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Conserved domains on  [gi|2106553066|gb|KAH0920420|]
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hypothetical protein HID58_028080 [Brassica napus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
479-637 1.27e-95

NADH-quinone oxidoreductase subunit NuoI;


:

Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 290.63  E-value: 1.27e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 479 FERSINTLFLTEMVRGLSLTLKYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAE 558
Cdd:PRK05888    1 IKQYLKSMLLKELLKGLGVTLKYFFKKKVTIQYPEEKLPLSPRFRGRHALRRDPNGEERCIACKLCAAICPADAITIEAA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 559 EREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDKEKLLENGDRWETEIAENLKSESLYR 637
Cdd:PRK05888   81 EREDGRRRTTRYDINFGRCIFCGFCEEACPTDAIVETPDFELATETREELIYDKEKLLANGDRVEREIAPGKAADANYR 159
EPL1 super family cl38323
Enhancer of polycomb-like; This is a family of EPL1 (Enhancer of polycomb-like) proteins. The ...
 37-137 7.70e-09

Enhancer of polycomb-like; This is a family of EPL1 (Enhancer of polycomb-like) proteins. The EPL1 protein is a member of a histone acetyltransferase complex which is involved in transcriptional activation of selected genes.


The actual alignment was detected with superfamily member pfam10513:

Pssm-ID: 463128  Cd Length: 168  Bit Score: 55.19  E-value: 7.70e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066  37 QLLRLASSVELDHEVSPVPSK-KLASEIPTPQFVVVDSYERDysptfgqPASYLRA-RGARSELGEFVEYDLDNEDDDWL 114
Cdd:pfam10513  66 KKALSSSKKSQNTSESSVPAPnKERLYLPTPDAGKFREFERP-------PASYIRFsETVEEELDEGVEYDMDEEDEAWL 138

                          90       100
                  ....*....|....*....|....*...
gi 2106553066 115 YEFDKDNK-----QLSPEMFESIIFKLE 137
Cdd:pfam10513 139 EELNEKRKsegveKISEDEFEILMDRFE 166
 
Name Accession Description Interval E-value
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
479-637 1.27e-95

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 290.63  E-value: 1.27e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 479 FERSINTLFLTEMVRGLSLTLKYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAE 558
Cdd:PRK05888    1 IKQYLKSMLLKELLKGLGVTLKYFFKKKVTIQYPEEKLPLSPRFRGRHALRRDPNGEERCIACKLCAAICPADAITIEAA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 559 EREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDKEKLLENGDRWETEIAENLKSESLYR 637
Cdd:PRK05888   81 EREDGRRRTTRYDINFGRCIFCGFCEEACPTDAIVETPDFELATETREELIYDKEKLLANGDRVEREIAPGKAADANYR 159
NuoI TIGR01971
NADH-quinone oxidoreductase, chain I; This model represents the I subunit (one of 14: A->N) of ...
 494-615 4.86e-66

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


Pssm-ID: 273902 [Multi-domain]  Cd Length: 122  Bit Score: 212.28  E-value: 4.86e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 494 GLSLTLKYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAEEREDGSRRTTRYDID 573
Cdd:TIGR01971   1 GLGLTLKYFFSKPVTVQYPEEKLYLPPRFRGRIVLTRDPNGEEKCIGCTLCAAVCPADAIRVVPAEGEDGKRRLKFYEIN 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2106553066 574 MTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDKEKL 615
Cdd:TIGR01971  81 FGRCIFCGLCEEACPTDAIVLTPEFELATYTRSDLVYGKEDL 122
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 535-607 1.50e-26

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: 102.52  E-value: 1.50e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEERedgsrrTTRYDIDMTKCIYCGFCQEACPVDAIVEGPnFEFATETHEE 607
Cdd:COG1143     1 EDKCIGCGLCVRVCPVDAITIEDGEP------GKVYVIDPDKCIGCGLCVEVCPTGAISMTP-FELAVEDREE 66
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 535-593 2.84e-18

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: 81.29  E-value: 2.84e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgsrrtTRYDIDMTKCIYCGFCQEACPVDAIV 593
Cdd:cd10549    77 EEKCIGCGLCVKVCPVDAITLEDE---------LEIVIDKEKCIGCGICAEVCPVNAIK 126
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 538-591 2.62e-16

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: 72.94  E-value: 2.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 538 CIACKLCEAVCPAQAITIEAEEREDGsrrTTRYDIDMTKCIYCGFCQEACPVDA 591
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKKG---TKTVVIDPERCVGCGACVAVCPTGA 51
EPL1 pfam10513
Enhancer of polycomb-like; This is a family of EPL1 (Enhancer of polycomb-like) proteins. The ...
 37-137 7.70e-09

Enhancer of polycomb-like; This is a family of EPL1 (Enhancer of polycomb-like) proteins. The EPL1 protein is a member of a histone acetyltransferase complex which is involved in transcriptional activation of selected genes.


