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Conserved domains on  [gi|1308557232|gb|PKL68526|]
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ferredoxin [Methanomicrobiales archaeon HGW-Methanomicrobiales-1]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
FldA COG0716
Flavodoxin [Energy production and conversion]; Flavodoxin is part of the Pathway/BioSystem: ...
 6-123 2.27e-23

Flavodoxin [Energy production and conversion]; Flavodoxin is part of the Pathway/BioSystem: Heme biosynthesis


:

Pssm-ID: 440480 [Multi-domain]  Cd Length: 135  Bit Score: 92.27  E-value: 2.27e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   6 IKLVYFSPTGTTKAVVQEIARGIYPGPVEERDITRPaarmQPLQTSEDDLLIVGVPVYMGRIPAHAGEWLQEIQA--NNT 83
Cdd:COG0716     1 ILIVYGSTTGNTEKVAEAIAEALGAAGVDLFEIEDA----DLDDLEDYDLLILGTPTWAGELPDDWEDFLEELKEdlSGK 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1308557232  84 PAVGVVVYGNRAYDDALLELNDILTERGCNPIAGAAFIGE 123
Cdd:COG0716    77 KVALFGTGDSSGYGDALGELKELLEEKGAKVVGGYDFEGS 116
ferrodoxin_EFR1 super family cl45674
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 8-245 5.20e-21

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).


The actual alignment was detected with superfamily member NF038196:

Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 88.76  E-value: 5.20e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   8 LVYFSPTGTTKAVVQEIARGIypgPVEERDITRpAARMQPLQTSEDDLLIVGVPVYMGRIPAHAGEWLQEIQ-ANNTPAV 86
Cdd:NF038196    1 IFYFSGTGNSLYVAKRIAEEL---GDELISISK-AIKEGDFKLKEDEPIGFVFPVYAWGLPRIVEDFIKKLKlKGNKYIF 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232  87 GVVVYGNRAyDDALLELNDILTERGCNPIAGAAFIgehSFSTAetpTAVGRPDASDR-----KLAELFGQKILEKLQSGS 161
Cdd:NF038196   77 AVATCGGSI-GNALAQLKKLLKKKGLKLSGGFSIK---MPNNY---IPLFDVPSKEKakkilKKAEEKIKEIAEKIKNRK 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 162 LSGRIPEAKIPgghPYRGEPIHPY-----RKDSIFWnvdfiaVSDACVQCGACAKGCPVGAIDPENSRAIDTEKCITCCA 236
Cdd:NF038196  150 KGPEKKKGFIP---RLLSKLVNPLfykfkVKDKKFH------VTDKCIGCGICAKVCPVNNIEMEDGKPVWGHNCTHCLA 220


                  ....*....
gi 1308557232 237 CIKHCPKHA 245
Cdd:NF038196  221 CIHRCPKEA 229
 
Name Accession Description Interval E-value
FldA COG0716
Flavodoxin [Energy production and conversion]; Flavodoxin is part of the Pathway/BioSystem: ...
 6-123 2.27e-23

Flavodoxin [Energy production and conversion]; Flavodoxin is part of the Pathway/BioSystem: Heme biosynthesis


Pssm-ID: 440480 [Multi-domain]  Cd Length: 135  Bit Score: 92.27  E-value: 2.27e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   6 IKLVYFSPTGTTKAVVQEIARGIYPGPVEERDITRPaarmQPLQTSEDDLLIVGVPVYMGRIPAHAGEWLQEIQA--NNT 83
Cdd:COG0716     1 ILIVYGSTTGNTEKVAEAIAEALGAAGVDLFEIEDA----DLDDLEDYDLLILGTPTWAGELPDDWEDFLEELKEdlSGK 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1308557232  84 PAVGVVVYGNRAYDDALLELNDILTERGCNPIAGAAFIGE 123
Cdd:COG0716    77 KVALFGTGDSSGYGDALGELKELLEEKGAKVVGGYDFEGS 116
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 8-245 5.20e-21

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: 88.76  E-value: 5.20e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   8 LVYFSPTGTTKAVVQEIARGIypgPVEERDITRpAARMQPLQTSEDDLLIVGVPVYMGRIPAHAGEWLQEIQ-ANNTPAV 86
Cdd:NF038196    1 IFYFSGTGNSLYVAKRIAEEL---GDELISISK-AIKEGDFKLKEDEPIGFVFPVYAWGLPRIVEDFIKKLKlKGNKYIF 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232  87 GVVVYGNRAyDDALLELNDILTERGCNPIAGAAFIgehSFSTAetpTAVGRPDASDR-----KLAELFGQKILEKLQSGS 161
Cdd:NF038196   77 AVATCGGSI-GNALAQLKKLLKKKGLKLSGGFSIK---MPNNY---IPLFDVPSKEKakkilKKAEEKIKEIAEKIKNRK 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 162 LSGRIPEAKIPgghPYRGEPIHPY-----RKDSIFWnvdfiaVSDACVQCGACAKGCPVGAIDPENSRAIDTEKCITCCA 236
Cdd:NF038196  150 KGPEKKKGFIP---RLLSKLVNPLfykfkVKDKKFH------VTDKCIGCGICAKVCPVNNIEMEDGKPVWGHNCTHCLA 220


                  ....*....
gi 1308557232 237 CIKHCPKHA 245
Cdd:NF038196  221 CIHRCPKEA 229
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
192-260 2.70e-17

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 74.38  E-value: 2.70e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 192 WNVDFIAVSDACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHARTIKPGLVREASLRL 260
Cdd:COG2768     2 SLGKPYVDEEKCIGCGACVKVCPVGAISIEDGKAvIDPEKCIGCGACIEVCPVGAIKIEWEEDEEFQEKM 71
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 200-268 1.36e-11

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: 60.49  E-value: 1.36e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 200 SDACVQCGACAKGCPVGAIDPENSRA------IDTEKCITCCACIKHCPKHARTIKPGLVREASLRLNTLYNERK 268
Cdd:cd10549     5 PEKCIGCGICVKACPTDAIELGPNGAiargpeIDEDKCVFCGACVEVCPTGAIELTPEGKEYVPKEKEAEIDEEK 79
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
202-256 7.30e-10

