5CVM	Hydrolase Signaling Protein	date	Jul 27, 2015
title	Usp46~Ubiquitin Bea Covalent Complex
authors	S.F.Harris, J.Yin
compound		source
Molecule: Ubiquitin Carboxyl-Terminal Hydrolase 46 Chain: A Fragment: Unp Residues 25-366 Synonym: Deubiquitinating Enzyme 46,Ubiquitin Thioesterase Ubiquitin-Specific-Processing Protease 46; Ec: 3.4.19.12 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Usp46 Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_vector_type: Baculovirus
Molecule: Polyubiquitin-B Chain: B Fragment: Unp Residues 1-76 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ubb Expression_system: Trichoplusia Ni Expression_system_common: Cabbage Looper Expression_system_taxid: 7111 Expression_system_vector_type: Baculovirus
symmetry	Space Group: C 2 2 21	R_factor 0.176 R_Free 0.197
crystal cell	length a length b length c angle alpha angle beta angle gamma 90.613 105.120 134.656 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand	ZN	enzyme	Hydrolase E.C.3.4.19.12 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structural Insights into WD-Repeat 48 Activation of Ubiquitin-Specific Protease 46., Yin J, Schoeffler AJ, Wickliffe K, Newton K, Starovasnik MA, Dueber EC, Harris SF, Structure. 2015 Sep 12. pii: S0969-2126(15)00359-7. doi:, 10.1016/j.str.2015.08.010. PMID:26388029

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (79 Kb) [Save to disk] Biological Unit Coordinates (5cvm.pdb1.gz) 74 Kb LPC: Ligand-Protein Contacts for 5CVM CSU: Contacts of Structural Units for 5CVM Structure Factors (1127 Kb) Retrieve 5CVM in mmCIF format [Save to disk] Re-refined 5cvm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5CVM 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 5CVM

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: [5cvm] [5cvm_A] [5cvm_B] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 5CVM: [UBQ ] by SMART

Other resources with information on 5CVM

Community annotation for 5CVM at PDBWiki (http://pdbwiki.org)

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