Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870  12 GEIESDAI--AVHEERCISvrnrnadCLRCVEACTSGALAYRA-GELLVEPERCIGCGTCATACPTCAIELRNPTDAELT 88
Cdd:COG1148  482 GELGVEPSvaEVDPEKCTG-------CGRCVEVCPYGAISIDEkGVAEVNPALCKGCGTCAAACPSGAISLKGFTDDQIL 554

                 ....
gi 497293870  89 AQLK 92
Cdd:COG1148  555 AQID 558

Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870  12 GEIESDAI--AVHEERCISvrnrnadCLRCVEACTSGALAYRA-GELLVEPERCIGCGTCATACPTCAIELRNPTDAELT 88
Cdd:COG1148  482 GELGVEPSvaEVDPEKCTG-------CGRCVEVCPYGAISIDEkGVAEVNPALCKGCGTCAAACPSGAISLKGFTDDQIL 554

                 ....
gi 497293870  89 AQLK 92
Cdd:COG1148  555 AQID 558

HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a membrane-associated formate hydrogenlyase system (FHL-1) in Escherichia coli that breaks down formate, produced during anaerobic fermentation, to H2 and CO2. FHL-1 consists of formate dehydrogenase H (FDH-H) and the hydrogenase 3 complex (Hyd-3). HycB is thought to code for the [4Fe-4S] ferredoxin subunit of hydrogenase 3, which functions as an intermediate electron carrier protein between hydrogenase 3 and formate dehydrogenase. HydN codes for the [4Fe-4S] ferredoxin subunit of FDH-H; a hydN in-frame deletion mutation causes only weak reduction in hydrogenase activity, but loss of more than 60% of FDH-H activity. This pathway is only active at low pH and high formate concentrations, and is thought to provide a detoxification/de-acidification system countering the buildup of formate during fermentation.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 497293870  39 CVEACTSGALAYRAGELLVEPERCIGCGTCATACPTCAIELRNPTDAELTAQLKHSIVATK 99
Cdd:cd10554   64 CANVCPVGAISQEDGVVQVDEERCIGCKLCVLACPFGAIEMAPTTVPGVDWERGPRAVAVK 124

sulfite reductase, subunit C; Members of this protein family include the C subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum. Note that any one of these enzymes may have secondary substates such as NH2OH, SeO3(2-), and SO3(2-). Heterologous expression of the anaerobic sulfite reductase of Salmonella confers on Escherichia coli the ability to produce hydrogen sulfide gas from sulfite. [Central intermediary metabolism, Sulfur metabolism]

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 497293870   25 RCISvrnrnadCLRCVEAC---TSGALAYRAGELLVEPERCIGCGTCATACPTCA 76
Cdd:TIGR02912 170 RCIG-------CGACVKVCkkkAVGALSFENYKVVRDHSKCIGCGECVLKCPTGA 217

4Fe-4S dicluster 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. Domain contains two 4Fe4S clusters.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 497293870  299 CSSCRMCAVFCPTGAI---KKLDEGGVFGIVHRPSACMQCRLCEHICPEQA 346
Cdd:pfam12838   1 CIGCGACVAACPVGAItldEVGEKKGTKTVVIDPERCVGCGACVAVCPTGA 51

4Fe-4S dicluster 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. Domain contains two 4Fe4S clusters.

                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 497293870   35 DCLRCVEACTSGAL-------AYRAGELLVEPERCIGCGTCATACPT 74
Cdd:pfam12838   3 GCGACVAACPVGAItldevgeKKGTKTVVIDPERCVGCGACVAVCPT 49

Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870  12 GEIESDAI--AVHEERCISvrnrnadCLRCVEACTSGALAYRA-GELLVEPERCIGCGTCATACPTCAIELRNPTDAELT 88
Cdd:COG1148  482 GELGVEPSvaEVDPEKCTG-------CGRCVEVCPYGAISIDEkGVAEVNPALCKGCGTCAAACPSGAISLKGFTDDQIL 554

