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Conserved domains on  [gi|1889150264|ref|WP_182579341|]
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MULTISPECIES: cytochrome c oxidase accessory protein CcoG [Campylobacter]

Protein Classification

CcoG/RdxA/FixG family protein( domain architecture ID 1003771)

CcoG/RdxA/FixG family protein is a ferredoxin-like protein similar to Cereibacter sphaeroides protein RdxA that may bind cytoplasmic [4Fe-4S] clusters and be involved in a redox process

Gene Ontology:  GO:0016020
PubMed:  1400197|8661920

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ccoG_rdxA_fixG super family cl37160
cytochrome c oxidase accessory protein FixG; Member of this ferredoxin-like protein family are ...
 8-445 0e+00

cytochrome c oxidase accessory protein FixG; Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.


The actual alignment was detected with superfamily member TIGR02745:

Pssm-ID: 274278 [Multi-domain]  Cd Length: 434  Bit Score: 546.14  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264   8 YTKKRYFVYLIASIIIFALPFIKINENHFFLLSFDHSKLNLFFISFSTQEFYLMPFVLIFLFLFIFFITTLGGRIWCAWS 87
Cdd:TIGR02745   1 FRKLRYVIGAVLLLIFLITPWIRWNGNQAVLLDFAHRQFHFFGITFWPQEFYLLAGLLIIAALGLFFITTLAGRVWCGYA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264  88 CPQTIFRvIYRDIIQTKFLKIRKNInNKQKEYE---GQYFKKFLGVIIFYFISLVAISNLLWYFIPPEDFFNYIQN-PGE 163
Cdd:TIGR02745  81 CPQTVWT-DLFDWIERKIEGDRNKR-MKLDKAPwtfDKVWKKTLKHLLWLVISLVTGGTFIFYFVPAPDLFAYLFTgPAD 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 164 HLLLLGILFCASLLFTLDItYLQEKFCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDG-HTKLHKKP-PEGECIGCE 241
Cdd:TIGR02745 159 HPAYFWVLFFTAATYIFDG-WMREQFCIYMCPYARIQSVMFDKDTLIVVYDEKRGEPRGPRkGKKDPKAPgPLGDCIDCN 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 242 ACVSICPTHIDIRKGMQLECINCLECADACSKVQSKFNRP-SLINWTSAKAIETRSKVHYLRFRTIAYFIVLLIALLALI 320
Cdd:TIGR02745 238 LCVQVCPTGIDIRDGLQLECINCGLCIDACDDVMEKMGKPkGLISYTSEAALEGRKKVRLLRPRTIGYAAVLAIVIGLLA 317

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 321 IMGSKKESMLLNINRSSELYNISNVKGelVISNAYTFLFQNTDSKPHEYYFTANLegiNDGIEIIRPNKPFKLKAGEQVK 400
Cdd:TIGR02745 318 IALSTREPMDLNVLRDRNLLYVRNSDG--VVENTYTLKILNKTEQPHEYYLSVLG---LPGIKIEGPGAPIHVKAGEKVK 392

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*.
gi 1889150264 401 KIVVIRATKnlanNDKKDVIFPLHIKAYAKD-NEKISVFRKSIFVY 445
Cdd:TIGR02745 393 LPVFLRTPP----DALKSGITSIEIRAYAEDdSEGIRVERESVFVG 434
 
Name Accession Description Interval E-value
ccoG_rdxA_fixG TIGR02745
cytochrome c oxidase accessory protein FixG; Member of this ferredoxin-like protein family are ...
 8-445 0e+00

cytochrome c oxidase accessory protein FixG; Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.


