5HF7 Hydrolase Dna date Jan 06, 2016
title Tdg Enzyme-Substrate Complex
authors E.Pozharski, S.S.Malik, A.C.Drohat
compound source
Molecule: Gt Mismatch-Specific Thymine Dna Glycosylase
Chain: A
Synonym: Thymine-Dna Glycosylase,Htdg
Ec: 3.2.2.29
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tdg
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (28-Mer)
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Unidentified
Organism_taxid: 32644

Molecule: Dna (28-Mer)
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Unidentified
Organism_taxid: 32644
symmetry Space Group: C 1 2 1
R_factor 0.186 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
97.030 52.750 81.340 90.00 95.18 90.00
method X-Ray Diffractionresolution 1.54 Å
ligand UF2 enzyme Hydrolase E.C.3.2.2.29 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis of damage recognition by thymine DNA glycosylase: Key roles for N-terminal residues., Coey CT, Malik SS, Pidugu LS, Varney KM, Pozharski E, Drohat AC, Nucleic Acids Res. 2016 Aug 31. pii: gkw768. PMID:27580719
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk]
  • Biological Unit Coordinates (5hf7.pdb1.gz) 119 Kb
  • LPC: Ligand-Protein Contacts for 5HF7
  • CSU: Contacts of Structural Units for 5HF7
  • Structure Factors (4104 Kb)
  • Retrieve 5HF7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5HF7 from S2C, [Save to disk]
  • Re-refined 5hf7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5HF7 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 5HF7
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5hf7] [5hf7_A] [5hf7_D] [5hf7_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5HF7: [UDG] [UreE_C ] by SMART
    • Other resources with information on 5HF7
  • Community annotation for 5HF7 at PDBWiki (http://pdbwiki.org)

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