Uncharacterized Fe-S cluster protein [Function unknown];

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 489609772  1 MAYFITDACISCGACESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:COG2768   5 KPYVDEEKCIGCGACVKVCPVGAISIEDGKAVIDPEKCIGCGACIEVCPVGA 56

Uncharacterized Fe-S cluster protein [Function unknown];

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 489609772  1 MAYFITDACISCGACESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:COG2768   5 KPYVDEEKCIGCGACVKVCPVGAISIEDGKAVIDPEKCIGCGACIEVCPVGA 56

Uncharacterized polyferredoxin-like protein; This family contains uncharacterized polyferredoxin protein similar to Methanobacterium thermoautotrophicum MvhB. The mvhB is a gene of the methylviologen-reducing hydrogenase operon. It is predicted to contain 12 [4Fe-4S] clusters, and was therefore suggested to be a polyferredoxin. As a subfamily of the beta subunit of the DMSO Reductase (DMSOR) family, it is predicted to function as electron carrier in the reducing reaction.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 489609772   7 DACISCGACESECPVSCISPGDSV-YVIDADACIECGACANVCPVDA 52
Cdd:cd10549   78 EKCIGCGLCVKVCPVDAITLEDELeIVIDKEKCIGCGICAEVCPVNA 124

electron transport complex, RnfABCDGE type, C subunit; The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the C subunit. [Energy metabolism, Electron transport]

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 489609772    8 ACISCGACESECPVSCIsPGDSVYVIDADA-----------CIECGACANVCPVDAP 53
Cdd:TIGR01945 364 PCIRCGKCVQVCPMNLL-PQQLNWLALADEfdeaeehnlmdCIECGCCSYVCPSNIP 419

Uncharacterized Fe-S cluster protein [Function unknown];

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|..
gi 489609772  1 MAYFITDACISCGACESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:COG2768   5 KPYVDEEKCIGCGACVKVCPVGAISIEDGKAVIDPEKCIGCGACIEVCPVGA 56

Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion transport and metabolism];

                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*.
gi 489609772  7 DACISCGACESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:COG2221  15 EKCIGCGLCVAVCPTGAISLDDGKLVIDEEKCIGCGACIRVCPTGA 60

NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and metabolism];

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 489609772  1 MAYFITDACISCGACESECPVSCISPGDS---VYVIDADACIECGACANVCPVDA 52
Cdd:COG1146   2 MPVIDTDKCIGCGACVEVCPVDVLELDEEgkkALVINPEECIGCGACELVCPVGA 56

Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) is part of the Pathway/BioSystem: NADH dehydrogenase

                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 489609772  6 TDACISCGACESECPVSCISPGD----SVYVIDADACIECGACANVCPVDA 52
Cdd:COG1143   1 EDKCIGCGLCVRVCPVDAITIEDgepgKVYVIDPDKCIGCGLCVEVCPTGA 51

hypothetical protein; Provisional

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 489609772   9 CISCGACESECPVSCI---SPGDSVYViDADACIECGACANVCPV 50
Cdd:PRK13795 583 CVGCGVCVGACPTGAIrieEGKRKISV-DEEKCIHCGKCTEVCPV 626

NADH-quinone oxidoreductase subunit NuoI;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 489609772   9 CISCGACESECPVSCIS----PGD------SVYVIDADACIECGACANVCPVDA 52
Cdd:PRK05888  60 CIACKLCAAICPADAITieaaEREdgrrrtTRYDINFGRCIFCGFCEEACPTDA 113

Ferredoxin [Energy production and conversion];

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 489609772   6 TDACISCGACESECPVSCISPGDS--VYVIDADACIECGACANVCPVDA 52
Cdd:COG1145  181 AEKCIGCGLCVKVCPTGAIRLKDGkpQIVVDPDKCIGCGACVKVCPVGA 229

Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfC subunit [Energy production and conversion]; Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfC subunit is part of the Pathway/BioSystem: Na+-translocating Fd:NADH oxidoreductase

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 489609772   8 ACISCGACESECPVScISP-----------GDSVYVIDADACIECGACANVCP 49
Cdd:COG4656  365 PCIRCGRCVDACPMG-LLPqqlywyaragdFDKAEEYNLMDCIECGCCSYVCP 416

Uncharacterized polyferredoxin-like protein; This family contains uncharacterized polyferredoxin protein similar to Methanobacterium thermoautotrophicum MvhB. The mvhB is a gene of the methylviologen-reducing hydrogenase operon. It is predicted to contain 12 [4Fe-4S] clusters, and was therefore suggested to be a polyferredoxin. As a subfamily of the beta subunit of the DMSO Reductase (DMSOR) family, it is predicted to function as electron carrier in the reducing reaction.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 489609772   4 FITDACISCGACESECPVSCISPGDSV-----YVIDADACIECGACANVCPVDA 52
Cdd:cd10549    3 YDPEKCIGCGICVKACPTDAIELGPNGaiargPEIDEDKCVFCGACVEVCPTGA 56

