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Conserved domains on  [gi|612272125|gb|EZQ65630|]
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electron transport complex protein rnfB [Serratia marcescens BIDMC 81]

Protein Classification

electron transport complex subunit RsxB( domain architecture ID 11480380)

electron transport complex subunit RsxB is required to maintain the reduced state of SoxR; probably transfers electron from NAD(P)H to SoxR

EC:  7.-.-.-
Gene Ontology:  GO:0046872|GO:0009055|GO:0051539

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK05113 PRK05113
electron transport complex protein RnfB; Provisional
 1-190 1.13e-123

electron transport complex protein RnfB; Provisional


:

Pssm-ID: 235347 [Multi-domain]  Cd Length: 191  Bit Score: 346.55  E-value: 1.13e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   1 MTALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEMINKCAPGGEQV 80
Cdd:PRK05113   1 MSAIWIAVAALSLLALVFGAILGFASRRFKVEGDPIVEKIDAILPQSQCGQCGYPGCRPYAEAIANGEKINKCPPGGEAT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  81 MLKLAELLNVEPQPL-GSEAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDC 159
Cdd:PRK05113  81 MLKLAELLGVEPQPLdGEAQEATPARKVAFIDEDNCIGCTKCIQACPVDAIVGATKAMHTVISDLCTGCDLCVAPCPTDC 160

                        170       180       190
                 ....*....|....*....|....*....|.
gi 612272125 160 IEMRPVATTTANWKWDMKTIPVQVIHVEQHA 190
Cdd:PRK05113 161 IEMIPVAETPDNWKWDLNTIPVRIIPVEQHA 191
 
Name Accession Description Interval E-value
PRK05113 PRK05113
electron transport complex protein RnfB; Provisional
 1-190 1.13e-123

electron transport complex protein RnfB; Provisional


Pssm-ID: 235347 [Multi-domain]  Cd Length: 191  Bit Score: 346.55  E-value: 1.13e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   1 MTALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEMINKCAPGGEQV 80
Cdd:PRK05113   1 MSAIWIAVAALSLLALVFGAILGFASRRFKVEGDPIVEKIDAILPQSQCGQCGYPGCRPYAEAIANGEKINKCPPGGEAT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  81 MLKLAELLNVEPQPL-GSEAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDC 159
Cdd:PRK05113  81 MLKLAELLGVEPQPLdGEAQEATPARKVAFIDEDNCIGCTKCIQACPVDAIVGATKAMHTVISDLCTGCDLCVAPCPTDC 160

                        170       180       190
                 ....*....|....*....|....*....|.
gi 612272125 160 IEMRPVATTTANWKWDMKTIPVQVIHVEQHA 190
Cdd:PRK05113 161 IEMIPVAETPDNWKWDLNTIPVRIIPVEQHA 191
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 3-165 8.41e-83

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]


Pssm-ID: 273887 [Multi-domain]  Cd Length: 165  Bit Score: 242.40  E-value: 8.41e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125    3 ALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEMINKCAPGGEQVML 82
Cdd:TIGR01944   1 MIIAAVAALSALGLALGAILGYAARRFPVEADPIVEEIDALLPQTQCGQCGYPGCRPYAEAIAEGEAINKCPPGGEAVIL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   83 KLAELLNVEP--QPLGSEAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCI 160
Cdd:TIGR01944  81 ALAELLGVEPipQPLDADAGTIQPPMVALIDEDNCIGCTKCIQACPVDAIVGAAKAMHTVIADECTGCDLCVEPCPTDCI 160


                  ....*
gi 612272125  161 EMRPV 165
Cdd:TIGR01944 161 EMIPV 165
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 1-175 3.52e-73

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


Pssm-ID: 442125 [Multi-domain]  Cd Length: 254  Bit Score: 221.02  E-value: 3.52e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   1 MTALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEM-INKCAPGGEQ 79
Cdd:COG2878    1 MSTILIAVLVLGGLGLVFGLILGYASKKFKVEEDPRVEEIDALLPGANCGQCGYPGCRPYAEAIAEGEApINLCPPGGAA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  80 VMLKLAELLNVEPQPLGSEAA--------AEPERKVAYI---------------DEANCIGCTKCIQACPVDAIVGATRA 136
Cdd:COG2878   81 VAEKLAELLGVEAGPLDPEVAvvrcnggcEKAKPKYEYDgikdcraaviggpkgCEYGCIGCGDCIKACPFDAIVGAAKG 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 612272125 137 MHTVITDLCTGCDLCVAPCPTDCIEMRPVATTT--ANWKWD 175
Cdd:COG2878  161 MHTVDEDKCTGCGLCVEACPVDCIEMVPVSPTVvvSSWDKG 201
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 108-162 8.24e-20

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.


Pssm-ID: 434137 [Multi-domain]  Cd Length: 59  Bit Score: 78.48  E-value: 8.24e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 612272125  108 AYIDEANCIGCTKCIQACP---VDAIVGATRAMHTVITDLCTGCDLCVAPCPT-DCIEM 162
Cdd:pfam14697   1 ARIDEDTCIGCGKCYIACPdtsHQAIVGDGKRHHTVIEDECTGCNLCVSVCPVdDCITM 59
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 103-162 9.01e-14

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.


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 64.73  E-value: 9.01e-14
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 103 PERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:cd10549   68 PKEKEAEIDEEKCIGCGLCVKVCPVDAITLEDELEIVIDKEKCIGCGICAEVCPVNAIKL 127
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 109-161 3.43e-04

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).


Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 39.84  E-value: 3.43e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 612272125 109 YIDEaNCIGCTKCIQACPVDAIVGATRamHTVITDLCTGCDLCVAPCPTDCIE 161
Cdd:NF038196 182 HVTD-KCIGCGICAKVCPVNNIEMEDG--KPVWGHNCTHCLACIHRCPKEAIE 231
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 141-165 4.06e-03

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).


Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 36.76  E-value: 4.06e-03
                         10        20
                 ....*....|....*....|....*...
gi 612272125 141 ITDLCTGCDLCVAPCPTDCIEM---RPV 165
Cdd:NF038196 183 VTDKCIGCGICAKVCPVNNIEMedgKPV 210
 
Name Accession Description Interval E-value
PRK05113 PRK05113
electron transport complex protein RnfB; Provisional
 1-190 1.13e-123

electron transport complex protein RnfB; Provisional


Pssm-ID: 235347 [Multi-domain]  Cd Length: 191  Bit Score: 346.55  E-value: 1.13e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   1 MTALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEMINKCAPGGEQV 80
Cdd:PRK05113   1 MSAIWIAVAALSLLALVFGAILGFASRRFKVEGDPIVEKIDAILPQSQCGQCGYPGCRPYAEAIANGEKINKCPPGGEAT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  81 MLKLAELLNVEPQPL-GSEAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDC 159
Cdd:PRK05113  81 MLKLAELLGVEPQPLdGEAQEATPARKVAFIDEDNCIGCTKCIQACPVDAIVGATKAMHTVISDLCTGCDLCVAPCPTDC 160

