PDB entry 2yic

View 2yic on RCSB PDB site
Description: crystal structure of the suca domain of mycobacterium smegmatis alpha-ketoglutarate decarboxylase (triclinic form)
Deposited on 2011-05-11, released 2011-06-15
The last revision was dated 2011-10-12, with a file datestamp of 2011-10-07.
Experiment type: XRAY
Resolution: 1.96 Å
R-factor: 0.1896
AEROSPACI score: 0.46 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: 2-oxoglutarate decarboxylase
    Species: MYCOBACTERIUM SMEGMATIS [TaxId:1772]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: 2-oxoglutarate decarboxylase
    Species: MYCOBACTERIUM SMEGMATIS [TaxId:1772]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: 2-oxoglutarate decarboxylase
    Species: MYCOBACTERIUM SMEGMATIS [TaxId:1772]
    Database cross-references and differences (RAF-indexed):
  • Chain 'D':
    Compound: 2-oxoglutarate decarboxylase
    Species: MYCOBACTERIUM SMEGMATIS [TaxId:1772]
    Database cross-references and differences (RAF-indexed):
  • Heterogens: TPP, MG, CA, 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:
    >2yicA (A:)
    gdsiedknarvieliaayrnrghlmadidplrldntrfrshpdldvnshgltlwdldref
    kvdgfagvqrkklrdilsvlrdaycrhvgveythilepeqqrwiqervetkhdkptvaeq
    kyilsklnaaeafetflqtkyvgqkrfslegaetvipmmdavidqcaehgldevviamph
    rgrlnvlanivgkpysqifsefegnlnpsqahgsgdvkyhlgatgtyiqmfgdndievsl
    tanpshleavdpvleglvrakqdlldtgeegsdnrfsvvplmlhgdaafagqgvvaetln
    lallrgyrtggtihivvnnqigfttaptdsrsseyctdvakmigapifhvngddpeacaw
    varlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpymydvidtkrgsrkayteali
    grgdismkeaedalrdyqgqlervfnevrelekheiepsesveadqqipsklatavdkam
    lqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvrls
    gqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavgfe
    ygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqgpd
    htsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnkaav
    sdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvaivr
    ieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkris
    rramsapssgsskvhaveqqeildtafg
    

    Sequence, based on observed residues (ATOM records):
    >2yicA (A:)
    knarvieliaayrnrghlmadidplrldntrfrstlwdldrefqrkklrdilsvlrdayc
    rhvgveythilepeqqrwiqervetkhdkptvaeqkyilsklnaaeafetflqtkyvgqk
    rfslegaetvipmmdavidqcaehgldevviamphrgrlnvlanivgkpysqifsefedv
    kyhlgatgtyiqmfgdndievsltanpshleavdpvleglvrakqdlldtgeegsdnrfs
    vvplmlhgdaafagqgvvaetlnlallrgyrtggtihivvnnqigfttaptdsrsseyct
    dvakmigapifhvngddpeacawvarlavdfrqafkkdvvidmlcyrrrghnegddpsmt
    qpymydvidtkrgsrkaytealigrgdismkeaedalrdyqgqlervfnevrelekhlat
    avdkamlqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaeg
    klvrlsgqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsef
    aavgfeygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphgh
    egqgpdhtsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksml
    rnkaavsdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenre
    dvaivrieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhft
    glkrisrramsapssgsskvhaveqqeildtafg
    

  • Chain 'B':
    Sequence, based on SEQRES records:
    >2yicB (B:)
    gdsiedknarvieliaayrnrghlmadidplrldntrfrshpdldvnshgltlwdldref
    kvdgfagvqrkklrdilsvlrdaycrhvgveythilepeqqrwiqervetkhdkptvaeq
    kyilsklnaaeafetflqtkyvgqkrfslegaetvipmmdavidqcaehgldevviamph
    rgrlnvlanivgkpysqifsefegnlnpsqahgsgdvkyhlgatgtyiqmfgdndievsl
    tanpshleavdpvleglvrakqdlldtgeegsdnrfsvvplmlhgdaafagqgvvaetln
    lallrgyrtggtihivvnnqigfttaptdsrsseyctdvakmigapifhvngddpeacaw
    varlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpymydvidtkrgsrkayteali
    grgdismkeaedalrdyqgqlervfnevrelekheiepsesveadqqipsklatavdkam
    lqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvrls
    gqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavgfe
    ygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqgpd
    htsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnkaav
    sdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvaivr
    ieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkris
    rramsapssgsskvhaveqqeildtafg
    

    Sequence, based on observed residues (ATOM records):
    >2yicB (B:)
    dknarvieliaayrnrghlmadidplrldntrfwdldrefkrkklrdilsvlrdaycrhv
    gveythilepeqqrwiqervetkhdkptvaeqkyilsklnaaeafetflqtkyvgqkrfs
    legaetvipmmdavidqcaehgldevviamphrgrlnvlanivgkpysqifsefdvkyhl
    gatgtyiqmfgdndievsltanpshleavdpvleglvrakqdlldtgeegsdnrfsvvpl
    mlhgdaafagqgvvaetlnlallrgyrtggtihivvnnqigfttaptdsrsseyctdvak
    migapifhvngddpeacawvarlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpym
    ydvidtkrgsrkaytealigrgdismkeaedalrdyqgqlervfnevrelekhlatavdk
    amlqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvr
    lsgqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavg
    feygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqg
    pdhtsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnka
    avsdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvai
    vrieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkr
    isrramsapssgsskvhaveqqeildtafg
    

