PDB entry 7ogp

View 7ogp on RCSB PDB site
Description: structure of the apo-state of the bacteriophage phikz non-virion rna polymerase - class including clamp
Deposited on 2021-05-07, released 2021-07-07
The last revision was dated 2021-07-28, with a file datestamp of 2021-07-23.
Experiment type: EM
Resolution: 3.3 Å
R-factor: N/A
AEROSPACI score: 0.14 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: phikz055,phikz056.1
    Species: Pseudomonas phage phiKZ [TaxId:169683]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8SDA7 (20-434)
      • initiating methionine (0)
      • expression tag (1-19)
      • linker (435-446)
    • Uniprot L7T138 (447-507)
  • Chain 'B':
    Compound: phikz068
    Species: Pseudomonas phage phiKZ [TaxId:169683]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8SD94 (0-520)
      • conflict (1)
      • conflict (77)
  • Chain 'C':
    Compound: PHIKZ071,DNA-directed RNA polymerase
    Species: Pseudomonas phage phiKZ [TaxId:169683]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8SD91 (0-392)
      • linker (393-404)
    • Uniprot Q8SD89 (405-699)
  • Chain 'D':
    Compound: phikz074
    Species: Pseudomonas phage phiKZ [TaxId:169683]
    Database cross-references and differences (RAF-indexed):
  • Chain 'E':
    Compound: phikz123
    Species: Pseudomonas phage phiKZ [TaxId:169683]
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q8SD39 (0-542)
      • conflict (196)
  • Heterogens: ZN

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:
    >7ogpA (A:)
    mgsshhhhhhssglvprgshmglyakvvdhnevhdqftgkriyandyntsnsdekeefdr
    hfyshfqdseaiessvscdcraiedahklgvicdicntpvvntssrpiepsmwvrtpkhv
    rslinprliimltgylvtkefdflayltdtsyrydvesigsketrrkvdrllhrgfergl
    nhfidnfneifqflldaniisnnksefaqfvaqnkdklfpkylpvpsklcfvaesttsgt
    yldkpieaaidatltfasidassvplspikaqnrtmrglrlygqfyeiyaksriaqkpgl
    arrhmfgarlnataravitsisdphdydelhipwgvgcqllkyhltnklkakfnmttrea
    fsfvyenvlqynqiiadlfkeliaeaapykgmgctfhrnptlqrgstqqffitkvkddin
    dnsismsvlclkapnadfdgdqlnltlmpdvyltkateriaphtwvlsidepheisgnle
    lqgpvvetiinwahekylppleewlkak
    

    Sequence, based on observed residues (ATOM records):
    >7ogpA (A:)
    vvdhnevhdqftgkriyandyntsnsdekeefdrhfysrllhrgferglnhfidnfneif
    qflldaniisnnksefaqfvaqnkdklfpkylpvpsklcfvattsgtyldkpieaaidat
    lspikaqnrtmrglrlygqfyeiyaksriaqkpglarrhmfgarlnataravitsisdph
    dydelhipwgvgcqllkyhltnklkakfnmttreafsfvyenvlqynqiiadlfkeliae
    aapykgmgctfhrnptlqrgstqqffitkvkddindnsismsvlclkapnadfdgdqlnl
    tlmpdvyltkateriaphtwvlsidepheisgnlelqgpvvetiinwahekylppleewl
    k
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >7ogpB (B:)
    meiivtgvqgtgftevatehngkrltwtttayskirvqdqqrvfqeindywsglsaeaqq
    hiwncyveirkimdmamhpmriamslsyyikemykampmnsfrrwlltigklyipvdiee
    vitddsrynrpdqtylkhdyinlasvslalrplvpiwgefidqgtsqemhkecevislis
    dcevnhwpvdeisidgtpvetaydklsayvkfcvedeaptlanlyrgmssaevpdilqak
    vmvrrltilplndatshsivsnmfryvksnlnpaerstadrvndkrpdkggiddddktsf
    ieshktkqrvtpgdivaynldaldvvklvhkiddtvpveliqecldcvavtatkdiyphq
    illaqwvmhkafparafshinknavnhllaaaqslmwhwgfqqvavfmqvelyysgeham
    siqprnstriqikykdvmdelyphqrqqraingvpvapvniagiavqsahasirssnwiy
    hgpdrlfkeaeqvtqnkvlvvpatiksvitelvihlgklnq
    