Pssm-ID: 274278 [Multi-domain]  Cd Length: 434  Bit Score: 546.14  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264   8 YTKKRYFVYLIASIIIFALPFIKINENHFFLLSFDHSKLNLFFISFSTQEFYLMPFVLIFLFLFIFFITTLGGRIWCAWS 87
Cdd:TIGR02745   1 FRKLRYVIGAVLLLIFLITPWIRWNGNQAVLLDFAHRQFHFFGITFWPQEFYLLAGLLIIAALGLFFITTLAGRVWCGYA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264  88 CPQTIFRvIYRDIIQTKFLKIRKNInNKQKEYE---GQYFKKFLGVIIFYFISLVAISNLLWYFIPPEDFFNYIQN-PGE 163
Cdd:TIGR02745  81 CPQTVWT-DLFDWIERKIEGDRNKR-MKLDKAPwtfDKVWKKTLKHLLWLVISLVTGGTFIFYFVPAPDLFAYLFTgPAD 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 164 HLLLLGILFCASLLFTLDItYLQEKFCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDG-HTKLHKKP-PEGECIGCE 241
Cdd:TIGR02745 159 HPAYFWVLFFTAATYIFDG-WMREQFCIYMCPYARIQSVMFDKDTLIVVYDEKRGEPRGPRkGKKDPKAPgPLGDCIDCN 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 242 ACVSICPTHIDIRKGMQLECINCLECADACSKVQSKFNRP-SLINWTSAKAIETRSKVHYLRFRTIAYFIVLLIALLALI 320
Cdd:TIGR02745 238 LCVQVCPTGIDIRDGLQLECINCGLCIDACDDVMEKMGKPkGLISYTSEAALEGRKKVRLLRPRTIGYAAVLAIVIGLLA 317

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 321 IMGSKKESMLLNINRSSELYNISNVKGelVISNAYTFLFQNTDSKPHEYYFTANLegiNDGIEIIRPNKPFKLKAGEQVK 400
Cdd:TIGR02745 318 IALSTREPMDLNVLRDRNLLYVRNSDG--VVENTYTLKILNKTEQPHEYYLSVLG---LPGIKIEGPGAPIHVKAGEKVK 392

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*.
gi 1889150264 401 KIVVIRATKnlanNDKKDVIFPLHIKAYAKD-NEKISVFRKSIFVY 445
Cdd:TIGR02745 393 LPVFLRTPP----DALKSGITSIEIRAYAEDdSEGIRVERESVFVG 434
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
8-274 1.19e-56

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 188.35  E-value: 1.19e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264   8 YTKKRYFVYLIASIIIFALPFIKINENHFFLLSFDHSKLNLFFISFstqEFYLMPFVLIFLFLFIFFITTLGGRIWCAWS 87
Cdd:COG0348    11 FRRLRRLVQLLFLLLFLLGPWLRWLGDPAVLLDLAERRFYLFGLFW---DFYLLALLLIGAALALFLLTLLFGRVWCGWV 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264  88 CPQTIFRVIyrdiiqtkFLKIRKNINNKQKEYEGQYFK-----KFLGVIIFYFISLVAISNLLWYFIPPEDFFNYIQNPG 162
Cdd:COG0348    88 CPQGVLTEL--------FSWLERKLGDRRLKLPWSLSKilrwlKYIILALWLLLALLTGLTFFGYFSPIGTLLRLLLFGV 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 163 EHLLLLGILFcasLLFTLDITYLQEKFCVYVCPYARIQSVMFDHDTMQVIYDekrggliydghtklhkkppEGECIGCEA 242
Cdd:COG0348   160 LGLWLLLILL---AAFLLLALFLRRQWCRYLCPYGAFQGLLSDLSTLRVRYD-------------------RGDCIDCGL 217

                         250       260       270
                  ....*....|....*....|....*....|....
gi 1889150264 243 CVSICPTHIDIRKG--MQLECINCLECADACSKV 274
Cdd:COG0348   218 CVKVCPMGIDIRKGeiNQSECINCGRCIDACPKD 251
Fer4_18 pfam13746
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 185-289 2.72e-52

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: 404610 [Multi-domain]  Cd Length: 114  Bit Score: 171.81  E-value: 2.72e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 185 LQEKFCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDGH--TKLHKKP------PEGECIGCEACVSICPTHIDIRKG 256
Cdd:pfam13746   1 ARENFCIYACPYGRFQSVMYDEDTLTVVYDAVRGEGIYGRKppKAGLKTKelrqqkGVGDCIDCESCVQVCPTGIDIRKG 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1889150264 257 MQLECINCLECADACSKVQSKFNRP-SLINWTSA 289
Cdd:pfam13746  81 LQLECINCGLCIDACNTIMGKLGKPrGLIRYSSE 114
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 237-271 1.18e-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: 47.62  E-value: 1.18e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1889150264 237 CIGCEACVSICPTHI-----------DIRKGmqlECINCLECADAC 271
Cdd:cd10564    15 CTRCGDCVEACPEGIivrgdggfpelDFSRG---ECTFCGACAEAC 57
PRK09898 PRK09898
ferredoxin-like protein;
190-271 1.35e-05

