, [Save to disk]
  • Re-refined 4cis structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4CIS 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 4CIS
  • 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 4CIS, from MSDmotif at EBI
  • Fold representative 4cis from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4cis_A] [4cis_B] [4cis] [4cis_D] [4cis_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4CIS: [Fapy_DNA_glyco] [H2TH ] by SMART
  • Other resources with information on 4CIS
  • Community annotation for 4CIS at PDBWiki (http://pdbwiki.org)

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