6F8F Ligase date Dec 13, 2017
title Co-Crystal Structure Of Spop Math Domain And Human Pdx1 Frag
authors M.S.Ostertag, G.M.Popowicz, M.Sattler
compound source
Molecule: Speckle-Type Poz Protein
Chain: D
Synonym: Hib Homolog 1,Roadkill Homolog 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Spop
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Pancreasduodenum Homeobox Protein 1
Chain: G
Synonym: Pdx-1,Glucose-Sensitive Factor,Gsf,Insulin Promote 1,Ipf-1,Insulin Upstream Factor 1,Iuf-1,Isletduodenum Home Idx-1,Somatostatin-Transactivating Factor 1,Stf-1;
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 65 2 2
R_factor 0.215 R_Free 0.274
length a length b length c angle alpha angle beta angle gamma
53.925 53.925 207.410 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
Primary referenceThe Structure of the SPOP-Pdx1 Interface Reveals Insights into the Phosphorylation-Dependent Binding Regulation., Ostertag MS, Messias AC, Sattler M, Popowicz GM, Structure. 2018 Oct 29. pii: S0969-2126(18)30366-6. doi:, 10.1016/j.str.2018.10.005. PMID:30449689
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (6f8f.pdb1.gz) 25 Kb
  • CSU: Contacts of Structural Units for 6F8F
  • Structure Factors (344 Kb)
  • Retrieve 6F8F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6F8F from S2C, [Save to disk]
  • View 6F8F 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 6F8F
  • 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 6f8f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6f8f_D] [6f8f_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6F8F
  • Community annotation for 6F8F at PDBWiki (http://pdbwiki.org)

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