PDB entry 6ef1

View 6ef1 on RCSB PDB site
Description: yeast 26s proteasome bound to ubiquitinated substrate (5d motor state)
Deposited on 2018-08-15, released 2018-10-17
The last revision was dated 2020-01-08, with a file datestamp of 2020-01-03.
Experiment type: EM
Resolution: 4.73 Å
R-factor: N/A
AEROSPACI score: 0.01 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Proteasome subunit alpha type-1
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: SCL1, PRC2, PRS2, YGL011C
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: Proteasome subunit alpha type-2
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: PRE8, PRS4, YML092C
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Proteasome subunit alpha type-3
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: PRE9, PRS5, YGR135W
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: Proteasome subunit alpha type-4
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: PRE6, YOL038W
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: Proteasome subunit alpha type-5
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: PUP2, DOA5, YGR253C, G9155
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: Proteasome subunit alpha type-6
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: PRE5, YMR314W, YM9924.06
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: probable proteasome subunit alpha type-7
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: PRE10, PRC1, PRS1, YOR362C, O6650
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: 26S proteasome regulatory subunit 7 homolog
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: RPT1, CIM5, YTA3, YKL145W
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: 26S proteasome regulatory subunit 4 homolog
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: RPT2, YHS4, YTA5, YDL007W, D2920
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: 26S proteasome regulatory subunit 8 homolog
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: RPT6, CIM3, CRL3, SUG1, TBPY, TBY1, YGL048C
    Database cross-references and differences (RAF-indexed):
  • Chain 'K':
    Compound: 26S proteasome regulatory subunit 6B homolog
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: RPT3, YNT1, YTA2, YDR394W, D9509.14
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    Compound: 26S proteasome subunit RPT4
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: RPT4, CRL13, PCS1, SUG2, YOR259C
    Database cross-references and differences (RAF-indexed):
  • Chain 'M':
    Compound: 26S proteasome regulatory subunit 6A
    Species: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) [TaxId:559292]
    Gene: RPT5, YTA1, YOR117W, O3258, YOR3258W
    Database cross-references and differences (RAF-indexed):
  • Chain 's':
    Compound: model substrate polypeptide
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6EF1 (0-14)
  • Heterogens: ATP, ADP

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:
    >6ef1A (A:)
    drhitifspegrlyqveyafkatnqtninslavrgkdctvvisqkkvpdklldpttvsyi
    fcisrtigmvvngpipdarnaalrakaeaaefrykygydmpcdvlakrmanlsqiytqra
    ymrplgviltfvsvdeelgpsiyktdpagyyvgykatatgpkqqeittnlenhfkkskid
    hineeswekvvefaithmidalgtefskndlevgvatkdkfftlsaenieerlvaiaeq
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1B (B:)
    mtdrysfslttfspsgklgqidyaltavkqgvtslgikatngvviatekksssplamset
    lskvslltpdigavysgmgpdyrvlvdksrkvahtsykriygeypptkllvsevakimqe
    atqsggvrpfgvslliaghdefngfslyqvdpsgsyfpwkataigkgsvaaktflekrwn
    deleledaihialltlkesvegefngdtielaiigdenpdllgytgiptdkgprfrklts
    qeindrleal
    

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1C (C:)
    srttifspegrlyqveyalesishagtaigimasdgivlaaerkvtstlleqdtstekly
    klndkiavavagltadaeilintarihaqnylktynedipveilvrrlsdikqgytqhgg
    lrpfgvsfiyagyddrygyqlytsnpsgnytgwkaisvgantsaaqtllqmdykddmkvd
    daielalktlskttdssaltydrlefatirkgandgevyqkifkpqeikdilvktgit
    

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1D (D:)
    sifspdghifqveyaleavkrgtcavgvkgkncvvlgcerrstlklqdtritpskvskid
    shvvlsfsglnadsriliekarveaqshrltledpvtveyltryvagvqqrytqsggvrp
    fgvstliagfdprddepklyqtepsgiysswsaqtigrnsktvrefleknydrkeppatv
    eecvkltvrsllevvqtgaknieitvvkpdsdivalsseeinqyvtqieqekqe
    

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1E (E:)
    drgvstfspegrlfqveysleaiklgstaigiatkegvvlgvekratspllesdsiekiv
    eidrhigcamsgltadarsmiehartaavthnlyydedinvesltqsvcdlalrfgegas
    geerlmsrpfgvalliaghdaddgyqlfhaepsgtfyrynakaigsgsegaqaellnewh
    ssltlkeaellvlkilkqvmeekldennaqlscitkqdgfkiydnektaelikelkekea
    ae
    

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1F (F:)
    frnnydgdtvtfsptgrlfqveyaleaikqgsvtvglrsnthavlvalkrnadelssyqk
    kiikcdehmglslaglapdarvlsnylrqqcnysslvfnrklaveraghllcdkaqkntq
    syggrpygvglliigydksgahllefqpsgnvtelygtaigarsqgaktylertldtfik
    idgnpdelikagveaisqslrdesltvdnlsiaivgkdtpftiydgeavakyi
    