                 ....
gi 497293870  89 AQLK 92
Cdd:COG1148  555 AQID 558

MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function prediction only];

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 497293870 292 VSIDAQKCSSCRMCAVFCPTGAIKKLDEGGVfgiVHRPSACMQCRLCEHICPEQAIAVSGRVPIK 356
Cdd:COG1149    6 PVIDEEKCIGCGLCVEVCPEGAIKLDDGGAP---VVDPDLCTGCGACVGVCPTGAITLEEREAGK 67

MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function prediction only];

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 497293870  19 IAVHEERCISvrnrnadCLRCVEACTSGALAYRAGE-LLVEPERCIGCGTCATACPTCAIELR 80
Cdd:COG1149    6 PVIDEEKCIG-------CGLCVEVCPEGAIKLDDGGaPVVDPDLCTGCGACVGVCPTGAITLE 61

Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta subunit [Energy production and conversion]; Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta subunit is part of the Pathway/BioSystem: Pyruvate oxidation

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 497293870 294 IDAQKCSSCRMCAVFCPTGAIkKLDEGGVFGIvhRPSACMQCRLCEHICPEQAI 347
Cdd:COG1144   27 VDEDKCIGCGLCWIVCPDGAI-RVDDGKYYGI--DYDYCKGCGICAEVCPVKAI 77

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        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870 292 VSIDAQKCSSCRMCAVFCPTGAIKKLDEGGVFGIVHR-----PSACMQCRLCEHICPEQAIAVSGRVPIK 356
Cdd:cd10549   35 PEIDEDKCVFCGACVEVCPTGAIELTPEGKEYVPKEKeaeidEEKCIGCGLCVKVCPVDAITLEDELEIV 104

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

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 497293870  17 DAIAVHEERCISVRNRNADCLRCVEACTSGALAYRAGELLVEPERCIGCGTCATACPTCAIELRNPTD 84
Cdd:COG4624   77 IIIDKRGPSIIRDKEKCKNCYPCVRACPVKAIKVDDGKAEIDEEKCISCGQCVAVCPFGAITEKSDIE 144

TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and conversion];

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 497293870  18 AIAVHEERCIsvrnrnaDCLRCVEACTSGALAYRAGELLVEPERCIGCGTCATACPTCAIELRNPTDA 85
Cdd:COG4231   16 RYVIDEDKCT-------GCGACVKVCPADAIEEGDGKAVIDPDLCIGCGSCVQVCPVDAIKLEKRVPE 76

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

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 497293870  19 IAVHEERCIsvrnrnaDCLRCVEACTSGALAYRAGE---LLVEPERCIGCGTCATACPTCAIELRNPTDAE 86
Cdd:COG1146    3 PVIDTDKCI-------GCGACVEVCPVDVLELDEEGkkaLVINPEECIGCGACELVCPVGAITVEDDEPEE 66

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 497293870  23 EERCISvrnrnadCLRCVEACTSGALAYRAGELLVE-PERCIGCGTCATACPTCAIEL 79
Cdd:cd10549   77 EEKCIG-------CGLCVKVCPVDAITLEDELEIVIdKEKCIGCGICAEVCPVNAIKL 127

Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870 282 DEVETRVIGAVsIDAQKCSSCRMCAVFCPTGAIkKLDEGGVfgIVHRPSACMQCRLCEHICPEQAIAVSG 351
Cdd:COG1148  482 GELGVEPSVAE-VDPEKCTGCGRCVEVCPYGAI-SIDEKGV--AEVNPALCKGCGTCAAACPSGAISLKG 547

Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta subunit [Energy production and conversion]; Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta subunit is part of the Pathway/BioSystem: Pyruvate oxidation

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870  21 VHEERCIsvrnrnaDCLRCVEACTSGALAYRAGE-LLVEPERCIGCGTCATACPTCAIEL 79
Cdd:COG1144   27 VDEDKCI-------GCGLCWIVCPDGAIRVDDGKyYGIDYDYCKGCGICAEVCPVKAIEM 79

