4BBN	Ligase Signaling Protein	date	Sep 27, 2012
title	Nedd4 Hect-Ub:Ub Complex
authors	E.Maspero, E.Valentini, S.Mari, V.Cecatiello, S.Polo, S.Pasqualat
compound		source
Molecule: E3 Ubiquitin-Protein Ligase Nedd4 Chain: A Fragment: Hect Domain, Residues 892-1318 Synonym: Cell Proliferation-Inducing Gene 53 Protein, Neura Precursor Cell Expressed Developmentally Down-Regulated Pr Nedd-4; Ec: 6.3.2.- Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_variant: Plyss Expression_system_vector_type: Plasmid Expression_system_vector: Pgex-6p-1
Molecule: Polyubiquitin-B Chain: C Fragment: Residues 1-76 Synonym: Ubiquitin Engineered: Yes		Organism_scientific: Bos Taurus Organism_common: Cattle Organism_taxid: 9913 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_variant: Plyss Expression_system_vector_type: Plasmid Expression_system_vector: Pgex-6p-1
Molecule: Polyubiquitin-B Chain: F Fragment: Residues 229-304 Synonym: Ubiquitin Engineered: Yes Mutation: Yes		Organism_scientific: Bos Taurus Organism_common: Cattle Organism_taxid: 9913 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_variant: Plyss Expression_system_vector_type: Plasmid Expression_system_vector: Pgex-6p-1
symmetry	Space Group: H 3 2	R_factor 0.17618 R_Free 0.22443
crystal cell	length a length b length c angle alpha angle beta angle gamma 196.540 196.540 98.770 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.51 Å
ligand		enzyme	Ligase E.C.6.3.2 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Structure of a ubiquitin-loaded HECT ligase reveals the molecular basis for catalytic priming., Maspero E, Valentini E, Mari S, Cecatiello V, Soffientini P, Pasqualato S, Polo S, Nat Struct Mol Biol. 2013 May 5. doi: 10.1038/nsmb.2566. PMID:23644597

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (190 Kb) [Save to disk] Biological Unit Coordinates (4bbn.pdb1.gz) 184 Kb CSU: Contacts of Structural Units for 4BBN Structure Factors (340 Kb) Retrieve 4BBN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4BBN from S2C, [Save to disk] Re-refined 4bbn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4BBN 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 4BBN

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 4BBN, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4bbn_C] [4bbn] [4bbn_A] [4bbn_F] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 4BBN: [HECTc] [UBQ ] by SMART

Other resources with information on 4BBN

Community annotation for 4BBN at PDBWiki (http://pdbwiki.org)

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