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 45.98  E-value: 1.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPYARIQsvmfdhdtmqviYDEKRGGLIYDghtklHKKppegeCIGCEACVSICPTH---IDIRKGMQLECINCLE 266
Cdd:PRK09898  131 CMNVCPIGAIT------------WQQKEGCITVD-----HKR-----CIGCSACTTACPWMmatVNTESKKSSKCVLCGE 188


                  ....*
gi 1889150264 267 CADAC 271
Cdd:PRK09898  189 CANAC 193
 
Name Accession Description Interval E-value
ccoG_rdxA_fixG TIGR02745
cytochrome c oxidase accessory protein FixG; Member of this ferredoxin-like protein family are ...
 8-445 0e+00

cytochrome c oxidase accessory protein FixG; Member of this ferredoxin-like protein family are found exclusively in species with an operon encoding the cbb3 type of cytochrome c oxidase (cco-cbb3), and near the cco-cbb3 operon in about half the cases. The cco-cbb3 is found in a variety of proteobacteria and almost nowhere else, and is associated with oxygen use under microaerobic conditions. Some (but not all) of these proteobacteria are also nitrogen-fixing, hence the gene symbol fixG. FixG was shown essential for functional cco-cbb3 expression in Bradyrhizobium japonicum.


Pssm-ID: 274278 [Multi-domain]  Cd Length: 434  Bit Score: 546.14  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264   8 YTKKRYFVYLIASIIIFALPFIKINENHFFLLSFDHSKLNLFFISFSTQEFYLMPFVLIFLFLFIFFITTLGGRIWCAWS 87
Cdd:TIGR02745   1 FRKLRYVIGAVLLLIFLITPWIRWNGNQAVLLDFAHRQFHFFGITFWPQEFYLLAGLLIIAALGLFFITTLAGRVWCGYA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264  88 CPQTIFRvIYRDIIQTKFLKIRKNInNKQKEYE---GQYFKKFLGVIIFYFISLVAISNLLWYFIPPEDFFNYIQN-PGE 163
Cdd:TIGR02745  81 CPQTVWT-DLFDWIERKIEGDRNKR-MKLDKAPwtfDKVWKKTLKHLLWLVISLVTGGTFIFYFVPAPDLFAYLFTgPAD 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 164 HLLLLGILFCASLLFTLDItYLQEKFCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDG-HTKLHKKP-PEGECIGCE 241
Cdd:TIGR02745 159 HPAYFWVLFFTAATYIFDG-WMREQFCIYMCPYARIQSVMFDKDTLIVVYDEKRGEPRGPRkGKKDPKAPgPLGDCIDCN 237

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 242 ACVSICPTHIDIRKGMQLECINCLECADACSKVQSKFNRP-SLINWTSAKAIETRSKVHYLRFRTIAYFIVLLIALLALI 320
Cdd:TIGR02745 238 LCVQVCPTGIDIRDGLQLECINCGLCIDACDDVMEKMGKPkGLISYTSEAALEGRKKVRLLRPRTIGYAAVLAIVIGLLA 317

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 321 IMGSKKESMLLNINRSSELYNISNVKGelVISNAYTFLFQNTDSKPHEYYFTANLegiNDGIEIIRPNKPFKLKAGEQVK 400
Cdd:TIGR02745 318 IALSTREPMDLNVLRDRNLLYVRNSDG--VVENTYTLKILNKTEQPHEYYLSVLG---LPGIKIEGPGAPIHVKAGEKVK 392

                         410       420       430       440
                  ....*....|....*....|....*....|....*....|....*.
gi 1889150264 401 KIVVIRATKnlanNDKKDVIFPLHIKAYAKD-NEKISVFRKSIFVY 445
Cdd:TIGR02745 393 LPVFLRTPP----DALKSGITSIEIRAYAEDdSEGIRVERESVFVG 434
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
8-274 1.19e-56

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 188.35  E-value: 1.19e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264   8 YTKKRYFVYLIASIIIFALPFIKINENHFFLLSFDHSKLNLFFISFstqEFYLMPFVLIFLFLFIFFITTLGGRIWCAWS 87
Cdd:COG0348    11 FRRLRRLVQLLFLLLFLLGPWLRWLGDPAVLLDLAERRFYLFGLFW---DFYLLALLLIGAALALFLLTLLFGRVWCGWV 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264  88 CPQTIFRVIyrdiiqtkFLKIRKNINNKQKEYEGQYFK-----KFLGVIIFYFISLVAISNLLWYFIPPEDFFNYIQNPG 162
Cdd:COG0348    88 CPQGVLTEL--------FSWLERKLGDRRLKLPWSLSKilrwlKYIILALWLLLALLTGLTFFGYFSPIGTLLRLLLFGV 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 163 EHLLLLGILFcasLLFTLDITYLQEKFCVYVCPYARIQSVMFDHDTMQVIYDekrggliydghtklhkkppEGECIGCEA 242
Cdd:COG0348   160 LGLWLLLILL---AAFLLLALFLRRQWCRYLCPYGAFQGLLSDLSTLRVRYD-------------------RGDCIDCGL 217

