PDB entry 6opc

View 6opc on RCSB PDB site
Description: cdc48 hexamer in a complex with substrate and shp1(ubx domain)
Deposited on 2019-04-24, released 2019-07-10
The last revision was dated 2019-12-18, with a file datestamp of 2019-12-13.
Experiment type: EM
Resolution: 3.7 Å
R-factor: N/A
AEROSPACI score: 0.06 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Cell division control protein 48
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Cell division control protein 48
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Cell division control protein 48
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Cell division control protein 48
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Cell division control protein 48
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: Cell division control protein 48
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: Substrate bound to the central pore of the Cdc48 hexamer
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
    • PDB 6OPC (0-21)
  • Chain 'Z':
    Compound: UBX domain-containing protein 1
    Species: Saccharomyces cerevisiae [TaxId:4932]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: ADP, BEF, MG

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:
    >6opcA (A:)
mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdkle
lfrgdtvlvkgkkrkdtvlivliddeledgacrinrvvrnnlrirlgdlvtihpcpdiky
atrisvlpiadtiegitgnlfdvflkpyfveayrpvrkgdhfvvrggmrqvefkvvdvep
eeyavvaqdtiihwegepinredeennmnevgyddiggcrkqmaqiremvelplrhpqlf
kaigikpprgvlmygppgtgktlmaravanetgaffflingpevmskmagesesnlrkaf
eeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvviaatnrp
nsidpalrrfgrfdrevdigipdatgrlevlrihtknmkladdvdlealaaethgyvgad
iaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsnpsalretvve
svnvtwddvggldeikeelketveypvlhpdqytkfglspskgvlfygppgtgktllaka
vatevsanfisvkgpellsmwygesesnirdifdkaraaaptvvfldeldsiakarggsl
gdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpailrpgrldqliyvplpde
narlsilnaqlrktplepgleltaiakatqgfsgadllyivqraakyaikdsieahrqhe
aekevkvegedvemtdegakaeqepevdpvpyitkehfaeamktakrsvsdaelrryeay
sqqmkasrgqfsnfnfndaplgttatdnansnnsapsgagaafgsnaeedddlys

    Sequence, based on observed residues (ATOM records):
    >6opcA (A:)
kkdnmllvddainddnsviainsntmdklelfrgdtvlvkgkkrkdtvlivliddeledg
acrinrvvrnnlrirlgdlvtihpcpdikyatrisvlpiadtiegitgnlfdvflkpyfv
eayrpvrkgdhfvvrggmrqvefkvvdvepeeyavvaqdtiihwegepinredeennmne
vgyddiggcrkqmaqiremvelplrhpqlfkaigikpprgvlmygppgtgktlmaravan
etgaffflingpevmskmagesesnlrkafeeaeknapaiifideidsiapkrdktngev
errvvsqlltlmdgmkarsnvvviaatnrpnsidpalrrfgrfdrevdigipdatgrlev
lrihtknmkladdvdlealaaethgyvgadiaslcseaamqqirekmdlidldedeidae
vldslgvtmdnfrfalgnsnpsalretvvesvnvtwddvggldeikeelketveypvlhp
dqytkfglspskgvlfygppgtgktllakavatevsanfisvkgpellsmwygesesnir
difdkaraaaptvvfldeldsiakarggdaggasdrvvnqlltemdgmnakknvfvigat
nrpdqidpailrpgrldqliyvplpdenarlsilnaqlrktplepgleltaiakatqgfs
gadllyivqraakyaikdsieahrqheaekevepevdpvpyitkehfaeamktakrsvsd
aelrryeaysqqm

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6opcB (B:)
mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdkle
lfrgdtvlvkgkkrkdtvlivliddeledgacrinrvvrnnlrirlgdlvtihpcpdiky
atrisvlpiadtiegitgnlfdvflkpyfveayrpvrkgdhfvvrggmrqvefkvvdvep
eeyavvaqdtiihwegepinredeennmnevgyddiggcrkqmaqiremvelplrhpqlf
kaigikpprgvlmygppgtgktlmaravanetgaffflingpevmskmagesesnlrkaf
eeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvviaatnrp
nsidpalrrfgrfdrevdigipdatgrlevlrihtknmkladdvdlealaaethgyvgad
iaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsnpsalretvve
svnvtwddvggldeikeelketveypvlhpdqytkfglspskgvlfygppgtgktllaka
vatevsanfisvkgpellsmwygesesnirdifdkaraaaptvvfldeldsiakarggsl
gdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpailrpgrldqliyvplpde
narlsilnaqlrktplepgleltaiakatqgfsgadllyivqraakyaikdsieahrqhe
aekevkvegedvemtdegakaeqepevdpvpyitkehfaeamktakrsvsdaelrryeay
sqqmkasrgqfsnfnfndaplgttatdnansnnsapsgagaafgsnaeedddlys

