PDB entry 6exv

View 6exv on RCSB PDB site
Description: structure of mammalian rna polymerase ii elongation complex inhibited by alpha-amanitin
Deposited on 2017-11-09, released 2018-03-21
The last revision was dated 2019-12-11, with a file datestamp of 2019-12-06.
Experiment type: EM
Resolution: 3.6 Å
R-factor: N/A
AEROSPACI score: 0.09 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA-directed RNA polymerase II subunit RPB1
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
    • Uniprot I3LJR4
      • insertion (525-528)
      • insertion (1298-1304)
      • conflict (1307-1309)
      • conflict (1312)
  • Chain 'B':
    Compound: DNA-directed RNA polymerase II subunit RPB2
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: DNA-directed RNA polymerase II subunit RPB3
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: DNA-directed RNA polymerase II subunit RPB3
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC1
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'G':
    Compound: DNA-directed RNA polymerase II subunit RPB7
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'H':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC3
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'I':
    Compound: DNA-directed RNA polymerase II subunit RPB9
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'J':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC5
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
    • PDB 6EXV (0-66)
  • Chain 'K':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC4
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'L':
    Compound: DNA-directed RNA polymerases I, II, and III subunit RPABC4
    Species: Sus scrofa [TaxId:9823]
    Database cross-references and differences (RAF-indexed):
  • Chain 'M':
    Compound: amatoxin
    Species: Amanita phalloides [TaxId:67723]
    Database cross-references and differences (RAF-indexed):
    • Uniprot 6EXV (0-7)
  • Chain 'N':
    Compound: DNA (25-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'P':
    Compound: RNA (5'-r(p*cp*ap*up*ap*ap*ap*gp*ap*cp*cp*ap*gp*gp*c)-3')
    Species: synthetic construct, synthetic [TaxId:32630]
  • Chain 'T':
    Compound: DNA (36-mer)
    Species: synthetic construct, synthetic [TaxId:32630]
  • Heterogens: CSX, HYP, ILX, TRX, ZN, 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:
    >6exvA (A:)
    mhgggppsgdsacplrtikrvqfgvlspdelkrmsvteggikypetteggrpklgglmdp
    rqgviertgrcqtcagnmtecpghfghielakpvfhvgflvktmkvlrcvcffcskllvd
    snnpkikdilakskgqpkkrlthvydlckgkniceggeemdnkfgveqpegdedltkekg
    hggcgryqprirrsglelyaewkhvnedsqekkillspervheifkrisdeecfvlgmep
    ryarpewmivtvlpvpplsvrpavvmqgsarnqddlthkladivkinnqlrrneqngaaa
    hviaedvkllqfhvatmvdnelpglpramqksgrplkslkqrlkgkegrvrgnlmgkrvd
    fsartvitpdpnlsidqvgvprsiaanmtfaeivtpfnidrlqelvrrgnsqypgakyii
    rdngdridlrfhpkpsdlhlqtgykverhmcdgdivifnrqptlhkmsmmghrvrilpws
    tfrlnlsvttpynadfdgdemnlhlpqsletraeiqelamvprmivtpqsnrpvmgivqd
    tltavrkftkrdvflergevmnllmflstwdgkvpqpailkprplwtgkqifsliipghi
    ncirthsthpddedsgpykhispgdtkvvvengelimgilckkslgtsagslvhisylem
    ghditrlfysniqtvinnwllieghtigigdsiadsktyqdiqntikkakqdvievieka
    hnneleptpgntlrqtfenqvnrilndardktgssaqkslseynnfksmvvsgakgskin
    isqviavvgqqnvegkripfgfkhrtlphfikddygpesrgfvensylagltptefffha
    mggreglidtavktaetgyiqrrliksmesvmvkydatvrnsinqvvqlrygedglages
    vefqnlatlkpsnkafekkfrfdytneralrrtlqedlvkdvlsnahiqnelerefermr
    edrevlrvifptgdskvvlpcnllrmiwnaqkifhinprlpsdlhpikvvegvkelskkl
    vivngddplsrqaqenatllfnihlrstlcsrrmaeefrlsgeafdwllgeieskfnqai
    ahpgemvgalaaqslgepatqmtlntfhyagvsaknvtlgvprlkeliniskkpktpslt
    vfllgqsardaerakdilcrlehttlrkvtantaiyydpnpqstvvaedqewvnvyyemp
    dfdvarispwllrveldrkhmtdrkltmeqiaekinagfgddlncifnddnaeklvlrir
    imnsdenkmqeeeevvdkmdddvflrciesnmltdmtlqgieqiskvymhlpqtdnkkki
    iitedgefkalqewiletdgvslmrvlsekdvdpvrttsndiveiftvlgieavrkaler
    elyhvisfdgsyvnyrhlallcdtmtcrghlmaitrhgvnrqdtgplmkcsfeetvdvlm
    eaaahgesdpmkgvsenimlgqlapagtgcfdllldaekckygmeiptnipglgaagptg
    mffgsapspmggispamtpwnqgatpaygawspsvgsgmtpgaagfspsaasdasgfspg
    yspawsptpgspgspgpsspyipspggamspsysptspayeprspggytpqspsysptsp
    sysptspsysptspnysptspsysptspsysptspsysptspsysptspsysptspsysp
    tspsysptspsysptspsysptspsysptspsysptspsysptspsysptspsysptsps
    ysptspnysptspnytptspsysptspsysptspnytptspnysptspsysptspsyspt
    spsyspssprytpqsptytpsspsyspsspsysptspkytptspsyspsspeytptspky
    sptspkysptspkysptsptyspttpkysptsptysptspvytptspkysptsptyspts
    pkysptsptysptspkgstysptspgysptsptysltspaispddsdeen
    

