3IH7 (Hydrolase,Lyase) Dna date Jul 29, 2009
title Crystal Structure Of Catalytically Active Human 8-Oxoguanine Glycosylase Distally Crosslinked To Guanine-Containing Dna
authors G.L.Verdine, C.M.Crenshaw, K.S.Oo, P.S.Kutchukian
compound source
Molecule: N-Glycosylasedna Lyase
Chain: A
Fragment: Unp Residues 12-325
Synonym: 8-Oxoguanine Dna Glycosylase, Dna-(Apurinic Or Apy Site) Lyase, Ap Lyase;
Ec: 3.2.2.-, 4.2.99.18
Engineered: Yes
Mutation: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mmh, Mutm, Ogg1, Ogh1
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30a

Molecule: 5'-D(Gpgptpapgpapcpcptpgpgpapcpg)-3
Chain: B
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Dna

Molecule: 5'-D(Aptpcptpgpgpapcpcptpgpcpa)-3'
Chain: C
Engineered: Yes
Synthetic: Yes
Other_details: Synthetic Dna
symmetry Space Group: P 65 2 2
R_factor 0.228 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.000 91.000 211.600 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
ligand
enzyme Hydrolase E.C.3.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (65 Kb) [Save to disk]
  • Biological Unit Coordinates (3ih7.pdb1.gz) 60 Kb
  • CSU: Contacts of Structural Units for 3IH7
  • Structure Factors (177 Kb)
  • Retrieve 3IH7 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IH7 from S2C, [Save to disk]
  • Re-refined 3ih7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3IH7 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 3IH7
  • 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
  • 3D motif for 3IH7, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ih7_A] [3ih7_C] [3ih7_B] [3ih7]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3IH7: [ENDO3c ] by SMART
    • Other resources with information on 3IH7
  • Community annotation for 3IH7 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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