PDB entry 6s1m

View 6s1m on RCSB PDB site
Description: human polymerase delta holoenzyme conformer 1
Deposited on 2019-06-19, released 2019-12-25
The last revision was dated 2020-03-11, with a file datestamp of 2020-03-06.
Experiment type: EM
Resolution: 4.27 Å
R-factor: N/A
AEROSPACI score: 0.03 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA polymerase delta catalytic subunit
    Species: Homo sapiens [TaxId:9606]
    Gene: POLD1, POLD
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: DNA polymerase delta subunit 2
    Species: Homo sapiens [TaxId:9606]
    Gene: POLD2
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: DNA polymerase delta subunit 3
    Species: Homo sapiens [TaxId:9606]
    Gene: POLD3, KIAA0039
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: DNA polymerase delta subunit 4
    Species: Homo sapiens [TaxId:9606]
    Gene: POLD4, POLDS
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Proliferating Cell Nuclear Antigen
    Species: Homo sapiens [TaxId:9606]
    Gene: PCNA
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: Proliferating Cell Nuclear Antigen
    Species: Homo sapiens [TaxId:9606]
    Gene: PCNA
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Proliferating Cell Nuclear Antigen
    Species: Homo sapiens [TaxId:9606]
    Gene: PCNA
    Database cross-references and differences (RAF-indexed):
  • Chain 'P':
    Compound: DNA Primer
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'T':
    Compound: DNA Template
    Species: synthetic construct, synthetic [TaxId:32630]
  • Heterogens: ZN, SF4, TTP

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:
    >6s1mA (A:)
    mdgkrrpgpgpgvppkrargglwddddaprpsqfeedlalmeemeaehrlqeqeeeelqs
    vlegvadgqvppsaidprwlrptppaldpqteplifqqleidhyvgpaqpvpggpppsrg
    svpvlrafgvtdegfsvcchihgfapyfytpappgfgpehmgdlqrelnlaisrdsrggr
    eltgpavlavelcsresmfgyhghgpspflritvalprlvaparrlleqgirvaglgtps
    fapyeanvdfeirfmvdtdivgcnwlelpagkyalrlkekatqcqleadvlwsdvvshpp
    egpwqriaplrvlsfdiecagrkgifpeperdpviqicslglrwgepepflrlaltlrpc
    apilgakvqsyekeedllqawstfirimdpdvitgyniqnfdlpylisraqtlkvqtfpf
    lgrvaglcsnirdssfqskqtgrrdtkvvsmvgrvqmdmlqvllreyklrsytlnavsfh
    flgeqkedvqhsiitdlqngndqtrrrlavyclkdaylplrllerlmvlvnavemarvtg
    vplsyllsrgqqvkvvsqllrqamhegllmpvvkseggedytgatvieplkgyydvpiat
    ldfsslypsimmahnlcyttllrpgtaqklgltedqfirtptgdefvktsvrkgllpqil
    enllsarkrakaelaketdplrrqvldgrqlalkvsansvygftgaqvgklpcleisqsv
    tgfgrqmiektkqlveskytvengystsakvvygdtdsvmcrfgvssvaeamalgreaad
    wvsghfpspirlefekvyfpylliskkryagllfssrpdahdrmdckgleavrrdncplv
    anlvtaslrrllidrdpegavahaqdvisdllcnridisqlvitkeltraasdyagkqah
    velaermrkrdpgsapslgdrvpyviisaakgvaaymksedplfvlehslpidtqyyleq
    qlakpllrifepilgegraeavllrgdhtrcktvltgkvggllafakrrnccigcrtvls
    hqgavcefcqpreselyqkevshlnaleerfsrlwtqcqrcqgslhedvictsrdcpify
    mrkkvrkdledqeqllrrfgppgpeaw
    