    Sequence, based on observed residues (ATOM records):
    >6exvA (A:)
    sacplrtikrvqfgvlspdelkrmsvteggikypetteggrpklgglmdprqgviertgr
    cqtcagnmtecpghfghielakpvfhvgflvktmkvlrcvcffcskllvdsnnpkikdil
    akskgqpkkrlthvydlckgknicehggcgryqprirrsglelyaewkkillspervhei
    fkrisdeecfvlgmepryarpewmivtvlpvpplsvrpavvmqgsarnqddlthkladiv
    kinnqlrrneqngaaahviaedvkllqfhvatmvdnelpglpramqksgrplkslkqrlk
    gkegrvrgnlmgkrvdfsartvitpdpnlsidqvgvprsiaanmtfaeivtpfnidrlqe
    lvrrgnsqypgakyiirdngdridlrfhpkpsdlhlqtgykverhmcdgdivifnrqptl
    hkmsmmghrvrilpwstfrlnlsvttpynadfdgdemnlhlpqsletraeiqelamvprm
    ivtpqsnrpvmgivqdtltavrkftkrdvflergevmnllmflstwdgkvpqpailkprp
    lwtgkqifsliipghincirthsthpddedsgpykhispgdtkvvvengelimgilckks
    lgtsagslvhisylemghditrlfysniqtvinnwllieghtigigdsiadsktyqdiqn
    tikkakqdvieviekahnneleptpgntlrqtfenqvnrilndardktgssaqkslseyn
    nfksmvvsgakgskinisqviavvgqqnvegkripfgfkhrtlphfikddygpesrgfve
    nsylagltptefffhamggreglidtavktaetgyiqrrliksmesvmvkydatvrnsin
    qvvqlrygedglagesvefqnlatlkpsnkafekkfrfdytneralrrtlqedlvkdvls
    nahiqnelerefermredrevlrvifptgdskvvlpcnllrmiwnaqkifhinprlpsdl
    hpikvvegvkelskklvivngddplsrqaqenatllfnihlrstlcsrrmaeefrlsgea
    fdwllgeieskfnqaiahpgemvgalaaqslgepatqmtlntfhyknvtlgvprlkelin
    iskkpktpsltvfllgqsardaerakdilcrlehttlrkvtantaiyydpnpqstvvaed
    qewvnvyyempdfdvarispwllrveldrkhmtdrkltmeqiaekinagfgddlncifnd
    dnaeklvlririmnsdenkmdddvflrciesnmltdmtlqgieqiskvymhlpqtdnkkk
    iiitedgefkalqewiletdgvslmrvlsekdvdpvrttsndiveiftvlgieavrkale
    relyhvisfdgsyvnyrhlallcdtmtcrghlmaitrhgvnrqdtgplmkcsfeetvdvl
    meaaahgesdpmkgvsenimlgqlapagtgcfdllldaekckygmeip
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6exvB (B:)
    mqydedddeitpdlwqeacwivissyfdekglvrqqldsfdefiqmsvqrivedappidl
    qaeaqhasgeveeppryllkfeqiylskpthwerdgapspmmpnearlrnltysaplyvd
    itktvikegeeqlqtqhqktfigkipimlrstycllngltdrdlcelnecpldpggyfii
    ngsekvliaqekmatntvyvfakkdskyaytgecrsclenssrptstiwvsmlarggqga
    kksaigqrivatlpyikqevpiiivfralgfvsdrdilehiiydfedpemmemvkpslde
    afviqeqnvalnfigsrgakpgvtkekrikyakevlqkemlphvgvsdfcetkkayflgy
    mvhrlllaalgrrelddrdhygnkrldlagpllaflfrgmfknllkevriyaqkfidrgk
    dfnlelaiktriisdglkyslatgnwgdqkkahqaragvsqvlnrltfastlshlrrlns
    pigrdgklakprqlhntlwgmvcpaetpeghavglvknlalmayisvgsqpspileflee
    wsmenleeispaaiadatkifvngcwvgihkdpeqlmntlrklrrqmdiivsevsmirdi
    rereiriytdagricrpllivekqklllkkrhidqlkereynnyswqdlvasgvveyidt
    leeetvmlamtpddlqekevaycstythceihpsmilgvcasiipfpdhnqsprntyqsa
    mgkqamgvyitnfhvrmdtlahvlyypqkplvttrsmeylrfrelpaginsivaiasytg
    ynqedsvimnrsavdrgffrsvfyrsykeqeskkgfdqeevfekptretcqgmrhaiydk
    ldddgliapgvrvsgddviigktvtlpenedelegtnrrytkrdcstflrtsetgivdqv
    mvtlnqegykfckirvrsvripqigdkfasrhgqkgtcgiqyrqedmpftcegitpdiii
    nphaipsrmtighlieclqgkvsankgeigdatpfndavnvqkisnllsdygyhlrgnev
    lyngftgrkitsqifigptyyqrlkhmvddkihsrargpiqilnrqpmegrsrdgglrfg
    emerdcqiahgaaqflrerlfeasdpyqvhvcnlcgimaiantrthtyecrgcrnktqis
    lvrmpyackllfqelmsmsiaprmmsv
    