    Sequence, based on observed residues (ATOM records):
    >7ogpB (B:)
    hktkqrvtpgdivaynldaldvvklvhkiddtvpveliqecldcvavtatkdiyphqill
    aqwvmhkafparafshinknavnhllaaaqslmwhwgfqqvavfmqvelyriqikykdvm
    delyphqrqqraingvpvapvniagiavqsahasirssnwiyhgpdrlfkeaeqvtqnkv
    lvvpatiksvitelvihlgklnq
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >7ogpC (C:)
    msqlgrreidltllghtgldpwygttssargamfvthigqapevngnesryfltgaeley
    akythdvrfpedcrvlhvlrkyptgigkdsirsnpvttiiyenyfdkyktigvlhvpeym
    shhqdfgyelvknrevwetiapnemfskdtviaqsgavkkdgtlgmgvnanvvflsaagt
    iedgfvanknflkrmmptsystavanagrkafflnmygddkiykpfpdigdvirpdgvif
    airdhdddlapaemtpralrtldrtfdravigtpgakvididiwrdervnpsptptgmda
    qlvkyhthlssyyrellkiyrgllarrkddlhiteeferlivtaqmflpqpdnvrklsrf
    yrldpldewrvevtykaqkmpagafkmtdfhggkgvickvmededmpidengnradliif
    ggstmrrsnygriyehgfgaaardlaqrlrveagldrhakptqqqlnsvmgntqwvdyaf
    kellgfyeiiaptmhskmmehpnpaehvktvlmdgfpyiyapvddpvdlmaavnklinsd
    kyrphygkvsyrdqagkwvttkdnvlmgplymmllekigedwsaaasvktqpfglpskln
    nadrastpgretairsfgesetrsynctvgpgptaeildqtnnplahaavieswltaekp
    ssvpvavdrekipfggsrpvamfdhllecsgialeyapdh
    

    Sequence, based on observed residues (ATOM records):
    >7ogpC (C:)
    sqlgrreidltllghtgldpwygttssargamfvthigqapevngnesryfltgaeleya
    kythdvrfpedcrvlhvlrkyptgigkdsirsnpvttiiyenyfdkyktigvlhvpeyms
    hhqdfgyelvknrevwetiapnemfskdtviaqsgavkkdgtlgmgvnanvvflsaagti
    edgfvanknflkrmmptsystavanagrkafflnmygddkiykpfpdigdvirpdgvifa
    irdhdddlapaemtpralrtldrtfdravigtpgakvididiwrdervnpsptptgmdaq
    lvkyhthlssyyrellkiyrgllarrkddlhiteeferlivtaqmflpqpdnvrklsrfy
    rldpldewrvevtykaqkmpagafkmtdfhggkgvickvmededmpidengnradliifg
    gstmrrsnygriyehgfgaaardlaqrlrveagldrhakptqqqlnsvmgntqwvdyafk
    ellgfyeiiaptmhskmmehpnpaehvktvlmdgfpyiyapvddpvdlmaavnklinsdk
    yrphygkvsyrdqagkwvttkdnvlmgplymmllekigedwsaaasvktqpsklnnadra
    stpgretairsfgesetrsynctvgpgptaeildqtnnplahaavieswltaekpssvpv
    avdrekipfggsrpvamfdhllecsgialeyap
    