    Sequence, based on observed residues (ATOM records):
    >6s1mA (A:)
    rwlrptppaldpqteplifqqleidhyvgpaqpvsvpvlrafgvtdegfsvcchihgfap
    yfytpappgfgpehmgdlqrelnlaisrdsrggreltgpavlavelcsresmfgyhghgp
    spflritvalprlvaparrlleqgirvaglgtpsfapyeanvdfeirfmvdtdivgcnwl
    elpagkyalrlkekatqcqleadvlwsdvvshppegpwqriaplrvlsfdiecagrkgif
    peperdpviqicslglrwgepepflrlaltlrpcapilgakvqsyekeedllqawstfir
    imdpdvitgyniqnfdlpylisraqtlkvqtfpflgrvaglcsnirdssfqskqtgrrdt
    kvvsmvgrvqmdmlqvllreyklrsytlnavsfhflgehsiitdlqngndqtrrrlavyc
    lkdaylplrllerlmvlvnavemarvtgvplsyllsrgqqvkvvsqllrqamhegllmpv
    vkseggedytgatvieplkgyydvpiatldfsslypsimmahnlcyttllrpgtaqklgl
    tedqfirtptgdefvktsvrkgllpqilenllsarkrakaelaketdplrrqvldgrqla
    lkvsansvygftgaqvgklpcleisqsvtgfgrqmiektkqlveskytvengystsakvv
    ygdtdsvmcrfgvssvaeamalgreaadwvsghfpspirlefekvyfpylliskkryagl
    lfssrpdahdrmdckgleavrrdncplvanlvtaslrrllidrdpegavahaqdvisdll
    cnridisqlvitkeltraasdyagkqahvelaermrkrdpgsapslgdrvpyviisaakg
    vaaymksedplfvlehslpidtqyyleqqlakpllrifepilgegraeavllrgdhtrck
    tvlgllafakrrnccigcrtvlshqgavcefcqpreselyqkevshlnaleerfsrlwtq
    cqrcqgslhedvictsrdcpifymrkkvrkdledqeqllrrfgppgpeaw
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6s1mB (B:)
    mfseqaaqrahtllsppsannatfarvpvatytnssqpfrlgersfsrqyahiyatrliq
    mrpflenraqqhwgsgvgvkklcelqpeekccvvgtlfkamplqpsilrevseehnllpq
    pprskyihpddelvledelqriklkgtidvsklvtgtvlavfgsvrddgkflvedycfad
    lapqkpappldtdrfvllvsglglgggggesllgtqllvdvvtgqlgdegeqcsaahvsr
    vilagnllshstqsrdsinkakyltkktqaasveavkmldeillqlsasvpvdvmpgefd
    ptnytlpqqplhpcmfplataystlqlvtnpyqatidgvrflgtsgqnvsdifryssmed
    hleilewtlrvrhisptapdtlgcypfyktdpfifpecphvyfcgntpsfgskiirgped
    qtvllvtvpdfsatqtaclvnlrslacqpisfsgfgaedddlgglglgp
    

    Sequence, based on observed residues (ATOM records):
    >6s1mB (B:)
    mfseqaaqrahtllsppsannatfarvpvatytnssqpfrlgersfsrqyahiyatrliq
    mrpflenraqqhwgsgvgvkklcelqpeekccvvgtlfkamplqpsilskyihpddelvl
    edelqriklkgtidvsklvtgtvlavfgsvrddgkflvedycfadlapqkpappldtdrf
    vllvsglglgggggesllgtqllvdvvtgqlgdegeqcsaahvsrvilagnllshstqsa
    sveavkmldeillqlsasvpvdvmpgefdptnytlpqqplhpcmfplataystlqlvtnp
    yqatidgvrflgtsgqnvsdifryssmedhleilewtlrvrhisptapdtlgcypfyktd
    pfifpecphvyfcgntpsfgskiirgpedqtvllvtvpdfsatqtaclvnlrslacqpis
    fsgfgaedddl
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6s1mC (C:)
    mwshpqfekadqlylenidefvtdqnkivtykwlsytlgvhvnqakqmlydyverkrken
    sgaqlhvtylvsgsliqnghschkvavvredkleavksklavtasihvysiqkamlkdsg
    plfntdydilksnlqncskfsaiqcaaavprapaessssskkfeqshlhmssetqannel
    ttnghgppaskqvsqqpkgimgmfaskaaaktqetnketkteakevtnasaagnkapgkg
    nmmsnffgkaamnkfkvnldseqavkeekiveqptvsvtepklatpaglkksskkaepvk
    vlqkekkrgkrvalsddetketenmrkkrrriklpesdssedevfpdspgayeaespspp
    pppspplepvpktepeppsvksssgenkrkrkrvlksktyldgegcivtekvyesesctd
    seeelnmktssvhrppamtvkkepreerkgpkkgtaalgkanrqvsitgffqrk
    

