2XGP Transferase Dna date Jun 07, 2010
title Yeast Dna Polymerase Eta In Complex With C8-2-Acetylaminoflu Containing Dna
authors S.Scheider, K.Lammens, S.Schorr, K.P.Hopfner, T.Carell
compound source
Molecule: Dna Polymerase Eta
Chain: A, B
Fragment: Residues 1-513
Synonym: Radiation-Sensitive Protein 30
Ec: 2.7.7.7
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pdest007

Molecule: 5'-D(Gptpgpgpaptpgpapg)-3'
Chain: P, Q
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Cp8fgcptpcpaptpcpcpapc)-3'
Chain: T, U
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 41 21 2
R_factor 0.220 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.440 103.440 292.350 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand 8FG, CA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceMechanism of replication blocking and bypass of Y-family polymerase {eta} by bulky acetylaminofluorene DNA adducts., Schorr S, Schneider S, Lammens K, Hopfner KP, Carell T, Proc Natl Acad Sci U S A. 2010 Nov 12. PMID:21076032
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (190 Kb) [Save to disk]
  • Biological Unit Coordinates (2xgp.pdb1.gz) 93 Kb
  • Biological Unit Coordinates (2xgp.pdb2.gz) 93 Kb
  • LPC: Ligand-Protein Contacts for 2XGP
  • CSU: Contacts of Structural Units for 2XGP
  • Structure Factors (237 Kb)
  • Retrieve 2XGP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XGP from S2C, [Save to disk]
  • Re-refined 2xgp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XGP 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 2XGP
  • 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 2XGP, from MSDmotif at EBI
  • Fold representative 2xgp from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xgp_U] [2xgp_T] [2xgp_P] [2xgp_Q] [2xgp] [2xgp_B] [2xgp_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2XGP
  • Community annotation for 2XGP 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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