5VZU Cell Cycle date May 29, 2017
title Crystal Structure Of The Skp1-Fbxo31-Cyclin D1 Complex
authors Y.Li, K.Jin, B.Hao
compound source
Molecule: S-Phase Kinase-Associated Protein 1
Chain: A, C
Synonym: Cyclin-Acdk2-Associated Protein P19,P19a,Organ Of Protein 2,Ocp-2,Organ Of Corti Protein II,Ocp-II,Rna Polyme Elongation Factor-Like Protein,Siii,Transcription Elongatio Polypeptide 1-Like,P19skp1;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Skp1, Emc19, Ocp2, Skp1a, Tceb1l
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Pet15b

Molecule: F-Box Only Protein 31
Chain: B, D
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fbxo31, Fbx14, Fbx31, Pp2386
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Pet15b

Molecule: Cyclin D1
Chain: E, F
Fragment: Unp Residues 109-125
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: C 1 2 1
R_factor 0.180 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
87.679 156.235 155.522 90.00 104.21 90.00
method X-Ray Diffractionresolution 2.70 Å
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceStructural basis of the phosphorylation-independent recognition of cyclin D1 by the SCF(FBXO31) ubiquitin ligase., Li Y, Jin K, Bunker E, Zhang X, Luo X, Liu X, Hao B, Proc Natl Acad Sci U S A. 2018 Jan 9;115(2):319-324. doi:, 10.1073/pnas.1708677115. Epub 2017 Dec 26. PMID:29279382
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (407 Kb) [Save to disk]
  • Biological Unit Coordinates (5vzu.pdb1.gz) 200 Kb
  • Biological Unit Coordinates (5vzu.pdb2.gz) 202 Kb
  • CSU: Contacts of Structural Units for 5VZU
  • Structure Factors (782 Kb)
  • Retrieve 5VZU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5VZU from S2C, [Save to disk]
  • View 5VZU 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 5VZU
  • 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 5vzu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5vzu_D] [5vzu_F] [5vzu_C] [5vzu_B] [5vzu_E] [5vzu_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5VZU
  • Community annotation for 5VZU at PDBWiki (http://pdbwiki.org)

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