1Y8X	Ligase	date	Dec 13, 2004
title	Structural Basis For Recruitment Of Ubc12 By An E2-Binding D Nedd8'S E1
authors	D.T.Huang, A.Paydar, M.Zhuang, M.B.Waddell, J.M.Holton, B.A.Schul
compound		source
Molecule: Ubiquitin-Conjugating Enzyme E2 M Chain: A Synonym: Ubiquitin-Protein Ligase M, Ubiquitin Carrier Prot Nedd8-Conjugating Enzyme Ubc12; Ec: 6.3.2.19 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ube2m, Ubc12 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Ubiquitin-Activating Enzyme E1c Chain: B Synonym: Nedd8-Activating Enzyme E1c, Ubiquitin-Activating Homolog; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ube1c, Uba3 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 21	R_factor 0.242 R_Free 0.259
crystal cell	length a length b length c angle alpha angle beta angle gamma 40.606 61.518 125.938 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.40 Å
ligand	MSE	enzyme	Ligase E.C.6.3.2.19 BRENDA
note	1Y8X is a representative structure
related structures	by homologous chain: 1YOV
Gene Ontology	Chain Function Process Component B
Primary reference	Structural basis for recruitment of Ubc12 by an E2 binding domain in NEDD8's E1., Huang DT, Paydar A, Zhuang M, Waddell MB, Holton JM, Schulman BA, Mol Cell. 2005 Feb 4;17(3):341-50. PMID:15694336

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk] Biological Unit Coordinates (1y8x.pdb1.gz) 43 Kb LPC: Ligand-Protein Contacts for 1Y8X CSU: Contacts of Structural Units for 1Y8X Likely Quarternary Molecular Structure file(s) for 1Y8X Structure Factors (87 Kb) Retrieve 1Y8X in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Y8X from S2C, [Save to disk] Re-refined 1y8x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1Y8X 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 1Y8X

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 1Y8X, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1y8x_B] [1y8x_A] [1y8x] SWISS-PROT database: [Q8TBC4] [P61081] Domain organization of [UBA3_HUMAN] [UBC12_HUMAN] by SWISSPFAM Domains found in 1Y8X: [E2_bind] [UBCc ] by SMART

Other resources with information on 1Y8X

Community annotation for 1Y8X at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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