5TTE Ligase date Nov 03, 2016
title Crystal Structure Of An Rbr E3 Ubiquitin Ligase In Complex W Ub Thioester Intermediate Mimic
authors L.Yuan, Z.Lv, S.K.Olsen
compound source
Molecule: E3 Ubiquitin-Protein Ligase Arih1
Chain: B
Fragment: Unp Residues 1-557
Synonym: H7-Ap2,Hhari,Monocyte Protein 6,Mop-6,Protein Aria Homolog,Ari-1,Ubch7-Binding Protein,Ubcm4-Interacting Prote Ubiquitin-Conjugating Enzyme E2-Binding Protein 1;
Ec: 2.3.2.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Arih1, Ari, Mop6, Ubch7bp, Hussy-27
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Codon Plus
Expression_system_plasmid: Psmt3

Molecule: Ubiquitin-Conjugating Enzyme E2 L3
Chain: E
Fragment: Unp Residues 1-154
Synonym: E2 Ubiquitin-Conjugating Enzyme L3,L-Ubc,Ubch7,Ubi Carrier Protein L3,Ubiquitin-Conjugating Enzyme E2-F1,Ubiqu Protein Ligase L3;
Ec: 2.3.2.23
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ube2l3, Ubce7, Ubch7
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Codon Plus
Expression_system_plasmid: Pet28

Molecule: Ubiquitin
Chain: F
Fragment: Unp Residues 1-76
Engineered: Yes
Mutation: Yes

Organism_scientific: Triticum Aestivum
Organism_common: Wheat
Organism_taxid: 4565
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Codon Plus
symmetry Space Group: P 65 2 2
R_factor 0.226 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
154.234 154.234 285.501 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.50 Å
ligand ZN enzyme Transferase E.C.2.3.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
B


E
  • transcription coactivator ac...


  • F


    Primary referenceStructural insights into the mechanism and E2 specificity of the RBR E3 ubiquitin ligase HHARI., Yuan L, Lv Z, Atkison JH, Olsen SK, Nat Commun. 2017 Aug 8;8(1):211. doi: 10.1038/s41467-017-00272-6. PMID:28790309
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (246 Kb) [Save to disk]
  • Biological Unit Coordinates (5tte.pdb1.gz) 237 Kb
  • LPC: Ligand-Protein Contacts for 5TTE
  • CSU: Contacts of Structural Units for 5TTE
  • Structure Factors (140 Kb)
  • Retrieve 5TTE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5TTE from S2C, [Save to disk]
  • View 5TTE 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 5TTE
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5tte_E] [5tte_F] [5tte_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5TTE
  • Community annotation for 5TTE at PDBWiki (http://pdbwiki.org)

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