L-lactate utilization protein LutB, contains a ferredoxin-type domain [Energy production and conversion];

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489609772   9 CISCGACESECPVSCISPG---DSVY------VIDA------------DACIECGACANVCPV 50
Cdd:COG1139  313 CIRCGACLNVCPVYRRVGGhayGSVYpgpigaVLTPllhglekaadlpYASTLCGACTEVCPV 375

2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; A number of anaerobic and microaerophilic species lack pyruvate dehydrogenase and have instead a four subunit, oxygen-sensitive pyruvate oxidoreductase, with either ferredoxins or flavodoxins used as the acceptor. Several related four-subunit enzymes may exist in the same species. This model describes a subfamily of delta subunits, representing mostly pyruvate, 2-ketoisovalerate, and 2-oxoglutarate specific enzymes. The delta subunit is the smallest and resembles ferredoxins.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 489609772   7 DACISCGACESECPVSCISPG-DSVYVIDADACIECGACANVCPVDA 52
Cdd:TIGR02179 25 EKCIKCKNCWLYCPEGAIQEDeGGFVGIDYDYCKGCGICANVCPVKA 71

NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 489609772   7 DACISCGACESECPVS---CIS---PGDSVYVIDADACIECGACANVCPVD 51
Cdd:PRK08318 342 DKCIGCGRCYIACEDTshqAIEwdeDGTRTPEVIEEECVGCNLCAHVCPVE 392

Uncharacterized polyferredoxin-like protein; This family contains uncharacterized polyferredoxin protein similar to Methanobacterium thermoautotrophicum MvhB. The mvhB is a gene of the methylviologen-reducing hydrogenase operon. It is predicted to contain 12 [4Fe-4S] clusters, and was therefore suggested to be a polyferredoxin. As a subfamily of the beta subunit of the DMSO Reductase (DMSOR) family, it is predicted to function as electron carrier in the reducing reaction.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489609772   7 DACISCGACESECPVSCI---------SPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:cd10549   40 DKCVFCGACVEVCPTGAIeltpegkeyVPKEKEAEIDEEKCIGCGLCVKVCPVDA 94

uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes the beta-subunit of formate dehydrogenases that are as yet uncharacterized. Members of the DMSO reductase family include formate dehydrogenase N and O (FDH-N, FDH-O) and tungsten-containing formate dehydrogenase (W-FDH) and other similar proteins. FDH-N, a major component of nitrate respiration of Escherichia coli, is involved in the major anaerobic respiratory pathway in the presence of nitrate, catalyzing the oxidation of formate to carbon dioxide at the expense of nitrate reduction to nitrite. It forms a heterotrimer; the alpha-subunit (FDH-G) is the catalytic site of formate oxidation and membrane-associated, incorporating a selenocysteine (SeCys) residue and a [4Fe/4S] cluster in addition to two bis-MGD cofactors, the beta subunit (FDH-H) contains four [4Fe/4S] clusters which transfer the electrons from the alpha subunit to the gamma-subunit (FDH-I), a hydrophobic integral membrane protein, presumably a cytochrome containing two b-type heme groups. W-FDH contains a tungsten instead of molybdenum at the catalytic center. This enzyme seems to be exclusively found in organisms such as hyperthermophilic archaea that live in extreme environments. It is a heterodimer of a large and a small subunit; the large subunit harbors the W site and one [4Fe-4S] center and the small subunit, containing three [4Fe-4S] clusters, functions to transfer electrons.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489609772   3 YFITDACISCG--ACESECPVSCISPGDSVYV-IDADACIECGACANVCPVDAPQ 54
Cdd:cd10562   64 LFRKRQCMHCTdaACVKVCPTGALYKTENGAVvVDEDKCIGCGYCVAACPFDVPR 118

electron transport complex protein RnfC; Provisional

                         10        20
                 ....*....|....*....|
gi 489609772  37 ACIECGACANVCPVD-APQQ 55
Cdd:PRK05035 371 PCIRCGACADACPASlLPQQ 390

Fe-S cluster-containing oxidoreductase, includes glycolate oxidase subunit GlcF [Energy production and conversion];

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489609772   5 ITDACISCGACESECPVS------CISP------------GDSVYVIDA------DACIECGACANVCPVD 51
Cdd:COG0247   76 ALDACVGCGFCRAMCPSYkatgdeKDSPrgrinllrevleGELPLDLSEevyevlDLCLTCKACETACPSG 146

Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta iron-sulfur (FeS) subunit of the DMSO Reductase (DMSOR) family. Members of this family also contain a large, periplasmic molybdenum-containing alpha subunit and may have a small gamma subunit as well. Examples of heterodimeric members with alpha and beta subunits include arsenite oxidase, and tungsten-containing formate dehydrogenase (FDH-T) while heterotrimeric members containing alpha, beta, and gamma subunits include formate dehydrogenase-N (FDH-N), and nitrate reductase (NarGHI). The beta subunit contains four Fe4/S4 and/or Fe3/S4 clusters which transfer the electrons from the alpha subunit to a hydrophobic integral membrane protein, presumably a cytochrome containing two b-type heme groups. The reducing equivalents are then transferred to menaquinone, which finally reduces the electron-accepting enzyme system.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489609772   3 YFITDACISCG--ACESECPVSCISPGDS-VYVIDADACIECGACANVCPVDAPQ 54
Cdd:cd04410   44 AFLPVSCMHCEdpPCVKACPTGAIYKDEDgIVLIDEDKCIGCGSCVEACPYGAIV 98

putative glutamate synthase (NADPH) small subunit; Provisional

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 489609772   9 CISCGACESECP---VSCISPGDSVYvIDADACIECGACANVCPVDA 52
Cdd:PRK12771 512 CFECDNCYGACPqdaIIKLGPGRRYH-FDYDKCTGCHICADVCPCGA 557

NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, the iron-sulfur subunit of periplasmic nitrate reductase. The periplasmic nitrate reductase NapABC of Escherichia coli likely functions during anaerobic growth in low-nitrate environments; napF operon expression is activated by cyclic AMP receptor protein (Crp). NapF is a subfamily of the beta subunit of DMSO reductase (DMSOR) family. DMSOR family members have a large, periplasmic molybdenum-containing alpha subunit as well as a small beta FeS subunit, and may also have a small gamma subunit. The beta subunit contains four Fe4/S4 and/or Fe3/S4 clusters which transfer the electrons from the alpha subunit to a hydrophobic integral membrane protein, presumably a cytochrome containing two b-type heme groups. The reducing equivalents are then transferred to menaquinone, which finally reduces the electron-accepting enzyme system.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 489609772   5 ITDAC-----ISCGACESECPVSCIS-----PGDSVYVIDADACIECGACANVCPVDA 52
Cdd:cd10564   76 IGDSClalqgVECRSCQDACPTQAIRfrprlGGIALPELDADACTGCGACVSVCPVGA 133

Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and conversion];

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 489609772   3 YFITDACISCG--ACESECPVSCISPG-DSVYVIDADACIECGACANVCPVDAPQ 54
Cdd:COG0437   54 LFVPVLCNHCDdpPCVKVCPTGATYKReDGIVLVDYDKCIGCRYCVAACPYGAPR 108

Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 489609772   8 ACISCGACESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:COG4624   63 RCCVAISCIQVRGIIIIDKRGPSIIRDKEKCKNCYPCVRACPVKA 107

ferredoxin; Provisional

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 489609772   5 ITDACISCGACESECPVSCI-----SP--------GDSVYVIDADACIECGACANVCPV 50
Cdd:PRK06273  47 FEELCIGCGGCANVCPTKAIemipvEPvkitegyvKTKIPKIDYEKCVYCLYCHDFCPV 105

Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];

                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 489609772  15 CESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:COG1142   60 CAEVCPVGAITRDDGAVVVDEEKCIGCGLCVLACPFGA 97

3-methyl-2-oxobutanoate dehydrogenase subunit delta;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 489609772   1 MAYFITDACISCGACESECPVSCISPGDSVYV-IDADACIECGACANVCPVDA 52
Cdd:PRK09623  45 MPVVDESKCVKCYICWKFCPEPAIYIKEDGYVaIDYDYCKGCGICANECPTKA 97

electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in Rhodobacter capsulatus encodes an apparent NADH oxidoreductase responsible for electron transport to nitrogenase, necessary for nitrogen fixation. A closely related complex in E. coli, RsxABCDGE (Reducer of SoxR), reduces the 2Fe-2S-containing superoxide sensor SoxR, active as a transcription factor when oxidized. This family of putative NADH oxidoreductase complexes exists in many of the same species as the related NQR, a Na(+)-translocating NADH-quinone reductase, but is distinct. This model describes the B subunit. [Energy metabolism, Electron transport]

