5IFW Signaling Protein date Feb 26, 2016
title Quantitative Interaction Mapping Reveals An Extended Ubiquit Regulatory Domain In Aspl That Disrupts Functional P97 Hexa Induces Cell Death
authors Y.Roske, U.Heinemann
compound source
Molecule: Tether Containing Ubx Domain For Glut4
Chain: A
Fragment: Unp Residues 317-504
Synonym: Alveolar Soft Part Sarcoma Chromosomal Region Cand Protein,Alveolar Soft Part Sarcoma Locus,Renal Papillary Carcinoma Protein 17,Ubx Domain-Containing Protein 9;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Aspscr1, Aspl, Rcc17, Tug, Ubxd9, Ubxn9
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Rosetta 2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqlinkg

Molecule: Transitional Endoplasmic Reticulum Atpase
Chain: B
Synonym: Ter Atpase,15s Mg(2+)-Atpase P97 Subunit,Valosin-C Protein,Vcp;
Ec: 3.6.4.6
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vcp
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Rosetta 2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqlinkg
symmetry Space Group: C 2 2 2
R_factor 0.229 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
143.344 208.361 99.129 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand ADP enzyme Hydrolase E.C.3.6.4.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
B
  • deubiquitinase activator act...


  • Primary referenceQuantitative interaction mapping reveals an extended UBX domain in ASPL that disrupts functional p97 hexamers., Arumughan A, Roske Y, Barth C, Forero LL, Bravo-Rodriguez K, Redel A, Kostova S, McShane E, Opitz R, Faelber K, Rau K, Mielke T, Daumke O, Selbach M, Sanchez-Garcia E, Rocks O, Panakova D, Heinemann U, Wanker EE, Nat Commun. 2016 Oct 20;7:13047. doi: 10.1038/ncomms13047. PMID:27762274
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (151 Kb) [Save to disk]
  • Biological Unit Coordinates (5ifw.pdb1.gz) 285 Kb
  • LPC: Ligand-Protein Contacts for 5IFW
  • CSU: Contacts of Structural Units for 5IFW
  • Structure Factors (181 Kb)
  • Retrieve 5IFW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IFW from S2C, [Save to disk]
  • Re-refined 5ifw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5IFW 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 5IFW
  • 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
  • Fold representative 5ifw from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ifw] [5ifw_B] [5ifw_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5IFW: [AAA] [CDC48_2] [CDC48_N] [UBX ] by SMART
  • Other resources with information on 5IFW
  • Community annotation for 5IFW at PDBWiki (http://pdbwiki.org)

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science