PDB entry 6m3v

View 6m3v on RCSB PDB site
Description: 355 bp di-nucleosome harboring cohesive dna termini
Deposited on 2020-03-04, released 2020-10-07
The last revision was dated 2020-10-07, with a file datestamp of 2020-10-02.
Experiment type: XRAY
Resolution: 4.6 Å
R-factor: N/A
AEROSPACI score: 0.01 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Histone H3.1
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H3A, H3FA, HIST1H3B, H3FL, HIST1H3C, H3FC, HIST1H3D, H3FB, HIST1H3E, H3FD, HIST1H3F, H3FI, HIST1H3G, H3FH, HIST1H3H, H3FK, HIST1H3I, H3FF, HIST1H3J, H3FJ
    Database cross-references and differences (RAF-indexed):
  • 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-J
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2BJ, H2BFR
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Histone H3.1
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H3A, H3FA, HIST1H3B, H3FL, HIST1H3C, H3FC, HIST1H3D, H3FB, HIST1H3E, H3FD, HIST1H3F, H3FI, HIST1H3G, H3FH, HIST1H3H, H3FK, HIST1H3I, H3FF, HIST1H3J, H3FJ
    Database cross-references and differences (RAF-indexed):
  • 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-J
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2BJ, H2BFR
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: DNA (355-mer)
    Species: other sequences [TaxId:28384]
  • Chain 'J':
    Compound: DNA (355-mer)
    Species: other sequences [TaxId:28384]
  • Chain 'K':
    Compound: Histone H3.1
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H3A, H3FA, HIST1H3B, H3FL, HIST1H3C, H3FC, HIST1H3D, H3FB, HIST1H3E, H3FD, HIST1H3F, H3FI, HIST1H3G, H3FH, HIST1H3H, H3FK, HIST1H3I, H3FF, HIST1H3J, H3FJ
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    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 'M':
    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 'N':
    Compound: Histone H2B type 1-J
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2BJ, H2BFR
    Database cross-references and differences (RAF-indexed):
  • Chain 'O':
    Compound: Histone H3.1
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H3A, H3FA, HIST1H3B, H3FL, HIST1H3C, H3FC, HIST1H3D, H3FB, HIST1H3E, H3FD, HIST1H3F, H3FI, HIST1H3G, H3FH, HIST1H3H, H3FK, HIST1H3I, H3FF, HIST1H3J, H3FJ
    Database cross-references and differences (RAF-indexed):
  • Chain 'P':
    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 'Q':
    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 'R':
    Compound: Histone H2B type 1-J
    Species: Homo sapiens [TaxId:9606]
    Gene: HIST1H2BJ, H2BFR
    Database cross-references and differences (RAF-indexed):
  • Heterogens: K, CA

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:
    >6m3vA (A:)
martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
llirklpfqrlvreiaqdfktdlrfqssavmalqeaceaylvglfedtnlcaihakrvti
mpkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6m3vA (A:)
phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeace
aylvglfedtnlcaihakrvtimpkdiqlarrirgera

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6m3vB (B:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6m3vB (B:)
dniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvta
mdvvyalkrqgrtlygfgg

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6m3vC (C:)
msgrgkqggkarakaktrssraglqfpvgrvhrllrkgnyservgagapvylaavleylt
aeilelagnaardnkktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpkk
teshhkakgk

    Sequence, based on observed residues (ATOM records):
    >6m3vC (C:)
trssraglqfpvgrvhrllrkgnyservgagapvylaavleyltaeilelagnaardnkk
triiprhlqlairndeelnkllgrvtiaqggvlpniqavllpk

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6m3vD (D:)
mpepaksapapkkgskkavtkaqkkdgkkrkrsrkesysiyvykvlkqvhpdtgisskam
gimnsfvndiferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavt
kytsak

    Sequence, based on observed residues (ATOM records):
    >6m3vD (D:)
rsrkesysiyvykvlkqvhpdtgisskamgimnsfvndiferiageasrlahynkrstit
sreiqtavrlllpgelakhavsegtkavtkytsak

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6m3vE (E:)
martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
llirklpfqrlvreiaqdfktdlrfqssavmalqeaceaylvglfedtnlcaihakrvti
mpkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6m3vE (E:)
phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeace
aylvglfedtnlcaihakrvtimpkdiqlarrirgera

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6m3vF (F:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6m3vF (F:)
dniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvta
mdvvyalkrqgrtlygfgg

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6m3vG (G:)
msgrgkqggkarakaktrssraglqfpvgrvhrllrkgnyservgagapvylaavleylt
aeilelagnaardnkktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpkk
teshhkakgk