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 58.41  E-value: 7.30e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1308557232 202 ACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHA-RTIKPGLVREA 256
Cdd:PRK07118  214 GCIGCGKCVKACPAGAITMENNLAvIDQEKCTSCGKCVEKCPTKAiRILNKPPKVKE 270
Fer4_9 pfam13187
4Fe-4S dicluster domain;
202-245 7.11e-09

4Fe-4S dicluster domain;


Pssm-ID: 463801 [Multi-domain]  Cd Length: 50  Bit Score: 50.63  E-value: 7.11e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1308557232 202 ACVQCGACAKGCPVGAIDP-----ENSRAIDTEKCITCCACIKHCPKHA 245
Cdd:pfam13187   1 KCTGCGACVAACPAGAIVPdlvgqTIRGDIAGLACIGCGACVDACPRGA 49
 
Name Accession Description Interval E-value
FldA COG0716
Flavodoxin [Energy production and conversion]; Flavodoxin is part of the Pathway/BioSystem: ...
 6-123 2.27e-23

Flavodoxin [Energy production and conversion]; Flavodoxin is part of the Pathway/BioSystem: Heme biosynthesis


Pssm-ID: 440480 [Multi-domain]  Cd Length: 135  Bit Score: 92.27  E-value: 2.27e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   6 IKLVYFSPTGTTKAVVQEIARGIYPGPVEERDITRPaarmQPLQTSEDDLLIVGVPVYMGRIPAHAGEWLQEIQA--NNT 83
Cdd:COG0716     1 ILIVYGSTTGNTEKVAEAIAEALGAAGVDLFEIEDA----DLDDLEDYDLLILGTPTWAGELPDDWEDFLEELKEdlSGK 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1308557232  84 PAVGVVVYGNRAYDDALLELNDILTERGCNPIAGAAFIGE 123
Cdd:COG0716    77 KVALFGTGDSSGYGDALGELKELLEEKGAKVVGGYDFEGS 116
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 8-245 5.20e-21

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: 88.76  E-value: 5.20e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   8 LVYFSPTGTTKAVVQEIARGIypgPVEERDITRpAARMQPLQTSEDDLLIVGVPVYMGRIPAHAGEWLQEIQ-ANNTPAV 86
Cdd:NF038196    1 IFYFSGTGNSLYVAKRIAEEL---GDELISISK-AIKEGDFKLKEDEPIGFVFPVYAWGLPRIVEDFIKKLKlKGNKYIF 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232  87 GVVVYGNRAyDDALLELNDILTERGCNPIAGAAFIgehSFSTAetpTAVGRPDASDR-----KLAELFGQKILEKLQSGS 161
Cdd:NF038196   77 AVATCGGSI-GNALAQLKKLLKKKGLKLSGGFSIK---MPNNY---IPLFDVPSKEKakkilKKAEEKIKEIAEKIKNRK 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 162 LSGRIPEAKIPgghPYRGEPIHPY-----RKDSIFWnvdfiaVSDACVQCGACAKGCPVGAIDPENSRAIDTEKCITCCA 236
Cdd:NF038196  150 KGPEKKKGFIP---RLLSKLVNPLfykfkVKDKKFH------VTDKCIGCGICAKVCPVNNIEMEDGKPVWGHNCTHCLA 220


                  ....*....
gi 1308557232 237 CIKHCPKHA 245
Cdd:NF038196  221 CIHRCPKEA 229
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
192-260 2.70e-17

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 74.38  E-value: 2.70e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 192 WNVDFIAVSDACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHARTIKPGLVREASLRL 260
Cdd:COG2768     2 SLGKPYVDEEKCIGCGACVKVCPVGAISIEDGKAvIDPEKCIGCGACIEVCPVGAIKIEWEEDEEFQEKM 71
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 201-249 3.98e-16

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 71.24  E-value: 3.98e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHARTIK 249
Cdd:COG2221    15 EKCIGCGLCVAVCPTGAISLDDGKLvIDEEKCIGCGACIRVCPTGAIKGE 64
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 201-250 1.78e-12

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 61.28  E-value: 1.78e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSRA--IDTEKCITCCACIKHCPKHARTIKP 250
Cdd:COG1149    11 EKCIGCGLCVEVCPEGAIKLDDGGApvVDPDLCTGCGACVGVCPTGAITLEE 62
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
197-249 3.07e-12

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 66.20  E-value: 3.07e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1308557232 197 IAVSDACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHARTIK 249
Cdd:COG4624    87 IRDKEKCKNCYPCVRACPVKAIKVDDGKAeIDEEKCISCGQCVAVCPFGAITEK 140
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 201-255 1.28e-11

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: 58.99  E-value: 1.28e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSRA-----IDTEKCITCCACIKHCPKHARTIKPGLVRE 255
Cdd:COG1143     2 DKCIGCGLCVRVCPVDAITIEDGEPgkvyvIDPDKCIGCGLCVEVCPTGAISMTPFELAV 61
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 200-268 1.36e-11

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: 60.49  E-value: 1.36e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 200 SDACVQCGACAKGCPVGAIDPENSRA------IDTEKCITCCACIKHCPKHARTIKPGLVREASLRLNTLYNERK 268
Cdd:cd10549     5 PEKCIGCGICVKACPTDAIELGPNGAiargpeIDEDKCVFCGACVEVCPTGAIELTPEGKEYVPKEKEAEIDEEK 79
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 182-245 2.56e-11

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: 59.72  E-value: 2.56e-11
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1308557232 182 IHPYRKDSIFWNVDFIAVSDACVQCGACAKGCPVGAIDPENSRA--IDTEKCITCCACIKHCPKHA 245
Cdd:cd10549    59 LTPEGKEYVPKEKEAEIDEEKCIGCGLCVKVCPVDAITLEDELEivIDKEKCIGCGICAEVCPVNA 124
NapF COG1145
Ferredoxin [Energy production and conversion];
133-254 7.11e-11