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 489609772    2 AYFITDACISCGACESECPVSCISPG-DSVYVIDADACIECGACANVCPVDA 52
Cdd:TIGR01944 108 ALIDEDNCIGCTKCIQACPVDAIVGAaKAMHTVIADECTGCDLCVEPCPTDC 159

uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the small beta iron-sulfur (FeS) subunit of the DMSO Reductase (DMSOR) family. Members of this family also contain a large, periplasmic molybdenum-containing alpha subunit and may have a small gamma subunit as well. Examples of heterodimeric members with alpha and beta subunits include arsenite oxidase, and tungsten-containing formate dehydrogenase (FDH-T) while heterotrimeric members containing alpha, beta, and gamma subunits include formate dehydrogenase-N (FDH-N), and nitrate reductase (NarGHI). The beta subunit contains four Fe4/S4 and/or Fe3/S4 clusters which transfer the electrons from the alpha subunit to a hydrophobic integral membrane protein, presumably a cytochrome containing two b-type heme groups. The reducing equivalents are then transferred to menaquinone, which finally reduces the electron-accepting enzyme system.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 489609772   5 ITDACISC--GACESECPVSCISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:cd16367   53 VPTACRHCvdPVCMIGCPTGAIHRDDGGEVVISDACCGCGNCASACPYGA 102

Polyferredoxin NapH [Energy production and conversion];

                         10
                 ....*....|....*...
gi 489609772  33 IDADACIECGACANVCPV 50
Cdd:COG0348  207 YDRGDCIDCGLCVKVCPM 224

4Fe-4S dicluster domain; This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489609772   1 MAYFITDACISCGACESECPVSCISPGDSVY-------VIDADACIECGACANVCP 49
Cdd:pfam13237  1 KVVIDPDKCIGCGRCTAACPAGLTRVGAIVErlegeavRIGVWKCIGCGACVEACP 56

Predicted oxidoreductase of the aldo/keto reductase family [General function prediction only];

                         10
                 ....*....|....*.
gi 489609772  34 DADACIECGACANVCP 49
Cdd:COG1453  329 KASACIECGACEERCP 344

beta subunit of formate dehydrogenase O (FDH-O) and similar proteins; This subfamily includes beta subunit of formate dehydrogenase family O (FDH-O), which is highly homologous to formate dehydrogenase N (FDH-N), a member of the DMSO reductase family. In E. coli three formate dehydrogenases are synthesized that are capable of oxidizing formate; Fdh-H, couples formate disproportionation to hydrogen and CO2, and is part of the cytoplasmically oriented formate hydrogenlyase complex, while FDH-N and FDH-O indicate their respective induction after growth with nitrate and oxygen. Little is known about FDH-O, although it shows formate oxidase activity during aerobic growth and is also synthesized during nitrate respiration, similar to FDH-N.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489609772   4 FITDACISC--GACESECPVSCI--SPGDSVYvIDADACIECGACANVCPVDAPQQ 55
Cdd:cd10560   73 FMSDVCKHCtdAGCLEACPTGAIfrTEFGTVY-IQPDICNGCGYCVAACPFGVIDR 127

hydrogenase 4 subunit H; Validated

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 489609772   9 CISCGACESECPVSC------ISPGDSVYVIDADACIECGACANVCPVDA 52
Cdd:PRK08222  40 CIACGACTCACPANAltiqtdDQQNSRTWQLYLGRCIYCGRCEEVCPTRA 89

ferredoxin-like protein;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 489609772   4 FITDACISCG--ACESECPVSCIS--PGDSVYVIDADACIECGACANVCP 49
Cdd:PRK09898 118 YTADTCRQCKepQCMNVCPIGAITwqQKEGCITVDHKRCIGCSACTTACP 167

putative oxidoreductase; Provisional

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 489609772   9 CISCGACESECPVSCIS----------PGDSVY--VIDADACIECGACANVC 48
Cdd:PRK13984  47 CIGCGTCSKICPTDAITmvevpdlpqeYGKKPQrpVIDYGRCSFCALCVDIC 98

Predicted oxidoreductase of the aldo/keto reductase family [General function prediction only];

                         10
                 ....*....|....
gi 489609772   7 DACISCGACESECP 20
Cdd:COG1453  331 SACIECGACEERCP 344

Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit is part of the Pathway/BioSystem: TCA cycle

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 489609772   1 MAYFITDAciscGACESECPvscISPGDSVYVIDADACIECGACANVCPV 50
Cdd:COG0479  114 KPYLSPDG----PAPDNERL---QSPEDREKADDLAECILCGACVAACPN 156

4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich.

                         10        20
                 ....*....|....*....|..
gi 489609772  31 YVIDADACIECGACANVCPVDA 52
Cdd:pfam00037  1 VVIDEEKCIGCGACVEVCPVGA 22