                         250       260       270
                  ....*....|....*....|....*....|....
gi 1889150264 243 CVSICPTHIDIRKG--MQLECINCLECADACSKV 274
Cdd:COG0348   218 CVKVCPMGIDIRKGeiNQSECINCGRCIDACPKD 251
Fer4_18 pfam13746
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 185-289 2.72e-52

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: 404610 [Multi-domain]  Cd Length: 114  Bit Score: 171.81  E-value: 2.72e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 185 LQEKFCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDGH--TKLHKKP------PEGECIGCEACVSICPTHIDIRKG 256
Cdd:pfam13746   1 ARENFCIYACPYGRFQSVMYDEDTLTVVYDAVRGEGIYGRKppKAGLKTKelrqqkGVGDCIDCESCVQVCPTGIDIRKG 80

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1889150264 257 MQLECINCLECADACSKVQSKFNRP-SLINWTSA 289
Cdd:pfam13746  81 LQLECINCGLCIDACNTIMGKLGKPrGLIRYSSE 114
FixG_C pfam11614
IG-like fold at C-terminal of FixG, putative oxidoreductase; This domain is part of a ...
 322-445 3.32e-22

IG-like fold at C-terminal of FixG, putative oxidoreductase; This domain is part of a transmembrane protein, FixG, itself part of the FixGHIS operon closely associated with the FixNOPQ operon that is the symbiotically essential cbb3-type haem-copper oxidase complex. FixG expression is induced by oxygen-deprivation. This C-terminal domain adopts an E-set Ig-like fold.


Pssm-ID: 431960 [Multi-domain]  Cd Length: 116  Bit Score: 91.13  E-value: 3.32e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 322 MGSKKESMLLNINRSSELYNISNVKGElvISNAYTFLFQNTDSKPHEYYFTanLEGInDGIEIIRPNKPFKLKAGEQVKK 401
Cdd:pfam11614   2 ALATREPLELDVLRDRGPLFVELSDGS--IENVYTLKIINKTEEPRRYTLS--VEGL-PGLKLEGGPQEIEVAPGEVRTL 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1889150264 402 IVVIRATKNLANNDKKdvifPLHIKAYAKDNEKISVFRKSIFVY 445
Cdd:pfam11614  77 PVFVTVPPEAAKSGST----PITFTVTADDDGGETVTEKSRFLG 116
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
234-271 2.77e-07

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 47.80  E-value: 2.77e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1889150264 234 EGECIGCEACVSICPTH-IDIRKGM----QLECINCLECADAC 271
Cdd:COG2768    10 EEKCIGCGACVKVCPVGaISIEDGKavidPEKCIGCGACIEVC 52
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 237-271 8.75e-07

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 46.24  E-value: 8.75e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 1889150264 237 CIGCEACVSICPT---HIDIRKGMQL-----ECINCLECADAC 271
Cdd:COG1146    10 CIGCGACVEVCPVdvlELDEEGKKALvinpeECIGCGACELVC 52
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 237-271 1.18e-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: 47.62  E-value: 1.18e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1889150264 237 CIGCEACVSICPTHI-----------DIRKGmqlECINCLECADAC 271
Cdd:cd10564    15 CTRCGDCVEACPEGIivrgdggfpelDFSRG---ECTFCGACAEAC 57
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 190-271 1.37e-06

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: 47.39  E-value: 1.37e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPYariqsvmfdhDTMQVIYDEKRG-GLIYDghtklhkkppEGECIGCEACVSICPTH-IDIRKGMQL-------- 259
Cdd:cd10549    14 CVKACPT----------DAIELGPNGAIArGPEID----------EDKCVFCGACVEVCPTGaIELTPEGKEyvpkekea 73

                          90
                  ....*....|....*..
gi 1889150264 260 -----ECINCLECADAC 271
Cdd:cd10549    74 eideeKCIGCGLCVKVC 90
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 237-271 3.70e-06