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 60.89  E-value: 7.11e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 133 TAVGRPDASDRKLAELFGQKILEKLQSGSLSGRIPEAKIPGGHPYRGEPIHPYRKDSIFWNVDFIAVSDACVQCGACAKG 212
Cdd:COG1145   114 IISAVKLVAGLVVAAGEVLLVIAAALAEAGLAILGAAAPVDALAISGGKKIEEELKIAIKKAKAVIDAEKCIGCGLCVKV 193

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1308557232 213 CPVGAIDPENSRA---IDTEKCITCCACIKHCPKHARTIKPGLVR 254
Cdd:COG1145   194 CPTGAIRLKDGKPqivVDPDKCIGCGACVKVCPVGAISLEPKEIE 238
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 201-245 1.75e-10

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 55.82  E-value: 1.75e-10
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1308557232 201 DACVQCGACAKGCPVGAIDP-ENSRAIDTEKCITCCACIKHCPKHA 245
Cdd:COG4231    22 DKCTGCGACVKVCPADAIEEgDGKAVIDPDLCIGCGSCVQVCPVDA 67
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
202-256 7.30e-10

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 58.41  E-value: 7.30e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1308557232 202 ACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHA-RTIKPGLVREA 256
Cdd:PRK07118  214 GCIGCGKCVKACPAGAITMENNLAvIDQEKCTSCGKCVEKCPTKAiRILNKPPKVKE 270
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
189-245 1.01e-09

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 57.76  E-value: 1.01e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 189 SIFWNVDFIAVS---DACVQCGACAKGCPVGaIDPENSRAIDTEkCITCCACIKHCPKHA 245
Cdd:COG0348   195 GLLSDLSTLRVRydrGDCIDCGLCVKVCPMG-IDIRKGEINQSE-CINCGRCIDACPKDA 252
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 201-250 6.07e-09

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: 51.98  E-value: 6.07e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSR--AIDTEKCITCCACIKHCPKHARTIKP 250
Cdd:COG1144    30 DKCIGCGLCWIVCPDGAIRVDDGKyyGIDYDYCKGCGICAEVCPVKAIEMVP 81
Fer4_9 pfam13187
4Fe-4S dicluster domain;
202-245 7.11e-09

4Fe-4S dicluster domain;


Pssm-ID: 463801 [Multi-domain]  Cd Length: 50  Bit Score: 50.63  E-value: 7.11e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1308557232 202 ACVQCGACAKGCPVGAIDP-----ENSRAIDTEKCITCCACIKHCPKHA 245
Cdd:pfam13187   1 KCTGCGACVAACPAGAIVPdlvgqTIRGDIAGLACIGCGACVDACPRGA 49
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 201-245 2.95e-08

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 49.71  E-value: 2.95e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSR----AIDTEKCITCCACIKHCPKHA 245
Cdd:COG1146     8 DKCIGCGACVEVCPVDVLELDEEGkkalVINPEECIGCGACELVCPVGA 56
PRK09898 PRK09898
ferredoxin-like protein;
195-250 3.14e-08

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 52.53  E-value: 3.14e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1308557232 195 DFIAVSDACVQCG--ACAKGCPVGAI---DPENSRAIDTEKCITCCACIKHCPKHARTIKP 250
Cdd:PRK09898  115 DLNYTADTCRQCKepQCMNVCPIGAItwqQKEGCITVDHKRCIGCSACTTACPWMMATVNT 175
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 203-250 3.63e-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: 51.04  E-value: 3.63e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1308557232 203 CVQCG--ACAKGCPVGAI--DPEN-SRAIDTEKCITCCACIKHCPKHARTIKP 250
Cdd:cd10550    49 CRQCEdaPCVEACPVGAIsrDEETgAVVVDEDKCIGCGMCVEACPFGAIRVDP 101
Fer4_10 pfam13237
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 201-242 3.72e-08

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: 49.17  E-value: 3.72e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1308557232 201 DACVQCGACAKGCPVGA--------IDPENSRAIDTEKCITCCACIKHCP 242
Cdd:pfam13237   7 DKCIGCGRCTAACPAGLtrvgaiveRLEGEAVRIGVWKCIGCGACVEACP 56
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 203-245 9.47e-08

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: 47.52  E-value: 9.47e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1308557232 203 CVQCGACAKGCPVGAIDPENSR--------AIDTEKCITCCACIKHCPKHA 245
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGekkgtktvVIDPERCVGCGACVAVCPTGA 51
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 191-251 1.07e-07

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 50.72  E-value: 1.07e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 191 FWNVDFIAVSDACVQCG--ACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCPKHARTIKPG 251
Cdd:COG0437    48 FPNVEWLFVPVLCNHCDdpPCVKVCPTGATykREDGIVLVDYDKCIGCRYCVAACPYGAPRFNPE 112
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
202-250 1.89e-07

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 51.09  E-value: 1.89e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1308557232 202 ACVQCGACAKGCPVGAIDPENSRA-IDTEKCITCCACIKHCPKHARTIKP 250
Cdd:PRK07118  140 GCLGLGSCVAACPFDAIHIENGLPvVDEDKCTGCGACVKACPRNVIELIP 189
PRK13795 PRK13795
hypothetical protein; Provisional
 203-242 2.39e-07

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 51.53  E-value: 2.39e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1308557232 203 CVQCGACAKGCPVGAIDPENSRA---IDTEKCITCCACIKHCP 242
Cdd:PRK13795  583 CVGCGVCVGACPTGAIRIEEGKRkisVDEEKCIHCGKCTEVCP 625
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 200-250 2.43e-07

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: 50.38  E-value: 2.43e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1308557232 200 SDACVQCGACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCPKHARTIKP 250
Cdd:COG2878   136 EYGCIGCGDCIKACPFDAIvgAAKGMHTVDEDKCTGCGLCVEACPVDCIEMVP 188
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 200-242 4.43e-07

