PHSL_DESBA
ID PHSL_DESBA Reviewed; 514 AA.
AC P13065;
DT 01-JAN-1990, integrated into UniProtKB/Swiss-Prot.
DT 26-FEB-2008, sequence version 3.
DT 03-AUG-2022, entry version 110.
DE RecName: Full=Periplasmic [NiFeSe] hydrogenase large subunit;
DE EC=1.12.99.6;
DE AltName: Full=NiFeSe hydrogenlyase large chain;
OS Desulfomicrobium baculatum (Desulfovibrio baculatus).
OC Bacteria; Proteobacteria; Deltaproteobacteria; Desulfovibrionales;
OC Desulfomicrobiaceae; Desulfomicrobium.
OX NCBI_TaxID=899;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RX PubMed=3316183; DOI=10.1128/jb.169.12.5401-5407.1987;
RA Menon N.K., Peck H.D. Jr., le Gall J., Przybyla A.E.;
RT "Cloning and sequencing of the genes encoding the large and small subunits
RT of the periplasmic (NiFeSe) hydrogenase of Desulfovibrio baculatus.";
RL J. Bacteriol. 169:5401-5407(1987).
RN [2]
RP ERRATUM OF PUBMED:3316183, AND SEQUENCE REVISION.
RA Menon N.K., Pect H.D. Jr., le Gall J., Przybyla A.E.;
RL J. Bacteriol. 170:4429-4429(1988).
RN [3]
RP X-RAY CRYSTALLOGRAPHY (2.15 ANGSTROMS), AND SELENOCYSTEINE AT SEC-493.
RX PubMed=10378275; DOI=10.1016/s0969-2126(99)80072-0;
RA Garcin E., Vernede X., Hatchikian E.C., Volbeda A., Frey M.,
RA Fontecilla-Camps J.-C.;
RT "The crystal structure of a reduced [NiFeSe] hydrogenase provides an image
RT of the activated catalytic center.";
RL Structure 7:557-566(1999).
CC -!- CATALYTIC ACTIVITY:
CC Reaction=A + H2 = AH2; Xref=Rhea:RHEA:12116, ChEBI:CHEBI:13193,
CC ChEBI:CHEBI:17499, ChEBI:CHEBI:18276; EC=1.12.99.6;
CC -!- COFACTOR:
CC Name=Fe cation; Xref=ChEBI:CHEBI:24875;
CC Note=Binds 2 irons ions. Iron 1 has 3 cyanide and carbon monoxide
CC ligands. Iron 2 has 3 water ligands.;
CC -!- COFACTOR:
CC Name=Ni(2+); Xref=ChEBI:CHEBI:49786;
CC Note=Binds 1 nickel ion per subunit.;
CC -!- SUBUNIT: Heterodimer of a large and a small subunit.
CC -!- SUBCELLULAR LOCATION: Periplasm.
CC -!- MISCELLANEOUS: Perhaps the leader of the small subunit serves as a
CC transport vehicle for both subunits.
CC -!- SIMILARITY: Belongs to the [NiFe]/[NiFeSe] hydrogenase large subunit
CC family. {ECO:0000305}.
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DR EMBL; M18271; AAA23375.2; -; Genomic_DNA.
DR PIR; A33101; HQDVLB.
DR PDB; 1CC1; X-ray; 2.15 A; L=2-499.
DR PDBsum; 1CC1; -.
DR SMR; P13065; -.
DR DIP; DIP-6125N; -.
DR IntAct; P13065; 1.
DR EvolutionaryTrace; P13065; -.
DR GO; GO:0042597; C:periplasmic space; IEA:UniProtKB-SubCell.
DR GO; GO:0008901; F:ferredoxin hydrogenase activity; IEA:InterPro.
DR GO; GO:0033748; F:hydrogenase (acceptor) activity; IEA:UniProtKB-EC.
DR GO; GO:0016151; F:nickel cation binding; IEA:InterPro.
DR Gene3D; 1.10.645.10; -; 1.
DR InterPro; IPR001501; Ni-dep_hyd_lsu.
DR InterPro; IPR018194; Ni-dep_hyd_lsu_Ni_BS.
DR InterPro; IPR029014; NiFe-Hase_large.
