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; 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: P 1 21 1	R_factor 0.201 R_Free 0.251
crystal cell	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 Diffraction	resolution	2.46 Å
ligand	ADP, EDO, GOL, MG, SO4	enzyme	Hydrolase E.C.3.6.4.6 BRENDA
Gene Ontology	Chain Function Process Component D, B
Primary reference	Quantitative 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] (213 Kb) [Save to disk] Biological Unit Coordinates (5ifs.pdb1.gz) 206 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

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

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

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