3DDT Ligase date Jun 06, 2008
title Crystal Structure Of The B2 Box From Murf1 In Dimeric State
authors O.Mayans, M.Mrosek
compound source
Molecule: E3 Ubiquitin-Protein Ligase Trim63
Chain: A, B, C
Fragment: B2-Box
Synonym: Tripartite Motif-Containing Protein 63, Muscle-Spe Finger Protein 1, Murf1, Murf-1, Ring Finger Protein 28, St Muscle Ring Zinc Finger Protein, Iris Ring Finger Protein;
Ec: 6.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Petm-11
symmetry Space Group: P 65 2 2
R_factor 0.199 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
76.220 76.220 146.930 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.90 Å
ligand ZN enzyme Ligase E.C.6.3.2 BRENDA
note 3DDT is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceStructural analysis of B-Box 2 from MuRF1: identification of a novel self-association pattern in a RING-like fold., Mrosek M, Meier S, Ucurum-Fotiadis Z, von Castelmur E, Hedbom E, Lustig A, Grzesiek S, Labeit D, Labeit S, Mayans O, Biochemistry. 2008 Oct 7;47(40):10722-30. Epub 2008 Sep 17. PMID:18795805
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (30 Kb) [Save to disk]
  • Biological Unit Coordinates (3ddt.pdb1.gz) 17 Kb
  • Biological Unit Coordinates (3ddt.pdb2.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 3DDT
  • CSU: Contacts of Structural Units for 3DDT
  • Likely Quarternary Molecular Structure file(s) for 3DDT
  • Structure Factors (148 Kb)
  • Retrieve 3DDT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3DDT from S2C, [Save to disk]
  • Re-refined 3ddt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3DDT 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 3DDT
  • 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 3DDT, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ddt_C] [3ddt] [3ddt_A] [3ddt_B]
  • SWISS-PROT database: [Q969Q1]
  • Domain organization of [TRI63_HUMAN] by SWISSPFAM
  • Domain found in 3DDT: [BBOX ] by SMART
  • Other resources with information on 3DDT
  • Community annotation for 3DDT 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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