                        170       180       190
                 ....*....|....*....|....*....|.
gi 612272125 160 IEMRPVATTTANWKWDMKTIPVQVIHVEQHA 190
Cdd:PRK05113 161 IEMIPVAETPDNWKWDLNTIPVRIIPVEQHA 191
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 3-165 8.41e-83

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]


Pssm-ID: 273887 [Multi-domain]  Cd Length: 165  Bit Score: 242.40  E-value: 8.41e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125    3 ALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEMINKCAPGGEQVML 82
Cdd:TIGR01944   1 MIIAAVAALSALGLALGAILGYAARRFPVEADPIVEEIDALLPQTQCGQCGYPGCRPYAEAIAEGEAINKCPPGGEAVIL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   83 KLAELLNVEP--QPLGSEAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCI 160
Cdd:TIGR01944  81 ALAELLGVEPipQPLDADAGTIQPPMVALIDEDNCIGCTKCIQACPVDAIVGAAKAMHTVIADECTGCDLCVEPCPTDCI 160


                  ....*
gi 612272125  161 EMRPV 165
Cdd:TIGR01944 161 EMIPV 165
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 1-175 3.52e-73

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


Pssm-ID: 442125 [Multi-domain]  Cd Length: 254  Bit Score: 221.02  E-value: 3.52e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   1 MTALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEM-INKCAPGGEQ 79
Cdd:COG2878    1 MSTILIAVLVLGGLGLVFGLILGYASKKFKVEEDPRVEEIDALLPGANCGQCGYPGCRPYAEAIAEGEApINLCPPGGAA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  80 VMLKLAELLNVEPQPLGSEAA--------AEPERKVAYI---------------DEANCIGCTKCIQACPVDAIVGATRA 136
Cdd:COG2878   81 VAEKLAELLGVEAGPLDPEVAvvrcnggcEKAKPKYEYDgikdcraaviggpkgCEYGCIGCGDCIKACPFDAIVGAAKG 160

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|.
gi 612272125 137 MHTVITDLCTGCDLCVAPCPTDCIEMRPVATTT--ANWKWD 175
Cdd:COG2878  161 MHTVDEDKCTGCGLCVEACPVDCIEMVPVSPTVvvSSWDKG 201
PRK06991 PRK06991
electron transport complex subunit RsxB;
37-172 4.94e-63

electron transport complex subunit RsxB;


Pssm-ID: 235903 [Multi-domain]  Cd Length: 270  Bit Score: 195.78  E-value: 4.94e-63
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  37 AEQVDAILPQSQCGQCGYPGCRPYAEAVANGE-MINKCAPGGEQVMLKLAELLNVEPQPLGSEAAAEPERKVAYIDEANC 115
Cdd:PRK06991   8 ADRIEDLLPQTQCTKCGYDGCRPYAEAIAAGEaNYNRCPPGGAEGIARLAALLGKPVIPLDPANGVERPRAVAVIDEQLC 87

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 116 IGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRPVATTTANW 172
Cdd:PRK06991  88 IGCTLCMQACPVDAIVGAPKQMHTVLADLCTGCDLCVPPCPVDCIDMVPVTGERTGW 144
PRK08764 PRK08764
Rnf electron transport complex subunit RnfB;
35-163 8.96e-49

Rnf electron transport complex subunit RnfB;


Pssm-ID: 181550 [Multi-domain]  Cd Length: 135  Bit Score: 155.08  E-value: 8.96e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  35 PVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEM-INKCAPGGEQVMLKLAELLNVEPQPLGSEAAAEPERKVAYIDEA 113
Cdd:PRK08764   6 TLVERLDRLLPQTQCGQCGFDGCRPYAQAMARGEAtIDRCPPGGDAGARALAQVLGVPARPYDRSRGTHKLPQVAWIVEA 85

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 612272125 114 NCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:PRK08764  86 DCIGCTKCIQACPVDAIVGGAKHMHTVIAPLCTGCELCVPACPVDCIELH 135
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
1-164 1.17e-31

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 115.42  E-value: 1.17e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125   1 MTALWIAIAALSALGLLFGLVLGYAARRFEVEEDPVAEQVDAILPQSQCGQCGYPGCRPYAEAVANGEM-INKCAPGGEQ 79
Cdd:PRK07118   1 MNMILFAVLSLGALGLVFGILLAFASKKFAVEEDPRVEAVREVLPGANCGGCGYPGCDGYAEAVVNGDApPNLCPVGGAE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  80 VMLKLAELLNVEpqplgseaAAEPERKVAYI----DEAN-----------------------------CIGCTKCIQACP 126
Cdd:PRK07118  81 VAEKVAEILGKE--------AAESEPKVAVVrcqgTCDKakeryeyqgikdcaaaallfggpkgcsygCLGLGSCVAACP 152

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 612272125 127 VDAIVGATRAMHtVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:PRK07118 153 FDAIHIENGLPV-VDEDKCTGCGACVKACPRNVIELIP 189
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 108-162 8.24e-20

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.


Pssm-ID: 434137 [Multi-domain]  Cd Length: 59  Bit Score: 78.48  E-value: 8.24e-20
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 612272125  108 AYIDEANCIGCTKCIQACP---VDAIVGATRAMHTVITDLCTGCDLCVAPCPT-DCIEM 162
Cdd:pfam14697   1 ARIDEDTCIGCGKCYIACPdtsHQAIVGDGKRHHTVIEDECTGCNLCVSVCPVdDCITM 59
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 105-164 5.83e-15

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 66.29  E-value: 5.83e-15
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 105 RKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG1149    3 RKIPVIDEEKCIGCGLCVEVCPEGAIKLDDGGAPVVDPDLCTGCGACVGVCPTGAITLEE 62
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 103-162 9.01e-14

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.


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 64.73  E-value: 9.01e-14
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 103 PERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:cd10549   68 PKEKEAEIDEEKCIGCGLCVKVCPVDAITLEDELEIVIDKEKCIGCGICAEVCPVNAIKL 127
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 110-164 4.65e-13

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


Pssm-ID: 440759 [Multi-domain]  Cd Length: 84  Bit Score: 61.61  E-value: 4.65e-13
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 612272125 110 IDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG1144   27 VDEDKCIGCGLCWIVCPDGAIRVDDGKYYGIDYDYCKGCGICAEVCPVKAIEMVP 81
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 108-163 1.33e-12

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 60.44  E-value: 1.33e-12
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 612272125 108 AYIDEANCIGCTKCIQACPVDAIVGATRaMHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:COG4231   17 YVIDEDKCTGCGACVKVCPADAIEEGDG-KAVIDPDLCIGCGSCVQVCPVDAIKLE 71
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 108-164 5.93e-11

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 55.87  E-value: 5.93e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 612272125 108 AYIDEANCIGCTKCIQACPVDAIVGATRAMHTVIT--DLCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG1146    3 PVIDTDKCIGCGACVEVCPVDVLELDEEGKKALVInpEECIGCGACELVCPVGAITVED 61
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
108-164 8.90e-11

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 55.51  E-value: 8.90e-11
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 108 AYIDEANCIGCTKCIQACPVDAIVGaTRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG2768    6 PYVDEEKCIGCGACVKVCPVGAISI-EDGKAVIDPEKCIGCGACIEVCPVGAIKIEW 61
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
107-163 1.02e-10

