3B0F Protein Binding date Jun 09, 2011
title Crystal Structure Of The Uba Domain Of P62 And Its Interacti Ubiquitin
authors S.Isogai, D.Morimoto, K.Arita, S.Unzai, T.Tenno, J.Hasegawa, Y.Sou M.Komatsu, K.Tanaka, M.Shirakawa, H.Tochio
compound source
Molecule: Sequestosome-1
Chain: A, B
Fragment: Uba Domain (Unp Residues 391-438)
Synonym: Stone14, Ubiquitin-Binding Protein P62
Engineered: Yes
Organism_scientific: Mus Musculus
Organism_common: Mouse
Organism_taxid: 10090
Gene: Sqstm1, A170, Stap
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p1
symmetry Space Group: P 43 21 2
R_factor 0.170 R_Free 0.201
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.967 72.967 32.560 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.40 Å
ligand SO4 enzyme
note 3B0F is a representative structure
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (42 Kb) [Save to disk]
  • Biological Unit Coordinates (3b0f.pdb1.gz) 36 Kb
  • LPC: Ligand-Protein Contacts for 3B0F
  • CSU: Contacts of Structural Units for 3B0F
  • Structure Factors (244 Kb)
  • Retrieve 3B0F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3B0F from S2C, [Save to disk]
  • Re-refined 3b0f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3B0F 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 3B0F
  • 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 3B0F, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3b0f_A] [3b0f] [3b0f_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3B0F: [UBA ] by SMART
  • Other resources with information on 3B0F
  • Community annotation for 3B0F at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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