CooF, iron-sulfur subunit of carbon monoxide dehydrogenase; This family includes CooF, the iron-sulfur subunit of carbon monoxide dehydrogenase (CODH), found in anaerobic bacteria and archaea. Carbon monoxide dehydrogenase is a key enzyme for carbon monoxide (CO) metabolism, where CooF is the proposed mediator of electron transfer between CODH and the CO-induced hydrogenase, catalyzing the reaction that uses CO as a single carbon and energy source, and producing only H2 and CO2. The ion-sulfur subunit contains four Fe4/S4 and/or Fe3/S4 clusters which transfer the electrons in the protein complex during reaction.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 497293870  23 EERCISVRNRNADCLRCVEACTSGALAY--RAGELLVEPERCIGCGTCATACPTCAI 77
Cdd:cd10563   49 GGRSFPLQCRHCDEPPCVKACMSGAMHKdpETGIVIHDEEKCVGCWMCVMVCPYGAI 105

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        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 497293870  19 IAVHEERCISvrnrnadCLRCVEACTSGAL-----AYRAGELLVEPERCIGCGTCATACPTCAIEL 79
Cdd:cd10549    1 LKYDPEKCIG-------CGICVKACPTDAIelgpnGAIARGPEIDEDKCVFCGACVEVCPTGAIEL 59

sulfite reductase, subunit C; Members of this protein family include the C subunit, one of three subunits, of the anaerobic sulfite reductase of Salmonella, and close homologs from various Clostridum species, where the three-gene neighborhood is preserved. Two such gene clusters are found in Clostridium perfringens, but it may be that these sets of genes correspond to the distinct assimilatory and dissimilatory forms as seen in Clostridium pasteurianum. Note that any one of these enzymes may have secondary substates such as NH2OH, SeO3(2-), and SO3(2-). Heterologous expression of the anaerobic sulfite reductase of Salmonella confers on Escherichia coli the ability to produce hydrogen sulfide gas from sulfite. [Central intermediary metabolism, Sulfur metabolism]

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 497293870   25 RCISvrnrnadCLRCVEAC---TSGALAYRAGELLVEPERCIGCGTCATACPTCA 76
Cdd:TIGR02912 170 RCIG-------CGACVKVCkkkAVGALSFENYKVVRDHSKCIGCGECVLKCPTGA 217

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

                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 497293870  39 CVEACTSGALAYRA-GELLVEPERCIGCGTCATACP 73
Cdd:COG0437   68 CVKVCPTGATYKREdGIVLVDYDKCIGCRYCVAACP 103

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
                 ....*....|....*....|....*....|....*.
gi 497293870  39 CVEACTSGALAYRA-GELLVEPERCIGCGTCATACP 73
Cdd:cd16371   62 CVKVCPTGAITKREdGIVVVDQDKCIGCGYCVWACP 97

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
                 ....*....|....*....|....*....|....*.
gi 497293870  39 CVEACTSGALAYRA-GELLVEPERCIGCGTCATACP 73
Cdd:cd10562   78 CVKVCPTGALYKTEnGAVVVDEDKCIGCGYCVAACP 113

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 497293870 290 GAVSIDAQKCSSCRMCAVFCPTGAIKKLDEggvfgiVHRPSACMQCRLCEHICPEQAI 347
Cdd:cd16372   70 GVVMINKKLCVGCLMCVGFCPEGAMFKHED------YPEPFKCIACGICVKACPTGAL 121

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
                 ....*....|....*....|....*....|....*....|..
gi 497293870  39 CVEACTSGALaYRA---GELLVEPERCIGCGTCATACPTCAI 77
Cdd:cd10550   57 CVEACPVGAI-SRDeetGAVVVDEDKCIGCGMCVEACPFGAI 97

4Fe-4S dicluster 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. Domain contains two 4Fe4S clusters.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 497293870  299 CSSCRMCAVFCPTGAI---KKLDEGGVFGIVHRPSACMQCRLCEHICPEQA 346
Cdd:pfam12838   1 CIGCGACVAACPVGAItldEVGEKKGTKTVVIDPERCVGCGACVAVCPTGA 51