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: 44.35  E-value: 3.70e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1889150264 237 CIGCEACVSICPTH-IDIRKGMQLE--------CINCLECADAC 271
Cdd:COG1143     4 CIGCGLCVRVCPVDaITIEDGEPGKvyvidpdkCIGCGLCVEVC 47
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 188-271 3.74e-06

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: 46.24  E-value: 3.74e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 188 KFCVYVCPYARIQsvMFDHDTMQVIYDEKrggliydghtklhKKPPEGECIGCEACVSICPTH-IDIRKGMQLE-----C 261
Cdd:cd10549    46 GACVEVCPTGAIE--LTPEGKEYVPKEKE-------------AEIDEEKCIGCGLCVKVCPVDaITLEDELEIVidkekC 110

                          90
                  ....*....|
gi 1889150264 262 INCLECADAC 271
Cdd:cd10549   111 IGCGICAEVC 120
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 234-271 4.69e-06

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 44.27  E-value: 4.69e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1889150264 234 EGECIGCEACVSICPTH----------IDIRKgmqleCINCLECADAC 271
Cdd:COG2221    14 EEKCIGCGLCVAVCPTGaislddgklvIDEEK-----CIGCGACIRVC 56
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 237-271 5.76e-06

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: 43.28  E-value: 5.76e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1889150264 237 CIGCEACVSICPTH-IDIRK-----------GMQLECINCLECADAC 271
Cdd:pfam12838   1 CIGCGACVAACPVGaITLDEvgekkgtktvvIDPERCVGCGACVAVC 47
Fer4_10 pfam13237
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 237-271 1.03e-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: 42.62  E-value: 1.03e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1889150264 237 CIGCEACVSICPTHIDIRKG------------MQLECINCLECADAC 271
Cdd:pfam13237   9 CIGCGRCTAACPAGLTRVGAiverlegeavriGVWKCIGCGACVEAC 55
PRK09898 PRK09898
ferredoxin-like protein;
190-271 1.35e-05

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 45.98  E-value: 1.35e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPYARIQsvmfdhdtmqviYDEKRGGLIYDghtklHKKppegeCIGCEACVSICPTH---IDIRKGMQLECINCLE 266
Cdd:PRK09898  131 CMNVCPIGAIT------------WQQKEGCITVD-----HKR-----CIGCSACTTACPWMmatVNTESKKSSKCVLCGE 188


                  ....*
gi 1889150264 267 CADAC 271
Cdd:PRK09898  189 CANAC 193
NapF COG1145
Ferredoxin [Energy production and conversion];
234-271 1.61e-05

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 46.25  E-value: 1.61e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1889150264 234 EGECIGCEACVSICPTH-IDIRKGM------QLECINCLECADAC 271
Cdd:COG1145   181 AEKCIGCGLCVKVCPTGaIRLKDGKpqivvdPDKCIGCGACVKVC 225
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 187-271 1.96e-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: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 44.10  E-value: 1.96e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 187 EKFCVYVCPyariqsvmfdhdtMQVIY-DEKRGGLIYDghtklhkkppEGECIGCEACVSICP---THIDIRKGMQLECI 262
Cdd:cd10550    54 DAPCVEACP-------------VGAISrDEETGAVVVD----------EDKCIGCGMCVEACPfgaIRVDPETGKAIKCD 110

                          90
                  ....*....|..
gi 1889150264 263 NCL---ECADAC 271
Cdd:cd10550   111 LCGgdpACVKVC 122
PRK06273 PRK06273
ferredoxin; Provisional
 221-284 2.01e-05

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 44.70  E-value: 2.01e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 221 IYDGHTKLHKKPPEGECIGCEACVSICPTH---------IDIRKGM---------QLECINCLECADACSkVQSKFNRPS 282
Cdd:PRK06273   35 ILTGTVELPKKVFEELCIGCGGCANVCPTKaiemipvepVKITEGYvktkipkidYEKCVYCLYCHDFCP-VFALFNEIS 113


                  ..
gi 1889150264 283 LI 284
Cdd:PRK06273  114 PI 115
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 237-271 4.66e-05