    Sequence, based on observed residues (ATOM records):
    >6exvB (B:)
    eitpdlwqeacwivissyfdekglvrqqldsfdefiqmsvqrivedappidlqppryllk
    feqiylskpthwerdgapspmmpnearlrnltysaplyvditktvikegeeqlqtqhqkt
    figkipimlrstycllngltdrdlcelnecpldpggyfiingsekvliaqekmatntvyv
    fakkdskyaytgecrsclenssrptstiwvsmlarggqgakksaigqrivatlpyikqev
    piiivfralgfvsdrdilehiiydfedpemmemvkpsldeafviqeqnvalnfigsrgak
    pgvtkekrikyakevlqkemlphvgvsdfcetkkayflgymvhrlllaalgrrelddrdh
    ygnkrldlagpllaflfrgmfknllkevriyaqkfidrgkdfnlelaiktriisdglkys
    latgnwgdqkkahqaragvsqvlnrltfastlshlrrlnspigrdgklakprqlhntlwg
    mvcpaetpeghavglvknlalmayisvgsqpspilefleewsmenleeispaaiadatki
    fvngcwvgihkdpeqlmntlrklrrqmdiivsevsmirdirereiriytdagricrplli
    vekqklllkkrhidqlkereynnyswqdlvasgvveyidtleeetvmlamtpddlqekev
    aycstythceihpsmilgvcasiipfpdhnqsprntyqsamgkqamgvyitnfhvrmdtl
    ahvlyypqkplvttrsmeylrfrelpaginsivaiasytgynqedsvimnrsavdrgffr
    svfyrsykeqeskkgfdqeevfekptretcqgmrhaiydkldddgliapgvrvsgddvii
    gktvtlptkrdcstflrtsetgivdqvmvtlnqegykfckirvrsvripqigdkfasrhg
    qkgtcgiqyrqedmpftcegitpdiiinphaipsrmtighlieclqgkvsankgeigdat
    pfndavnvqkisnllsdygyhlrgnevlyngftgrkitsqifigptyyqrlkhmvddkih
    srargpiqilnrqpmegrsrdgglrfgemerdcqiahgaaqflrerlfeasdpyqvhvcn
    lcgimaiantrthtyecrgcrnktqislvrmpyackllfqelmsmsiaprmmsv
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6exvC (C:)
    mpyanqptvriteltdenvkfiientdlavansirrvfiaevpiiaidwvqidanssvlh
    defiahrlglipltsddivdklqysrdctceefcpecsveftldvrcnedqtrhvtsrdl
    isnsprvipvtsrnrdndpsdyveqddilivklrkgqelrlrayakkgfgkehakwnpta
    gvafeydpdnalrhtvypkpeewpkseyseldedesqapydpngkperfyynvescgslr
    petivlsalsglkkklsdlqtqlsheiqsdvltin
    

