2Y43 Ligase date Jan 04, 2011
title Rad18 Ubiquitin Ligase Ring Domain Structure
authors R.G.Hibbert, T.K.Sixma
compound source
Molecule: E3 Ubiquitin-Protein Ligase Rad18
Chain: A, B
Fragment: Ring Domain, Residues 1-99
Synonym: Rad18, Postreplication Repair Protein Rad18, Ring Protein 73, Hhr18, Hrad18;
Ec: 6.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet
symmetry Space Group: C 1 2 1
R_factor 0.17505 R_Free 0.22311
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.646 29.357 69.736 90.00 125.05 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand ZN enzyme Ligase E.C.6.3.2 BRENDA
note 2Y43 is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceSymmetry and Asymmetry of the RING-RING Dimer of Rad18., Huang A, Hibbert RG, de Jong RN, Das D, Sixma TK, Boelens R, J Mol Biol. 2011 Jul 15;410(3):424-35. Epub 2011 Apr 27. PMID:21549715
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (66 Kb) [Save to disk]
  • Biological Unit Coordinates (2y43.pdb1.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 2Y43
  • CSU: Contacts of Structural Units for 2Y43
  • Structure Factors (309 Kb)
  • Retrieve 2Y43 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y43 from S2C, [Save to disk]
  • Re-refined 2y43 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y43 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 2Y43
  • 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 2Y43, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y43_B] [2y43_A] [2y43]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2Y43: [RING ] by SMART
  • Other resources with information on 2Y43
  • Community annotation for 2Y43 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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