5EOZ Transferase Dna date Nov 10, 2015
title Mutagenicity Of 7-Benzyl Guanine Lesion And Replication By H Polymerase Beta
authors M.C.Koag, S.Lee
compound source
Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7,4.2.99.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Cpcpgpapcp(Gfl) Ptpcpgpcpaptpcpapgpc)-3');
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (5'-D(Gpcptpgpaptpgpcpgpa)-3')
Chain: P
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (5'-D(Pgptpcpgpg)-3')
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.184 R_Free 0.238
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.754 80.015 55.589 90.00 107.76 90.00
method X-Ray Diffractionresolution 2.09 Å
ligand 0KX, GFL, MG, NA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural and kinetic studies of the effect of guanine-N7 alkylation and metal cofactors on DNA replication., Kou Y, Koag MC, Lee S, Biochemistry. 2018 Jun 29. doi: 10.1021/acs.biochem.8b00331. PMID:29957995
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk]
  • Biological Unit Coordinates (5eoz.pdb1.gz) 71 Kb
  • LPC: Ligand-Protein Contacts for 5EOZ
  • CSU: Contacts of Structural Units for 5EOZ
  • Structure Factors (275 Kb)
  • Retrieve 5EOZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EOZ from S2C, [Save to disk]
  • Re-refined 5eoz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5EOZ 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 5EOZ
  • 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
  • Fold representative 5eoz from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5eoz_D] [5eoz] [5eoz_T] [5eoz_P] [5eoz_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5EOZ: [HhH1] [POLXc ] by SMART
  • Other resources with information on 5EOZ
  • Community annotation for 5EOZ at PDBWiki (http://pdbwiki.org)

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