5IFS 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, A.Arumughan, U.Heinemann, E.Wanker
compound source
Molecule: Tether Containing Ubx Domain For Glut4
Chain: A, C
Fragment: Unp Residues 317-553
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: Rosetta2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqlinkg

Molecule: Transitional Endoplasmic Reticulum Atpase
Chain: B, D
Synonym: Ter Atpase,15s Mg(2+)-Atpase P97 Subunit,Valosin-C Protein,Vcp;
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: P 1 21 1
R_factor 0.201 R_Free 0.251
length a length b length c angle alpha angle beta angle gamma
69.844 132.914 96.121 90.00 110.15 90.00
method X-Ray Diffractionresolution 2.46 Å
ligand ADP, EDO, GOL, MG, SO4 enzyme Hydrolase E.C. BRENDA
D, B

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] (217 Kb) [Save to disk]
  • Biological Unit Coordinates (5ifs.pdb1.gz) 210 Kb
  • LPC: Ligand-Protein Contacts for 5IFS
  • CSU: Contacts of Structural Units for 5IFS
  • Structure Factors (507 Kb)
  • Retrieve 5IFS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IFS from S2C, [Save to disk]
  • Re-refined 5ifs structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5IFS 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 5IFS
  • 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 5ifs from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ifs_C] [5ifs_B] [5ifs_D] [5ifs_A] [5ifs]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5IFS: [AAA] [CDC48_2] [CDC48_N] [UBX ] by SMART
  • Other resources with information on 5IFS
  • Community annotation for 5IFS at PDBWiki (http://pdbwiki.org)

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