3Q1D Ligase date Dec 17, 2010
title The B-Box Domain Of Trim54
authors J.R.Walker, L.Yermekbayeva, F.Mackenzie, A.Dong, J.Weigelt, C.Bou A.M.Edwards, C.H.Arrowsmith, S.Dhe-Paganon
compound source
Molecule: Tripartite Motif-Containing Protein 54
Chain: A
Fragment: B-Box Domain, Unp Residues 122-168
Synonym: Muscle-Specific Ring Finger Protein, Murf, Muscle- Ring Finger Protein 3, Murf-3, Murf3, Ring Finger Protein 3
Ec: 6.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Murf, Murf3, Rnf30, Trim54
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28-Mhl
symmetry Space Group: P 62 2 2
R_factor 0.182 R_Free 0.253
length a length b length c angle alpha angle beta angle gamma
47.276 47.276 87.047 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.15 Å
ligand ZN enzyme Ligase E.C.6.3.2 BRENDA

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • Biological Unit Coordinates (3q1d.pdb1.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 3Q1D
  • CSU: Contacts of Structural Units for 3Q1D
  • Structure Factors (50 Kb)
  • Retrieve 3Q1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3Q1D from S2C, [Save to disk]
  • Re-refined 3q1d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3Q1D 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 3Q1D
  • 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 3Q1D, from MSDmotif at EBI
  • Fold representative 3q1d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3q1d] [3q1d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3Q1D: [BBOX ] by SMART
  • Other resources with information on 3Q1D
  • Community annotation for 3Q1D 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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