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 59.49  E-value: 1.02e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 107 VAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:COG1148  490 VAEVDPEKCTGCGRCVEVCPYGAISIDEKGVAEVNPALCKGCGTCAAACPSGAISLK 546
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 112-171 1.77e-10

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


Pssm-ID: 440758 [Multi-domain]  Cd Length: 66  Bit Score: 54.37  E-value: 1.77e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 612272125 112 EANCIGCTKCIQACPVDAIVGATRAMHTVIT---DLCTGCDLCVAPCPTDCIEMRPVATTTAN 171
Cdd:COG1143    1 EDKCIGCGLCVRVCPVDAITIEDGEPGKVYVidpDKCIGCGLCVEVCPTGAISMTPFELAVED 63
PRK08318 PRK08318
NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;
107-172 4.85e-10

NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;


Pssm-ID: 236237 [Multi-domain]  Cd Length: 420  Bit Score: 57.65  E-value: 4.85e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 612272125 107 VAYIDEANCIGCTKCIQAC------PVDAIVGATRAMHtVITDLCTGCDLCVAPCPTD-CIEMRPVATT--TANW 172
Cdd:PRK08318 336 YARIDQDKCIGCGRCYIACedtshqAIEWDEDGTRTPE-VIEEECVGCNLCAHVCPVEgCITMGEVKFGkpYANW 409
NapF COG1145
Ferredoxin [Energy production and conversion];
65-164 5.44e-10

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 57.04  E-value: 5.44e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  65 ANGEMINKCAPGGEQVMLKLAELLNVEPQPLGSEAAAEPERKVAYIDEANCIGCTKCIQACPVDAIV-GATRAMHTVITD 143
Cdd:COG1145  134 VIAAALAEAGLAILGAAAPVDALAISGGKKIEEELKIAIKKAKAVIDAEKCIGCGLCVKVCPTGAIRlKDGKPQIVVDPD 213

                         90       100
                 ....*....|....*....|.
gi 612272125 144 LCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG1145  214 KCIGCGACVKVCPVGAISLEP 234
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
98-163 6.88e-10

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 57.34  E-value: 6.88e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 612272125  98 EAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHtVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:COG4624   76 IIIIDKRGPSIIRDKEKCKNCYPCVRACPVKAIKVDDGKAE-IDEEKCISCGQCVAVCPFGAITEK 140
FeS pfam04060
Putative Fe-S cluster; This family includes a domain with four conserved cysteines that ...
 44-75 7.19e-10

Putative Fe-S cluster; This family includes a domain with four conserved cysteines that probably form an Fe-S redox cluster.


Pssm-ID: 461150 [Multi-domain]  Cd Length: 33  Bit Score: 52.05  E-value: 7.19e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 612272125   44 LPQSQCGQCGYPGCRPYAEAVANGEM-INKCAP 75
Cdd:pfam04060   1 LPGTNCGACGYPGCRAFAEAVVAGEAkINDCPP 33
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 110-173 1.17e-09

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.


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 53.94  E-value: 1.17e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 612272125 110 IDEANCIGCTKCIQACPVDAI----VGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRPVATTTANWK 173
Cdd:cd10549    3 YDPEKCIGCGICVKACPTDAIelgpNGAIARGPEIDEDKCVFCGACVEVCPTGAIELTPEGKEYVPKE 70
PRK06214 PRK06214
sulfite reductase subunit alpha;
26-108 1.86e-09

sulfite reductase subunit alpha;


Pssm-ID: 235745 [Multi-domain]  Cd Length: 530  Bit Score: 55.85  E-value: 1.86e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  26 ARRFEVEED-PVAEQVDAILPQSQCGQCGYpGCRPYAEAVANGE--MINKCAPGGEQV--MLK-LAELLNVEPQPLGSEA 99
Cdd:PRK06214  68 DERMALAEGrPLPRKLMAAMAQQDCGQCGY-NCQDYAEAIASGEekRLNLCAPGGKETarMLKkLAEEFGAAPAAAAPAA 146


                 ....*....
gi 612272125 100 AAEPERKVA 108
Cdd:PRK06214 147 AAADAAPAA 155
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 110-161 3.16e-09

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 51.21  E-value: 3.16e-09
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 612272125 110 IDEANCIGCTKCIQACPVDAIVGATRAMHtVITDLCTGCDLCVAPCPTDCIE 161
Cdd:COG2221   12 IDEEKCIGCGLCVAVCPTGAISLDDGKLV-IDEEKCIGCGACIRVCPTGAIK 62
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
115-165 6.35e-08

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 49.88  E-value: 6.35e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 115 CIGCTKCIQACPVDAIV--GATRAMHTVITDL-------CTGCDLCVAPCPTDCIEMRPV 165
Cdd:PRK05888  60 CIACKLCAAICPADAITieAAEREDGRRRTTRydinfgrCIFCGFCEEACPTDAIVETPD 119
CdhE COG1456
CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production ...
 44-89 7.19e-08

CO dehydrogenase/acetyl-CoA synthase gamma subunit (corrinoid Fe-S protein) [Energy production and conversion];


Pssm-ID: 441065 [Multi-domain]  Cd Length: 442  Bit Score: 51.18  E-value: 7.19e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 612272125  44 LPQSQCGQCGYPGCRPYAEAVANGEM-INKCAPGGEQVMLKLAELLN 89
Cdd:COG1456   12 LPKTNCKECGEPTCMAFAMKLAKGKAkLEDCPPLSEEALEKLEEALA 58
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 110-161 9.15e-08

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.


Pssm-ID: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 48.73  E-value: 9.15e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 612272125 110 IDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIE 161
Cdd:cd10550   77 VDEDKCIGCGMCVEACPFGAIRVDPETGKAIKCDLCGGDPACVKVCPTGALE 128
PRK12771 PRK12771
putative glutamate synthase (NADPH) small subunit; Provisional
 114-164 1.77e-07

putative glutamate synthase (NADPH) small subunit; Provisional


Pssm-ID: 237198 [Multi-domain]  Cd Length: 564  Bit Score: 50.26  E-value: 1.77e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 612272125 114 NCIGCTKCIQACPVDAI--VGATRAMHTVItDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:PRK12771 511 NCFECDNCYGACPQDAIikLGPGRRYHFDY-DKCTGCHICADVCPCGAIEMGP 562
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
106-163 2.29e-07

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 49.29  E-value: 2.29e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 612272125 106 KVAYiDEANCIGCTKCIQACPVDAIVgatrAMHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:COG0348  204 RVRY-DRGDCIDCGLCVKVCPMGIDI----RKGEINQSECINCGRCIDACPKDAIRFS 256
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 110-162 4.48e-07

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.


