PDB entry 6eyd

View 6eyd on RCSB PDB site
Description: structure of mycobacterium smegmatis rna polymerase sigma-a holoenzyme
Deposited on 2017-11-11, released 2018-12-12
The last revision was dated 2020-05-06, with a file datestamp of 2020-05-01.
Experiment type: EM
Resolution: 4.2 Å
R-factor: N/A
AEROSPACI score: 0.03 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: DNA-directed RNA polymerase subunit alpha
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: rpoA, MSMEG_1524, MSMEI_1488
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: DNA-directed RNA polymerase subunit alpha
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: rpoA, MSMEG_1524, MSMEI_1488
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: DNA-directed RNA polymerase subunit beta
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: rpoB, MSMEG_1367, MSMEI_1328
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: DNA-directed RNA polymerase subunit beta'
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: rpoC, MSMEG_1368, MSMEI_1329
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: DNA-directed RNA polymerase subunit omega
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: rpoZ, MSMEG_3053, MSMEI_2977
    Database cross-references and differences (RAF-indexed):
  • Chain 'F':
    Compound: RNA polymerase sigma factor SigA
    Species: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [TaxId:246196]
    Gene: sigA, MSMEG_2758
    Database cross-references and differences (RAF-indexed):
  • Heterogens: 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:
    >6eydA (A:)
    mlisqrptlseetvaenrsrfvieplepgfgytlgnslrrtllssipgaavtsiridgvl
    hefttvpgvkedvtdiilnlkglvvssdddepvtmylrkqgpgvvtagdivppagvtvhn
    pdmhiatlndkgklevelvvergrgyvpavqnkasgaeigripvdsiyspvlkvtykvea
    trveqrtdfdkliidvetknsisprdalasaggtlvelfglarelnadsehieigpspae
    adhiasfalpiddldltvrsynclkregvhtvgelvartesdlldirnfgqksidevkik
    lhqlglslkdspatfdpsevagydaatgtwtsdagydlddnqdyaeteql
    

    Sequence, based on observed residues (ATOM records):
    >6eydA (A:)
    lisqrptlseetvaenrsrfvieplepgfgytlgnslrrtllssipgaavtsiridgvlh
    efttvpgvkedvtdiilnlkglvvssdddepvtmylrkqgpgvvtagdivppagvtvhnp
    dmhiatlndkgklevelvvergrgyvpavqnkasgaeigripvdsiyspvlkvtykveat
    rveqrtdfdkliidvetknsisprdalasaggtlvelfgl
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >6eydB (B:)
    mlisqrptlseetvaenrsrfvieplepgfgytlgnslrrtllssipgaavtsiridgvl
    hefttvpgvkedvtdiilnlkglvvssdddepvtmylrkqgpgvvtagdivppagvtvhn
    pdmhiatlndkgklevelvvergrgyvpavqnkasgaeigripvdsiyspvlkvtykvea
    trveqrtdfdkliidvetknsisprdalasaggtlvelfglarelnadsehieigpspae
    adhiasfalpiddldltvrsynclkregvhtvgelvartesdlldirnfgqksidevkik
    lhqlglslkdspatfdpsevagydaatgtwtsdagydlddnqdyaeteql
    

    Sequence, based on observed residues (ATOM records):
    >6eydB (B:)
    mlisqrptlseetvaenrsrfvieplepgfgytlgnslrrtllssipgaavtsiridgvl
    hefttvpgvkedvtdiilnlkglvvssdddepvtmylrkqgpgvvtagdivppagvtvhn
    pdmhiatlndkgklevelvvergrgyvpavqnkasgaeigripvdsiyspvlkvtykvea
    trveqrtdfdkliidvetknsisprdalasaggtlvelfglarelnadsehie
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >6eydC (C:)
    vlegcilavssqsksnaitnnsvpgapnrvsfaklreplevpglldvqtdsfewlvgsdr
    wrqaaidrgeenpvggleevlaelspiedfsgsmslsfsdprfdevkasvdeckdkdmty
    aaplfvtaefinnntgeiksqtvfmgdfpmmtekgtfiingtervvvsqlvrspgvyfde
    tidkstektlhsvkvipgrgawlefdvdkrdtvgvridrkrrqpvtvllkalgwtneqiv
    erfgfseimmgtlekdttsgtdealldiyrklrpgepptkesaqtllenlffkekrydla
    rvgrykvnkklglnagkpitsstlteedvvatieylvrlhegqtsmtvpggvevpvevdd
    idhfgnrrlrtvgeliqnqirvglsrmervvrermttqdveaitpqtlinirpvvaaike
    ffgtsqlsqfmdqnnplsglthkrrlsalgpgglsreraglevrdvhpshygrmcpietp
    egpnigligslsvyarvnpfgfietpyrkvengvvtdqidyltadeedrhvvaqansptd
    engrftedrvmvrkkggevefvsadqvdymdvsprqmvsvatamipflehddanralmga
    nmqrqavplvrseaplvgtgmelraaidagdvvvadktgvieevsadyitvmaddgtrqs
    yrlrkfarsnhgtcanqrpivdagqrveagqviadgpctqngemalgknllvaimpwegh
    nyedaiilsnrlveedvltsihieeheidardtklgaeeitrdipnvsdevladldergi
    vrigaevrdgdilvgkvtpkgeteltpeerllraifgekarevrdtslkvphgesgkvig
    irvfsredddelpagvnelvrvyvaqkrkisdgdklagrhgnkgvigkilpvedmpflpd
    gtpvdiilnthgvprrmnigqilethlgwvakagwnidvaagvpdwasklpeelysapad
    stvatpvfdgaqegelagllgstlpnrdgevmvdadgkstlfdgrsgepfpypvtvgymy
    ilklhhlvddkiharstgpysmitqqplggkaqfggqrfgemecwamqaygaaytlqell
    tiksddtvgrvkvyeaivkgenipepgipesfkvllkelqslclnvevlssdgaaiemrd
    gddedleraaanlginlsrnesasvedlalarhggsga
    

