6HTS Dna Binding Protein date Oct 04, 2018
title Cryo-Em Structure Of The Human Ino80 Complex Bound To Nucleo
authors R.Ayala, O.Willhoft, R.J.Aramayo, M.Wilkinson, E.A.Mccormack, L.O D.B.Wigley, X.Zhang
compound source
Molecule: Ruvb-Like 1
Chain: A, C, E
Synonym: 49 Kda Tata Box-Binding Protein-Interacting Protei Tbp-Interacting Protein,54 Kda Erythrocyte Cytosolic Protei Ino80 Complex Subunit H,Nuclear Matrix Protein 238,Nmp 238, Tip49a,Tip60-Associated Protein 54-Alpha,Tap54-Alpha;
Ec: 3.6.4.12
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ruvbl1, Ino80h, Nmp238, Tip49, Tip49a
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_variant: Sf9

Molecule: Ruvb-Like 2
Chain: B, D, F
Synonym: 48 Kda Tata Box-Binding Protein-Interacting Protei Tbp-Interacting Protein,51 Kda Erythrocyte Cytosolic Protei Ino80 Complex Subunit J,Repressing Pontin 52,Reptin 52,Tip4 Associated Protein 54-Beta,Tap54-Beta;
Ec: 3.6.4.12
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ruvbl2, Ino80j, Tip48, Tip49b, Cgi-46
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_variant: Sf9

Molecule: Chromatin-Remodeling Atpase Ino80
Chain: G
Synonym: Hino80,Dna Helicase-Related Ino80 Complex Homolog Helicase-Related Protein Ino80,Ino80 Complex Subunit A;
Ec: 3.6.4.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ino80, Ino80a, Inoc1, Kiaa1259
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_variant: Sf9

Molecule: Actin-Related Protein 5
Chain: H
Synonym: Harp5,Sarcoma Antigen Ny-Sar-16
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Actr5, Arp5
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_variant: Sf9

Molecule: Histone H3.1
Chain: I, M
Synonym: Histone H3a,Histone H3b,Histone H3c,Histone H3 H3f,Histone H3h,Histone H3i,Histone H3j,Histone H3k,Hi H3l;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h3a, H3fa, Hist1h3b, H3fl, Hist1h3c, H3fc, Hist1 H3fb, Hist1h3e, H3fd, Hist1h3f, H3fi, Hist1h3g, H3fh, Hist1 H3fk, Hist1h3i, H3ff, Hist1h3j, H3fj;
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H4
Chain: J, N
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h4a, H4a, H4fa, Hist1h4b, H4i, H4fi, Hist1h4c, H4fg, Hist1h4d, H4b, H4fb, Hist1h4e, H4j, H4fj, Hist1h4f, H4fc, Hist1h4h, H4h, H4fh, Hist1h4i, H4m, H4fm, Hist1h4j, H4fe, Hist1h4k, H4d, H4fd, Hist1h4l, H4k, H4fk, Hist2h4a, H4f2, H4fn, Hist2h4, Hist2h4b, H4o, H4fo, Hist4h4;
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2a Type 1-Be
Chain: K, O
Synonym: Histone H2a.2,Histone H2aa,Histone H2am
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h2ab, H2afm, Hist1h2ae, H2afa
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2b Type 1-J
Chain: L, P
Synonym: Histone H2b.1,Histone H2b.R,H2br
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h2bj, H2bfr
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Ino80 Complex Subunit B
Chain: R
Synonym: High Mobility Group At-Hook 1-Like 4,Ies2 Homolog, 1-Associated Protein 1,Papa-1,Zinc Finger Hit Domain-Contai Protein 4;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ino80b, Hmga1l4, Papa1, Znhit4
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Dna (150-Mer)
Chain: X
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (150-Mer)
Chain: Y
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
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 4.80 Å
ligand
enzyme Hydrolase E.C.3.6.4.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
E, C, A
  • DNA helicase activity
  • transcription coactivator ac...
  • 5'-3' DNA helicase activity


  • F, B, D
  • DNA helicase activity
  • transcription corepressor ac...
  • 5'-3' DNA helicase activity


  • G


    H


    K, O


    L, P


    M, I


    N, J


    R


    Primary referenceStructure and regulation of the human INO80-nucleosome complex., Ayala R, Willhoft O, Aramayo RJ, Wilkinson M, McCormack EA, Ocloo L, Wigley DB, Zhang X, Nature. 2018 Apr;556(7701):391-395. doi: 10.1038/s41586-018-0021-6. Epub 2018 Apr, 11. PMID:29643506
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (773 Kb) [Save to disk]
  • Biological Unit Coordinates (6hts.pdb1.gz) 753 Kb
  • CSU: Contacts of Structural Units for 6HTS
  • Retrieve 6HTS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6HTS from S2C, [Save to disk]
  • View 6HTS 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 6HTS
  • 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 6hts from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6hts_P] [6hts_E] [6hts_C] [6hts_M] [6hts_N] [6hts_X] [6hts_H] [6hts_D] [6hts_O] [6hts_R] [6hts_K] [6hts_G] [6hts_J] [6hts_I] [6hts_Y] [6hts_A] [6hts_L] [6hts_B] [6hts_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6HTS
  • Community annotation for 6HTS at PDBWiki (http://pdbwiki.org)

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