1SSP Hydrolase Dna date Apr 28, 1999
title Wild-Type Uracil-Dna Glycosylase Bound To Uracil-Containing
authors S.S.Parikh, C.D.Mol, G.Slupphaug, S.Bharati, H.E.Krokan, J.A.Tain
compound source
Molecule: 5'-D(Cptpgptp(D1p)Paptpcptpt)-3'
Chain: A
Engineered: Yes
Synthetic: Yes

Molecule: 5'-D(Apapapgpaptpapapcpapg)-3'
Chain: B
Engineered: Yes
Other_details: Complexed With Uracil

Synthetic: Yes

Molecule: Uracil-Dna Glycosylase
Chain: E
Fragment: Mitochondrial
Synonym: Udg, Ung
Ec: 3.2.2.3
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.198 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
121.700 48.500 65.000 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand ORP, URA enzyme Hydrolase E.C.3.2.2.3 BRENDA
related structures by homologous chain: 1Q3F, 1UGH
Gene
Ontology
ChainFunctionProcessComponent
E


Primary referenceBase excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA., Parikh SS, Mol CD, Slupphaug G, Bharati S, Krokan HE, Tainer JA, EMBO J 1998 Sep 1;17(17):5214-26. PMID:9724657
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk]
  • Biological Unit Coordinates (1ssp.pdb1.gz) 50 Kb
  • LPC: Ligand-Protein Contacts for 1SSP
  • CSU: Contacts of Structural Units for 1SSP
  • Likely Quarternary Molecular Structure file(s) for 1SSP
  • Retrieve 1SSP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1SSP from S2C, [Save to disk]
  • View 1SSP 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 1SSP
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1SSP, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1sspe_, region E [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ssp_B] [1ssp_A] [1ssp_E] [1ssp]
  • SWISS-PROT database: [P13051]
  • Domain organization of [UNG_HUMAN] by SWISSPFAM
  • Domains found in 1SSP: [UDG] [UreE_C ] by SMART
  • Other resources with information on 1SSP
  • Community annotation for 1SSP at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Domain movements in 1SSP from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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