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: 48.04  E-value: 4.43e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1308557232 200 SDACVQCGACAKGCPVGAI--DPENSRAIdteKCITCCACIKHCP 242
Cdd:cd16370    82 KEKCIGCGNCVKACIVGAIfwDEETNKPI---ICIHCGYCARYCP 123
FDH_b_like cd10562
uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes ...
 193-242 8.20e-07

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: 47.68  E-value: 8.20e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1308557232 193 NVDFIAVSDACVQCG--ACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCP 242
Cdd:cd10562    60 GIRWLFRKRQCMHCTdaACVKVCPTGALykTENGAVVVDEDKCIGCGYCVAACP 113
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 201-245 8.34e-07

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: 47.19  E-value: 8.34e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1308557232 201 DACVQCGACAKGCPVGAI--DPENSRAIdteKCITCC---ACIKHCPKHA 245
Cdd:cd10550    80 DKCIGCGMCVEACPFGAIrvDPETGKAI---KCDLCGgdpACVKVCPTGA 126
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
197-242 1.77e-06

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 46.57  E-value: 1.77e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1308557232 197 IAVSDACVQC--GACAKGCPVGAIDPENSR-AIDTEKCITCCACIKHCP 242
Cdd:COG1142    46 VSAPVQCRHCedAPCAEVCPVGAITRDDGAvVVDEEKCIGCGLCVLACP 94
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 203-250 2.24e-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: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 45.79  E-value: 2.24e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 203 CVQCGACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCP-----KHARTIKP 250
Cdd:cd16372    49 CNQCGECIDVCPTGAItrDANGVVMINKKLCVGCLMCVGFCPegamfKHEDYPEP 103
PsrB cd10551
polysulfide reductase beta (PsrB) subunit; This family includes the beta subunit of bacterial ...
 193-251 2.72e-06

polysulfide reductase beta (PsrB) subunit; This family includes the beta subunit of bacterial polysulfide reductase (PsrABC), an integral membrane-bound enzyme responsible for quinone-coupled reduction of polysulfides, a process important in extreme environments such as deep-sea vents and hot springs. Polysulfide reductase contains three subunits: a catalytic subunit PsrA, an electron transfer PsrB subunit and the hydrophobic transmembrane PsrC subunit. PsrB belongs to the DMSO reductase superfamily that contains [4Fe-4S] clusters which transfer the electrons from the A subunit to the hydrophobic integral membrane C subunit via the B subunit. In Shewanella oneidensis, which has highly diverse anaerobic respiratory pathways, PsrABC is responsible for H2S generation as well as its regulation via respiration of sulfur species. PsrB transfers electrons from PsrC (serving as quinol oxidase) to the catalytic subunit PsrA for reduction of corresponding electron acceptors. It has been shown that T. thermophilus polysulfide reductase could be a key energy-conserving enzyme of the respiratory chain, using polysulfide as the terminal electron acceptor and pumping protons across the membrane.


Pssm-ID: 319873 [Multi-domain]  Cd Length: 185  Bit Score: 46.76  E-value: 2.72e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1308557232 193 NVDFIAVSDACVQCG--ACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCPKHARTIKPG 251
Cdd:cd10551    43 NVKRTFLPVLCNHCEnpPCVKVCPTGATykREDGIVLVDYDKCIGCRYCMAACPYGARYFNPE 105
FDH_beta_like cd16366
beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family ...
 193-242 4.57e-06

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: 45.47  E-value: 4.57e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1308557232 193 NVDFIAVSDACVQCG--ACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCP 242
Cdd:cd16366    60 DLSWLFRKDQCMHCTdaGCLAACPTGAIirTETGTVVVDPETCIGCGYCVNACP 113
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 194-254 4.98e-06

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: 45.07  E-value: 4.98e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 194 VDFIAVSDACVQCG--ACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCPKHARTIKPGLVR 254
Cdd:cd04410    41 LERAFLPVSCMHCEdpPCVKACPTGAIykDEDGIVLIDEDKCIGCGSCVEACPYGAIVFDPEPGK 105
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
188-245 8.93e-06

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 44.26  E-value: 8.93e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1308557232 188 DSIFWNVDFIAV-SDACVQCGACAKGCPVGAIDPENSRAIDT-EKCITC------CACIKHCPKHA 245
Cdd:COG1142    67 GAITRDDGAVVVdEEKCIGCGLCVLACPFGAITMVGEKSRAVaVKCDLCggreggPACVEACPTGA 132
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 201-248 9.63e-06

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: 44.30  E-value: 9.63e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1308557232 201 DACVQCGACAKGCPVGAI--DPENSRAidtEKCITC---------CACIKHCPKHARTI 248
Cdd:cd04410    80 DKCIGCGSCVEACPYGAIvfDPEPGKA---VKCDLCgdrldeglePACVKACPTGALTF 135
PRK09898 PRK09898
ferredoxin-like protein;
188-250 9.97e-06

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 45.21  E-value: 9.97e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1308557232 188 DSIFWNVDF--IAVSDA-CVQCGACAKGCP--VGAIDPENSRaidTEKCITCCACIKHCPKHARTIKP 250
Cdd:PRK09898  138 GAITWQQKEgcITVDHKrCIGCSACTTACPwmMATVNTESKK---SSKCVLCGECANACPTGALKIIE 202
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 195-245 1.60e-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: 43.79  E-value: 1.60e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1308557232 195 DFIAV-SDACVQCGACAKGCPVGAID----PENSRAIDTE------KCITC------CACIKHCPKHA 245
Cdd:cd10554    78 GVVQVdEERCIGCKLCVLACPFGAIEmaptTVPGVDWERGpravavKCDLCagreggPACVEACPTKA 145
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 202-250 2.81e-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: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 43.40  E-value: 2.81e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 202 ACVQCG-ACAKGCPVGAIDPENSRA---------IDTEKCI------TCCACIKHCPKHARTIKP 250
Cdd:cd16373    54 PCDLCCdACVEVCPTGALRPLDLEEqkvkmgvavIDKDRCLawqggtDCGVCVEACPTEAIAIVL 118
PRK08348 PRK08348
NADH-plastoquinone oxidoreductase subunit; Provisional
 201-245 3.54e-05