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 47.01  E-value: 4.48e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 612272125 110 IDEANCIGCTKCIQACPVDAI-------VGATRAMHTVIT-DLCTGCDLCVAPCPTDCIEM 162
Cdd:cd10549   37 IDEDKCVFCGACVEVCPTGAIeltpegkEYVPKEKEAEIDeEKCIGCGLCVKVCPVDAITL 97
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
109-160 5.83e-07

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 46.96  E-value: 5.83e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 109 YIDEANCIGCTKCIQACPVDAIVGATRAMHTVIT--DLCTGCD---LCVAPCPTDCI 160
Cdd:COG1142   77 VVDEEKCIGCGLCVLACPFGAITMVGEKSRAVAVkcDLCGGREggpACVEACPTGAL 133
NuoI TIGR01971
NADH-quinone oxidoreductase, chain I; This model represents the I subunit (one of 14: A->N) of ...
 115-165 1.22e-06

NADH-quinone oxidoreductase, chain I; This model represents the I subunit (one of 14: A->N) of the NADH-quinone oxidoreductase complex I which generally couples NADH and ubiquinone oxidation/reduction in bacteria and mammalian mitochondria, but may act on NADPH and/or plastoquinone in cyanobacteria and plant chloroplasts. This model excludes "I" subunits from the closely related F420H2 dehydrogenase and formate hydrogenlyase complexes. [Energy metabolism, Electron transport]


Pssm-ID: 273902 [Multi-domain]  Cd Length: 122  Bit Score: 45.48  E-value: 1.22e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  115 CIGCTKCIQACPVDAI--VGATR-------AMHTVITDLCTGCDLCVAPCPTDCIEMRPV 165
Cdd:TIGR01971  45 CIGCTLCAAVCPADAIrvVPAEGedgkrrlKFYEINFGRCIFCGLCEEACPTDAIVLTPE 104
PRK14028 PRK14028
pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional
 110-162 1.58e-06

pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional


Pssm-ID: 172522 [Multi-domain]  Cd Length: 312  Bit Score: 47.30  E-value: 1.58e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 612272125 110 IDEANCIGCTKCIQACPVDAIVGA--------TRAMHTVITDL----CTGCDLCVAPCPTDCIEM 162
Cdd:PRK14028 244 IDHSKCIMCRKCWLYCPDDAIIEAwreaegprGRKFRMKMIDFdyqyCKGCGVCAEVCPTGAIQM 308
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 107-157 1.60e-06

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.


Pssm-ID: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 45.71  E-value: 1.60e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 107 VAYIDEANCI------GCTKCIQACPVDAIVGATRAMH---TVITDLCTGCDLCVAPCPT 157
Cdd:cd16373   85 VAVIDKDRCLawqggtDCGVCVEACPTEAIAIVLEDDVlrpVVDEDKCVGCGLCEYVCPV 144
PRK13795 PRK13795
hypothetical protein; Provisional
 98-156 2.07e-06

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 46.91  E-value: 2.07e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612272125  98 EAAAEPERKVAY--IDEANCIGCTKCIQACPVDAI-VGATRAMHTVITDLCTGCDLCVAPCP 156
Cdd:PRK13795 564 EAAASLFKDAARllRRAAECVGCGVCVGACPTGAIrIEEGKRKISVDEEKCIHCGKCTEVCP 625
Fer4_9 pfam13187
4Fe-4S dicluster domain;
114-160 2.81e-06

4Fe-4S dicluster domain;


Pssm-ID: 463801 [Multi-domain]  Cd Length: 50  Bit Score: 42.93  E-value: 2.81e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 612272125  114 NCIGCTKCIQACPVDAIV---GATRAMHTVITDLCTGCDLCVAPCPTDCI 160
Cdd:pfam13187   1 KCTGCGACVAACPAGAIVpdlVGQTIRGDIAGLACIGCGACVDACPRGAI 50
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 116-164 6.27e-06

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.


Pssm-ID: 319886 [Multi-domain]  Cd Length: 139  Bit Score: 43.77  E-value: 6.27e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 612272125 116 IGCTKCIQACPVDAI-----VGAtRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:cd10564   86 VECRSCQDACPTQAIrfrprLGG-IALPELDADACTGCGACVSVCPVGAITLTP 138
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 111-162 9.04e-06

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.


Pssm-ID: 319892 [Multi-domain]  Cd Length: 131  Bit Score: 43.42  E-value: 9.04e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 612272125 111 DEANCIGCTKCIQACPVDAIVGATRAMHTVItdlCTGCDLCVAPCPTDCIEM 162
Cdd:cd16370   81 DKEKCIGCGNCVKACIVGAIFWDEETNKPII---CIHCGYCARYCPHDVLAM 129
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 107-162 1.03e-05

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.


Pssm-ID: 319870 [Multi-domain]  Cd Length: 136  Bit Score: 43.15  E-value: 1.03e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 612272125 107 VAYIDEANCIGCTKCIQACPVDAIVgatRAMHTVITDLCTGCD---------LCVAPCPTDCIEM 162
Cdd:cd04410   74 IVLIDEDKCIGCGSCVEACPYGAIV---FDPEPGKAVKCDLCGdrldeglepACVKACPTGALTF 135
porD PRK09625
pyruvate flavodoxin oxidoreductase subunit delta; Reviewed
 115-157 1.04e-05

pyruvate flavodoxin oxidoreductase subunit delta; Reviewed


Pssm-ID: 236596 [Multi-domain]  Cd Length: 133  Bit Score: 43.20  E-value: 1.04e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 612272125 115 CIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPT 157
Cdd:PRK09625  61 CINCFNCWVYCPDAAILSRDKKLKGVDYSHCKGCGVCVEVCPT 103
vorD PRK09623
3-methyl-2-oxobutanoate dehydrogenase subunit delta;
110-162 1.29e-05

3-methyl-2-oxobutanoate dehydrogenase subunit delta;


Pssm-ID: 170016 [Multi-domain]  Cd Length: 105  Bit Score: 42.24  E-value: 1.29e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 612272125 110 IDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:PRK09623  48 VDESKCVKCYICWKFCPEPAIYIKEDGYVAIDYDYCKGCGICANECPTKAITM 100
PRK08348 PRK08348
NADH-plastoquinone oxidoreductase subunit; Provisional
 106-188 1.94e-05

NADH-plastoquinone oxidoreductase subunit; Provisional


Pssm-ID: 181399 [Multi-domain]  Cd Length: 120  Bit Score: 42.13  E-value: 1.94e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 106 KVAYiDEANCIGCTKCIQACPVDAIV--GATRAMhTVITDLCTGCDLCVAPCPTDCIEMRPVATTTANWKWDMKTIPVQV 183
Cdd:PRK08348  36 KILY-DVDKCVGCRMCVTVCPAGVFVylPEIRKV-ALWTGRCVFCGQCVDVCPTGALQMSDDFLLASYDRFDEKFIPLKP 113


                 ....*
gi 612272125 184 IHVEQ 188
Cdd:PRK08348 114 EKVEE 118
SIMIBI_bact_arch cd03110
bacterial and archaeal subfamily of SIMIBI; Uncharacterized bacterial and archaeal subfamily ...
 106-167 1.95e-05

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.


