5BK4 Hydrolase Dna date Sep 12, 2017
title Cryo-Em Structure Of Mcm2-7 Double Hexamer On Dsdna
authors H.Li, Z.Yuan, L.Bai
compound source
Molecule: Dna Replication Licensing Factor Mcm2
Chain: 2, A
Synonym: Minichromosome Maintenance Protein 2
Ec: 3.6.4.12
Engineered: Yes
 Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Mcm2, Ybl023c, Ybl0438
Expression_system: Saccharomyces Cerevisiae
Expression_system_common: Baker'S Yeast
Expression_system_taxid: 4932

Molecule: Dna Replication Licensing Factor Mcm3
Chain: 3, B
Synonym: Minichromosome Maintenance Protein 3
Ec: 3.6.4.12
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Mcm3, Yel032w, Sygp-Orf23
Expression_system: Saccharomyces Cerevisiae
Expression_system_common: Baker'S Yeast
Expression_system_taxid: 4932

Molecule: Dna Replication Licensing Factor Mcm4
Chain: 4, C
Synonym: Cell Division Control Protein 54
Ec: 3.6.4.12
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Mcm4, Cdc54, Hcd21, Ypr019w, Yp9531.13
Expression_system: Saccharomyces Cerevisiae
Expression_system_common: Baker'S Yeast
Expression_system_taxid: 4932

Molecule: Dna Replication Licensing Factor Mcm5
Chain: 5, D
Synonym: Minichromosome Maintenance Protein 5, Cell Divisio Protein 46;
Ec: 3.6.4.12
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Mcm5, Cdc46, Ylr274w, L9328.1
Expression_system: Saccharomyces Cerevisiae
Expression_system_common: Baker'S Yeast
Expression_system_taxid: 4932

Molecule: Dna Replication Licensing Factor Mcm6
Chain: 6, E
Synonym: Minichromosome Maintenance Protein 6
Ec: 3.6.4.12
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Mcm6, Ygl201c
Expression_system: Saccharomyces Cerevisiae
Expression_system_common: Baker'S Yeast
Expression_system_taxid: 4932

Molecule: Dna Replication Licensing Factor Mcm7
Chain: 7, F
Synonym: Cell Division Control Protein 47, Minichromosome M Protein 7;
Ec: 3.6.4.12
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Mcm7, Cdc47, Ybr202w, Ybr1441
Expression_system: Saccharomyces Cerevisiae
Expression_system_common: Baker'S Yeast
Expression_system_taxid: 4932

Molecule: Dna (60-Mer), Strand 1
Chain: S
Engineered: Yes
Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932

Molecule: Dna (60-Mer), Strand 2
Chain: O
Engineered: Yes
Synthetic: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.90 Å
ligand ADP enzyme Hydrolase E.C.3.6.4.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
3, B
  • chromatin silencing at telom...

    • 4, C


    6, E


    A, 2


    D, 5


    F, 7
  • chromatin silencing at telom...

    • Primary referenceCryo-EM structure of Mcm2-7 double hexamer on DNA suggests a lagging-strand DNA extrusion model., Noguchi Y, Yuan Z, Bai L, Schneider S, Zhao G, Stillman B, Speck C, Li H, Proc Natl Acad Sci U S A. 2017 Oct 25. pii: 201712537. doi:, 10.1073/pnas.1712537114. PMID:29078375
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1162 Kb) [Save to disk]
  • Biological Unit Coordinates (5bk4.pdb1.gz) 1139 Kb
  • LPC: Ligand-Protein Contacts for 5BK4
  • CSU: Contacts of Structural Units for 5BK4
  • Retrieve 5BK4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5BK4 from S2C, [Save to disk]
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  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 5BK4
  • 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: [5bk4_2] [5bk4_3] [5bk4_6] [5bk4_E] [5bk4_A] [5bk4_4] [5bk4_S] [5bk4_O] [5bk4_B] [5bk4_D] [5bk4_5] [5bk4_C] [5bk4_F] [5bk4_7]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5BK4
  • Community annotation for 5BK4 at PDBWiki (http://pdbwiki.org)

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