PDB entry 6pzv

View 6pzv on RCSB PDB site
Description: crystal structure of bovine dnmt1 rfts domain in complex with h3k9me3 and ubiquitin
Deposited on 2019-08-01, released 2020-07-15
The last revision was dated 2020-08-12, with a file datestamp of 2020-08-07.
Experiment type: XRAY
Resolution: 3.01 Å
R-factor: N/A
AEROSPACI score: 0.21 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Ubiquitin
    Species: Homo sapiens [TaxId:9606]
    Gene: UBB
    Database cross-references and differences (RAF-indexed):
    • Uniprot J3QS39 (1-76)
      • expression tag (0)
      • conflict (76)
  • Chain 'B':
    Compound: Ubiquitin
    Species: Homo sapiens [TaxId:9606]
    Gene: UBB
    Database cross-references and differences (RAF-indexed):
    • Uniprot J3QS39 (1-76)
      • conflict (76)
  • Chain 'C':
    Compound: DNA (cytosine-5)-methyltransferase 1
    Species: Bos taurus [TaxId:9913]
    Gene: DNMT1
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q24K09 (1-End)
      • expression tag (0)
  • Chain 'D':
    Compound: Histone H3.3
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P84243
      • conflict (17)
  • Chain 'E':
    Compound: Ubiquitin
    Species: Homo sapiens [TaxId:9606]
    Gene: UBB
    Database cross-references and differences (RAF-indexed):
    • Uniprot J3QS39 (1-76)
      • expression tag (0)
      • conflict (76)
  • Chain 'F':
    Compound: Ubiquitin
    Species: Homo sapiens [TaxId:9606]
    Gene: UBB
    Database cross-references and differences (RAF-indexed):
    • Uniprot J3QS39 (1-76)
      • conflict (76)
  • Chain 'G':
    Compound: DNA (cytosine-5)-methyltransferase 1
    Species: Bos taurus [TaxId:9913]
    Gene: DNMT1
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q24K09 (1-End)
      • expression tag (0)
  • Chain 'H':
    Compound: Histone H3.3
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P84243
      • conflict (17)
  • Heterogens: M3L, ZN, FLC, HOH

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; same for both SEQRES and ATOM records:
    >6pzvA (A:)
smqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdy
niqkestlhlvlrlrgc

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6pzvB (B:)
smqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdy
niqkestlhlvlrlrgc

    Sequence, based on observed residues (ATOM records):
    >6pzvB (B:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgc

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6pzvC (C:)
spkcteclqylddpelryeqhppdaveeiqiltnerlsifdanesgfesyedlpqhkltc
fsvyckrghlcpidtgliekdvellfsgsakpiyeddpspeggingknfgpinewwiagf
dggekallgfstsfaeyilmdpspeyaplfsvmqekiyiskivveflqsnpdstyedlin
kiettvppcmlnlnrftedsllrhaqfvveqvesydragdsdeqpiflspcmrdliklag
vtlgkrr

    Sequence, based on observed residues (ATOM records):
    >6pzvC (C:)
spkcteclqylddpelryeqhppdaveeiqiltnerlsifsyedlpqhkltcfsvyckrg
hlcpidtgliekdvellfsgsakpiyeddpspeggingknfgpinewwiagfdggekall
gfstsfaeyilmdpspeyaplfsvmqekiyiskivveflqsnpdstyedlinkiettvpp
cmlnlnrftedsllrhaqfvveqvesydragflspcmrdliklagv

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6pzvD (D:)
artkqtarkstggkaprcqlatcaaw

    Sequence, based on observed residues (ATOM records):
    >6pzvD (D:)
rtkqtarkstggkaprcq

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records:
    >6pzvE (E:)
smqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdy
niqkestlhlvlrlrgc

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6pzvF (F:)
smqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdy
niqkestlhlvlrlrgc

    Sequence, based on observed residues (ATOM records):
    >6pzvF (F:)
mqifvktltgktitlevepsdtienvkakiqdkegippdqqrlifagkqledgrtlsdyn
iqkestlhlvlrlrgc

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6pzvG (G:)
spkcteclqylddpelryeqhppdaveeiqiltnerlsifdanesgfesyedlpqhkltc
fsvyckrghlcpidtgliekdvellfsgsakpiyeddpspeggingknfgpinewwiagf
dggekallgfstsfaeyilmdpspeyaplfsvmqekiyiskivveflqsnpdstyedlin
kiettvppcmlnlnrftedsllrhaqfvveqvesydragdsdeqpiflspcmrdliklag
vtlgkrr

    Sequence, based on observed residues (ATOM records):
    >6pzvG (G:)
spkcteclqylddpelryeqhppdaveeiqiltnerlsifdanesgfesyedlpqhkltc
fsvyckrghlcpidtgliekdvellfsgsakpiyeddpspeggingknfgpinewwiagf
dggekallgfstsfaeyilmdpspeyaplfsvmqekiyiskivveflqsnpdstyedlin
kiettvppcmlnlnrftedsllrhaqfvveqvesydragdsdeqpiflspcmrdliklag
vt

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6pzvH (H:)
artkqtarkstggkaprcqlatcaaw

    Sequence, based on observed residues (ATOM records):
    >6pzvH (H:)
rtkqtarkstggkaprcql