    Sequence, based on observed residues (ATOM records):
    >6opcB (B:)
kkdnmllvddainddnsviainsntmdklelfrgdtvlvkgkkrkdtvlivliddeledg
acrinrvvrnnlrirlgdlvtihpcpdikyatrisvlpiadtiegitgnlfdvflkpyfv
eayrpvrkgdhfvvrggmrqvefkvvdvepeeyavvaqdtiihwegepinredeennmne
vgyddiggcrkqmaqiremvelplrhpqlfkaigikpprgvlmygppgtgktlmaravan
etgaffflingpevmskmagesesnlrkafeeaeknapaiifideidsiapkrdktngev
errvvsqlltlmdgmkarsnvvviaatnrpnsidpalrrfgrfdrevdigipdatgrlev
lrihtknmkladdvdlealaaethgyvgadiaslcseaamqqirekmdlidldedeidae
vldslgvtmdnfrfalgnsnpsalretvvesvnvtwddvggldeikeelketveypvlhp
dqytkfglspskgvlfygppgtgktllakavatevsanfisvkgpellsmwygesesnir
difdkaraaaptvvfldeldsiakarggslgdaggasdrvvnqlltemdgmnakknvfvi
gatnrpdqidpailrpgrldqliyvplpdenarlsilnaqlrktplepgleltaiakatq
gfsgadllyivqraakyaikdsieahrqheaedpvpyitkehfaeamktakrsvsdaelr
ryeaysqqmkasrgqfsnfnf

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6opcC (C:)
mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdkle
lfrgdtvlvkgkkrkdtvlivliddeledgacrinrvvrnnlrirlgdlvtihpcpdiky
atrisvlpiadtiegitgnlfdvflkpyfveayrpvrkgdhfvvrggmrqvefkvvdvep
eeyavvaqdtiihwegepinredeennmnevgyddiggcrkqmaqiremvelplrhpqlf
kaigikpprgvlmygppgtgktlmaravanetgaffflingpevmskmagesesnlrkaf
eeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvviaatnrp
nsidpalrrfgrfdrevdigipdatgrlevlrihtknmkladdvdlealaaethgyvgad
iaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsnpsalretvve
svnvtwddvggldeikeelketveypvlhpdqytkfglspskgvlfygppgtgktllaka
vatevsanfisvkgpellsmwygesesnirdifdkaraaaptvvfldeldsiakarggsl
gdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpailrpgrldqliyvplpde
narlsilnaqlrktplepgleltaiakatqgfsgadllyivqraakyaikdsieahrqhe
aekevkvegedvemtdegakaeqepevdpvpyitkehfaeamktakrsvsdaelrryeay
sqqmkasrgqfsnfnfndaplgttatdnansnnsapsgagaafgsnaeedddlys

    Sequence, based on observed residues (ATOM records):
    >6opcC (C:)
kkdnmllvddainddnsviainsntmdklelfrgdtvlvkgkkrkdtvlivliddeledg
acrinrvvrnnlrirlgdlvtihpcpdikyatrisvlpiadtiegitgnlfdvflkpyfv
eayrpvrkgdhfvvrggmrqvefkvvdvepeeyavvaqdtiihwegepinredeennmne
vgyddiggcrkqmaqiremvelplrhpqlfkaigikpprgvlmygppgtgktlmaravan
etgaffflingpevmskmagesesnlrkafeeaeknapaiifideidsiapkrdktngev
errvvsqlltlmdgmkarsnvvviaatnrpnsidpalrrfgrfdrevdigipdatgrlev
lrihtknmkladdvdlealaaethgyvgadiaslcseaamqqirekmdlidldedeidae
vldslgvtmdnfrfalgnsnpsalretvvesvnvtwddvggldeikeelketveypvlhp
dqytkfglspskgvlfygppgtgktllakavatevsanfisvkgpellsmwygesesnir
difdkaraaaptvvfldeldsiakarggslgdaggasdrvvnqlltemdgmnakknvfvi
gatnrpdqidpailrpgrldqliyvplpdenarlsilnaqlrktplepgleltaiakatq
gfsgadllyivqraakyaikdsieahrqheaedpvpyitkehfaeamktakrsvsdaelr
ryeaysqqmkasrgqfsnfnf

