2KNB	Protein Binding	date	Aug 20, 2009
title	Solution Nmr Structure Of The Parkin Ubl Domain In Complex W Endophilin-A1 Sh3 Domain
authors	J.Trempe, K.Guennadi, C.M.Edna, G.Kalle
compound		source
Molecule: E3 Ubiquitin-Protein Ligase Parkin Chain: A Ec: 6.3.2.- Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Brown Rat,Rat,Rats Organism_taxid: 10116 Gene: Park2, Prkn Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: K12 Expression_system_variant: Bl21 De3 Expression_system_vector: Pgex-6p1
Molecule: Endophilin-A1 Chain: B Synonym: Endophilin-1, Sh3 Domain-Containing Grb2-Like Prot Domain Protein 2a, Sh3p4; Engineered: Yes		Organism_scientific: Rattus Norvegicus Organism_common: Brown Rat,Rat,Rats Organism_taxid: 10116 Gene: Sh3gl2, Sh3d2a, Sh3p4 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: K12 Expression_system_variant: Bl21 De3 Expression_system_vector: Pgex-2tk
method	Solution NMR
ligand		enzyme	Ligase E.C.6.3.2 BRENDA
Primary reference	SH3 domains from a subset of BAR proteins define a Ubl-binding domain and implicate parkin in synaptic ubiquitination., Trempe JF, Chen CX, Grenier K, Camacho EM, Kozlov G, McPherson PS, Gehring K, Fon EA, Mol Cell. 2009 Dec 25;36(6):1034-47. PMID:20064468

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (813 Kb) [Save to disk] Biological Unit Coordinates (2knb.pdb1.gz) 42 Kb CSU: Contacts of Structural Units for 2KNB Original NMR restraints for 2KNB from PDB Retrieve 2KNB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2KNB from S2C, [Save to disk]

View 2KNB 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 2KNB

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2KNB, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2knb_B] [2knb] [2knb_A] SWISS-PROT database: [Q9JK66] [O35179] Domain organization of [PRKN2_RAT] [SH3G2_RAT] by SWISSPFAM Domains found in 2KNB: [SH3] [UBQ ] by SMART

Other resources with information on 2KNB

Community annotation for 2KNB at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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