    Sequence, based on observed residues (ATOM records):
    >6exvC (C:)
    pyanqptvriteltdenvkfiientdlavansirrvfiaevpiiaidwvqidanssvlhd
    efiahrlglipltsddivdklqysrdctceefcpecsveftldvrcnedqtrhvtsrdli
    snsprvipvtsddilivklrkgqelrlrayakkgfgkehakwnptagvafeydpdnalrh
    tvypkpeewpkseyseldedesqapydpngkperfyynvescgslrpetivlsalsglkk
    klsdlqtqlsheiqsdv
    

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6exvD (D:)
    maaggsdpragdveedasqlifpkefetaetllnsevhmllehrkqqnesaedeqelsev
    fmktlnytarfsrfknretiasvrslllqkklhkfelaclanlcpetaeeskalipsleg
    rfedeelqqilddiqtkrsfqy
    

    Sequence, based on observed residues (ATOM records):
    >6exvD (D:)
    eedasqlifpkefetaetllnsevhmllehrkqqnesaedeqelsevfmktlnytarfsr
    fknretiasvrslllqkklhkfelaclanlcpetaeeskalipslegrfedeelqqildd
    iqtkrsfq
    

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6exvE (E:)
    mddeeetyrlwkirktimqlchdrgylvtqdeldqtleefkaqfgdkpsegrprrtdltv
    lvahnddptdqmfvffpeepkvgiktikvycqrmqeenitralivvqqgmtpsakqslvd
    mapkyileqflqqellinitehelvpehvvmtkeevtellaryklrenqlpriqagdpva
    ryfgikrgqvvkiirpsetagryityrlvq
    

    Sequence, based on observed residues (ATOM records):
    >6exvE (E:)
    ddeeetyrlwkirktimqlchdrgylvtqdeldqtleefkaqfgdkpsegrprrtdltvl
    vahnddptdqmfvffpeepkvgiktikvycqrmqeenitralivvqqgmtpsakqslvdm
    apkyileqflqqellinitehelvpehvvmtkeevtellaryklrenqlpriqagdpvar
    yfgikrgqvvkiirpsetagryityrlvq
    

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6exvF (F:)
    msdnednfdgddfddveedeglddlenaeeegqenveilpsgerpqanqkrittpymtky
    erarvlgtralqiamcapvmvelegetdplliamkelkarkipiiirrylpdgsyedwgv
    deliisd
    