    Sequence, based on observed residues (ATOM records):
    >6m3vG (G:)
trssraglqfpvgrvhrllrkgnyservgagapvylaavleyltaeilelagnaardnkk
triiprhlqlairndeelnkllgrvtiaqggvlpniqavllpk

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6m3vH (H:)
mpepaksapapkkgskkavtkaqkkdgkkrkrsrkesysiyvykvlkqvhpdtgisskam
gimnsfvndiferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavt
kytsak

    Sequence, based on observed residues (ATOM records):
    >6m3vH (H:)
srkesysiyvykvlkqvhpdtgisskamgimnsfvndiferiageasrlahynkrstits
reiqtavrlllpgelakhavsegtkavtkytsak

  • Chain 'I':
    No sequence available.

  • Chain 'J':
    No sequence available.

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6m3vK (K:)
martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
llirklpfqrlvreiaqdfktdlrfqssavmalqeaceaylvglfedtnlcaihakrvti
mpkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6m3vK (K:)
phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeace
aylvglfedtnlcaihakrvtimpkdiqlarrirgera

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6m3vL (L:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6m3vL (L:)
dniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvta
mdvvyalkrqgrtlygfgg

  • Chain 'M':
    Sequence, based on SEQRES records:
    >6m3vM (M:)
msgrgkqggkarakaktrssraglqfpvgrvhrllrkgnyservgagapvylaavleylt
aeilelagnaardnkktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpkk
teshhkakgk

    Sequence, based on observed residues (ATOM records):
    >6m3vM (M:)
trssraglqfpvgrvhrllrkgnyservgagapvylaavleyltaeilelagnaardnkk
triiprhlqlairndeelnkllgrvtiaqggvlpniqavllpk

  • Chain 'N':
    Sequence, based on SEQRES records:
    >6m3vN (N:)
mpepaksapapkkgskkavtkaqkkdgkkrkrsrkesysiyvykvlkqvhpdtgisskam
gimnsfvndiferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavt
kytsak

    Sequence, based on observed residues (ATOM records):
    >6m3vN (N:)
rsrkesysiyvykvlkqvhpdtgisskamgimnsfvndiferiageasrlahynkrstit
sreiqtavrlllpgelakhavsegtkavtkytsak

  • Chain 'O':
    Sequence, based on SEQRES records:
    >6m3vO (O:)
martkqtarkstggkaprkqlatkaarksapatggvkkphryrpgtvalreirryqkste
llirklpfqrlvreiaqdfktdlrfqssavmalqeaceaylvglfedtnlcaihakrvti
mpkdiqlarrirgera

    Sequence, based on observed residues (ATOM records):
    >6m3vO (O:)
phryrpgtvalreirryqkstellirklpfqrlvreiaqdfktdlrfqssavmalqeace
aylvglfedtnlcaihakrvtimpkdiqlarrirgera

  • Chain 'P':
    Sequence, based on SEQRES records:
    >6m3vP (P:)
msgrgkggkglgkggakrhrkvlrdniqgitkpairrlarrggvkrisgliyeetrgvlk
vflenvirdavtytehakrktvtamdvvyalkrqgrtlygfgg

    Sequence, based on observed residues (ATOM records):
    >6m3vP (P:)
dniqgitkpairrlarrggvkrisgliyeetrgvlkvflenvirdavtytehakrktvta
mdvvyalkrqgrtlygfgg

  • Chain 'Q':
    Sequence, based on SEQRES records:
    >6m3vQ (Q:)
msgrgkqggkarakaktrssraglqfpvgrvhrllrkgnyservgagapvylaavleylt
aeilelagnaardnkktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpkk
teshhkakgk

    Sequence, based on observed residues (ATOM records):
    >6m3vQ (Q:)
ktrssraglqfpvgrvhrllrkgnyservgagapvylaavleyltaeilelagnaardnk
ktriiprhlqlairndeelnkllgrvtiaqggvlpniqavllpk

  • Chain 'R':
    Sequence, based on SEQRES records:
    >6m3vR (R:)
mpepaksapapkkgskkavtkaqkkdgkkrkrsrkesysiyvykvlkqvhpdtgisskam
gimnsfvndiferiageasrlahynkrstitsreiqtavrlllpgelakhavsegtkavt
kytsak

    Sequence, based on observed residues (ATOM records):
    >6m3vR (R:)
krsrkesysiyvykvlkqvhpdtgisskamgimnsfvndiferiageasrlahynkrsti
tsreiqtavrlllpgelakhavsegtkavtkytsak