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
                 ....*....|....*....|....*....|....*....|..
gi 497293870  39 CVEACTSGALAYRA-GELLVEPERCIGCGTCATACPTCAIEL 79
Cdd:cd16374   51 CMEVCPTGAIYRDEdGAVLVDPDKCIGCGMCAMACPFGVPRF 92

bacterial and archaeal subfamily of SIMIBI; Uncharacterized bacterial and archaeal subfamily of SIMIBI superfamily. Proteins in this superfamily contain an ATP-binding domain and use energy from hydrolysis of ATP to transfer electron or ion. The specific function of this family is unknown.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 497293870 293 SIDAQKCSSCRMCAVFCPTGAIKKL-DEGGVFgivhrPSACMQCRLCEHICPEQAI 347
Cdd:cd03110   60 FIDQEKCIRCGNCERVCKFGAILEFfQKLIVD-----ESLCEGCGACVIICPRGAI 110

4Fe-4S dicluster domain;

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 497293870  298 KCSSCRMCAVFCPTGAIKKLDEGGVFGIVHRPSACMQCRLCEHICPEQAI 347
Cdd:pfam13187   1 KCTGCGACVAACPAGAIVPDLVGQTIRGDIAGLACIGCGACVDACPRGAI 50

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        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 497293870 290 GAVSIDAQKCSSCRMCAVFCPTGAIKKLDEGGVfgiVHRPSACMQCR------LCEHICPEQAI 347
Cdd:cd04410   73 GIVLIDEDKCIGCGSCVEACPYGAIVFDPEPGK---AVKCDLCGDRLdeglepACVKACPTGAL 133

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 497293870  21 VHEERCISvrnrnadCLRCVEACTSGALAYRA------GELL--VEPERCIGCGTCATACPTCAI 77
Cdd:PRK09626  13 VDESRCKA-------CDICVSVCPAGVLAMRIdphavlGKMIkvVHPESCIGCRECELHCPDFAI 70

Polyferredoxin NapH [Energy production and conversion];

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 497293870   6 GLLALLGEIESDAIAVHEERCIsvrnrnaDCLRCVEACTSGaLAYRAGEllVEPERCIGCGTCATACPTCAIELRN 81
Cdd:COG0348  192 AFQGLLSDLSTLRVRYDRGDCI-------DCGLCVKVCPMG-IDIRKGE--INQSECINCGRCIDACPKDAIRFSS 257

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
                 ....*....|....*....|....*....|....*....|....*..
gi 497293870  39 CVEACTSGALAYRAGELLV-EPERCIGCGTCATACPTCAIELRNPTD 84
Cdd:cd16370   61 CAEACPTGALEPRKGGGVVlDKEKCIGCGNCVKACIVGAIFWDEETN 107

bacterial and archaeal subfamily of SIMIBI; Uncharacterized bacterial and archaeal subfamily of SIMIBI superfamily. Proteins in this superfamily contain an ATP-binding domain and use energy from hydrolysis of ATP to transfer electron or ion. The specific function of this family is unknown.

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 497293870  21 VHEERCISvrnrnadCLRCVEACTSGALAYRAGELLVEPERCIGCGTCATACPTCAIELR 80
Cdd:cd03110   61 IDQEKCIR-------CGNCERVCKFGAILEFFQKLIVDESLCEGCGACVIICPRGAIYLK 113

Fe-S cluster domain-containing protein;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 497293870  36 CLRCVEACTSGALAYRAGELLVEPERCIGCGTCATACPTCAIELRNPTDA 85
Cdd:PRK07118 218 CGKCVKACPAGAITMENNLAVIDQEKCTSCGKCVEKCPTKAIRILNKPPK 267

