6T7C Nuclear Protein date Oct 21, 2019
title Structure Of Two Copies Of Human Sox11 Transcription Factor With A Nucleosome
authors S.O.Dodonova, F.Zhu, C.Dienemann, J.Taipale, P.Cramer
compound source
Molecule: Histone H3.2
Chain: A, E
Synonym: Histone H3m,Histone H3o
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist2h3a, Hist2h3c, H3f2, H3fm, Hist2h3d
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Codonplus-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b

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 Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Codonplus-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a

Molecule: Histone H2a Type 1-Be
Chain: C, G
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 Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Codonplus-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Lic-1b (Macrolabs)

Molecule: Histone H2b Type 1-K
Chain: D, H
Synonym: H2b K,Hira-Interacting Protein 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hist1h2bk, H2bft, Hirip1
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Codonplus-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b

Molecule: Dna (147-Mer)
Chain: I
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (147-Mer)
Chain: J
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Transcription Factor Sox-11
Chain: K, L
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Sox11
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Codonplus-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Lic-1b (Macrolabs)
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 4.00 Å
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


K, L


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (198 Kb) [Save to disk]
  • Biological Unit Coordinates (6t7c.pdb1.gz) 190 Kb
  • CSU: Contacts of Structural Units for 6T7C
  • Retrieve 6T7C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6T7C from S2C, [Save to disk]
    • View 6T7C 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 6T7C
  • 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: [6t7c_B] [6t7c_L] [6t7c_E] [6t7c_A] [6t7c_K] [6t7c_D] [6t7c_I] [6t7c_H] [6t7c_F] [6t7c_C] [6t7c_J] [6t7c_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6T7C
  • Community annotation for 6T7C at PDBWiki (http://pdbwiki.org)

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