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6opcD (D:)
mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdkle
lfrgdtvlvkgkkrkdtvlivliddeledgacrinrvvrnnlrirlgdlvtihpcpdiky
atrisvlpiadtiegitgnlfdvflkpyfveayrpvrkgdhfvvrggmrqvefkvvdvep
eeyavvaqdtiihwegepinredeennmnevgyddiggcrkqmaqiremvelplrhpqlf
kaigikpprgvlmygppgtgktlmaravanetgaffflingpevmskmagesesnlrkaf
eeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvviaatnrp
nsidpalrrfgrfdrevdigipdatgrlevlrihtknmkladdvdlealaaethgyvgad
iaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsnpsalretvve
svnvtwddvggldeikeelketveypvlhpdqytkfglspskgvlfygppgtgktllaka
vatevsanfisvkgpellsmwygesesnirdifdkaraaaptvvfldeldsiakarggsl
gdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpailrpgrldqliyvplpde
narlsilnaqlrktplepgleltaiakatqgfsgadllyivqraakyaikdsieahrqhe
aekevkvegedvemtdegakaeqepevdpvpyitkehfaeamktakrsvsdaelrryeay
sqqmkasrgqfsnfnfndaplgttatdnansnnsapsgagaafgsnaeedddlys

    Sequence, based on observed residues (ATOM records):
    >6opcD (D:)
kkdnmllvddainddnsviainsntmdklelfrgdtvlvkgkkrkdtvlivliddeledg
acrinrvvrnnlrirlgdlvtihpcpdikyatrisvlpiadtiegitgnlfdvflkpyfv
eayrpvrkgdhfvvrggmrqvefkvvdvepeeyavvaqdtiihwegepinredeennmne
vgyddiggcrkqmaqiremvelplrhpqlfkaigikpprgvlmygppgtgktlmaravan
etgaffflingpevmskmagesesnlrkafeeaeknapaiifideidsiapkrdktngev
errvvsqlltlmdgmkarsnvvviaatnrpnsidpalrrfgrfdrevdigipdatgrlev
lrihtknmkladdvdlealaaethgyvgadiaslcseaamqqirekmdlidldedeidae
vldslgvtmdnfrfalgnsnpsalretvvesvnvtwddvggldeikeelketveypvlhp
dqytkfglspskgvlfygppgtgktllakavatevsanfisvkgpellsmwygesesnir
difdkaraaaptvvfldeldsiakarggslgdaggasdrvvnqlltemdgmnakknvfvi
gatnrpdqidpailrpgrldqliyvplpdenarlsilnaqlrktplepgleltaiakatq
gfsgadllyivqraakyaikdsieahrqheaedpvpyitkehfaeamktakrsvsdaelr
ryeaysqqmkasrgqfsnfnf

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6opcE (E:)
mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdkle
lfrgdtvlvkgkkrkdtvlivliddeledgacrinrvvrnnlrirlgdlvtihpcpdiky
atrisvlpiadtiegitgnlfdvflkpyfveayrpvrkgdhfvvrggmrqvefkvvdvep
eeyavvaqdtiihwegepinredeennmnevgyddiggcrkqmaqiremvelplrhpqlf
kaigikpprgvlmygppgtgktlmaravanetgaffflingpevmskmagesesnlrkaf
eeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvviaatnrp
nsidpalrrfgrfdrevdigipdatgrlevlrihtknmkladdvdlealaaethgyvgad
iaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsnpsalretvve
svnvtwddvggldeikeelketveypvlhpdqytkfglspskgvlfygppgtgktllaka
vatevsanfisvkgpellsmwygesesnirdifdkaraaaptvvfldeldsiakarggsl
gdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpailrpgrldqliyvplpde
narlsilnaqlrktplepgleltaiakatqgfsgadllyivqraakyaikdsieahrqhe
aekevkvegedvemtdegakaeqepevdpvpyitkehfaeamktakrsvsdaelrryeay
sqqmkasrgqfsnfnfndaplgttatdnansnnsapsgagaafgsnaeedddlys

    Sequence, based on observed residues (ATOM records):
    >6opcE (E:)
kkdnmllvddainddnsviainsntmdklelfrgdtvlvkgkkrkdtvlivliddeledg
acrinrvvrnnlrirlgdlvtihpcpdikyatrisvlpiadtiegitgnlfdvflkpyfv
eayrpvrkgdhfvvrggmrqvefkvvdvepeeyavvaqdtiihwegepinredeennmne
vgyddiggcrkqmaqiremvelplrhpqlfkaigikpprgvlmygppgtgktlmaravan
etgaffflingpevmskmagesesnlrkafeeaeknapaiifideidsiapkrdktngev
errvvsqlltlmdgmkarsnvvviaatnrpnsidpalrrfgrfdrevdigipdatgrlev
lrihtknmkladdvdlealaaethgyvgadiaslcseaamqqirekmdlidldedeidae
vldslgvtmdnfrfalgnsvnvtwddvggldeikeelketveypvlhpdqytkfglspsk
gvlfygppgtgktllakavatevsanfisvkgpellsmwygesesnirdifdkaraaapt
vvfldeldsiakarggslgdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpa
ilrpgrldqliyvplpdenarlsilnaqlrktplepgleltaiakatqgfsgadllyivq
raakyaikdsiyitkehfaeamktakrsvsdaelrryeaysqqmkasrgqfsnfnf