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 41.57  E-value: 4.66e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1889150264 237 CIGCEACVSICPTH-IDIRKGM----QLECINCLECADAC 271
Cdd:COG4231    24 CTGCGACVKVCPADaIEEGDGKavidPDLCIGCGSCVQVC 63
Fer4_8 pfam13183
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 189-251 6.17e-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: 433017 [Multi-domain]  Cd Length: 64  Bit Score: 40.76  E-value: 6.17e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1889150264 189 FCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDGHtklhkKPPEGECIGCEACVSICPTHI 251
Cdd:pfam13183   7 ACLAACPVYLVTGGRFPGDPRGGAAALLGRLEALEGL-----AEGLWLCTLCGACTEVCPVGI 64
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 237-271 1.33e-04

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 40.10  E-value: 1.33e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 1889150264 237 CIGCEACVSICPTH-IDIRKGMQLE-----CINCLECADAC 271
Cdd:COG1149    13 CIGCGLCVEVCPEGaIKLDDGGAPVvdpdlCTGCGACVGVC 53
Fer4_9 pfam13187
4Fe-4S dicluster domain;
237-271 1.79e-04

4Fe-4S dicluster domain;


Pssm-ID: 463801 [Multi-domain]  Cd Length: 50  Bit Score: 39.07  E-value: 1.79e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1889150264 237 CIGCEACVSICPTHIDIRK---------GMQLECINCLECADAC 271
Cdd:pfam13187   2 CTGCGACVAACPAGAIVPDlvgqtirgdIAGLACIGCGACVDAC 45
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 188-249 2.21e-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: 463724 [Multi-domain]  Cd Length: 51  Bit Score: 39.05  E-value: 2.21e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1889150264 188 KFCVYVCPYARIqsvmfdhdtMQVIYDEKRGGLIYDGHtklhkkppEGECIGCEACVSICPT 249
Cdd:pfam12838   5 GACVAACPVGAI---------TLDEVGEKKGTKTVVID--------PERCVGCGACVAVCPT 49
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 234-271 3.54e-04

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: 39.26  E-value: 3.54e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1889150264 234 EGECIGCEACVSICPTH-IDIRKGMQLE-----CINCLECADAC 271
Cdd:COG1144    29 EDKCIGCGLCWIVCPDGaIRVDDGKYYGidydyCKGCGICAEVC 72
PRK08348 PRK08348
NADH-plastoquinone oxidoreductase subunit; Provisional
 217-273 4.83e-04

NADH-plastoquinone oxidoreductase subunit; Provisional


Pssm-ID: 181399 [Multi-domain]  Cd Length: 120  Bit Score: 39.82  E-value: 4.83e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1889150264 217 RGGLIYDGHTklhkkppegeCIGCEACVSICPTHI-----DIRKgMQL---ECINCLECADACSK 273
Cdd:PRK08348   34 RGKILYDVDK----------CVGCRMCVTVCPAGVfvylpEIRK-VALwtgRCVFCGQCVDVCPT 87
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 190-249 4.92e-04

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 38.54  E-value: 4.92e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPyariqsvmfdhdtMQVIYDEKrggliyDGHTKLHKKPPEgeCIGCEACVSICPT 249
Cdd:COG1146    16 CVEVCP-------------VDVLELDE------EGKKALVINPEE--CIGCGACELVCPV 54
napF TIGR00402
ferredoxin-type protein NapF; The gene codes for a ferredoxin-type cytosolic protein, NapF, of ...
 237-271 6.85e-04

ferredoxin-type protein NapF; The gene codes for a ferredoxin-type cytosolic protein, NapF, of the periplasmic nitrate reductase system, as in Escherichia coli. NapF interacts with the catalytic subunit, NapA, and may be an accessory protein for NapA maturation. [Energy metabolism, Electron transport]


Pssm-ID: 273060 [Multi-domain]  Cd Length: 101  Bit Score: 38.77  E-value: 6.85e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1889150264 237 CIGCEACVSICPTHIdIRKGMQL---------ECINCLECADAC 271
Cdd:TIGR00402  36 CTRCGECASACENNI-LQLGQQGqptvefdnaECDFCGKCAEAC 78
Fer4_5 pfam12801
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 76-105 8.39e-04

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: 432796 [Multi-domain]  Cd Length: 48  Bit Score: 37.15  E-value: 8.39e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 1889150264  76 TTLGGRIWCAWSCPQTIFRVIYRDIIQTKF 105
Cdd:pfam12801  16 TLLFGRVFCGWLCPFGALQELLAKLLRRKL 45
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 188-250 1.31e-03