Pssm-ID: 349764 [Multi-domain]  Cd Length: 246  Bit Score: 43.53  E-value: 1.95e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612272125 106 KVAYIDEANCIGCTKCIQACPVDAIvGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRPVAT 167
Cdd:cd03110   57 KKAFIDQEKCIRCGNCERVCKFGAI-LEFFQKLIVDESLCEGCGACVIICPRGAIYLKDRDT 117
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 115-159 2.54e-05

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.


Pssm-ID: 463724 [Multi-domain]  Cd Length: 51  Bit Score: 40.20  E-value: 2.54e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 612272125  115 CIGCTKCIQACPVDAIVGATRAMH------TVITDLCTGCDLCVAPCPTDC 159
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKkgtktvVIDPERCVGCGACVAVCPTGA 51
Fer4_10 pfam13237
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 109-156 3.91e-05

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.


Pssm-ID: 404174 [Multi-domain]  Cd Length: 56  Bit Score: 39.93  E-value: 3.91e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 612272125  109 YIDEANCIGCTKCIQACP-----VDAIVGATRAMHTVITDL-CTGCDLCVAPCP 156
Cdd:pfam13237   3 VIDPDKCIGCGRCTAACPagltrVGAIVERLEGEAVRIGVWkCIGCGACVEACP 56
Fer4_16 pfam13484
4Fe-4S double cluster binding domain;
115-156 4.40e-05

4Fe-4S double cluster binding domain;


Pssm-ID: 463893 [Multi-domain]  Cd Length: 65  Bit Score: 39.78  E-value: 4.40e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 612272125  115 CIGCTKCIQACPVDAIVGAT---------------------RAMHTVITDLCTGCDLCVAPCP 156
Cdd:pfam13484   1 CGSCGKCIDACPTGAIVGPEgvldarrcisyltiekkglipDELRCLLGNRCYGCDICQDVCP 63
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 110-162 4.65e-05

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.


Pssm-ID: 319876 [Multi-domain]  Cd Length: 149  Bit Score: 41.48  E-value: 4.65e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 110 IDEANCIGCTKCIQACPVDAIVGATRAMHTVIT-----------DLCTGCD---LCVAPCPTDCIEM 162
Cdd:cd10554   82 VDEERCIGCKLCVLACPFGAIEMAPTTVPGVDWergpravavkcDLCAGREggpACVEACPTKALTL 148
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 102-131 5.20e-05

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 40.03  E-value: 5.20e-05
                         10        20        30
                 ....*....|....*....|....*....|
gi 612272125 102 EPERKVAYIDEANCIGCTKCIQACPVDAIV 131
Cdd:COG4231   40 EEGDGKAVIDPDLCIGCGSCVQVCPVDAIK 69
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
100-130 6.55e-05

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 39.71  E-value: 6.55e-05
                         10        20        30
                 ....*....|....*....|....*....|.
gi 612272125 100 AAEPERKVAYIDEANCIGCTKCIQACPVDAI 130
Cdd:COG2768   27 AISIEDGKAVIDPEKCIGCGACIEVCPVGAI 57
PRK07569 PRK07569
bidirectional hydrogenase complex protein HoxU; Validated
 110-160 7.13e-05

bidirectional hydrogenase complex protein HoxU; Validated


Pssm-ID: 181037 [Multi-domain]  Cd Length: 234  Bit Score: 41.95  E-value: 7.13e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 612272125 110 IDEANCIGCTKCIQACpvDAIVGAtramHT-----------VITDL---------CTGCDLCVAPCPTDCI 160
Cdd:PRK07569 143 IDHNRCVLCTRCVRVC--DEIEGA----HTwdvagrgaksrVITDLnqpwgtsetCTSCGKCVQACPTGAI 207
psaC CHL00065
photosystem I subunit VII
 114-163 7.76e-05

photosystem I subunit VII


Pssm-ID: 177005 [Multi-domain]  Cd Length: 81  Bit Score: 39.74  E-value: 7.76e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 114 NCIGCTKCIQACPVDAI-------VGATRAMHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:CHL00065  10 TCIGCTQCVRACPTDVLemipwdgCKAKQIASAPRTEDCVGCKRCESACPTDFLSVR 66
DMSOR_beta_like cd16371
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 109-161 9.24e-05

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.


Pssm-ID: 319893 [Multi-domain]  Cd Length: 140  Bit Score: 40.62  E-value: 9.24e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612272125 109 YIDEANCIGCTKCIQACPVDAIVGATramHTVITDLCTGC-DL--------CVAPCPTDCIE 161
Cdd:cd16371   80 VVDQDKCIGCGYCVWACPYGAPQYNP---ETGKMDKCDMCvDRldegekpaCVAACPTRALD 138
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 121-173 9.34e-05

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.


Pssm-ID: 319876 [Multi-domain]  Cd Length: 149  Bit Score: 40.71  E-value: 9.34e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 612272125 121 CIQACPVDAIVGATRAMHtVITDLCTGCDLCVAPCPTDCIEMRPVATTTANWK 173
Cdd:cd10554   64 CANVCPVGAISQEDGVVQ-VDEERCIGCKLCVLACPFGAIEMAPTTVPGVDWE 115
porD PRK09624
pyruvate ferredoxin oxidoreductase subunit delta; Reviewed
 111-162 1.01e-04

pyruvate ferredoxin oxidoreductase subunit delta; Reviewed


Pssm-ID: 170017 [Multi-domain]  Cd Length: 105  Bit Score: 40.01  E-value: 1.01e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 612272125 111 DEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:PRK09624  49 NRDKCVRCYLCYIYCPEPAIYLDEEGYPVFDYDYCKGCGICANECPTKAIEM 100
FDH-O_like cd10560
beta subunit of formate dehydrogenase O (FDH-O) and similar proteins; This subfamily includes ...
 115-164 1.08e-04

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.


Pssm-ID: 319882 [Multi-domain]  Cd Length: 225  Bit Score: 41.22  E-value: 1.08e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 612272125 115 CIGCTK--CIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:cd10560   78 CKHCTDagCLEACPTGAIFRTEFGTVYIQPDICNGCGYCVAACPFGVIDRNE 129
PLN00071 PLN00071
photosystem I subunit VII; Provisional
 115-163 1.30e-04

photosystem I subunit VII; Provisional


Pssm-ID: 177700 [Multi-domain]  Cd Length: 81  Bit Score: 39.16  E-value: 1.30e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 612272125 115 CIGCTKCIQACPVDAI-------VGATRAMHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:PLN00071  11 CIGCTQCVRACPTDVLemipwdgCKAKQIASAPRTEDCVGCKRCESACPTDFLSVR 66
PRK04165 PRK04165
acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional
 44-88 1.36e-04

acetyl-CoA decarbonylase/synthase complex subunit gamma; Provisional


Pssm-ID: 235235 [Multi-domain]  Cd Length: 450  Bit Score: 41.38  E-value: 1.36e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 612272125  44 LPQSQCGQCGYPGCRPYAEAVANGE-MINKCAPGGEQVMLKLAELL 88
Cdd:PRK04165  12 LPKTNCGECGEPTCLAFAMKLASGKaELDDCPYLSEEAKEKLEEAS 57
PRK12809 PRK12809
putative oxidoreductase Fe-S binding subunit; Reviewed
 110-162 1.46e-04

putative oxidoreductase Fe-S binding subunit; Reviewed


Pssm-ID: 183762 [Multi-domain]  Cd Length: 639  Bit Score: 41.55  E-value: 1.46e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 612272125 110 IDEANCIGCTKCIQACPVDAI-VGATRAMHtviTDLC----TGCDLCVAPCPTDCIEM 162
Cdd:PRK12809  82 LDEQKCIGCKRCAIACPFGVVeMVDTIAQK---CDLCnqrsSGTQACIEVCPTQALRL 136
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 98-132 1.67e-04

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 38.49  E-value: 1.67e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 612272125  98 EAAAEPERKVAYIDEANCIGCTKCIQACPVDAIVG 132
Cdd:COG2221   29 TGAISLDDGKLVIDEEKCIGCGACIRVCPTGAIKG 63
CooF_like cd10563
CooF, iron-sulfur subunit of carbon monoxide dehydrogenase; This family includes CooF, the ...
 102-161 1.96e-04

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.


