PDB entry 4kyo

View 4kyo on RCSB PDB site
Description: Alanine-glyoxylate aminotransferase variant K390A in complex with the TPR domain of human Pex5p
Class: transferase/transport protein
Keywords: TPR-domain, aminotransferase, pyruvate, transport, peroxisomal import, primary hyperoxaluria, peroxisome, TRANSFERASE-TRANSPORT PROTEIN complex
Deposited on 2013-05-29, released 2014-11-19
The last revision prior to the SCOPe 2.07 freeze date was dated 2015-01-14, with a file datestamp of 2015-01-09.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: 0.177
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Serine-pyruvate aminotransferase
    Species: Homo sapiens [TaxId:9606]
    Gene: AGXT, AGT1, SPAT
    Database cross-references and differences (RAF-indexed):
    • Uniprot P21549 (Start-393)
      • engineered mutation (391)
    Domains in SCOPe 2.07: d4kyoa_
  • Chain 'B':
    Compound: peroxisomal targeting signal 1 receptor
    Species: Homo sapiens [TaxId:9606]
    Gene: PEX5, PXR1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4kyob_
  • Chain 'C':
    Compound: Serine-pyruvate aminotransferase
    Species: Homo sapiens [TaxId:9606]
    Gene: AGXT, AGT1, SPAT
    Database cross-references and differences (RAF-indexed):
    • Uniprot P21549 (Start-393)
      • engineered mutation (391)
    Domains in SCOPe 2.07: d4kyoc_
  • Chain 'D':
    Compound: peroxisomal targeting signal 1 receptor
    Species: Homo sapiens [TaxId:9606]
    Gene: PEX5, PXR1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4kyod_
  • Heterogens: SO4, BTB, BME, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >4kyoA (A:)
    gamashkllvtppkallkplsipnqlllgpgpsnlpprimaagglqmigsmskdmyqimd
    eikegiqyvfqtrnpltlvisgsghcaleaalvnvlepgdsflvgangiwgqravdiger
    igarvhpmtkdpgghytlqeveeglaqhkpvllflthgesstgvlqpldgfgelchrykc
    lllvdsvaslggtplymdrqgidilysgsqkalnappgtslisfsdkakkkmysrktkpf
    sfyldikwlanfwgcddqprmyhhtipvislyslreslaliaeqglenswrqhreaaayl
    hgrlqalglqlfvkdpalrlptvttvavpagydwrdivsyvidhfdieimgglgpstgkv
    lrigllgcnatrenvdrvtealraalqhcpkakl
    

    Sequence, based on observed residues (ATOM records): (download)
    >4kyoA (A:)
    llvtppkallkplsipnqlllgpgpsnlpprimaagglqmigsmskdmyqimdeikegiq
    yvfqtrnpltlvisgsghcaleaalvnvlepgdsflvgangiwgqravdigerigarvhp
    mtkdpgghytlqeveeglaqhkpvllflthgesstgvlqpldgfgelchrykclllvdsv
    aslggtplymdrqgidilysgsqkalnappgtslisfsdkakkkmysrktkpfsfyldik
    wlanfwgcddqprmyhhtipvislyslreslaliaeqglenswrqhreaaaylhgrlqal
    glqlfvkdpalrlptvttvavpagydwrdivsyvidhfdieimgglgpstgkvlrigllg
    cnatrenvdrvtealraalqhcpkakl
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >4kyoB (B:)
    gamltsatydkgyqfeeenplrdhpqpfeeglrrlqegdlpnavllfeaavqqdpkhmea
    wqylgttqaeneqellaisalrrclelkpdnqtalmalavsftneslqrqacetlrdwlr
    ytpayahlvtpaeegaggaglgpskrilgsllsdslflevkelflaavrldptsidpdvq
    cglgvlfnlsgeydkavdcftaalsvrpndyllwnklgatlangnqseeavaayrralel
    qpgyirsrynlgiscinlgahreavehflealnmqrksrgprgeggamseniwstlrlal
    smlgqsdaygaadardlstlltmfglpq
    

    Sequence, based on observed residues (ATOM records): (download)
    >4kyoB (B:)
    qfeeenplrdhpqpfeeglrrlqegdlpnavllfeaavqqdpkhmeawqylgttqaeneq
    ellaisalrrclelkpdnqtalmalavsftneslqrqacetlrdwlrytpayahlvdslf
    levkelflaavrldptsidpdvqcglgvlfnlsgeydkavdcftaalsvrpndyllwnkl
    gatlangnqseeavaayrralelqpgyirsrynlgiscinlgahreavehflealnmqrk
    seggamseniwstlrlalsmlgqsdaygaadardlstlltmfglpq
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >4kyoC (C:)
    gamashkllvtppkallkplsipnqlllgpgpsnlpprimaagglqmigsmskdmyqimd
    eikegiqyvfqtrnpltlvisgsghcaleaalvnvlepgdsflvgangiwgqravdiger
    igarvhpmtkdpgghytlqeveeglaqhkpvllflthgesstgvlqpldgfgelchrykc
    lllvdsvaslggtplymdrqgidilysgsqkalnappgtslisfsdkakkkmysrktkpf
    sfyldikwlanfwgcddqprmyhhtipvislyslreslaliaeqglenswrqhreaaayl
    hgrlqalglqlfvkdpalrlptvttvavpagydwrdivsyvidhfdieimgglgpstgkv
    lrigllgcnatrenvdrvtealraalqhcpkakl
    

    Sequence, based on observed residues (ATOM records): (download)
    >4kyoC (C:)
    kllvtppkallkplsipnqlllgpgpsnlpprimaagglqmigsmskdmyqimdeikegi
    qyvfqtrnpltlvisgsghcaleaalvnvlepgdsflvgangiwgqravdigerigarvh
    pmtkdpgghytlqeveeglaqhkpvllflthgesstgvlqpldgfgelchrykclllvds
    vaslggtplymdrqgidilysgsqkalnappgtslisfsdkakkkmysrktkpfsfyldi
    kwlanfwgcddqprmyhhtipvislyslreslaliaeqglenswrqhreaaaylhgrlqa
    lglqlfvkdpalrlptvttvavpagydwrdivsyvidhfdieimgglgpstgkvlrigll
    gcnatrenvdrvtealraalqhcpkakl
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >4kyoD (D:)
    gamltsatydkgyqfeeenplrdhpqpfeeglrrlqegdlpnavllfeaavqqdpkhmea
    wqylgttqaeneqellaisalrrclelkpdnqtalmalavsftneslqrqacetlrdwlr
    ytpayahlvtpaeegaggaglgpskrilgsllsdslflevkelflaavrldptsidpdvq
    cglgvlfnlsgeydkavdcftaalsvrpndyllwnklgatlangnqseeavaayrralel
    qpgyirsrynlgiscinlgahreavehflealnmqrksrgprgeggamseniwstlrlal
    smlgqsdaygaadardlstlltmfglpq
    

    Sequence, based on observed residues (ATOM records): (download)
    >4kyoD (D:)
    qfeeenplrdhpqpfeeglrrlqegdlpnavllfeaavqqdpkhmeawqylgttqaeneq
    ellaisalrrclelkpdnqtalmalavsftneslqrqacetlrdwlrytpayahlvdslf
    levkelflaavrldptsidpdvqcglgvlfnlsgeydkavdcftaalsvrpndyllwnkl
    gatlangnqseeavaayrralelqpgyirsrynlgiscinlgahreavehflealnmqrk
    sggamseniwstlrlalsmlgqsdaygaadardlstlltmfglpq