    Sequence, based on observed residues (ATOM records):
    >6exvF (F:)
    qanqkrittpymtkyerarvlgtralqiamcapvmvelegetdplliamkelkarkipii
    irrylpdgsyedwgvdeliisd
    

  • Chain 'G':
    Sequence, based on SEQRES records:
    >6exvG (G:)
    mfyhisleheillhpryfgpnllntvkqklftevegtctgkygfviavttidnigagviq
    pgrgfvlypvkykaivfrpfkgevvdavvtqvnkvglfteigpmscfisrhsipsemefd
    pnsnppcyktmdediviqqddeirlkivgtrvdkndifaigslmddylglvs
    

    Sequence, based on observed residues (ATOM records):
    >6exvG (G:)
    mfyhisleheillhpryfgpnllntvkqklftevegtctgkygfviavttidnigagviq
    pgrgfvlypvkykaivfrpfkgevvdavvtqvnkvglfteigpmscfisrhsipsemefd
    pnsnppcyktmdediviqqddeirlkivgtrvdkndifaigslmddylglv
    

  • Chain 'H':
    Sequence, based on SEQRES records:
    >6exvH (H:)
    magilfedifdvkdidpegkkfdrvsrlhcesesfkmdlildvniqiypvdlgdkfrlvi
    astlyedgtlddgeynptddrpsradqfeyvmygkvyriegdetsteaatrlsayvsygg
    llmrlqgdannlhgfevdsrvyllmkklaf
    

    Sequence, based on observed residues (ATOM records):
    >6exvH (H:)
    agilfedifdvkdidpegkkfdrvsrlhcesesfkmdlildvniqiypvdlgdkfrlvia
    stlyedgtlddgeynptddrpsradqfeyvmygkvyriegdetsteaatrlsayvsyggl
    lmrlqgdannlhgfevdsrvyllmkkla
    

  • Chain 'I':
    Sequence, based on SEQRES records:
    >6exvI (I:)
    mepdgtyepgfvgirfcqecnnmlypkedkenrillyacrncdyqqeadnsciyvnkith
    evdeltqiiadvsqdptlprtedhpcqkcghkeavffqshsaraedamrlyyvctaphcg
    hrwte
    

    Sequence, based on observed residues (ATOM records):
    >6exvI (I:)
    vgirfcqecnnmlypkedkenrillyacrncdyqqeadnsciyvnkithevdeltqiiad
    vsqdptlprtedhpcqkcghkeavffqshsaraedamrlyyvctaphcghrwte
    

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records:
    >6exvJ (J:)
    miipvrcftcgkivgnkweaylgllqaeytegdaldalglkryccrrmllahvdliekll
    nyaplek
    

  • Chain 'K':
    Sequence, based on SEQRES records:
    >6exvK (K:)
    mnappafesfllfegekkitinkdtkvpnaclftinkedhtlgniiksqllkdpqvlfag
    ykvphplehkiiirvqttpdyspqeaftnaitdliselslleerfrvaikdkqegie
    

    Sequence, based on observed residues (ATOM records):
    >6exvK (K:)
    mnappafesfllfegekkitinkdtkvpnaclftinkedhtlgniiksqllkdpqvlfag
    ykvphplehkiiirvqttpdyspqeaftnaitdliselslleerfrvaikdkqeg
    

  • Chain 'L':
    Sequence, based on SEQRES records:
    >6exvL (L:)
    mdtqkdvqppkqqpmiyicgechteneiksrdpircrecgyrimykkrtkrlvvfdar
    

    Sequence, based on observed residues (ATOM records):
    >6exvL (L:)
    miyicgechteneiksrdpircrecgyrimykkrtkrlvvfdar
    

  • Chain 'M':
    Sequence; same for both SEQRES and ATOM records:
    >6exvM (M:)
    iwgigcnp
    

  • Chain 'N':
    No sequence available.

  • Chain 'P':
    No sequence available.

  • Chain 'T':
    No sequence available.