Pssm-ID: 319885 [Multi-domain]  Cd Length: 140  Bit Score: 39.93  E-value: 1.96e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612272125 102 EPERKVAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDL--CVAPCPTDCIE 161
Cdd:cd10563   77 DPETGIVIHDEEKCVGCWMCVMVCPYGAIRPDKERKVALKCDLCPDRETpaCVEACPTGALV 138
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 107-163 2.37e-04

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.


Pssm-ID: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 39.24  E-value: 2.37e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 107 VAYIDEANCIGCTKCIQACPVDAIVGATramHTVITDLCTGCDLCVAPCPTDCIEMR 163
Cdd:cd16372   71 VVMINKKLCVGCLMCVGFCPEGAMFKHE---DYPEPFKCIACGICVKACPTGALELV 124
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
121-164 2.43e-04

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 39.64  E-value: 2.43e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 612272125 121 CIQACPVDAIVGATRAMHtVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG1142   60 CAEVCPVGAITRDDGAVV-VDEEKCIGCGLCVLACPFGAITMVG 102
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 114-158 3.28e-04

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.


Pssm-ID: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 38.86  E-value: 3.28e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 612272125 114 NCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTD 158
Cdd:cd16372   48 VCNQCGECIDVCPTGAITRDANGVVMINKKLCVGCLMCVGFCPEG 92
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 109-161 3.43e-04

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).


Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 39.84  E-value: 3.43e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 612272125 109 YIDEaNCIGCTKCIQACPVDAIVGATRamHTVITDLCTGCDLCVAPCPTDCIE 161
Cdd:NF038196 182 HVTD-KCIGCGICAKVCPVNNIEMEDG--KPVWGHNCTHCLACIHRCPKEAIE 231
QueG COG1600
Epoxyqueuosine reductase QueG (queuosine biosynthesis) [Translation, ribosomal structure and ...
 115-156 3.61e-04

Epoxyqueuosine reductase QueG (queuosine biosynthesis) [Translation, ribosomal structure and biogenesis]; Epoxyqueuosine reductase QueG (queuosine biosynthesis) is part of the Pathway/BioSystem: tRNA modification


Pssm-ID: 441208 [Multi-domain]  Cd Length: 345  Bit Score: 40.19  E-value: 3.61e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612272125 115 CIGCTKCIQACPVDAIVG-----ATR--AMHTV-------------ITDLCTGCDLCVAPCP 156
Cdd:COG1600  186 CGSCTRCLDACPTGAIVApyvldARRciSYLTIelkgpipeelrpkMGNRIYGCDDCQDVCP 247
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 102-131 3.78e-04

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


Pssm-ID: 440758 [Multi-domain]  Cd Length: 66  Bit Score: 37.42  E-value: 3.78e-04
                         10        20        30
                 ....*....|....*....|....*....|
gi 612272125 102 EPERKVAYIDEANCIGCTKCIQACPVDAIV 131
Cdd:COG1143   24 GEPGKVYVIDPDKCIGCGLCVEVCPTGAIS 53
DMSOR_beta_like cd16367
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 121-162 4.34e-04

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.


Pssm-ID: 319889 [Multi-domain]  Cd Length: 138  Bit Score: 38.83  E-value: 4.34e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 612272125 121 CIQACPVDAIVGATRAmHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:cd16367   65 CMIGCPTGAIHRDDGG-EVVISDACCGCGNCASACPYGAIQM 105
PRK06273 PRK06273
ferredoxin; Provisional
 139-181 5.37e-04

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 38.92  E-value: 5.37e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 612272125 139 TVITDLCTGCDLCVAPCPTDCIEMRPVATTTANWKWDMKTIPV 181
Cdd:PRK06273  45 KVFEELCIGCGGCANVCPTKAIEMIPVEPVKITEGYVKTKIPK 87
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 115-156 6.25e-04

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.


Pssm-ID: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 38.33  E-value: 6.25e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 612272125 115 CIGCTK--CIQACPVDAIV--GATRAMhTVITDLCTGCDLCVAPCP 156
Cdd:cd10550   49 CRQCEDapCVEACPVGAISrdEETGAV-VVDEDKCIGCGMCVEACP 93
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 98-131 7.01e-04

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.


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 38.15  E-value: 7.01e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 612272125  98 EAAAEPERKVAYIDEANCIGCTKCIQACPVDAIV 131
Cdd:cd10549   93 DAITLEDELEIVIDKEKCIGCGICAEVCPVNAIK 126
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 102-165 7.19e-04

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.


Pssm-ID: 319870 [Multi-domain]  Cd Length: 136  Bit Score: 38.14  E-value: 7.19e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 612272125 102 EPERKVAYIDEANCIGCT--KCIQACPVDAIVgATRAMHTVIT-DLCTGCDLCVAPCPTDCIEMRPV 165
Cdd:cd04410   37 EGGGLERAFLPVSCMHCEdpPCVKACPTGAIY-KDEDGIVLIDeDKCIGCGSCVEACPYGAIVFDPE 102
PRK13409 PRK13409
ribosome biogenesis/translation initiation ATPase RLI;
121-161 9.11e-04

ribosome biogenesis/translation initiation ATPase RLI;


Pssm-ID: 184037 [Multi-domain]  Cd Length: 590  Bit Score: 39.02  E-value: 9.11e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 612272125 121 CIQACPV-----DAIVGATRAMHTVIT-DLCTGCDLCVAPCPTDCIE 161
Cdd:PRK13409  21 CIKYCPVvrtgeETIEIDEDDGKPVISeELCIGCGICVKKCPFDAIS 67
RNAP_D cd07030
D subunit of Archaeal RNA polymerase; The D subunit of archaeal RNA polymerase (RNAP) is ...
 106-165 9.57e-04

D subunit of Archaeal RNA polymerase; The D subunit of archaeal RNA polymerase (RNAP) is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. A single distinct RNAP complex is found in archaea, which may be responsible for the synthesis of all RNAs. The archaeal RNAP harbors homologues of all eukaryotic RNAP II subunits with two exceptions (RPB8 and RPB9). The 12 archaeal subunits are designated by letters and can be divided into three functional groups that are engaged in: (I) catalysis (A'/A", B'/B" or B); (II) assembly (L, N, D and P); and (III) auxiliary functions (F, E, H and K). The D subunit is equivalent to the RPB3 subunit of eukaryotic RNAP II. It contains two subdomains: one subdomain is similar the eukaryotic Rpb11/AC19/archaeal L subunit which is involved in dimerization, and the other is an inserted beta sheet subdomain. The assembly of the two largest archaeal RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of the archaeal D/L heterodimer.


