3L1Z	Ligase	date	Dec 14, 2009
title	Crystal Structure Of The U-Box Domain Of Human E4b Ubiquitin Complex With Ubch5c E2 Ubiquitin Conjugating Enzyme
authors	R.Benirschke, J.R.Thompson, G.Mer
compound		source
Molecule: Ubiquitin-Conjugating Enzyme E2 D3 Chain: A Synonym: Ubiquitin-Protein Ligase D3, Ubiquitin Carrier Pro Ubiquitin-Conjugating Enzyme E2-17 Kda 3, E2(17)Kb 3; Ec: 6.3.2.19 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ube2d3, Ubch5c Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pt7.7
Molecule: Ubiquitin Conjugation Factor E4 B Chain: B Fragment: U Box Domain, Residues 1208-1302 Synonym: Ubiquitin Fusion Degradation Protein 2, Homozygous In Neuroblastoma 1; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ube4b, Hdnb1, Kiaa0684, Ufd2 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 (De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
symmetry	Space Group: P 6 2 2	R_factor 0.232 R_Free 0.279
crystal cell	length a length b length c angle alpha angle beta angle gamma 142.708 142.708 83.133 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	3.17 Å
ligand		enzyme	Ligase E.C.6.3.2.19 BRENDA
Gene Ontology	Chain Function Process Component A B
Primary reference	Molecular basis for the association of human E4B U box ubiquitin ligase with E2-conjugating enzymes UbcH5c and Ubc4., Benirschke RC, Thompson JR, Nomine Y, Wasielewski E, Juranic N, Macura S, Hatakeyama S, Nakayama KI, Botuyan MV, Mer G, Structure. 2010 Aug 11;18(8):955-65. PMID:20696396

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (87 Kb) [Save to disk] Biological Unit Coordinates (3l1z.pdb1.gz) 79 Kb Biological Unit Coordinates (3l1z.pdb2.gz) 79 Kb CSU: Contacts of Structural Units for 3L1Z Structure Factors (154 Kb) Retrieve 3L1Z in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3L1Z from S2C, [Save to disk] Re-refined 3l1z structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3L1Z in 3D

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Visual 3D analysis of 3L1Z

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 3L1Z, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3l1z_A] [3l1z] [3l1z_B] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3L1Z: [UBCc] [Ubox ] by SMART

Other resources with information on 3L1Z

Community annotation for 3L1Z at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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