6J8F Peptide Binding Protein Hydrolase date Jan 18, 2019
title Crystal Structure Of Svbp-Vash1 With Peptide Mimic The C-Ter Alpha-Tubulin
authors S.Liao, J.Gao, C.Xu, Structural Genomics Consortium (Sgc)
compound source
Molecule: Small Vasohibin-Binding Protein
Chain: A
Synonym: Coiled Coil Domain-Containing Protein 23
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Svbp, Ccdc23
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Tubulinyl-Tyr Carboxypeptidase 1
Chain: B
Synonym: Tubulin Carboxypeptidase 1,Tyrosine Carboxypeptida 1,Vasohibin-1;
Ec: 3.4.17.17
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vash1, Kiaa1036, Vash
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 8-Mer Peptide
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 21 21 2
R_factor 0.200 R_Free 0.237
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.950 108.377 46.896 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.28 Å
ligand
enzyme Hydrolase E.C.3.4.17.17 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceMolecular basis of vasohibins-mediated detyrosination and its impact on spindle function and mitosis., Liao S, Rajendraprasad G, Wang N, Eibes S, Gao J, Yu H, Wu G, Tu X, Huang H, Barisic M, Xu C, Cell Res. 2019 Jun 6. pii: 10.1038/s41422-019-0187-y. doi:, 10.1038/s41422-019-0187-y. PMID:31171830
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (92 Kb) [Save to disk]
  • Biological Unit Coordinates (6j8f.pdb1.gz) 87 Kb
  • CSU: Contacts of Structural Units for 6J8F
  • Structure Factors (441 Kb)
  • Retrieve 6J8F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6J8F from S2C, [Save to disk]
  • View 6J8F 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 6J8F
  • 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: [6j8f_B] [6j8f_C] [6j8f_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6J8F
  • Community annotation for 6J8F at PDBWiki (http://pdbwiki.org)

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