Pssm-ID: 132908 [Multi-domain]  Cd Length: 259  Bit Score: 38.79  E-value: 9.57e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 106 KVAYIDEaNCIGCTKCIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRPV 165
Cdd:cd07030  163 PVIEIDE-DCDGCGKCVEECPRGVLELEEGKVVVEDLEDCSLCKLCERACDAGAIRVGWD 221
Rli1 COG1245
Translation initiation factor RLI1, contains Fe-S and AAA+ ATPase domains [Translation, ...
 107-161 9.80e-04

Translation initiation factor RLI1, contains Fe-S and AAA+ ATPase domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 440858 [Multi-domain]  Cd Length: 592  Bit Score: 39.00  E-value: 9.80e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 612272125 107 VAYIDEANC--IGCTK-CIQACPV-----DAIVGATRAMHTVIT-DLCTGCDLCVAPCPTDCIE 161
Cdd:COG1245    4 IAVVDRDRCqpKKCNYeCIKYCPVnrtgkEAIEIDEDDGKPVISeELCIGCGICVKKCPFDAIS 67
FDH_b_like cd10562
uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes ...
 109-161 1.11e-03

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.


Pssm-ID: 319884 [Multi-domain]  Cd Length: 161  Bit Score: 38.05  E-value: 1.11e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612272125 109 YIDEANCIGCTKCIQACPVDAIVGATRAMHtviTDLCTGCD---------LCVAPCPTDCIE 161
Cdd:cd10562   96 VVDEDKCIGCGYCVAACPFDVPRYDETTNK---ITKCTLCFdriengmqpACVKTCPTGALT 154
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 137-164 1.23e-03

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 35.84  E-value: 1.23e-03
                         10        20
                 ....*....|....*....|....*...
gi 612272125 137 MHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:COG1146    2 MPVIDTDKCIGCGACVEVCPVDVLELDE 29
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 109-162 1.27e-03

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 38.00  E-value: 1.27e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 612272125 109 YIDEANCIGCTKCIQACPVDAIvgaTRAMHTVITDLCTGCD---------LCVAPCPTDCIEM 162
Cdd:COG0437   86 LVDYDKCIGCRYCVAACPYGAP---RFNPETGVVEKCTFCAdrldegllpACVEACPTGALVF 145
FDH_b_like cd10562
uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes ...
 115-164 1.41e-03

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.


Pssm-ID: 319884 [Multi-domain]  Cd Length: 161  Bit Score: 37.67  E-value: 1.41e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 612272125 115 CIGCTK--CIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:cd10562   70 CMHCTDaaCVKVCPTGALYKTENGAVVVDEDKCIGCGYCVAACPFDVPRYDE 121
FDH_beta_like cd16366
beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family ...
 97-161 1.85e-03

beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family contains beta FeS subunits of several dehydrogenases in the DMSO reductase superfamily, including formate dehydrogenase N (FDH-N), tungsten-containing formate dehydrogenase (W-FDH) and other similar proteins. FDH-N is a major component of nitrate respiration of Escherichia coli; it catalyzes the oxidation of formate to carbon dioxide, donating the electrons to a second substrate to a cytochrome. W-FDH contains a tungsten instead of molybdenum at the catalytic center and seems to be exclusively found in organisms such as hyperthermophilic archaea that live in extreme environments. It catalyzes the oxidation of formate to carbon dioxide, donating the electrons to a second substrate.


Pssm-ID: 319888 [Multi-domain]  Cd Length: 156  Bit Score: 37.38  E-value: 1.85e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 612272125  97 SEAAAEPERKVAYIDEANCIGCTKCIQACPVDAI--VGATRAMHTvitdlCTGC---------DLCVAPCPTDCIE 161
Cdd:cd16366   84 TGAIIRTETGTVVVDPETCIGCGYCVNACPFDIPrfDEETGRVAK-----CTLCydrisnglqPACVKTCPTGALT 154
COG4871 COG4871
Metal-binding trascriptional regulator, contains Fe-S cluster and ArsR family DNA binding ...
 44-90 2.00e-03

Metal-binding trascriptional regulator, contains Fe-S cluster and ArsR family DNA binding domain [Transcription];


Pssm-ID: 443899  Cd Length: 177  Bit Score: 37.20  E-value: 2.00e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 612272125  44 LPQSQCGQCGYPGCRPYAEAVANGEM-INKCAPGGEQVMLKLAELLNV 90
Cdd:COG4871  121 LPKTNCGKCGEPTCMAFAAKLLAGEKgLDDCPPLKEEEYAENREHLET 168
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 108-130 2.05e-03

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.


Pssm-ID: 459642 [Multi-domain]  Cd Length: 24  Bit Score: 34.53  E-value: 2.05e-03
                          10        20
                  ....*....|....*....|...
gi 612272125  108 AYIDEANCIGCTKCIQACPVDAI 130
Cdd:pfam00037   1 VVIDEEKCIGCGACVEVCPVGAI 23
PRK09898 PRK09898
ferredoxin-like protein;
110-164 2.33e-03

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 37.51  E-value: 2.33e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 612272125 110 IDEANCIGCTKCIQACPvdaIVGATRAMHTVITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:PRK09898 151 VDHKRCIGCSACTTACP---WMMATVNTESKKSSKCVLCGECANACPTGALKIIE 202
GlpC COG0247
Fe-S cluster-containing oxidoreductase, includes glycolate oxidase subunit GlcF [Energy ...
 87-158 2.92e-03

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


Pssm-ID: 440017 [Multi-domain]  Cd Length: 420  Bit Score: 37.75  E-value: 2.92e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125  87 LLNVEPQPLGSEAAAEPERKVAYIDEA-----NCIGCTKCIQACPV------------------------DAIVGATRAM 137
Cdd:COG0247   47 LLNPGVELLGDGDLHDKNLKTLPWKELldaldACVGCGFCRAMCPSykatgdekdsprgrinllrevlegELPLDLSEEV 126

                         90       100
                 ....*....|....*....|.
gi 612272125 138 HTVItDLCTGCDLCVAPCPTD 158
Cdd:COG0247  127 YEVL-DLCLTCKACETACPSG 146
PRK12809 PRK12809
putative oxidoreductase Fe-S binding subunit; Reviewed
 121-162 3.06e-03

putative oxidoreductase Fe-S binding subunit; Reviewed


Pssm-ID: 183762 [Multi-domain]  Cd Length: 639  Bit Score: 37.70  E-value: 3.06e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 612272125 121 CIQACPVDAIVGATRAMHtVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:PRK12809  64 CVTACPVNALTFQSDSVQ-LDEQKCIGCKRCAIACPFGVVEM 104
PhsB_like cd10553
uncharacterized beta subfamily of DMSO Reductase similar to Desulfonauticus sp PhsB; This ...
 107-160 3.44e-03

uncharacterized beta subfamily of DMSO Reductase similar to Desulfonauticus sp PhsB; This family includes beta FeS subunits of anaerobic DMSO reductase (DMSOR) superfamily that have yet to be characterized. DMSOR consists of a large, periplasmic molybdenum-containing alpha subunit as well as a small beta FeS subunit, and may also have a small gamma subunit. Examples of heterodimeric members with alpha and beta subunits include arsenite oxidase, and the tungsten-containing formate dehydrogenase (FDH-T). Examples of 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.


