3TDU	Ligase Protein Binding	date	Aug 11, 2011
title	N-Terminal Acetylation Acts As An Avidity Enhancer Within An Interconnected Multiprotein Complex: Structure Of A Human C Dcn1p-Acetylated Ubc12n Complex
authors	D.C.Scott, J.K.Monda, E.J.Bennett, J.W.Harper, B.A.Schulman
compound		source
Molecule: Dcn1-Like Protein 1 Chain: A, B Fragment: Unp Residues 62-259 Synonym: Dcun1 Domain-Containing Protein 1, Defective In Cu Neddylation Protein 1-Like Protein 1, Squamous Cell Carcino Oncogene; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Dcun1d1, Dcun1l1, Rp42, Sccro Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex
Molecule: Cullin-1 Chain: C, D Fragment: Unp Residues 702-776 Synonym: Cul-1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cul1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex
Molecule: Nedd8-Conjugating Enzyme Ubc12 Chain: E, F Fragment: Unp Residues 2-15 Synonym: Nedd8 Carrier Protein, Nedd8 Protein Ligase, Ubiqu Conjugating Enzyme E2 M; Ec: 6.3.2.- Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
symmetry	Space Group: C 1 2 1	R_factor 0.206 R_Free 0.232
crystal cell	length a length b length c angle alpha angle beta angle gamma 135.431 65.454 64.182 90.00 104.73 90.00
method	X-Ray Diffraction	resolution	1.50 Å
ligand	ACE	enzyme	Ligase E.C.6.3.2 BRENDA
note	3TDU is a representative structure
Gene Ontology	Chain Function Process Component D, C
Primary reference	N-Terminal Acetylation Acts as an Avidity Enhancer Within an Interconnected Multiprotein Complex., Scott DC, Monda JK, Bennett EJ, Harper JW, Schulman BA, Science. 2011 Sep 22. PMID:21940857

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (218 Kb) [Save to disk] Biological Unit Coordinates (3tdu.pdb1.gz) 105 Kb Biological Unit Coordinates (3tdu.pdb2.gz) 109 Kb LPC: Ligand-Protein Contacts for 3TDU CSU: Contacts of Structural Units for 3TDU Structure Factors (1811 Kb) Retrieve 3TDU in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3TDU from S2C, [Save to disk] Re-refined 3tdu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3TDU 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 3TDU

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 3TDU, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3tdu_C] [3tdu_A] [3tdu_D] [3tdu] [3tdu_B] [3tdu_E] [3tdu_F] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3TDU: [Cullin_Nedd8 ] by SMART

Other resources with information on 3TDU

Community annotation for 3TDU at PDBWiki (http://pdbwiki.org)

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