PDB entry 4ko1

View 4ko1 on RCSB PDB site
Description: High X-ray dose structure of H2-activated anaerobically purified Dm. baculatum [NiFeSe]-hydrogenase after crystallization under air
Class: oxidoreductase
Keywords: nifese-site, o2-resistance, h2-cleavage/production, oxidoreductase
Deposited on 2013-05-11, released 2013-07-10
The last revision prior to the SCOPe 2.07 freeze date was dated 2014-08-06, with a file datestamp of 2014-08-01.
Experiment type: XRAY
Resolution: 1.55 Å
R-factor: 0.149
AEROSPACI score: 0.56 (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 2.07: d4ko1l_
  • Chain 'M':
    Compound: Nickel-dependent hydrogenase large subunit
    Species: Desulfomicrobium baculatum [TaxId:525897]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4ko1m_
  • Chain 'S':
    Compound: Periplasmic [NiFeSe] hydrogenase small subunit
    Species: Desulfomicrobium baculatum [TaxId:899]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4ko1s_
  • Chain 'T':
    Compound: Periplasmic [NiFeSe] hydrogenase small subunit
    Species: Desulfomicrobium baculatum [TaxId:899]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4ko1t_
  • Heterogens: SF4, CA, GOL, FCO, NI, H2S, HOH

PDB Chain Sequences:

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >4ko1L (L:)
msqaatpaadgkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdp
rdssqivqricgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyh
laaldyvkgpdvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemv
amfggrmphvqgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlf
etgigwknviafgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgg
lhysvgetnpnpdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygi
eaknfrdlgdkafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtg
fteaprgallhylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknp
vnvgrlvrsydpalgcavh

    Sequence, based on observed residues (ATOM records): (download) 
    >4ko1L (L:)
gkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdprdssqivqri
cgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyhlaaldyvkgp
dvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemvamfggrmphv
qgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlfetgigwknvi
afgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgglhysvgetnp
npdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygieaknfrdlgd
kafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtgfteaprgall
hylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknpvnvgrlvrsy
dpalgcavh

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >4ko1M (M:)
msqaatpaadgkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdp
rdssqivqricgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyh
laaldyvkgpdvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemv
amfggrmphvqgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlf
etgigwknviafgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgg
lhysvgetnpnpdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygi
eaknfrdlgdkafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtg
fteaprgallhylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknp
vnvgrlvrsydpalgcavh

    Sequence, based on observed residues (ATOM records): (download) 
    >4ko1M (M:)
gkvkisidpltrveghlkievevkdgkvvdakcsggmfrgfeqilrgrdprdssqivqri
cgvcptahctasvmaqddafgvkvttngritrnlifganylqshilhfyhlaaldyvkgp
dvspfvpryanadlltdrikdgakadatntyglnqylkaleirrichemvamfggrmphv
qgmvvggateiptadkvaeyaarfkevqkfvieeylpliytlgsvytdlfetgigwknvi
afgvfpedddyktfllkpgvyidgkdeefdsklvkeyvghsffdhsapgglhysvgetnp
npdkpgaysfvkaprykdkpcevgplarmwvqnpelspvgqkllkelygieaknfrdlgd
kafsimgrhvaraeetwltavavekwlkqvqpgaetyvkseipdaaegtgfteaprgall
hylkikdkkienyqivsatlwnanprddmgqrgpieealigvpvpdiknpvnvgrlvrsy
dpalgcavh

  • Chain 'S':
    Sequence, based on SEQRES records: (download) 
    >4ko1S (S:)
mtegakkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalah
myeiaekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslat
vavgtcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaaws
hvlnptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgp
styadcakrrwnnginwcvenavcigcvepdfpdgkspfyvae

    Sequence, based on observed residues (ATOM records): (download) 
    >4ko1S (S:)
akkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalahmyei
aekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslatvavg
tcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaawshvln
ptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgpstya
dcakrrwnnginwcvenavcigcvepdfpdgkspfyvae

  • Chain 'T':
    Sequence, based on SEQRES records: (download) 
    >4ko1T (T:)
mtegakkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalah
myeiaekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslat
vavgtcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaaws
hvlnptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgp
styadcakrrwnnginwcvenavcigcvepdfpdgkspfyvae

    Sequence, based on observed residues (ATOM records): (download) 
    >4ko1T (T:)
akkapviwvqgqgctgcsvsllnavhprikeilldvislefhptvmasegemalahmyei
aekfngnffllvegaiptakegrycivgetldakghhhevtmmelirdlapkslatvavg
tcsayggipaaegnvtgsksvrdffadekiekllvnvpgcpphpdwmvgtlvaawshvln
ptehplpeldddgrpllffgdnihencpyldkydnsefaetftkpgckaelgckgpstya
dcakrrwnnginwcvenavcigcvepdfpdgkspfyvae