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6opcF (F:)
mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdkle
lfrgdtvlvkgkkrkdtvlivliddeledgacrinrvvrnnlrirlgdlvtihpcpdiky
atrisvlpiadtiegitgnlfdvflkpyfveayrpvrkgdhfvvrggmrqvefkvvdvep
eeyavvaqdtiihwegepinredeennmnevgyddiggcrkqmaqiremvelplrhpqlf
kaigikpprgvlmygppgtgktlmaravanetgaffflingpevmskmagesesnlrkaf
eeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvviaatnrp
nsidpalrrfgrfdrevdigipdatgrlevlrihtknmkladdvdlealaaethgyvgad
iaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsnpsalretvve
svnvtwddvggldeikeelketveypvlhpdqytkfglspskgvlfygppgtgktllaka
vatevsanfisvkgpellsmwygesesnirdifdkaraaaptvvfldeldsiakarggsl
gdaggasdrvvnqlltemdgmnakknvfvigatnrpdqidpailrpgrldqliyvplpde
narlsilnaqlrktplepgleltaiakatqgfsgadllyivqraakyaikdsieahrqhe
aekevkvegedvemtdegakaeqepevdpvpyitkehfaeamktakrsvsdaelrryeay
sqqmkasrgqfsnfnfndaplgttatdnansnnsapsgagaafgsnaeedddlys

    Sequence, based on observed residues (ATOM records):
    >6opcF (F:)
kkdnmllvddainddnsviainsntmdklelfrgdtvlvkgkkrkdtvlivliddeledg
acrinrvvrnnlrirlgdlvtihpcpdikyatrisvlpiadtiegitgnlfdvflkpyfv
eayrpvrkgdhfvvrggmrqvefkvvdvepeeyavvaqdtiihwegcrkqmaqiremvel
plrhpqlfkaigikpprgvlmygppgtgktlmaravanetgaffflingpevmsgesesn
lrkafeeaeknapaiifideidsiapkrdktngeverrvvsqlltlmdgmkarsnvvvia
atnrpnsidpalrrfgrfdrevdigdatgrlevlrihtknmkladdvdlealaaethgyv
gadiaslcseaamqqirekmdlidldedeidaevldslgvtmdnfrfalgnsntwddvgg
ldeikeelketveypvlhpdqytkfkgvlfygptgktllakavatevsanfisvkgpell
gesesnirdifdkaraaaptvvfldeldsiakarggslgdaggasdrvvnqlltemdgmn
akknvfvigatnrpdqidpailrpgrldqliyvdenarlsilnaqlrktplepgleltai
akatqgfsgadllyivqraakyaikdsieahrqheaekevepevdpvpyitkehfaeamk
takrsvsdaelrryeaysqqm

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records:
    >6opcG (G:)
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  • Chain 'Z':
    Sequence, based on SEQRES records:
    >6opcZ (Z:)
maeipdetiqqfmaltnvshniavqylsefgdlnealnsyyasqtddqkdrreeahwnrq
qekalkqeafstnssnkaintehvgglcpkpgssqgsneylkrkgstspeptkgssrsgs
gnnsrfmsfsdmvrgqaddddedqprntfaggetsglevtdpsdpnsllkdllekarrgg
qmgaengfrddedhemganrftgrgfrlgstidaadevvedntsqsqrrpekvtreitfw
kegfqvadgplyryddpansfylselnqgraplklldvqfgqevevnvykkldesykapt
rklggfsgqgqrlgspipgesspaevpknetpaaqeqpmpdnepkqgdtsiqiryangkr
evlhcnstdtvkflyehvtsnantdpsrnftlnyafpikpisndettlkdadllnsvvvq
rwa

    Sequence, based on observed residues (ATOM records):
    >6opcZ (Z:)
sspaevpknetpaaqeqpmpdnepkqgdtsiqiryangkrevlhcnstdtvkflyehvts
nantdpsrnftlnyafpikpisndettlkdadllnsvvvqrw