PDB entry 6t7a

View 6t7a on RCSB PDB site
Description: structure of human sox11 transcription factor in complex with a nucleosome
Deposited on 2019-10-21, released 2020-04-29
The last revision was dated 2020-05-13, with a file datestamp of 2020-05-08.
Experiment type: EM
Resolution: 3.7 Å
R-factor: N/A
AEROSPACI score: 0.08 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Histone H3.2
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST2H3A, HIST2H3C, H3F2, H3FM, HIST2H3D
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q71DI3
      • engineered mutation (110)
  • Chain 'B':
    Compound: histone h4
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H4A, H4/A, H4FA, HIST1H4B, H4/I, H4FI, HIST1H4C, H4/G, H4FG, HIST1H4D, H4/B, H4FB, HIST1H4E, H4/J, H4FJ, HIST1H4F, H4/C, H4FC, HIST1H4H, H4/H, H4FH, HIST1H4I, H4/M, H4FM, HIST1H4J, H4/E, H4FE, HIST1H4K, H4/D, H4FD, HIST1H4L, H4/K, H4FK, HIST2H4A, H4/N, H4F2, H4FN, HIST2H4, HIST2H4B, H4/O, H4FO, HIST4H4
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Histone H2A type 1-B/E
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2AB, H2AFM, HIST1H2AE, H2AFA
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Histone H2B type 1-K
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2BK, H2BFT, HIRIP1
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Histone H3.2
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST2H3A, HIST2H3C, H3F2, H3FM, HIST2H3D
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q71DI3
      • engineered mutation (110)
  • Chain 'F':
    Compound: histone h4
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H4A, H4/A, H4FA, HIST1H4B, H4/I, H4FI, HIST1H4C, H4/G, H4FG, HIST1H4D, H4/B, H4FB, HIST1H4E, H4/J, H4FJ, HIST1H4F, H4/C, H4FC, HIST1H4H, H4/H, H4FH, HIST1H4I, H4/M, H4FM, HIST1H4J, H4/E, H4FE, HIST1H4K, H4/D, H4FD, HIST1H4L, H4/K, H4FK, HIST2H4A, H4/N, H4F2, H4FN, HIST2H4, HIST2H4B, H4/O, H4FO, HIST4H4
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Histone H2A type 1-B/E
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2AB, H2AFM, HIST1H2AE, H2AFA
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: Histone H2B type 1-K
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2BK, H2BFT, HIRIP1
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: DNA (147-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'J':
    Compound: DNA (147-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'K':
    Compound: Transcription factor SOX-11
    Species: Homo sapiens [TaxId:9606]
    Gene: SOX11
    Database cross-references and differences (RAF-indexed):

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >6t7aA (A:)
martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
llirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvglfedtnlaaihakrvti
mpkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6t7aA (A:)
kphryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeas
eaylvglfedtnlaaihakrvtimpkdiqlarrirger

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6t7aB (B:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6t7aB (B:)
krhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtyteh
akrktvtamdvvyalkrqgrtlygfg

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6t7aC (C:)
mgsshhhhhhenlyfqsnapwmsgrgkqggkarakaktrssraglqfpvgrvhrllrkgn
yservgagapvylaavleyltaeilelagnaardnkktriiprhlqlairndeelnkllg
rvtiaqggvlpniqavllpkkteshhkakgk

    Sequence, based on observed residues (ATOM records):
    >6t7aC (C:)
kaktrssraglqfpvgrvhrllrkgnyservgagapvylaavleyltaeilelagnaard
nkktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpk

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6t7aD (D:)
mpepaksapapkkgskkavtkaqkkdgkkrkrsrkesysvyvykvlkqvhpdtgisskam
gimnsfvndiferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavt
kytsak

    Sequence, based on observed residues (ATOM records):
    >6t7aD (D:)
krsrkesysvyvykvlkqvhpdtgisskamgimnsfvndiferiageasrlahynkrsti
tsreiqtavrlllpgelakhavsegtkavtkytsa

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6t7aE (E:)
martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
llirklpfqrlvreiaqdfktdlrfqssavmalqeaseaylvglfedtnlaaihakrvti
mpkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6t7aE (E:)
phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqease
aylvglfedtnlaaihakrvtimpkdiqlarrirger

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6t7aF (F:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6t7aF (F:)
krhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtyteh
akrktvtamdvvyalkrqgrtlygfgg

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6t7aG (G:)
mgsshhhhhhenlyfqsnapwmsgrgkqggkarakaktrssraglqfpvgrvhrllrkgn
yservgagapvylaavleyltaeilelagnaardnkktriiprhlqlairndeelnkllg
rvtiaqggvlpniqavllpkkteshhkakgk

    Sequence, based on observed residues (ATOM records):
    >6t7aG (G:)
kaktrssraglqfpvgrvhrllrkgnyservgagapvylaavleyltaeilelagnaard
nkktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpk

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6t7aH (H:)
mpepaksapapkkgskkavtkaqkkdgkkrkrsrkesysvyvykvlkqvhpdtgisskam
gimnsfvndiferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavt
kytsak

    Sequence, based on observed residues (ATOM records):
    >6t7aH (H:)
krsrkesysvyvykvlkqvhpdtgisskamgimnsfvndiferiageasrlahynkrsti
tsreiqtavrlllpgelakhavsegtkavtkytsa

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    No sequence available.

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6t7aK (K:)
snaaldesdpdwcktasghikrpmnafmvwskierrkimeqspdmhnaeiskrlgkrwkm
lkdsekipfireaerlrlkhmadypdykyrprkkpkmdpsakpsasqsp

    Sequence, based on observed residues (ATOM records):
    >6t7aK (K:)
sghikrpmnafmvwskierrkimeqspdmhnaeiskrlgkrwkmlkdsekipfireaerl
rlkhmadypdykyrprk