NADH-plastoquinone oxidoreductase subunit; Provisional


Pssm-ID: 181399 [Multi-domain]  Cd Length: 120  Bit Score: 42.13  E-value: 3.54e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1308557232 201 DACVQCGACAKGCPVGAID--PENSR-AIDTEKCITCCACIKHCPKHA 245
Cdd:PRK08348   42 DKCVGCRMCVTVCPAGVFVylPEIRKvALWTGRCVFCGQCVDVCPTGA 89
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 202-262 3.60e-05

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: 42.62  E-value: 3.60e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1308557232 202 ACVQCGACAKGCPVGAIDPENSRAID-----TEKC-----ITCCACIKHCPKHARTIKPGLVREASLRLNT 262
Cdd:cd10564    46 ECTFCGACAEACPEGALDPAREAPWPlraeiGDSClalqgVECRSCQDACPTQAIRFRPRLGGIALPELDA 116
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
201-245 3.94e-05

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 44.47  E-value: 3.94e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSR--AIDTEKCITCCACIKHCPKHA 245
Cdd:COG1148   496 EKCTGCGRCVEVCPYGAISIDEKGvaEVNPALCKGCGTCAAACPSGA 542
FDH-N cd10558
The beta FeS subunit of formate dehydrogenase-N (FDH-N); This subfamily contains beta FeS ...
 194-245 3.96e-05

The beta FeS subunit of formate dehydrogenase-N (FDH-N); This subfamily contains beta FeS subunit of formate dehydrogenase-N (FDH-N), a member of the DMSO reductase family. FDH-N 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. Thus, FDH-N is a major component of nitrate respiration of Escherichia coli. This integral membrane enzyme 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.


Pssm-ID: 319880 [Multi-domain]  Cd Length: 208  Bit Score: 43.53  E-value: 3.96e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1308557232 194 VDFiaVSDACVQCGACAKGCP--VGAIDPENSRAidtEKCITCC---------ACIKHCPKHA 245
Cdd:cd10558    96 VDF--QSDKCIGCGYCIKGCPfdIPRISKDDNKM---YKCTLCSdrvsvglepACVKTCPTGA 153
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 201-271 4.85e-05

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 43.01  E-value: 4.85e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 201 DACVQCGACAKGCPVGAI--DPENSRAidtEKCITC---------CACIKHCPKHARTIKPG--LVREASLRLNTLYNER 267
Cdd:COG0437    90 DKCIGCRYCVAACPYGAPrfNPETGVV---EKCTFCadrldegllPACVEACPTGALVFGDLddPESEVSKRLAELPAYR 166


                  ....
gi 1308557232 268 KEPE 271
Cdd:COG0437   167 LLPE 170
PRK06273 PRK06273
ferredoxin; Provisional
 200-255 8.37e-05

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 42.00  E-value: 8.37e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1308557232 200 SDACVQCGACAKGCPVGAID------------------PEnsraIDTEKCITCCACIKHCPKHA-----RTIKPGLVRE 255
Cdd:PRK06273   48 EELCIGCGGCANVCPTKAIEmipvepvkitegyvktkiPK----IDYEKCVYCLYCHDFCPVFAlfneiSPIHPRDVGE 122
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
200-254 8.50e-05

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 43.00  E-value: 8.50e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1308557232 200 SDACVQCGACAKGCPVGAID--PENSRAI------DTEK---------CITCCACIKHCPKHARTIKPGLVR 254
Cdd:PRK07118  167 EDKCTGCGACVKACPRNVIEliPKSARVFvacnskDKGKavkkvcevgCIGCGKCVKACPAGAITMENNLAV 238
ACS_1 cd01916
Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and ...
 136-249 9.83e-05

Acetyl-CoA synthase (ACS), also known as acetyl-CoA decarbonylase, is found in acetogenic and methanogenic organisms and is responsible for the synthesis and breakdown of acetyl-CoA. ACS forms a heterotetramer with carbon monoxide dehydrogenase (CODH) consisting of two ACS and two CODH subunits. CODH reduces carbon dioxide to carbon monoxide and ACS then synthesizes acetyl-CoA from carbon monoxide, CoA, and a methyl group donated by another protein (CoFeSP). ACS has three structural domains, an N-terminal rossman fold domain with a helical region at its N-terminus which interacts with CODH, and two alpha + beta fold domains. A Ni-Fe-S center referred to as the A-cluster is located in the C-terminal domain. A large cavity exists between the three domains which may bind CoA.


Pssm-ID: 238897 [Multi-domain]  Cd Length: 731  Bit Score: 43.55  E-value: 9.83e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 136 GRPDASDRKLaelfgQKILEKLQSGSLSGRI---PEaKIPGGHPYRGEPIHPYRKDSIFWNVD--FIAVSDACVQCGACA 210
Cdd:cd01916   301 GLPDVTDEDP-----DKIVEDLVSGKIPGVLildPE-KVGEVAVEVAMAVKPKRKGEKKLPTDeeFQELAAKCTDCGWCT 374

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1308557232 211 KGCPVG-AIDPENSRAID---------TEKCITCCACIKHCPKHARTIK 249
Cdd:cd01916   375 RACPNSlRIKEAMEAAKEgdfsgladlFDQCVGCGRCEQECPKEIPIIN 423
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 202-242 1.13e-04

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: 1.13e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1308557232 202 ACVQC--GACAKGCPVGAIDPENSR-AIDTEKCITCCACIKHCP 242
Cdd:cd10554    55 QCRQCedAPCANVCPVGAISQEDGVvQVDEERCIGCKLCVLACP 98
DMSOR_beta_like cd16367
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 193-245 1.24e-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: 41.14  E-value: 1.24e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1308557232 193 NVDFIAVSDACVQC--GACAKGCPVGAIDPENSRAID-TEKCITCCACIKHCPKHA 245
Cdd:cd16367    47 RFGNLLVPTACRHCvdPVCMIGCPTGAIHRDDGGEVViSDACCGCGNCASACPYGA 102
DMSOR_beta_like cd16374
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 195-242 1.32e-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: 319896 [Multi-domain]  Cd Length: 139  Bit Score: 41.11  E-value: 1.32e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1308557232 195 DFIAVSDACVQCGA--CAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCP 242
Cdd:cd16374    35 DLASVPVRCRHCEDapCMEVCPTGAIyrDEDGAVLVDPDKCIGCGMCAMACP 86
NorV COG0426
Flavorubredoxin [Energy production and conversion];
8-157 1.67e-04

