6VOY Dna Binding Protein Dna date Feb 01, 2020
title Cryo-Em Structure Of Htlv-1 Instasome
authors V.Bhatt, K.Shi, A.Sundborger, H.Aihara
compound source
Molecule: Dna-Binding Protein 7d
Chain: A, B, C, D
Synonym: 7 Kda Dna-Binding Protein D,Sso7d
Engineered: Yes
Mutation: Yes
 Organism_scientific: Saccharolobus Solfataricus (Strain Atc Dsm 1617 Jcm 11322 P2), Human T-Cell Leukemia Virus Typ
Organism_taxid: 273057, 11908
Strain: Atcc 35092 Dsm 1617 Jcm 11322 P2
Gene: Sso7d, Sso7d-1, Sso10610, Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Serinethreonine-Protein Phosphatase 2a 56 Kda Re Subunit Gamma Isoform;
Chain: E, F
Synonym: Pp2a B Subunit Isoform B'-Gamma,Pp2a B Subunit Iso Gamma,Pp2a B Subunit Isoform Pr61-Gamma,Pp2a B Subunit Isof Gamma,Renal Carcinoma Antigen Ny-Ren-29;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ppp2r5c, Kiaa0044
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'- D(Papcpapcpapcptptpgpapcptpapgpgpgptpg)-3
Chain: I, L
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (25-Mer)
Chain: J, M
Engineered: Yes
Synthetic: Yes
Organism_scientific: Human T-Cell Leukemia Virus Type I
Organism_taxid: 11908

Molecule: Dna (5'- D(Papcpapcpapcptptpgpapcptpapgpgpgptpg)-3
Chain: K, N
Engineered: Yes
Synthetic: Yes
Organism_scientific: Human T-Cell Leukemia Virus Type I
Organism_taxid: 11908
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 3.70 Å
ligand MG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • endoribonuclease activity


    • Primary referenceStructural basis of host protein hijacking in human T-cell leukemia virus integration., Bhatt V, Shi K, Salamango DJ, Moeller NH, Pandey KK, Bera S, Bohl TE, Kurniawan F, Orellana K, Zhang W, Grandgenett DP, Harris RS, Sundborger-Lunna AC, Aihara H, Nat Commun. 2020 Jun 19;11(1):3121. doi: 10.1038/s41467-020-16963-6. PMID:32561747
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (324 Kb) [Save to disk]
  • Biological Unit Coordinates (6voy.pdb1.gz) 314 Kb
  • LPC: Ligand-Protein Contacts for 6VOY
  • CSU: Contacts of Structural Units for 6VOY
  • Retrieve 6VOY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6VOY from S2C, [Save to disk]
    • View 6VOY 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 6VOY
  • 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: [6voy_E] [6voy_N] [6voy_A] [6voy_I] [6voy_F] [6voy_M] [6voy_K] [6voy_J] [6voy_C] [6voy_D] [6voy_L] [6voy_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6VOY
  • Community annotation for 6VOY at PDBWiki (http://pdbwiki.org)

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