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: 37.72  E-value: 1.31e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1889150264 188 KFCVYVCPYARIQSVmfdhdtmqviyDEKRGGLIYDghtklhkkppegECIGCEACVSICPTH 250
Cdd:COG1144    36 GLCWIVCPDGAIRVD-----------DGKYYGIDYD------------YCKGCGICAEVCPVK 75
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
237-271 1.66e-03

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 40.30  E-value: 1.66e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1889150264 237 CIGCEACVSICPTHI---------------------DIRKGMQLECINCLECADAC 271
Cdd:PRK07118  170 CTGCGACVKACPRNVielipksarvfvacnskdkgkAVKKVCEVGCIGCGKCVKAC 225
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 237-271 1.72e-03

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: 38.53  E-value: 1.72e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1889150264 237 CIGCEACVSICPT-------------HIDIRKGMqleCINCLECADAC 271
Cdd:cd10549     8 CIGCGICVKACPTdaielgpngaiarGPEIDEDK---CVFCGACVEVC 52
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 235-271 2.19e-03

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: 38.38  E-value: 2.19e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1889150264 235 GECIGCEACVSICPT---------HIDIRKGMQLECIN-----CLECADAC 271
Cdd:cd10564    45 GECTFCGACAEACPEgaldpareaPWPLRAEIGDSCLAlqgveCRSCQDAC 95
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 190-249 2.25e-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: 434137 [Multi-domain]  Cd Length: 59  Bit Score: 36.10  E-value: 2.25e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPYARIQSVMFDHDTMQVIYDEkrggliydghtklhkkppegECIGCEACVSICPT 249
Cdd:pfam14697  14 CYIACPDTSHQAIVGDGKRHHTVIED--------------------ECTGCNLCVSVCPV 53
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 234-251 2.58e-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: 39.59  E-value: 2.58e-03
                          10
                  ....*....|....*...
gi 1889150264 234 EGECIGCEACVSICPTHI 251
Cdd:COG2878   166 EDKCTGCGLCVEACPVDC 183
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
187-271 2.60e-03

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 40.01  E-value: 2.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 187 EKFCVYVCPYARIQSVMFDHDTMQVIYDEKRGGLIYDGHTKLHKKPPEgECIGCEACVSICPTH-IDIRKG----MQLEC 261
Cdd:COG4624    44 DDSACSCCPRCCLCCCCCCRCCVAISCIQVRGIIIIDKRGPSIIRDKE-KCKNCYPCVRACPVKaIKVDDGkaeiDEEKC 122

                          90
                  ....*....|
gi 1889150264 262 INCLECADAC 271
Cdd:COG4624   123 ISCGQCVAVC 132
Fer4_17 pfam13534
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 236-271 2.67e-03

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: 433287 [Multi-domain]  Cd Length: 61  Bit Score: 36.29  E-value: 2.67e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1889150264 236 ECIGCEACVSICPTHIDIR----KGMQ----------------LECINCLECADAC 271
Cdd:pfam13534   1 RCIQCGCCVDECPRYLLNGdepkKLMRaaylgdleelqankvaNLCSECGLCEYAC 56
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 190-250 3.62e-03

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: 35.88  E-value: 3.62e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1889150264 190 CVYVCPyariqsvmfdHDTMQVIYDEKRGGLIYDghtklhkkppEGECIGCEACVSICPTH 250
Cdd:COG1143    10 CVRVCP----------VDAITIEDGEPGKVYVID----------PDKCIGCGLCVEVCPTG 50
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 190-271 4.02e-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: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 37.32  E-value: 4.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPyariqsvmfdhdtMQVIYDEKRGglIYdghtKLHKKppegECIGCEACVSICPTHIDIRKGMQLE---CINCLE 266
Cdd:cd16372    55 CIDVCP-------------TGAITRDANG--VV----MINKK----LCVGCLMCVGFCPEGAMFKHEDYPEpfkCIACGI 111


                  ....*
gi 1889150264 267 CADAC 271
Cdd:cd16372   112 CVKAC 116
NapF COG1145
Ferredoxin [Energy production and conversion];
190-250 4.04e-03

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 38.94  E-value: 4.04e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1889150264 190 CVYVCPYARIqsVMFDHDTMQVIYDEKrggliydghtklhkkppegeCIGCEACVSICPTH 250
Cdd:COG1145   190 CVKVCPTGAI--RLKDGKPQIVVDPDK--------------------CIGCGACVKVCPVG 228
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
190-271 4.09e-03