    Sequence, based on observed residues (ATOM records):
    >6eydC (C:)
    nsvpgapnrvsfaklreplevpglldvqtdsfewlvgsdrwrqaaidrgeenpvggleev
    laelspiedfsgsmslsfsdprfdevkasvdeckdkdmtyaaplfvtaefinnntgeiks
    qtvfmgdfpmmtekgtfiingtervvvsqlvrspgvyfdetidkstektlhsvkvipgrg
    awlefdvdvgvridrkrrqpvtvllkalgwtneqiverfgfseimmgtlekdttsgtdea
    lldiyrklrpgepptkesaqtllenlffkekrydlarvgrykvnkklglnagkpitsstl
    teedvvatieylvrlhegqtsmtvpggvevpvevddidhfgnrrlrtvgeliqnqirvgl
    srmervvrermttqdveaitpqtlinirpvvaaikeffgtsqlsqfmdqnnplsglthkr
    rlsalgpgglsreraglevrdvhpshygrmcpietpegpnigligslsvyarvnpfgfie
    tpyrkvengvvtdqidyltadeedrhvvaqansptdengrftedrvmvrkkggevefvsa
    dqvdymdvsprqmvsvatamipflehddanralmganmqrqavplvrseaplvgtgmelr
    aaidagdvvvadktgvieevsadyitvmaddgtrqsyrlrkfarsnhgtcanqrpivdag
    qrveagqviadgpctqngemalgknllvaimpweghnyedaiilsnrlveedvltsihie
    eheidardtklgaeeitrdipnvsdevladldergivrigaevrdgdilvgkvtpvrdts
    lkvphgesgkvigirvfsredddelpagvnelvrvyvaqkrkisdgdklagrhgnkgvig
    kilpvedmpflpdgtpvdiilnthgvprrmnigqilethlgwvakagwnidvaagvpdwa
    sklpeelysapadstvatpvfdgaqegelagllgstlpnrdgevmvdadgkstlfdgrsg
    epfpypvtvgymyilklhhlvddkiharstgpysmitqqplggkaqfggqrfgemecwam
    qaygaaytlqelltiksddtvgrvkvyeaivkgenipepgipesfkvllkelqslclnve
    vlssdgaaiemr
    

  • Chain 'D':
    Sequence, based on SEQRES records:
    >6eydD (D:)
    vldvnffdelriglataddirnwsygevkkpetinyrtlkpekdglfcekifgptrdwec
    ycgkykrvrfkgiicercgvevtrakvrrermghielaapvthiwyfkgvpsrlgylldl
    apkdlekiiyfaayvitsvddemrhnelstleaemavekkavedqrdadlearaqklead
    laeleaegaksdvrrkvrdsgeremrqlrdraqreldrldeiwntftklapkqlivdevl
    yrelqdrygeyftgamgaesikklienfdidaeaeslrevirsgkgqkklralkrlkvva
    afqqsgnspmgmvldavpvippelrpmvqldggrfatsdlndlyrrvinrnnrlkrlidl
    gapeiivnnekrmlqesvdalfdngrrgrpvtgpgnrplkslsdllkgkqgrfrqnllgk
    rvdysgrsvivvgpqlklhqcglpklmalelfkpfvmkrlvdlnhaqniksakrmverqr
    pqvwdvleeviaehpvllnraptlhrlgiqafepqlvegkaiqlhplvceafnadfdgdq
    mavhlplsaeaqaearilmlssnnilspasgkplamprldmvtglyylttlvegatgeyq
    aatkdapeqgvysspaeaimamdrgalsvrakikvrltelrpptdleaqlfengwkpgda
    wtaettlgrvmfnellpksypfvneqmhkkvqariindlaerfpmivvaqtvdklkdagf
    ywatrsgvtvsmadvlvppqkqeilerheaeadaierkyqrgalnhterneslvkiwqda
    teevgkaleefypadnpiitivksgatgnltqtrtlagmkglvtnpkgefiprpikssfr
    egltvleyfinthgarkgladtalrtadsgyltrrlvdvsqdvivrehdceterginvtl
    aergpdgtlirdahvetsafartlatdavdangnviierghdlgdpaidallaagittvk
    vrsvltctsatgvcamcygrsmatgklvdigeavgivaaqsigepgtqltmrtfhqggvt
    ggadivgglprvqelfearvprnkapiadvagrvrleesdkffkitivpddggeevvydk
    lskrqrlrvithedgtegvlsdgdhvevgdqlmegaadphevlrvqgprevqihlvkevq
    evyraqgvsihdkhievivrqmlrrvtiidsgsteflpgslteraefeaenrrvvaegge
    paagrpvlmgitkaslatdswlsaasfqettrvltdaaincrsdklnglkenviigklip
    agtgisryrniqvqpteearaaaytipsyedqyyspdfgqatgaavplddygysdyrhhh
    hhhhh
    