    Sequence, based on observed residues (ATOM records):
    >6s1mC (C:)
    adqlylenidefvtdqnkivtykwlsytlgvhvnqakqmlydyverkrkensgaqlhvty
    lvsgsliqnghschkvavvredkleavksklavtasihvysiqkamlkdsgplfntdydi
    lksnlqncskfsaiqcaaavpra
    

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6s1mD (D:)
    mhhhhhhsrawrhpqfgghhhhhhenlyfqsgrkrlitdsypvvkrregpaghskgelap
    elgeepqprdeeeaelellrqfdlawqygpctgitrlqrwcrakqmglepppevwqvlkt
    hpgdprfqcslwhlypl
    

    Sequence, based on observed residues (ATOM records):
    >6s1mD (D:)
    eeaelellrqfdlawqygpctgitrlqrwcrakqmglepppevwqvlkthpgdprfqcsl
    whlypl
    

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6s1mE (E:)
    gphmfearlvqgsilkkvlealkdlineacwdisssgvnlqsmdsshvslvqltlrsegf
    dtyrcdrnlamgvnltsmskilkcagnediitlraednadtlalvfeapnqekvsdyemk
    lmdldveqlgipeqeyscvvkmpsgefaricrdlshigdavviscakdgvkfsasgelgn
    gniklsqtsnvdkeeeavtiemnepvqltfalrylnfftkatplsstvtlsmsadvplvv
    eykiadmghlkyylapkiedeegs
    

    Sequence, based on observed residues (ATOM records):
    >6s1mE (E:)
    mfearlvqgsilkkvlealkdlineacwdisssgvnlqsmdsshvslvqltlrsegfdty
    rcdrnlamgvnltsmskilkcagnediitlraednadtlalvfeapnqekvsdyemklmd
    ldveqlgipeqeyscvvkmpsgefaricrdlshigdavviscakdgvkfsasgelgngni
    klsqtseeeavtiemnepvqltfalrylnfftkatplsstvtlsmsadvplvveykiadm
    ghlkyylapki
    

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6s1mF (F:)
    gphmfearlvqgsilkkvlealkdlineacwdisssgvnlqsmdsshvslvqltlrsegf
    dtyrcdrnlamgvnltsmskilkcagnediitlraednadtlalvfeapnqekvsdyemk
    lmdldveqlgipeqeyscvvkmpsgefaricrdlshigdavviscakdgvkfsasgelgn
    gniklsqtsnvdkeeeavtiemnepvqltfalrylnfftkatplsstvtlsmsadvplvv
    eykiadmghlkyylapkiedeegs
    

    Sequence, based on observed residues (ATOM records):
    >6s1mF (F:)
    mfearlvqgsilkkvlealkdlineacwdisssgvnlqsmdsshvslvqltlrsegfdty
    rcdrnlamgvnltsmskilkcagnediitlraednadtlalvfeapnekvsdyemklmdl
    dveqlgipeqeyscvvkmpsgefaricrdlshigdavviscakdgvkfsasgelgngnik
    lsqteeeavtiemnepvqltfalrylnfftkatplsstvtlsmsadvplvveykiadmgh
    lkyylapki
    

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6s1mG (G:)
    gphmfearlvqgsilkkvlealkdlineacwdisssgvnlqsmdsshvslvqltlrsegf
    dtyrcdrnlamgvnltsmskilkcagnediitlraednadtlalvfeapnqekvsdyemk
    lmdldveqlgipeqeyscvvkmpsgefaricrdlshigdavviscakdgvkfsasgelgn
    gniklsqtsnvdkeeeavtiemnepvqltfalrylnfftkatplsstvtlsmsadvplvv
    eykiadmghlkyylapkiedeegs
    

    Sequence, based on observed residues (ATOM records):
    >6s1mG (G:)
    mfearlvqgsilkkvlealkdlineacwdisssgvnlqsmdsshvslvqltlrsegfdty
    rcdrnlamgvnltsmskilkcagnediitlraednadtlalvfeapnqekvsdyemklmd
    ldveqlgipeqeyscvvkmpsgefaricrdlshigdavviscakdgvkfsasgelgngni
    klsqtseavtiemnepvqltfalrylnfftkatplsstvtlsmsadvplvveykiadmgh
    lkyylapki
    

  • Chain 'P':
    No sequence available.

  • Chain 'T':
    No sequence available.