Flavorubredoxin [Energy production and conversion];


Pssm-ID: 440195 [Multi-domain]  Cd Length: 390  Bit Score: 42.51  E-value: 1.67e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   8 LVYFSPTGTTKAVVQEIARGIY-PG-PVEERDITRpaARMQPLQTS--EDDLLIVGVPVYMGRIPAHAGEWLQEIQANNT 83
Cdd:COG0426   251 IVYASMYGNTEKMAEAIAEGLTeEGvKVKLYDLEK--TDPSEIITEifDAKGIVIGSPTYNGGAFPPIADLLGYLKGLAP 328

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232  84 PAVGVVVYGNRAYDD-ALLELNDILTERGCNPIagaafigehsfstAETPTAVGRPDASDRKLAELFGQKILEKL 157
Cdd:COG0426   329 KNKLAGAFGSYGWSGeAVKLLEEKLEDAGFEVV-------------FEPLRVKFKPTEEDLKKCEELGTDLAQKL 390
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
201-233 1.82e-04

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 38.94  E-value: 1.82e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSRAIDTEKCIT 233
Cdd:COG2768    40 EKCIGCGACIEVCPVGAIKIEWEEDEEFQEKMA 72
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
166-242 3.49e-04

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 40.25  E-value: 3.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 166 IPEAKIPGGHPYRGEpIHPYRKDSifwnvdfiaVSDACVQCGACAKGCPVGAI------DPENSRA-----IDTEKCITC 234
Cdd:PRK05888   33 YPEEKLPLSPRFRGR-HALRRDPN---------GEERCIACKLCAAICPADAItieaaeREDGRRRttrydINFGRCIFC 102


                  ....*...
gi 1308557232 235 CACIKHCP 242
Cdd:PRK05888  103 GFCEEACP 110
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 196-221 4.17e-04

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 37.77  E-value: 4.17e-04
                          10        20
                  ....*....|....*....|....*.
gi 1308557232 196 FIAVSDACVQCGACAKGCPVGAIDPE 221
Cdd:COG1146    35 LVINPEECIGCGACELVCPVGAITVE 60
FDH-O_like cd10560
beta subunit of formate dehydrogenase O (FDH-O) and similar proteins; This subfamily includes ...
 200-274 4.23e-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: 40.83  E-value: 4.23e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 200 SDACVQCGACAKGCPVGAID--PENSRAidtEKCITCC---------ACIKHCPkhARTIKPG----LVREASLRLNTLy 264
Cdd:cd10560   107 PDICNGCGYCVAACPFGVIDrnEETGRA---HKCTLCYdrlkdglepACAKACP--TGSIQFGpleeLRERARARVEQL- 180

                          90
                  ....*....|
gi 1308557232 265 NERKEPEYFL 274
Cdd:cd10560   181 HEQGVVEAYL 190
WrbA COG0655
Multimeric flavodoxin WrbA, includes NAD(P)H:quinone oxidoreductase [Energy production and ...
 9-158 4.31e-04

Multimeric flavodoxin WrbA, includes NAD(P)H:quinone oxidoreductase [Energy production and conversion];


Pssm-ID: 440420 [Multi-domain]  Cd Length: 181  Bit Score: 40.30  E-value: 4.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232   9 VYFSP--TGTTKAVVQEIARGIY-PG------PVEERDITRPAARMQPLQTSED-------------DLLIVGVPVYMGR 66
Cdd:COG0655     5 INGSPrkNGNTAALAEAVAEGAEeAGaeveliRLADLDIKPCIGCGGTGKCVIKddmnaiyeklleaDGIIFGSPTYFGN 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232  67 IPAHA--------GEWLQEIQANNTPAVGVVVYGNRAYDDALLELNDILTERGCNpIAGAAFIGEhsfSTAETPTAVGRP 138
Cdd:COG0655    85 MSAQLkafidrlyALWAKGKLLKGKVGAVFTTGGHGGAEATLLSLNTFLLHHGMI-VVGLPPYGA---VGGGGPGDVLDE 160

                         170       180
                  ....*....|....*....|
gi 1308557232 139 DAsdRKLAELFGQKILEKLQ 158
Cdd:COG0655   161 EG--LATARELGKRLAELAK 178
PhsB_like cd10553
uncharacterized beta subfamily of DMSO Reductase similar to Desulfonauticus sp PhsB; This ...
 203-245 4.62e-04

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: 39.65  E-value: 4.62e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1308557232 203 CVQCGA--CAKGCPVGAIDPENSRAI---DTEKCITCCACIKHCPKHA 245
Cdd:cd10553    58 CFHCENpwCVKACPTGAMQKREKDGIvyvDQELCIGCKACIEACPWGI 105
HdrC COG1150
Heterodisulfide reductase, subunit C [Energy production and conversion];
202-253 4.66e-04

Heterodisulfide reductase, subunit C [Energy production and conversion];


Pssm-ID: 440764 [Multi-domain]  Cd Length: 79  Bit Score: 37.96  E-value: 4.66e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1308557232 202 ACVQCGACAKGCPVGAIDPENSRAI-------DTEK---------CITCCACIKHCPkhaRTIKPGLV 253
Cdd:COG1150     4 KCYQCGTCTASCPVARAMDYNPRKIirlaqlgLKEEvlksdsiwlCVSCYTCTERCP---RGIDIADV 68
vorD PRK09623
3-methyl-2-oxobutanoate dehydrogenase subunit delta;
196-248 4.72e-04

