1JBB	Ligase	date	Jun 03, 2001
title	Ubiquitin Conjugating Enzyme, Ubc13
authors	A.P.Vandemark, R.M.Hofmann, C.Tsui, C.M.Pickart, C.Wolberger
compound		source
Molecule: Ubiquitin Conjugating Enzyme E2-17.5 Kda Chain: A, B Ec: 6.3.2.19 Engineered: Yes		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 4932 Gene: Ubc13 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21pjy2 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex Other_details: Gst-Fusion
symmetry	Space Group: P 1 21 1	R_factor 0.183 R_Free 0.255
crystal cell	length a length b length c angle alpha angle beta angle gamma 25.960 129.390 42.920 90.00 96.42 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand		enzyme	Ligase E.C.6.3.2.19 BRENDA
related structures	by homologous chain: 1J7D
Gene Ontology	Chain Function Process Component A, B
Primary reference	Molecular insights into polyubiquitin chain assembly: crystal structure of the Mms2/Ubc13 heterodimer., VanDemark AP, Hofmann RM, Tsui C, Pickart CM, Wolberger C, Cell 2001 Jun 15;105(6):711-20. PMID:11440714

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (53 Kb) [Save to disk] Biological Unit Coordinates (1jbb.pdb1.gz) 25 Kb Biological Unit Coordinates (1jbb.pdb2.gz) 26 Kb CSU: Contacts of Structural Units for 1JBB Likely Quarternary Molecular Structure file(s) for 1JBB Structure Factors (128 Kb) Retrieve 1JBB in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1JBB from S2C, [Save to disk] Re-refined 1jbb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1JBB 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 1JBB

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 1JBB, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1jbba_, region A [Jmol] [rasmolscript] [script source]     - Domain d1jbbb_, region B [Jmol] [rasmolscript] [script source] Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1jbb_A] [1jbb] [1jbb_B] SWISS-PROT database: [P52490] Domain organization of [UBC13_YEAST] by SWISSPFAM Domain found in 1JBB: [UBCc ] by SMART

Other resources with information on 1JBB

Community annotation for 1JBB at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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