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        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 497293870  17 DAIAVHEERCISVRNRnaDCLRCVEACTSGALAYR-----AGELLVEPERCIGCGTCATACPTCAIELRNP 82
Cdd:cd10564   71 PLRAEIGDSCLALQGV--ECRSCQDACPTQAIRFRprlggIALPELDADACTGCGACVSVCPVGAITLTPL 139

ferredoxin-like protein;

                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 497293870  38 RCVEACTSGALAY--RAGELLVEPERCIGCGTCATACP 73
Cdd:PRK09898 130 QCMNVCPIGAITWqqKEGCITVDHKRCIGCSACTTACP 167

beta subunit of nitrate reductase A (NarH) and similar proteins; This subfamily includes nitrate reductase A, a member of the DMSO reductase family. The respiratory nitrate reductase complex (NarGHI) from E. coli is a heterotrimer, with the catalytic subunit (NarG) with a molybdo-bis (molybdopterin guanine dinucleotide) cofactor and an [Fe-S] cluster, the electron transfer subunit (NarH) with four [Fe-S] clusters, and the integral membrane subunit (NarI) with two b-type hemes. Nitrate reductase A often forms a respiratory chain with the formate dehydrogenase via the lipid soluble quinol pool. Electron transfer from formate to nitrate is coupled to proton translocation across the cytoplasmic membrane generating proton motive force by a redox loop mechanism. Demethylmenaquinol (DMKH2) has been shown to be a good substrate for NarGHI in nitrate respiration in E. coli.

                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 497293870  36 CLR--CVEACTSGALaYRAGE---LLVEPERCIGCGTCATACP 73
Cdd:cd10557  182 CLNpaCVAACPSGAI-YKREEdgiVLIDQDRCRGWRMCVSACP 223

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
                 ....*....|....*....|....*....|....*....|....*...
gi 497293870  39 CVEACTSGALaYRA--GELLVEPERCIGCGTCATACPTCAIElRNPTD 84
Cdd:cd10560   86 CLEACPTGAI-FRTefGTVYIQPDICNGCGYCVAACPFGVID-RNEET 131

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

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 497293870 286 TRVIGAVSIDAQKCSSCRMCAVFCPTGAIkKLDEGGVFGIVHRpsaCMQCR------LCEHICPEQAI 347
Cdd:COG1142   70 TRDDGAVVVDEEKCIGCGLCVLACPFGAI-TMVGEKSRAVAVK---CDLCGgreggpACVEACPTGAL 133

4Fe-4S dicluster domain;

                          10
                  ....*....|....*
gi 497293870   61 RCIGCGTCATACPTC 75
Cdd:pfam17179   1 RCLSCGACTFVCPTC 15

MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function prediction only];

                         10        20
                 ....*....|....*....|....*
gi 497293870  57 VEPERCIGCGTCATACPTCAIELRN 81
Cdd:COG1149    8 IDEEKCIGCGLCVEVCPEGAIKLDD 32

EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight conserved Cys residues in two CxxCxxCxxxCP motifs, each of which binds a 4Fe-4S cluster. The N-terminal region resembles flavodoxin domains, with some members of the family recognized by Pfam models PF12724 (Flavodoxin_5) or PF00258 (Flavodoxin_1).

                         10        20
                 ....*....|....*....|..
gi 497293870  60 ERCIGCGTCATACPTCAIELRN 81
Cdd:NF038196 185 DKCIGCGICAKVCPVNNIEMED 206

NADH-quinone oxidoreductase subunit NuoI;

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 497293870 298 KCSSCRMCAVFCPTGAIK----KLDEGGVFGIVHRP--SACMQCRLCEHICPEQAI 347
Cdd:PRK05888  59 RCIACKLCAAICPADAITieaaEREDGRRRTTRYDInfGRCIFCGFCEEACPTDAI 114

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
                 ....*....|....*....|....*....|....*....|...
gi 497293870 305 CAVFCPTGAIKKlDEGGVfgIVHRPSACMQCRLCEHICPEQAI 347
Cdd:cd04410   58 CVKACPTGAIYK-DEDGI--VLIDEDKCIGCGSCVEACPYGAI 97