6YA6 Cell Cycle date Mar 11, 2020
title Minimal Construct Of Cdc7-Dbf4 Bound To Xl413
authors S.D.Dick, P.Cherepanov
compound source
Molecule: Cell Division Cycle 7-Related Protein Kinase,Cell Cycle 7-Related Protein Kinase,Cell Division Cycle 7-Relate Kinase;
Chain: A
Synonym: Hucdc7,Hucdc7,Hucdc7
Ec: 2.7.11.1,2.7.11.1,2.7.11.1
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cdc7, Cdc7l1
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Protein Dbf4 Homolog A
Chain: B
Synonym: Activator Of S Phase Kinase,Chiffon Homolog A,Dbf4 Finger-Containing Protein 1;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dbf4, Ask, Dbf4a, Zdbf1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.167 R_Free 0.193
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.640 61.640 233.910 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.44 Å
ligand 0SX, BO3, CL, IMD, PEG, SEP, ZN enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceStructural Basis for the Activation and Target Site Specificity of CDC7 Kinase., Dick SD, Federico S, Hughes SM, Pye VE, O'Reilly N, Cherepanov P, Structure. 2020 Jun 5. pii: S0969-2126(20)30179-9. doi:, 10.1016/j.str.2020.05.010. PMID:32521228
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (157 Kb) [Save to disk]
  • Biological Unit Coordinates (6ya6.pdb1.gz) 150 Kb
  • LPC: Ligand-Protein Contacts for 6YA6
  • CSU: Contacts of Structural Units for 6YA6
  • Structure Factors (793 Kb)
  • Retrieve 6YA6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6YA6 from S2C, [Save to disk]
    • View 6YA6 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 6YA6
  • 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: [6ya6_A] [6ya6_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6YA6
  • Community annotation for 6YA6 at PDBWiki (http://pdbwiki.org)

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