    Sequence, based on observed residues (ATOM records):
    >6eydD (D:)
    vnffdelriglataddirnwsygevkkpetinyrtlkpekdglfcekifgptrdwecycg
    kykrvrfkgiicercgvevtrakvrrermghielaapvthiwyfkgvpsrlgylldlapk
    dlekiiyfaayvitsvddemrhnelstleaemavekkavedqrdadlearaqkleadlae
    ledvrrkvrdsgeremrqlrdraqreldrldeiwntftklapkqlivdevlyrelqdryg
    eyftgamgaesikklienfdidaeaeslrevirsgkgqkklralkrlkvvaafqqsgnsp
    mgmvldavpvippelrpmvqldggrfatsdlndlyrrvinrnnrlkrlidlgapeiivnn
    ekrmlqesvdalfdngrrgrpvtgpgnrplkslsdllkgkqgrfrqnllgkrvdysgrsv
    ivvgpqlklhqcglpklmalelfkpfvmkrlvdlnhaqniksakrmverqrpqvwdvlee
    viaehpvllnraptlhrlgiqafepqlvegkaiqlhplvceafnadfdgdqmavhlplsa
    eaqaearilmlssnnilspasgkplamprldmvtglyylttlvegatgeyqaatkdapeq
    gvysspaeaimamdrgalsvrakikvrltelrpptdleaqlfengwkpgdawtaettlgr
    vmfnellpksypfvneqmhkkvqariindlaerfpmivvaqtvdklkdagfywatrsgvt
    vsmadvlvppqkqeilerheaeadaierkyqrgalnhterneslvkiwqdateevgkale
    efypadnpiitivksgatgnltqtrtlagmkglvtnpkgefiprpikssfregltvleyf
    inthgarkgladtalrtadsgyltrrlvdvsqdvivrehdceterginvtlaergpdird
    ahvetsafartlatdavdangnviierghdlgdpaidallaagittvkvrsvltctsatg
    vcamcygrsmatgklvdigeavgivaaqsigepgtqltgglprvqelfearvprnkapia
    dvagrvrleesdkffkitivpddggeevvydklskrqrlrvgvlsdgdhvevgdqlmega
    adphevlrvqgprevqihlvkevqevyraqgvsihdkhievivrqmlrrvtiidsgstef
    lpgslteraefeaenrrvvaagrpvlmgitkaslatdswlsaasfqettrvltdaaincr
    sdklnglkenviigklipagtgisryrniqvqpteearaaa
    

  • Chain 'E':
    Sequence, based on SEQRES records:
    >6eydE (E:)
    vstphadaqlnaaddlgidssaasaydtplgitnppidellsrasskyalviyaakrarq
    indyynqlgdgileyvgplvepglqekplsialreihgdllehtege
    

    Sequence, based on observed residues (ATOM records):
    >6eydE (E:)
    saydtplgitnppidellsrasskyalviyaakrarqindyyneyvgplvepglqekpls
    ialreihgdllehteg
    

  • Chain 'F':
    Sequence, based on SEQRES records:
    >6eydF (F:)
    maatkaspateepvkrtatktpakkapakraaksaaakaggkapakkapakraakgtaak
    pedgvtddlevtddleaepgedldvedtdlelddldsdddtavedeeeeadaatpavata
    kaadddidepsekdkasgdfvwdeeesealrqarkdaeltasadsvraylkqigkvalln
    aeeevelakrieaglyatqklaelaekgeklpvqqrrdmqwicrdgdraknhlleanlrl
    vvslakrytgrgmafldliqegnlgliravekfdytkgykfstyatwwirqaitramadq
    artiripvhmvevinklgriqrellqdlgreptpeelakemditpekvleiqqyarepis
    ldqtigdegdsqlgdfiedseavvavdavsftllqdqlqsvletlsereagvvrlrfglt
    dgqprtldeigqvygvtrerirqiesktmsklrhpsrsqvlrdyld
    

    Sequence, based on observed residues (ATOM records):
    >6eydF (F:)
    alrqarkdaeltasadsvraylkqigkvallnaeeevelakrieaglyatqklaelaekg
    eklpvqqrrdmqwicrdgdraknhlleanlrlvvslakrytgrgmafldliqegnlglir
    avekfdytkgykfstyatwwirqaitramadqartiripvhmvevinklgriqrellqdl
    greptpeelakemditpekvleiqqyarepisldqti