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1G (G:)
    tgydlsnsvfspdgrnfqveyavkavengttsigikcndgvvfaveklitskllvpqknv
    kiqvvdrhigcvysglipdgrhlvnrgreeaasfkklyktpipipafadrlgqyvqahtl
    ynsvrpfgvstifggvdkngahlymlepsgsywgykgaatgkgrqsakaeleklvdhhpe
    glsareavkqaakiiylahednkekdfeleiswcslsetnglhkfvkgdllqeaidfaqk
    ein
    

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6ef1H (H:)
    svtmmtveekpdvtysdvggckdqieklrevvelpllsperfatlgidppkgillygppg
    tgktlcaravanrtdatfirvigselvqkyvgegarmvrelfemartkkaciiffdeida
    vggarfddgaggdnevqrtmlelitqldgfdprgnikvmfatnrpntldpallrpgridr
    kvefslpdlegranifrihsksmsvergirwelisrlcpnstgaelrsvcteagmfaira
    rrkvatekdflkavdkvisgyk
    

    Sequence, based on observed residues (ATOM records):
    >6ef1H (H:)
    svtmmtveekpdvtysdvggckdqieklrevvelpllsperfatlgidppkgillygppg
    tgktlcaravanrtdatfirvigselvqkyvgegarmvrelfemartkkaciiffdeida
    vggadnevqrtmlelitqldgfdprgnikvmfatnrpntldpallrpgridrkvefslpd
    legranifrihsksmsvergirwelisrlcpnstgaelrsvcteagmfairarrkvatek
    dflkavdkvisgyk
    

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1I (I:)
    mvsvmkmdksptesysdigglesqiqeikesvelplthpelyeemgikppkgvilygapg
    tgktllakavanqtsatflrivgseliqkylgdgprlcrqifkvagenapsivfideida
    igtkrydsnsggereiqrtmlellnqldgfddrgdvkvimatnkietldpalirpgridr
    kilfenpdlstkkkilgihtskmnlsedvnletlvttkddlsgadiqamcteagllalre
    rrmqvtaedfkqakervmknkveenleglyl
    

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1J (J:)
    lvslmmvekvpdstydmvggltkqikeikevielpvkhpelfeslgiaqpkgvilygppg
    tgktllaravahhtdckfirvsgaelvqkyigegsrmvrelfvmarehapsiifmdeids
    igstrvegsgggdsevqrtmlellnqldgfetsknikiimatnrldildpallrpgridr
    kiefpppsvaaraeilrihsrkmnltrginlrkvaekmngcsgadvkgvcteagmyalre
    rrihvtqedfelavgkvmnknqetaisvaklfk
    

  • Chain 'K':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1K (K:)
    dsdssisvmgenekpdvtyadvggldmqkqeireavelplvqadlyeqigidpprgvlly
    gppgtgktmlvkavanstkaafirvngsefvhkylgegprmvrdvfrlarenapsiifid
    evdsiatkrfdaqtgsdrevqrilielltqmdgfdqstnvkvimatnradtldpallrpg
    rldrkiefpslrdrrerrlifgtiaskmslapeadldsliirndslsgaviaaimqeagl
    ravrknryvilqsdleeayatqvktdntvdkfdfyk
    

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6ef1L (L:)
    lvynmtsfeqgeitfdgigglteqirelrevielplknpeifqrvgikppkgvllygppg
    tgktllakavaatiganfifspasgivdkyigesariiremfayakehepciifmdevda
    iggrrfsegtsadreiqrtlmelltqmdgfdnlgqtkiimatnrpdtldpallrpgrldr
    kveiplpneagrleifkihtakvkktgefdfeaavkmsdgfngadirncateagffaird
    drdhinpddlmkavrkvaevkklegtieyqk
    

    Sequence, based on observed residues (ATOM records):
    >6ef1L (L:)
    lvynmtsfeqgeitfdgigglteqirelrevielplknpeifqrvgikppkgvllygppg
    tgktllakavaatiganfifspasgivdkyigesariiremfayakehepciifmdevda
    igtsadreiqrtlmelltqmdgfdnlgqtkiimatnrpdtldpallrpgrldrkveiplp
    neagrleifkihtakvkktgefdfeaavkmsdgfngadirncateagffairddrdhinp
    ddlmkavrkvaevkklegtieyqk
    

  • Chain 'M':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1M (M:)
    dekptetysdvggldkqieelveaivlpmkradkfkdmgirapkgalmygppgtgktlla
    racaaqtnatflklaapqlvqmyigegaklvrdafalakekaptiifideldaigtkrfd
    seksgdrevqrtmlellnqldgfssddrvkvlaatnrvdvldpallrsgrldrkiefplp
    sedsraqilqihsrkmttdddinwqelarstdefngaqlkavtveagmialrngqssvkh
    edfvegisevqarksksvsfya
    

  • Chain 's':
    Sequence; same for both SEQRES and ATOM records:
    >6ef1s (s:)
    nenvsarlggasiav