2JMO	Ligase	date	Nov 24, 2006
title	Ibr Domain Of Human Parkin
authors	S.A.Beasley, V.A.Hristova, G.S.Shaw
compound		source
Molecule: Parkin Chain: A Fragment: Ibr-Type 1 Domain, Residues 308-384 Synonym: Ubiquitin E3 Ligase Prkn, Parkinson Juvenile Disease Protein 2, Parkinson Disease Protein 2; Ec: 6.3.2.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Park2, Prkn Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3) Star Expression_system_vector_type: Plasmid Expression_system_plasmid: P11 (Modified Pet15b)
method	Solution NMR
ligand	ZN	enzyme	Ligase E.C.6.3.2 BRENDA
Primary reference	Structure of the Parkin in-between-ring domain provides insights for E3-ligase dysfunction in autosomal recessive Parkinson's disease., Beasley SA, Hristova VA, Shaw GS, Proc Natl Acad Sci U S A. 2007 Feb 27;104(9):3095-100. PMID:17360614

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (425 Kb) [Save to disk] LPC: Ligand-Protein Contacts for 2JMO CSU: Contacts of Structural Units for 2JMO Original NMR restraints for 2JMO from PDB Retrieve 2JMO in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2JMO from S2C, [Save to disk]

View 2JMO 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2JMO

Cartoon representation from PDB Cartoon Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 2JMO, from MSDmotif at EBI Fold representative 2jmo from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2jmo_A] SWISS-PROT database: [O60260] Domain organization of [PRKN2_HUMAN] by SWISSPFAM Domain found in 2JMO: [IBR ] by SMART Alignments of the sequence of 2JMO with the sequences similar proteins can be viewed for 2JMO's classification [PRKN2_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [PRKN2_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2JMO

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

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

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