3-methyl-2-oxobutanoate dehydrogenase subunit delta;


Pssm-ID: 170016 [Multi-domain]  Cd Length: 105  Bit Score: 38.77  E-value: 4.72e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1308557232 196 FIAVSD--ACVQCGACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCPKHARTI 248
Cdd:PRK09623   44 FMPVVDesKCVKCYICWKFCPEPAIyiKEDGYVAIDYDYCKGCGICANECPTKAITM 100
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 192-250 5.51e-04

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: 39.15  E-value: 5.51e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 192 WNVDfIAVSDAC-----VQCGACAKGCPVGAID--PENSRA----IDTEKCITCCACIKHCPKHARTIKP 250
Cdd:cd10564    70 WPLR-AEIGDSClalqgVECRSCQDACPTQAIRfrPRLGGIalpeLDADACTGCGACVSVCPVGAITLTP 138
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 226-254 6.14e-04

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 37.71  E-value: 6.14e-04
                          10        20
                  ....*....|....*....|....*....
gi 1308557232 226 IDTEKCITCCACIKHCPKHARTIKPGLVR 254
Cdd:COG4231    19 IDEDKCTGCGACVKVCPADAIEEGDGKAV 47
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 206-242 6.44e-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: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 39.16  E-value: 6.44e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1308557232 206 CGACAKGCPVG--AIDPENSRA---IDTEKCITCCACIKHCP 242
Cdd:cd16373   102 CGVCVEACPTEaiAIVLEDDVLrpvVDEDKCVGCGLCEYVCP 143
GlpC COG0247
Fe-S cluster-containing oxidoreductase, includes glycolate oxidase subunit GlcF [Energy ...
 172-242 7.28e-04

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


Pssm-ID: 440017 [Multi-domain]  Cd Length: 420  Bit Score: 40.45  E-value: 7.28e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 172 PGGHPYRGEPIHPYRKDSIFWNvDFIAVSDACVQCGACAKGCPV---------------------------GAIDPENSR 224
Cdd:COG0247    50 PGVELLGDGDLHDKNLKTLPWK-ELLDALDACVGCGFCRAMCPSykatgdekdsprgrinllrevlegelpLDLSEEVYE 128

                          90
                  ....*....|....*...
gi 1308557232 225 AIDTekCITCCACIKHCP 242
Cdd:COG0247   129 VLDL--CLTCKACETACP 144
DMSOR_beta_like cd16367
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 197-242 7.34e-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: 7.34e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1308557232 197 IAVSDACVQCGACAKGCPVGAIDPEnsRAIdteKCITCC-----ACIKHCP 242
Cdd:cd16367    82 VVISDACCGCGNCASACPYGAIQMV--RAV---KCDLCAgyagpACVSACP 127
Fer4_16 pfam13484
4Fe-4S double cluster binding domain;
203-232 7.68e-04

4Fe-4S double cluster binding domain;


Pssm-ID: 463893 [Multi-domain]  Cd Length: 65  Bit Score: 37.08  E-value: 7.68e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 1308557232 203 CVQCGACAKGCPVGAIDPENSRaIDTEKCI 232
Cdd:pfam13484   1 CGSCGKCIDACPTGAIVGPEGV-LDARRCI 29
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
202-249 8.27e-04

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 40.39  E-value: 8.27e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1308557232 202 ACVQCGACAKGCPVGAIDPENSRAI-DTEKCITCCACIKHCPKHARTIK 249
Cdd:COG4624    63 RCCVAISCIQVRGIIIIDKRGPSIIrDKEKCKNCYPCVRACPVKAIKVD 111
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 201-242 8.28e-04

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: 36.88  E-value: 8.28e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1308557232 201 DACVQCGACAKGCPVGA-----IDPENSRAIDTEKCITCCACIKHCP 242
Cdd:pfam14697   6 DTCIGCGKCYIACPDTShqaivGDGKRHHTVIEDECTGCNLCVSVCP 52
porD PRK09624
pyruvate ferredoxin oxidoreductase subunit delta; Reviewed
 201-245 1.64e-03

pyruvate ferredoxin oxidoreductase subunit delta; Reviewed


Pssm-ID: 170017 [Multi-domain]  Cd Length: 105  Bit Score: 37.32  E-value: 1.64e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1308557232 201 DACVQCGACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCPKHA 245
Cdd:PRK09624   51 DKCVRCYLCYIYCPEPAIylDEEGYPVFDYDYCKGCGICANECPTKA 97
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 201-219 2.54e-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: 2.54e-03
                          10
                  ....*....|....*....
gi 1308557232 201 DACVQCGACAKGCPVGAID 219
Cdd:pfam00037   6 EKCIGCGACVEVCPVGAIT 24
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 201-226 3.22e-03

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 35.41  E-value: 3.22e-03
                          10        20
                  ....*....|....*....|....*.
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSRAI 226
Cdd:COG2221    44 EKCIGCGACIRVCPTGAIKGEKPKKF 69
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 201-227 3.49e-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: 35.47  E-value: 3.49e-03
                          10        20
                  ....*....|....*....|....*..
gi 1308557232 201 DACVQCGACAKGCPVGAIDPENSRAID 227
Cdd:COG1149    41 DLCTGCGACVGVCPTGAITLEEREAGK 67
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 201-221 4.38e-03

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 35.40  E-value: 4.38e-03
                          10        20
                  ....*....|....*....|.
gi 1308557232 201 DACVQCGACAKGCPVGAIDPE 221
Cdd:COG4231    51 DLCIGCGSCVQVCPVDAIKLE 71
PRK05035 PRK05035
electron transport complex protein RnfC; Provisional
 202-244 4.66e-03

electron transport complex protein RnfC; Provisional


Pssm-ID: 235334 [Multi-domain]  Cd Length: 695  Bit Score: 38.39  E-value: 4.66e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 202 ACVQCGACAKGCPVGAIdPE----NSRAIDTEK--------CITCCACIKHCPKH 244
Cdd:PRK05035  371 PCIRCGACADACPASLL-PQqlywFAKAEEHDKaqeynlfdCIECGACAYVCPSN 424
DMSOR_beta_like cd16369
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 203-242 5.68e-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: 319891 [Multi-domain]  Cd Length: 172  Bit Score: 36.60  E-value: 5.68e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1308557232 203 CVQC--GACAKGCPVGAI--DPENS-RAIDTEKCITCCACIKHCP 242
Cdd:cd16369    51 CMHCedPTCAEVCPADAIkvTEDGVvQSALKPRCIGCSNCVNACP 95
FDH-O_like cd10560
beta subunit of formate dehydrogenase O (FDH-O) and similar proteins; This subfamily includes ...
 200-242 5.91e-03

