6DO5 Ligase date Jun 08, 2018
title Klhdc2 Ubiquitin Ligase In Complex With Usp1 C-End Degron
authors D.V.Rusnac, H.C.Lin, H.C.S.Yen, N.Zheng
compound source
Molecule: Kelch Domain-Containing Protein 2
Chain: A, B
Synonym: Hepatocellular Carcinoma-Associated Antigen 33,Hos Factor Homolog Lcp,Host Cell Factor-Like Protein 1,Hclp-1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Klhdc2, Hca33
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111

Molecule: Usp1 C-End Degron
Chain: D, C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.200 R_Free 0.253
length a length b length c angle alpha angle beta angle gamma
44.496 87.086 88.322 90.00 104.56 90.00
method X-Ray Diffractionresolution 2.50 Å
Primary referenceRecognition of the Diglycine C-End Degron by CRL2(KLHDC2) Ubiquitin Ligase., Rusnac DV, Lin HC, Canzani D, Tien KX, Hinds TR, Tsue AF, Bush MF, Yen HS, Zheng N, Mol Cell. 2018 Dec 6;72(5):813-822.e4. doi: 10.1016/j.molcel.2018.10.021. PMID:30526872
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (111 Kb) [Save to disk]
  • Biological Unit Coordinates (6do5.pdb1.gz) 55 Kb
  • Biological Unit Coordinates (6do5.pdb2.gz) 54 Kb
  • CSU: Contacts of Structural Units for 6DO5
  • Structure Factors (207 Kb)
  • Retrieve 6DO5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DO5 from S2C, [Save to disk]
  • View 6DO5 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 6DO5
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6do5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6do5_C] [6do5_B] [6do5_A] [6do5_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6DO5
  • Community annotation for 6DO5 at PDBWiki (http://pdbwiki.org)

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