  • Chain 'C':
    Sequence, based on SEQRES records:
    >2yicC (C:)
    gdsiedknarvieliaayrnrghlmadidplrldntrfrshpdldvnshgltlwdldref
    kvdgfagvqrkklrdilsvlrdaycrhvgveythilepeqqrwiqervetkhdkptvaeq
    kyilsklnaaeafetflqtkyvgqkrfslegaetvipmmdavidqcaehgldevviamph
    rgrlnvlanivgkpysqifsefegnlnpsqahgsgdvkyhlgatgtyiqmfgdndievsl
    tanpshleavdpvleglvrakqdlldtgeegsdnrfsvvplmlhgdaafagqgvvaetln
    lallrgyrtggtihivvnnqigfttaptdsrsseyctdvakmigapifhvngddpeacaw
    varlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpymydvidtkrgsrkayteali
    grgdismkeaedalrdyqgqlervfnevrelekheiepsesveadqqipsklatavdkam
    lqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvrls
    gqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavgfe
    ygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqgpd
    htsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnkaav
    sdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvaivr
    ieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkris
    rramsapssgsskvhaveqqeildtafg
    

    Sequence, based on observed residues (ATOM records):
    >2yicC (C:)
    narvieliaayrnrghlmadidplrldntrftlwdldrefkklrdilsvlrdaycrhvgv
    eythilepeqqrwiqervetkhdkptvaeqkyilsklnaaeafetflqtkyvgqkrfsle
    gaetvipmmdavidqcaehgldevviamphrgrlnvlanivgkpysqifsegdvkyhlga
    tgtyiqmfgdndievsltanpshleavdpvleglvrakqdlldtgeegrfsvvplmlhgd
    aafagqgvvaetlnlallrgyrtggtihivvnnqigfttaptdsrsseyctdvakmigap
    ifhvngddpeacawvarlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpymydvid
    tkrgsrkaytealigrgdismkeaedalrdyqgqlervfnevrelekhelatavdkamlq
    rigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvrlsgq
    dtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavgfeyg
    ysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqgpdht
    sgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnkaavsd
    irdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvaivrie
    qlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkrisrr
    amsapssgsskvhaveqqeildtafg
    

  • Chain 'D':
    Sequence, based on SEQRES records:
    >2yicD (D:)
    gdsiedknarvieliaayrnrghlmadidplrldntrfrshpdldvnshgltlwdldref
    kvdgfagvqrkklrdilsvlrdaycrhvgveythilepeqqrwiqervetkhdkptvaeq
    kyilsklnaaeafetflqtkyvgqkrfslegaetvipmmdavidqcaehgldevviamph
    rgrlnvlanivgkpysqifsefegnlnpsqahgsgdvkyhlgatgtyiqmfgdndievsl
    tanpshleavdpvleglvrakqdlldtgeegsdnrfsvvplmlhgdaafagqgvvaetln
    lallrgyrtggtihivvnnqigfttaptdsrsseyctdvakmigapifhvngddpeacaw
    varlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpymydvidtkrgsrkayteali
    grgdismkeaedalrdyqgqlervfnevrelekheiepsesveadqqipsklatavdkam
    lqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvrls
    gqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavgfe
    ygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqgpd
    htsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnkaav
    sdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvaivr
    ieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkris
    rramsapssgsskvhaveqqeildtafg
    

    Sequence, based on observed residues (ATOM records):
    >2yicD (D:)
    narvieliaayrnrghlmadidplrldntrfwdldrefkklrdilsvlrdaycrhvgvey
    thilepeqqrwiqervetkhdkptvaeqkyilsklnaaeafetflqtkyvgqkrfslega
    etvipmmdavidqcaehgldevviamphrgrlnvlanivgkpysqifsefgdvkyhlgat
    gtyiqmfgdndievsltanpshleavdpvleglvrakqdlldtgeegsdnrfsvvplmlh
    gdaafagqgvvaetlnlallrgyrtggtihivvnnqigfttaptdsrsseyctdvakmig
    apifhvngddpeacawvarlavdfrqafkkdvvidmlcyrrrghnegddpsmtqpymydv
    idtkrgsrkaytealigrgdismkeaedalrdyqgqlervfnevrelekheilatavdka
    mlqrigdahlalpegftvhprvrpvlekrremayegridwafaellalgsliaegklvrl
    sgqdtqrgtftqrhavivdrktgeeftplqllatnpdgtptggkflvynsalsefaavgf
    eygysvgnpdamvlweaqfgdfvngaqsiidefissgeakwgqlsdvvlllphghegqgp
    dhtsgrierflqlwaegsmtiampstpanyfhllrrhgkdgiqrplivftpksmlrnkaa
    vsdirdfteskfrsvleepmytdgegdrnkvtrllltsgkiyyelaarkakenredvaiv
    rieqlaplprrrlaetldrypnvkekfwvqeepanqgawpsfgltlpeilpdhftglkri
    srramsapssgsskvhaveqqeildtafg