PDB entry 4ko2

View 4ko2 on RCSB PDB site
Description: Low X-ray dose structure of H2-activated anaerobically purified Dm. baculatum [NiFeSe]-hydrogenase after crystallization under air
Class: oxidoreductase
Keywords: NiFeSe-site, H2 cleavage/production, seleninate, OXIDOREDUCTASE
Deposited on 2013-05-11, released 2013-07-10
The last revision prior to the SCOPe 2.08 freeze date was dated 2019-05-08, with a file datestamp of 2019-05-03.
Experiment type: XRAY
Resolution: 1.6 Å
R-factor: N/A
AEROSPACI score: 0.44 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'L':
    Compound: Nickel-dependent hydrogenase large subunit
    Species: Desulfomicrobium baculatum [TaxId:525897]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4ko2l_
  • Chain 'M':
    Compound: Nickel-dependent hydrogenase large subunit
    Species: Desulfomicrobium baculatum [TaxId:525897]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4ko2m_
  • Chain 'S':
    Compound: Periplasmic [NiFeSe] hydrogenase small subunit
    Species: Desulfomicrobium baculatum [TaxId:899]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4ko2s_
  • Chain 'T':
    Compound: Periplasmic [NiFeSe] hydrogenase small subunit
    Species: Desulfomicrobium baculatum [TaxId:899]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d4ko2t_
  • Heterogens: SF4, CA, GOL, FCO, NI, H2S, HOH

PDB Chain Sequences:

  • Chain 'L':
    Sequence, based on SEQRES records: (download)
    >4ko2L (L:)
    msqaatpaadgkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdp
    rdssqivqricgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyh
    laaldyvkgpdvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemv
    amfggrmphvqgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlf
    etgigwknviafgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgg
    lhysvgetnpnpdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygi
    eaknfrdlgdkafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtg
    fteaprgallhylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknp
    vnvgrlvrsydpalgcavh
    

    Sequence, based on observed residues (ATOM records): (download)
    >4ko2L (L:)
    gkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdprdssqivqri
    cgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyhlaaldyvkgp
    dvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemvamfggrmphv
    qgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlfetgigwknvi
    afgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgglhysvgetnp
    npdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygieaknfrdlgd
    kafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtgfteaprgall
    hylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknpvnvgrlvrsy
    dpalgcavh
    

  • Chain 'M':
    Sequence, based on SEQRES records: (download)
    >4ko2M (M:)
    msqaatpaadgkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdp
    rdssqivqricgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyh
    laaldyvkgpdvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemv
    amfggrmphvqgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlf
    etgigwknviafgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgg
    lhysvgetnpnpdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygi
    eaknfrdlgdkafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtg
    fteaprgallhylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknp
    vnvgrlvrsydpalgcavh
    

    Sequence, based on observed residues (ATOM records): (download)
    >4ko2M (M:)
    gkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdprdssqivqri
    cgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyhlaaldyvkgp
    dvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemvamfggrmphv
    qgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlfetgigwknvi
    afgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgglhysvgetnp
    npdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygieaknfrdlgd
    kafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtgfteaprgall
    hylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknpvnvgrlvrsy
    dpalgcavh
    

  • Chain 'S':
    Sequence, based on SEQRES records: (download)
    >4ko2S (S:)
    mtegakkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalah
    myeiaekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslat
    vavgtcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaaws
    hvlnptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgp
    styadcakrrwnnginwcvenavcigcvepdfpdgkspfyvae
    

    Sequence, based on observed residues (ATOM records): (download)
    >4ko2S (S:)
    akkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalahmyei
    aekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslatvavg
    tcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaawshvln
    ptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgpstya
    dcakrrwnnginwcvenavcigcvepdfpdgkspfyvae
    

  • Chain 'T':
    Sequence, based on SEQRES records: (download)
    >4ko2T (T:)
    mtegakkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalah
    myeiaekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslat
    vavgtcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaaws
    hvlnptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgp
    styadcakrrwnnginwcvenavcigcvepdfpdgkspfyvae
    

    Sequence, based on observed residues (ATOM records): (download)
    >4ko2T (T:)
    akkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalahmyei
    aekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslatvavg
    tcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaawshvln
    ptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgpstya
    dcakrrwnnginwcvenavcigcvepdfpdgkspfyvae