PDB entry 2yaj

View 2yaj on RCSB PDB site
Description: crystal structure of glycyl radical enzyme with bound substrate
Deposited on 2011-02-23, released 2011-09-21
The last revision was dated 2019-10-16, with a file datestamp of 2019-10-11.
Experiment type: XRAY
Resolution: 1.81 Å
R-factor: N/A
AEROSPACI score: 0.36 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 4-hydroxyphenylacetate decarboxylase large subunit
    Species: CLOSTRIDIUM SCATOLOGENES [TaxId:1548]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: 4-hydroxyphenylacetate decarboxylase small subunit
    Species: CLOSTRIDIUM SCATOLOGENES [TaxId:1548]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: 4-hydroxyphenylacetate decarboxylase large subunit
    Species: CLOSTRIDIUM SCATOLOGENES [TaxId:1548]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: 4-hydroxyphenylacetate decarboxylase small subunit
    Species: CLOSTRIDIUM SCATOLOGENES [TaxId:1548]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: 4HP, SF4, HOH

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:
    >2yajA (A:)
    mnvketkledvlksrgidmkdayniseadipeakestqklmdiyytlkvtadmeaaywyn
    rtwwendgevievrrakavaaslshmtptilpyeklvmnktknvrgafpfpwvcasffna
    qaealmnevdapaeneadsvsvvgagggnvtesygnvisiakkfgmrkeeipvlvktskp
    wegisveelsnkyskmtpgydqfknimesvicmfdsfaipqgrevinyymplqygfdgii
    klcdekiaevmgeagddgdfgmsrgyyyaamkeitkglsawcenyskrakylasietdse
    ikanyekieevmgniahkkpanfweaiqmtlcchfgvvnedpqsglsigrlgqvlqpfye
    kdvedgimtdeeviellelyrikitciecfasagvsggvlsgntfnnlslggqnydglsa
    vtpleyliveagmrnqtpqptlsvlydektpedflmkaasctklglgypawmnnqtgmnf
    mmrnygpegmdlhdarawclggclesapgcflpleyngkvtmipggasptcgtgvhfigm
    pkvlelvltngldkrtgkqvypphnkkldsyetmvnqwkeymelttdvvnrcnniqmdiw
    rkynmpavnsllkpdcfkkgkhigtmgarynscinfescgtitfvnslssikknvfddsk
    ftieemtdamlnnfgfktayetevfspdfrestdkstkyekifaacvnapkygnadkyad
    eifkayhyyiydmthkfrsyygkplylcqisvsthgpqgfvtlatadgrlagttysdgsv
    saaagtdkngiyaifesatvydhsmhqnaqmnlklhptavkgingtrklldlvraymrkg
    gfhvqfnvvdsktlrdaqltpekyrelmvrvagftqywceigkpiqdeviyrteydk
    

    Sequence, based on observed residues (ATOM records):
    >2yajA (A:)
    dipeakestqklmdiyytlkvtadmeaaywynrtwwendgevievrrakavaaslshmtp
    tilpyeklvmnktknvrgafpfpwvcasffnaqaealmnevdapaeneadsvsvvgaggg
    nvtesygnvisiakkfgmrkeeipvlvktskpwegisveelsnkyskmtpgydqfknime
    svicmfdsfaipqgrevinyymplqygfdgiiklcdekiaevmgeagddgdfgmsrgyyy
    aamkeitkglsawcenyskrakylasietdseikanyekieevmgniahkkpanfweaiq
    mtlcchfgvvnedpqsglsigrlgqvlqpfyekdvedgimtdeeviellelyrikitcie
    cfasagvsggvlsgntfnnlslggqnydglsavtpleyliveagmrnqtpqptlsvlyde
    ktpedflmkaasctklglgypawmnnqtgmnfmmrnygpegmdlhdarawclggclesap
    gcflpleyngkvtmipggasptcgtgvhfigmpkvlelvltngldkrtgkqvypphnkkl
    dsyetmvnqwkeymelttdvvnrcnniqmdiwrkynmpavnsllkpdcfkkgkhigtmga
    rynscinfescgtitfvnslssikknvfddskftieemtdamlnnfgfktayetevfspd
    frestdkstkyekifaacvnapkygnadkyadeifkayhyyiydmthkfrsyygkplylc
    qisvsthgpqgfvtlatadgrlagttysdgsvsaaagtdkngiyaifesatvydhsmhqn
    aqmnlklhptavkgingtrklldlvraymrkggfhvqfnvvdsktlrdaqltpekyrelm
    vrvagftqywceigkpiqdeviyrteydk
    