  • Chain 'D':
    Sequence, based on SEQRES records:
    >7ogpD (D:)
    mnlnrykardllnlsyddlwslpsewhliefddgktvvsvdritklsvlcwyplkhykdc
    pipsdhhidfnriltdnpkdylnveggrvtskamvkhlnkaiwniydwsgetvdpevlsk
    laiegknwlynqttvklseylatlsmfdiaevynhpkvreanhniepttygiekisygkv
    kevfndptqfignsiieglrsgtqkteqllqafawrgfptdinsdifkypvttgyidgiw
    nlyenmiesrsgtkallynkellrvteyfnrksqliaqyvqrlhpgdckttilaeypvtk
    ltlkafkgkyyqkedgkldwirgnethligtkqkfrsvfgcnhpdsqgicmtcygrlgin
    ipkgtnigqvaavsmgdkitsavlstkhtdassaveqyklgkiesnylrtgeipetlylk
    keltqkdyrlviarseaenladilmiddltaypatsateltslalvyddevngecgdvlt
    vslynrraslsiemlkhikmvrweldqrdnivislrgfdfnlpfltlpnkhvnmyevmkr
    fqsflhsgsdsaeagklstekvgytsktylknykspiealpvfatmanekislnishcei
    liyammirsaqyrdyrlpkpgingqfekynrlmqcrslggamafekqheplnnpgsflnk
    mrndhpydllvkggklr
    

    Sequence, based on observed residues (ATOM records):
    >7ogpD (D:)
    mnlnrykardllnlsyddlwslpsewhliefddgktvvsvdritklsvlcwyplkhykdc
    pipsdhhidfnriltdnpkdylnveggrvtskamvkhlnkaiwniydwsgetvdpevlsk
    laiegknwlynqttvklseylatlsmfdiaevynhpkvreanhniepttygiekisygkv
    kevfndptqfignsiieglrsgtqkteqllqafawrgfptdinsdifkypvttgyidgiw
    nlyenmiesrsgtkallynkellrvteyfnrksqliaqyvqrlhpgdckttilaeypvtk
    ltlkafkgkyyqkedgkldwirgnethligtkqkfrsvfgcnhpdsqgicmtcygrlgin
    ipkgtnigqvaavsmgdkitsavlaeagklstekvgytsktylknykspiealpvfatma
    nekislnishceiliyammirsaqyrdyrlpkpgingqfekynrlmqcrslggamafekq
    heplnnpgsflnkmrndhpydllvkggklr
    

  • Chain 'E':
    Sequence, based on SEQRES records:
    >7ogpE (E:)
    mpdpfliekirentpcmnptlangitvehtmtrdpntgvnmtrryidslfdissvlfpdg
    fkyegnractplkhfeeitreynakrianiaptdmymidlmfsykgemlyprpmllpafk
    rgnmvtingakyigspvltdvgfsvlndsifipfrrtkltfkqtdhhymcngqrkimyvi
    wsqihnemakrtkrdlgnrphiesclahyffcqfgvtqtfkqwanvdvkcgllsdfpeee
    yprekwniyssatlkgkhptgemvlviprhqesifatrliagfwyvvdafpmrftrpeyv
    dstnlwrvilghmvfgdfehqgkveenidshlhsfcnsldemtieelktvgvnvstiwel
    lyeimtslahhlyatdidetsmygkrltvlhylmsefnyavsmfgymfqsrrdrewtvqe
    lneglkrsfklqtaikrltvdhgeldtmsnpnssmlikgtsilvtqdraktakahnksli
    ndssriihasiaevgqyknqpknnpdgrgrlnmytkvgptglverreevreiidnaqlmf
    rak
    

    Sequence, based on observed residues (ATOM records):
    >7ogpE (E:)
    pdpfliekirentpcmnptlangitvehtmtrdpntgvnmtrryidslfdissvlfpdgf
    kyegnractplkhfeeitreynakrianiaptdmymidlmfsykgemlyprpmllpafkr
    gnmvtingakyigspvltdvgfsvlndsifipfrrtkltfkqtdhhgkveenidshlhsf
    cnsldemtieelktvgvnvstiwellyeimtslahhlyatdidetsmygkrltvlhylms
    efnyavsmfgymfqsrrdrewtvqelneglkrsfklqtaikrltvdhgeldtmsnpnssm
    likgtsilvtqdraktssriihasiaevgqyknqpknnpdgrgrlnmytkvgptglverr
    eevreiidnaqlmfrak