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: 37.37  E-value: 5.91e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1308557232 200 SDACVQC--GACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCP 242
Cdd:cd10560    75 SDVCKHCtdAGCLEACPTGAIfrTEFGTVYIQPDICNGCGYCVAACP 121
PRK10194 PRK10194
ferredoxin-type protein NapF;
200-225 6.40e-03

ferredoxin-type protein NapF;


Pssm-ID: 182296 [Multi-domain]  Cd Length: 163  Bit Score: 36.54  E-value: 6.40e-03
                          10        20
                  ....*....|....*....|....*.
gi 1308557232 200 SDACVQCGACAKGCPVGAIDPENSRA 225
Cdd:PRK10194  137 SQLCNGCGACAASCPVSAITAEYLHA 162
PRK12387 PRK12387
formate hydrogenlyase complex iron-sulfur subunit; Provisional
 152-245 6.47e-03

formate hydrogenlyase complex iron-sulfur subunit; Provisional


Pssm-ID: 183492 [Multi-domain]  Cd Length: 180  Bit Score: 36.55  E-value: 6.47e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1308557232 152 KILEK-LQSGSLSGRIPEAKIPGGHPYRGEPIHPYrkdsifwnvdfiavsDACVQCGACAKGCPVGAI----DPENSR-- 224
Cdd:PRK12387    3 KLIKKvIKTGTATSSYPLEPIAVDKNFRGKPEYNP---------------QQCIGCAACVNACPSNALtvetDLATGEla 67

                          90       100
                  ....*....|....*....|..
gi 1308557232 225 -AIDTEKCITCCACIKHCPKHA 245
Cdd:PRK12387   68 wEFNLGRCIFCGRCEEVCPTAA 89
PRK09326 PRK09326
F420H2 dehydrogenase subunit F; Provisional
 201-242 6.86e-03

F420H2 dehydrogenase subunit F; Provisional


Pssm-ID: 181779 [Multi-domain]  Cd Length: 341  Bit Score: 37.51  E-value: 6.86e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1308557232 201 DACVQCGACAKGCPVGAI---------DPEN----SRAIDTEKCITCCACIKHCP 242
Cdd:PRK09326   12 DVCTACGACEAVCPIGAItvdkkaeirDPNDlelyEKGAAPNVCEGCLTCSRICP 66
PRK12769 PRK12769
putative oxidoreductase Fe-S binding subunit; Reviewed
 203-242 7.08e-03

putative oxidoreductase Fe-S binding subunit; Reviewed


Pssm-ID: 183733 [Multi-domain]  Cd Length: 654  Bit Score: 37.80  E-value: 7.08e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1308557232 203 CVQC--GACAKGCPVGAI-DPENSRAIDTEKCITCCACIKHCP 242
Cdd:PRK12769   56 CHHCedAPCARSCPNGAIsHVDDSIQVNQQKCIGCKSCVVACP 98
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 182-245 7.29e-03

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: 36.90  E-value: 7.29e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1308557232 182 IHPYRKDSIFWNVDFIAVSDACVQC--GACAKGCPVGAIDPENSRAIDTEKCITCCACIKHCPKHA 245
Cdd:COG2878   186 MVPVSPTVVVSSWDKGKAVRKVVGCigLCCKKCCPAAAITVNNLAAIIDYKKCTCCGCCEKCCPTA 251
Fer4_6 pfam12837
4Fe-4S binding domain; This superfamily includes proteins containing domains which bind to ...
 201-218 7.34e-03

4Fe-4S binding domain; This 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: 432822 [Multi-domain]  Cd Length: 24  Bit Score: 33.36  E-value: 7.34e-03
                          10
                  ....*....|....*...
gi 1308557232 201 DACVQCGACAKGCPVGAI 218
Cdd:pfam12837   7 DKCIGCGRCVVVCPYGAI 24
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 226-247 8.32e-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: 32.99  E-value: 8.32e-03
                          10        20
                  ....*....|....*....|..
gi 1308557232 226 IDTEKCITCCACIKHCPKHART 247
Cdd:pfam00037   3 IDEEKCIGCGACVEVCPVGAIT 24
HybA_like cd10561
the FeS subunit of hydrogenase 2; This subfamily includes the beta-subunit of hydrogenase 2 ...
 199-242 9.49e-03

the FeS subunit of hydrogenase 2; This subfamily includes the beta-subunit of hydrogenase 2 (Hyd-2), an enzyme that catalyzes the reversible oxidation of H2 to protons and electrons. Hyd-2 is membrane-associated and forms an unusual heterotetrameric [NiFe]-hydrogenase in that it lacks the typical cytochrome b membrane anchor subunit that transfers electrons to the quinone pool. The electron transfer subunit of Hyd-2 (HybA) which is predicted to contain four iron-sulfur clusters, is essential for electron transfer from Hyd-2 to menaquinone/demethylmenaquinone (MQ/DMQ) to couple hydrogen oxidation to fumarate reduction.


Pssm-ID: 319883 [Multi-domain]  Cd Length: 196  Bit Score: 36.42  E-value: 9.49e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1308557232 199 VSDACVQC--GACAKGCPVGAI--DPENSRAIDTEKCITCCACIKHCP 242
Cdd:cd10561    65 VKRQCMHCldPACVSACPVGALrkTPEGPVTYDEDKCIGCRYCMVACP 112
 
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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