6RNY Dna Binding Protein date May 09, 2019
title Pfv Intasome - Nucleosome Strand Transfer Complex
authors V.E.Pye, L.Renault, D.P.Maskell, P.Cherepanov, A.Costa
compound source
Molecule: Histone H3.3
Chain: A, E
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: H3f3a, H3.3a, H3f3, Pp781, H3f3b, H3.3b
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H4
Chain: B, F
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
Chain: C, G
Synonym: H2a.1,Histone H2aptl
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h2ag, H2afp, Hist1h2ai, H2afc, Hist1h2ak, H2afd, Hist1h2al, H2afi, Hist1h2am, H2afn;
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2b Type 1-Cefgi
Chain: D, H
Synonym: Histone H2b.1 A,Histone H2b.A,H2ba,Histone H2b.G, Histone H2b.H,H2bh,Histone H2b.K,H2bk,Histone H2b.L,H2bl
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h2bc, H2bfl, Hist1h2be, H2bfh, Hist1h2bf, H2bfg, Hist1h2bg, H2bfa, Hist1h2bi, H2bfk;
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Integrase
Chain: K, L, O, P
Synonym: Pr125pol
Ec: 2.7.7.49,2.7.7.7,3.1.26.4,3.4.23.-,2.7.7.-,3.1.-.-
Engineered: Yes

Organism_scientific: Human Spumaretrovirus
Organism_taxid: 11963
Gene: Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (128-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (108-Mer)
Chain: U
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (33-Mer)
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (53-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna (5'- D(Aptptpgptpcpaptpgpgpapaptptptpcpgpc)-3'
Chain: Q, M
Engineered: Yes

Synthetic: Yes
Organism_scientific: Pyrobaculum Filamentous Virus 1
Organism_taxid: 1805492
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
enzyme Transferase E.C.2.7.7.49 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


O, P, K, L


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (369 Kb) [Save to disk]
  • Biological Unit Coordinates (6rny.pdb1.gz) 358 Kb
  • CSU: Contacts of Structural Units for 6RNY
  • Retrieve 6RNY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6RNY from S2C, [Save to disk]
  • View 6RNY 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 6RNY
  • 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 6rny from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6rny_J] [6rny_K] [6rny_M] [6rny_L] [6rny_O] [6rny_I] [6rny_F] [6rny_H] [6rny_C] [6rny_G] [6rny_B] [6rny_E] [6rny_U] [6rny_P] [6rny_D] [6rny_Q] [6rny_T] [6rny_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6RNY
  • Community annotation for 6RNY at PDBWiki (http://pdbwiki.org)

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