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records:
    >2yajB (B:)
    mrhydcknyinldcekglcaltkgmvpidgegseacpnfkpaekcgncknfcnpdkyglg
    tctglekenwayatcgasacpsykae
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >2yajC (C:)
    mnvketkledvlksrgidmkdayniseadipeakestqklmdiyytlkvtadmeaaywyn
    rtwwendgevievrrakavaaslshmtptilpyeklvmnktknvrgafpfpwvcasffna
    qaealmnevdapaeneadsvsvvgagggnvtesygnvisiakkfgmrkeeipvlvktskp
    wegisveelsnkyskmtpgydqfknimesvicmfdsfaipqgrevinyymplqygfdgii
    klcdekiaevmgeagddgdfgmsrgyyyaamkeitkglsawcenyskrakylasietdse
    ikanyekieevmgniahkkpanfweaiqmtlcchfgvvnedpqsglsigrlgqvlqpfye
    kdvedgimtdeeviellelyrikitciecfasagvsggvlsgntfnnlslggqnydglsa
    vtpleyliveagmrnqtpqptlsvlydektpedflmkaasctklglgypawmnnqtgmnf
    mmrnygpegmdlhdarawclggclesapgcflpleyngkvtmipggasptcgtgvhfigm
    pkvlelvltngldkrtgkqvypphnkkldsyetmvnqwkeymelttdvvnrcnniqmdiw
    rkynmpavnsllkpdcfkkgkhigtmgarynscinfescgtitfvnslssikknvfddsk
    ftieemtdamlnnfgfktayetevfspdfrestdkstkyekifaacvnapkygnadkyad
    eifkayhyyiydmthkfrsyygkplylcqisvsthgpqgfvtlatadgrlagttysdgsv
    saaagtdkngiyaifesatvydhsmhqnaqmnlklhptavkgingtrklldlvraymrkg
    gfhvqfnvvdsktlrdaqltpekyrelmvrvagftqywceigkpiqdeviyrteydk
    

    Sequence, based on observed residues (ATOM records):
    >2yajC (C:)
    eadipeakestqklmdiyytlkvtadmeaaywynrtwwendgevievrrakavaaslshm
    tptilpyeklvmnktknvrgafpfpwvcasffnaqaealmnevdapaeneadsvsvvgag
    ggnvtesygnvisiakkfgmrkeeipvlvktskpwegisveelsnkyskmtpgydqfkni
    mesvicmfdsfaipqgrevinyymplqygfdgiiklcdekiaevmgeagddgdfgmsrgy
    yyaamkeitkglsawcenyskrakylasietdseikanyekieevmgniahkkpanfwea
    iqmtlcchfgvvnedpqsglsigrlgqvlqpfyekdvedgimtdeeviellelyrikitc
    iecfasagvsggvlsgntfnnlslggqnydglsavtpleyliveagmrnqtpqptlsvly
    dektpedflmkaasctklglgypawmnnqtgmnfmmrnygpegmdlhdarawclggcles
    apgcflpleyngkvtmipggasptcgtgvhfigmpkvlelvltngldkrtgkqvypphnk
    kldsyetmvnqwkeymelttdvvnrcnniqmdiwrkynmpavnsllkpdcfkkgkhigtm
    garynscinfescgtitfvnslssikknvfddskftieemtdamlnnfgfktayetevfs
    pdfrestdkstkyekifaacvnapkygnadkyadeifkayhyyiydmthkfrsyygkply
    lcqisvsthgpqgfvtlatadgrlagttysdgsvsaaagtdkngiyaifesatvydhsmh
    qnaqmnlklhptavkgingtrklldlvraymrkggfhvqfnvvdsktlrdaqltpekyre
    lmvrvagftqywceigkpiqdeviyrteydk
    

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records:
    >2yajD (D:)
    mrhydcknyinldcekglcaltkgmvpidgegseacpnfkpaekcgncknfcnpdkyglg
    tctglekenwayatcgasacpsykae