DR Pfam; PF00374; NiFeSe_Hases; 2.
DR SUPFAM; SSF56762; SSF56762; 1.
DR PROSITE; PS00507; NI_HGENASE_L_1; 1.
DR PROSITE; PS00508; NI_HGENASE_L_2; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Iron; Metal-binding; Nickel; Oxidoreductase; Periplasm;
KW Selenocysteine.
FT INIT_MET 1
FT /note="Removed"
FT CHAIN 2..514
FT /note="Periplasmic [NiFeSe] hydrogenase large subunit"
FT /id="PRO_0000199704"
FT BINDING 52
FT /ligand="Fe cation"
FT /ligand_id="ChEBI:CHEBI:24875"
FT /ligand_label="2"
FT BINDING 71
FT /ligand="Ni(2+)"
FT /ligand_id="ChEBI:CHEBI:49786"
FT BINDING 74
FT /ligand="Fe cation"
FT /ligand_id="ChEBI:CHEBI:24875"
FT /ligand_label="1"
FT BINDING 74
FT /ligand="Ni(2+)"
FT /ligand_id="ChEBI:CHEBI:49786"
FT BINDING 445
FT /ligand="Fe cation"
FT /ligand_id="ChEBI:CHEBI:24875"
FT /ligand_label="2"
FT BINDING 493
FT /ligand="Ni(2+)"
FT /ligand_id="ChEBI:CHEBI:49786"
FT BINDING 496
FT /ligand="Fe cation"
FT /ligand_id="ChEBI:CHEBI:24875"
FT /ligand_label="1"
FT BINDING 496
FT /ligand="Ni(2+)"
FT /ligand_id="ChEBI:CHEBI:49786"
FT BINDING 499
FT /ligand="Fe cation"
FT /ligand_id="ChEBI:CHEBI:24875"
FT /ligand_label="2"
FT NON_STD 493
FT /note="Selenocysteine"
FT STRAND 14..19
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 22..25
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 27..34
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 37..45
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 51..54
FT /evidence="ECO:0007829|PDB:1CC1"
FT TURN 55..57
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 60..62
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 63..66
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 67..70
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 72..74
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 75..90
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 96..120
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 123..125
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 145..148
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 152..184
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 185..189
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 191..194
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 197..200
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 204..223
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 225..235
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 237..240
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 249..251
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 254..258
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 264..266
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 269..272
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 275..277
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 281..283
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 284..287
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 296..299
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 303..305
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 323..326
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 335..342
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 348..358
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 365..372
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 375..399
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 414..424
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 427..436
FT /evidence="ECO:0007829|PDB:1CC1"
FT STRAND 439..447
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 449..452
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 464..469
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 481..489
FT /evidence="ECO:0007829|PDB:1CC1"
FT HELIX 494..498
FT /evidence="ECO:0007829|PDB:1CC1"
SQ SEQUENCE 514 AA; 56862 MW; AC920132081C1ADC CRC64;
MSQAATPAAD GKVKISIDPL TRVEGHLKIE VEVKDGKVVD AKCSGGMFRG FEQILRGRDP
RDSSQIVQRI CGVCPTAHCT ASVMAQDDAF GVKVTTNGRI TRNLIFGANY LQSHILHFYH
LAALDYVKGP DVSPFVPRYA NADLLTDRIK DGAKADATNT YGLNQYLKAL EIRRICHEMV
AMFGGRMPHV QGMVVGGATE IPTADKVAEY AARFKEVQKF VIEEYLPLIY TLGSVYTDLF
ETGIGWKNVI AFGVFPEDDD YKTFLLKPGV YIDGKDEEFD SKLVKEYVGH SFFDHSAPGG
LHYSVGETNP NPDKPGAYSF VKAPRYKDKP CEVGPLARMW VQNPELSPVG QKLLKELYGI
EAKKFRDLGD KAFSIMGRHV LVAEETWLTA VAVEKWLKQV QPGAETYVKS EIPDAAEGTG
FTEAPRGALL HYLKIKDKKI ENYQIVSATL WNANPRDDMG QRGPIEEALI GVPVPDIKNP
VNVGRLVRSY DPULGCAVHV LHAETGEEHV VNID