Pssm-ID: 319875 [Multi-domain]  Cd Length: 146  Bit Score: 36.19  E-value: 3.44e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 612272125 107 VAYIDEANCIGCTKCIQACPVDAIVGATRAMHTVITDLC-----TGCD-LCVAPCPTDCI 160
Cdd:cd10553   83 IVYVDQELCIGCKACIEACPWGIPQWNPATGKVVKCDYCmdridQGLKpACVTGCTTHAL 142
ndhI CHL00014
NADH dehydrogenase subunit I
 115-162 3.82e-03

NADH dehydrogenase subunit I


Pssm-ID: 214334 [Multi-domain]  Cd Length: 167  Bit Score: 36.28  E-value: 3.82e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 612272125 115 CIGCTKCIQACPVDAIV---GATRAM-------HTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:CHL00014  61 CIACEVCVRVCPIDLPVvdwKLETDIrkkrllnYSIDFGVCIFCGNCVEYCPTNCLSM 118
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
136-162 3.99e-03

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 34.71  E-value: 3.99e-03
                         10        20
                 ....*....|....*....|....*..
gi 612272125 136 AMHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:COG2768    4 GKPYVDEEKCIGCGACVKVCPVGAISI 30
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 141-165 4.06e-03

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).


Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 36.76  E-value: 4.06e-03
                         10        20
                 ....*....|....*....|....*...
gi 612272125 141 ITDLCTGCDLCVAPCPTDCIEM---RPV 165
Cdd:NF038196 183 VTDKCIGCGICAKVCPVNNIEMedgKPV 210
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 113-161 4.22e-03

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.


Pssm-ID: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 36.08  E-value: 4.22e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 612272125 113 ANCIGCTKCIQACPVDAIV------GATRAMHTVIT------DLCtgCDLCVAPCPTDCIE 161
Cdd:cd16373   14 ALCIRCGLCVEACPTGVIQpagledGLEGGRTPYLDpregpcDLC--CDACVEVCPTGALR 72
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 98-129 4.22e-03

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.


Pssm-ID: 463724 [Multi-domain]  Cd Length: 51  Bit Score: 34.04  E-value: 4.22e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 612272125   98 EAAAEPERKVAYIDEANCIGCTKCIQACPVDA 129
Cdd:pfam12838  20 EVGEKKGTKTVVIDPERCVGCGACVAVCPTGA 51
FDH_beta_like cd16366
beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family ...
 115-160 4.36e-03

beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family contains beta FeS subunits of several dehydrogenases in the DMSO reductase superfamily, including formate dehydrogenase N (FDH-N), tungsten-containing formate dehydrogenase (W-FDH) and other similar proteins. FDH-N is a major component of nitrate respiration of Escherichia coli; it catalyzes the oxidation of formate to carbon dioxide, donating the electrons to a second substrate to a cytochrome. W-FDH contains a tungsten instead of molybdenum at the catalytic center and seems to be exclusively found in organisms such as hyperthermophilic archaea that live in extreme environments. It catalyzes the oxidation of formate to carbon dioxide, donating the electrons to a second substrate.


Pssm-ID: 319888 [Multi-domain]  Cd Length: 156  Bit Score: 36.22  E-value: 4.36e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 612272125 115 CIGCTK--CIQACPVDAIVGATRAMHTVITDLCTGCDLCVAPCPTDCI 160
Cdd:cd16366   70 CMHCTDagCLAACPTGAIIRTETGTVVVDPETCIGCGYCVNACPFDIP 117
PRK13409 PRK13409
ribosome biogenesis/translation initiation ATPase RLI;
96-130 4.42e-03

ribosome biogenesis/translation initiation ATPase RLI;


Pssm-ID: 184037 [Multi-domain]  Cd Length: 590  Bit Score: 37.10  E-value: 4.42e-03
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 612272125  96 GSEA--AAEPERKvAYIDEANCIGCTKCIQACPVDAI 130
Cdd:PRK13409  31 GEETieIDEDDGK-PVISEELCIGCGICVKKCPFDAI 66
PRK13795 PRK13795
hypothetical protein; Provisional
 144-162 5.34e-03

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 36.90  E-value: 5.34e-03
                         10
                 ....*....|....*....
gi 612272125 144 LCTGCDLCVAPCPTDCIEM 162
Cdd:PRK13795 582 ECVGCGVCVGACPTGAIRI 600
PRK10882 PRK10882
hydrogenase 2 operon protein HybA;
108-156 6.02e-03

hydrogenase 2 operon protein HybA;


Pssm-ID: 236786 [Multi-domain]  Cd Length: 328  Bit Score: 36.57  E-value: 6.02e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 612272125 108 AYIdEANCIGCTK--CIQACPVDAIvgaTRAMHTVIT----DLCTGCDLCVAPCP 156
Cdd:PRK10882 106 AYI-KKQCMHCVDpnCVSVCPVSAL---TKDPKTGIVhydkDVCTGCRYCMVACP 156
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 134-162 7.02e-03

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 33.93  E-value: 7.02e-03
                         10        20
                 ....*....|....*....|....*....
gi 612272125 134 TRAMHTVITDLCTGCDLCVAPCPTDCIEM 162
Cdd:COG1149    2 KRKIPVIDEEKCIGCGLCVEVCPEGAIKL 30
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 106-130 7.32e-03

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 33.91  E-value: 7.32e-03
                         10        20
                 ....*....|....*....|....*
gi 612272125 106 KVAYIDEANCIGCTKCIQACPVDAI 130
Cdd:COG1146   33 KALVINPEECIGCGACELVCPVGAI 57
psaC CHL00065
photosystem I subunit VII
 137-164 8.34e-03

photosystem I subunit VII


Pssm-ID: 177005 [Multi-domain]  Cd Length: 81  Bit Score: 33.97  E-value: 8.34e-03
                         10        20
                 ....*....|....*....|....*....
gi 612272125 137 MHTV-ITDLCTGCDLCVAPCPTDCIEMRP 164
Cdd:CHL00065   2 SHSVkIYDTCIGCTQCVRACPTDVLEMIP 30
PRK13795 PRK13795
hypothetical protein; Provisional
 102-127 9.62e-03

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 36.13  E-value: 9.62e-03
                         10        20
                 ....*....|....*....|....*.
gi 612272125 102 EPERKVAYIDEANCIGCTKCIQACPV 127
Cdd:PRK13795 601 EEGKRKISVDEEKCIHCGKCTEVCPV 626
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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