5J28 Hydrolase Protein Binding date Mar 29, 2016
title Ki67-Pp1g (Protein Phosphatase 1, Gamma Isoform) Holoenzyme
authors G.S.Kumar, W.Peti, R.Page
compound source
Molecule: Serinethreonine-Protein Phosphatase Pp1-Gamma Ca Subunit;
Chain: A, B
Fragment: Unp Residues 7-308
Synonym: Pp-1g,Protein Phosphatase 1c Catalytic Subunit
Ec: 3.1.3.16
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ppp1cc
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Rp1b

Molecule: Antigen Ki-67
Chain: C, D
Fragment: Unp Residues 496-536
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mki67
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-M30 Mbp
symmetry Space Group: P 61
R_factor 0.154 R_Free 0.197
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.832 90.832 206.717 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
ligand MLI, NA enzyme Hydrolase E.C.3.1.3.16 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe Ki-67 and RepoMan mitotic phosphatases assemble via an identical, yet novel mechanism., Kumar GS, Gokhan E, De Munter S, Bollen M, Vagnarelli P, Peti W, Page R, Elife. 2016 Aug 30;5. pii: e16539. doi: 10.7554/eLife.16539. PMID:27572260
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (5j28.pdb1.gz) 56 Kb
  • Biological Unit Coordinates (5j28.pdb2.gz) 55 Kb
  • LPC: Ligand-Protein Contacts for 5J28
  • CSU: Contacts of Structural Units for 5J28
  • Structure Factors (811 Kb)
  • Retrieve 5J28 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5J28 from S2C, [Save to disk]
  • Re-refined 5j28 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5J28 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 5J28
  • 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 5j28 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5j28_D] [5j28_C] [5j28_A] [5j28_B] [5j28]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5J28: [PP2Ac ] by SMART
  • Other resources with information on 5J28
  • Community annotation for 5J28 at PDBWiki (http://pdbwiki.org)

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