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 37.71  E-value: 4.09e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1889150264 190 CVYVCPYARIQsvmFDHDTMQViyDEKRggliydghtklhkkppegeCIGCEACVSICPTH-IDIR----KGMQLECINC 264
Cdd:COG1142    60 CAEVCPVGAIT---RDDGAVVV--DEEK-------------------CIGCGLCVLACPFGaITMVgeksRAVAVKCDLC 115

                          90
                  ....*....|...
gi 1889150264 265 LE------CADAC 271
Cdd:COG1142   116 GGreggpaCVEAC 128
PRK13795 PRK13795
hypothetical protein; Provisional
 236-280 5.20e-03

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 39.21  E-value: 5.20e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1889150264 236 ECIGCEACVSICPTHIDIRKG------MQLE-CINCLECADACSKVQSKFNR 280
Cdd:PRK13795  582 ECVGCGVCVGACPTGAIRIEEgkrkisVDEEkCIHCGKCTEVCPVVKYKDKR 633
Fer4_8 pfam13183
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 237-271 5.93e-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: 433017 [Multi-domain]  Cd Length: 64  Bit Score: 35.36  E-value: 5.93e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1889150264 237 CIGCEACVSICPT--------HIDIRKGMQL----------------ECINCLECADAC 271
Cdd:pfam13183   2 CIRCGACLAACPVylvtggrfPGDPRGGAAAllgrlealeglaeglwLCTLCGACTEVC 60
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 234-271 6.46e-03

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: 37.47  E-value: 6.46e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1889150264 234 EGECIGCEACVSICPTH--IDIRKGM----QLECINCLECADAC 271
Cdd:TIGR01944 112 EDNCIGCTKCIQACPVDaiVGAAKAMhtviADECTGCDLCVEPC 155
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
222-271 7.66e-03

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 37.17  E-value: 7.66e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1889150264 222 YDGHTKLHKKPPEGE-CIGCEACVSICPTH-IDIRKGMQLE--------------CINCLECADAC 271
Cdd:PRK05888   44 FRGRHALRRDPNGEErCIACKLCAAICPADaITIEAAEREDgrrrttrydinfgrCIFCGFCEEAC 109
psaC CHL00065
photosystem I subunit VII
 237-271 8.66e-03

photosystem I subunit VII


Pssm-ID: 177005 [Multi-domain]  Cd Length: 81  Bit Score: 35.12  E-value: 8.66e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 1889150264 237 CIGCEACVSICPTHI------DIRKGMQL-------ECINCLECADAC 271
Cdd:CHL00065   11 CIGCTQCVRACPTDVlemipwDGCKAKQIasaprteDCVGCKRCESAC 58
fdxN_nitrog TIGR02936
ferredoxin III, nif-specific; Members of this family are homodimeric ferredoxins from nitrogen ...
 234-249 9.71e-03

ferredoxin III, nif-specific; Members of this family are homodimeric ferredoxins from nitrogen fixation regions of many nitrogen-fixing bacteria. As characterized in Rhodobacter capsulatus, these proteins are homodimeric, with two 4Fe-4S clusters bound per monomer. Although nif-specific, this protein family is not usiveral, as other nitrogenase systems may substitute flavodoxins, or different types of ferredoxin. [Central intermediary metabolism, Nitrogen fixation]


Pssm-ID: 274356 [Multi-domain]  Cd Length: 91  Bit Score: 35.46  E-value: 9.71e-03
                          10
                  ....*....|....*.
gi 1889150264 234 EGECIGCEACVSICPT 249
Cdd:TIGR02936  69 PGNCIGCGACARVCPK 84
Fer4_13 pfam13370
4Fe-4S single cluster domain of Ferredoxin I; Fer4_13 is a ferredoxin I from sulfate-reducing ...
 234-271 9.97e-03

4Fe-4S single cluster domain of Ferredoxin I; Fer4_13 is a ferredoxin I from sulfate-reducing bacteria. Chemical sequence analysis suggests that this characteriztic [4Fe-4S] cluster sulfur environment is widely distributed among ferredoxins.


Pssm-ID: 433153 [Multi-domain]  Cd Length: 58  Bit Score: 34.59  E-value: 9.97e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1889150264 234 EGECIGCEACVSICPTHIDIRKGMQLECI-----------NCLECADAC 271
Cdd:pfam13370   3 EDTCIDCGTCRELAPEVFKYDDDGGASFVhdqpvneeeedLAEEALDSC 51
 
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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