1AKZ Glycosidase date May 27, 1997
title Human Uracil-Dna Glycosylase
authors J.A.Tainer, C.D.Mol
compound source
Molecule: Uracil-Dna Glycosylase
Chain: A
Synonym: Udg, Ung
Ec: 3.2.2.-
Engineered: Yes
Mutation: Yes
Other_details: Structure Is That Of Recombinant Human Uraci Glycosylase In Which The 84 N-Terminal Amino Acids Coded Fo Ung Gene Have Been Replaced By Three Residues From The Expr Vector
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.189 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.760 55.270 84.970 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.57 Å
ligand
enzyme Hydrolase E.C.3.2.2 BRENDA
related structures by homologous chain: 1EMH
Gene
Ontology
ChainFunctionProcessComponent
A


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] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (1akz.pdb1.gz) 40 Kb
  • CSU: Contacts of Structural Units for 1AKZ
  • Likely Quarternary Molecular Structure file(s) for 1AKZ
  • Structure Factors (480 Kb)
  • Retrieve 1AKZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1AKZ from S2C, [Save to disk]
  • Re-refined 1akz structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1AKZ 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 1AKZ
  • 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 1AKZ, from MSDmotif at EBI
  • Genome occurence of 1AKZ's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1akz__, region [Jmol] [rasmolscript] [script source]
  • Fold representative 1akz from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1akz_A] [1akz]
  • SWISS-PROT database: [P13051]
  • Domain organization of [UNG_HUMAN] by SWISSPFAM
  • Domains found in 1AKZ: [UDG] [UreE_C ] by SMART
  • Other resources with information on 1AKZ
  • Community annotation for 1AKZ 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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