Pssm-ID: 463128  Cd Length: 168  Bit Score: 55.19  E-value: 7.70e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066  37 QLLRLASSVELDHEVSPVPSK-KLASEIPTPQFVVVDSYERDysptfgqPASYLRA-RGARSELGEFVEYDLDNEDDDWL 114
Cdd:pfam10513  66 KKALSSSKKSQNTSESSVPAPnKERLYLPTPDAGKFREFERP-------PASYIRFsETVEEELDEGVEYDMDEEDEAWL 138

                          90       100
                  ....*....|....*....|....*...
gi 2106553066 115 YEFDKDNK-----QLSPEMFESIIFKLE 137
Cdd:pfam10513 139 EELNEKRKsegveKISEDEFEILMDRFE 166
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 500-592 1.26e-07

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: 52.94  E-value: 1.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 500 KYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAEEREDGSrrttrydidmtKCIY 579
Cdd:NF038196  149 KKGPEKKKGFIPRLLSKLVNPLFYKFKVKDKKFHVTDKCIGCGICAKVCPVNNIEMEDGKPVWGH-----------NCTH 217

                          90
                  ....*....|...
gi 2106553066 580 CGFCQEACPVDAI 592
Cdd:NF038196  218 CLACIHRCPKEAI 230
 
Name Accession Description Interval E-value
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
479-637 1.27e-95

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 290.63  E-value: 1.27e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 479 FERSINTLFLTEMVRGLSLTLKYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAE 558
Cdd:PRK05888    1 IKQYLKSMLLKELLKGLGVTLKYFFKKKVTIQYPEEKLPLSPRFRGRHALRRDPNGEERCIACKLCAAICPADAITIEAA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 559 EREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDKEKLLENGDRWETEIAENLKSESLYR 637
Cdd:PRK05888   81 EREDGRRRTTRYDINFGRCIFCGFCEEACPTDAIVETPDFELATETREELIYDKEKLLANGDRVEREIAPGKAADANYR 159
NuoI TIGR01971
NADH-quinone oxidoreductase, chain I; This model represents the I subunit (one of 14: A->N) of ...
 494-615 4.86e-66

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


Pssm-ID: 273902 [Multi-domain]  Cd Length: 122  Bit Score: 212.28  E-value: 4.86e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 494 GLSLTLKYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAEEREDGSRRTTRYDID 573
Cdd:TIGR01971   1 GLGLTLKYFFSKPVTVQYPEEKLYLPPRFRGRIVLTRDPNGEEKCIGCTLCAAVCPADAIRVVPAEGEDGKRRLKFYEIN 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2106553066 574 MTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDKEKL 615
Cdd:TIGR01971  81 FGRCIFCGLCEEACPTDAIVLTPEFELATYTRSDLVYGKEDL 122
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 535-607 1.50e-26

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: 102.52  E-value: 1.50e-26
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEERedgsrrTTRYDIDMTKCIYCGFCQEACPVDAIVEGPnFEFATETHEE 607
Cdd:COG1143     1 EDKCIGCGLCVRVCPVDAITIEDGEP------GKVYVIDPDKCIGCGLCVEVCPTGAISMTP-FELAVEDREE 66
PRK12387 PRK12387
formate hydrogenlyase complex iron-sulfur subunit; Provisional
 491-620 2.45e-20

formate hydrogenlyase complex iron-sulfur subunit; Provisional


Pssm-ID: 183492 [Multi-domain]  Cd Length: 180  Bit Score: 88.94  E-value: 2.45e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 491 MVRGLSLTLKYffdPKVTINYPFEKGPLSPRFRG--EHALrryptgeERCIACKLCEAVCPAQAITIEAEEredgSRRTT 568
Cdd:PRK12387    1 MFKLIKKVIKT---GTATSSYPLEPIAVDKNFRGkpEYNP-------QQCIGCAACVNACPSNALTVETDL----ATGEL 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2106553066 569 RYDIDMTKCIYCGFCQEACPVDAIVEGPNFEFAtetheelLYDKEKLLENGD 620
Cdd:PRK12387   67 AWEFNLGRCIFCGRCEEVCPTAAIKLSQEFELA-------VWKKEDLLQQSE 111
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 535-593 2.84e-18

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: 81.29  E-value: 2.84e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgsrrtTRYDIDMTKCIYCGFCQEACPVDAIV 593
Cdd:cd10549    77 EEKCIGCGLCVKVCPVDAITLEDE---------LEIVIDKEKCIGCGICAEVCPVNAIK 126
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
526-599 1.61e-17

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 77.08  E-value: 1.61e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 526 HALRRYPTGEERCIACKLCEAVCPAQAITIEAEeredgsrrttRYDIDMTKCIYCGFCQEACPVDAIVEGPNFE 599
Cdd:COG2768     1 HSLGKPYVDEEKCIGCGACVKVCPVGAISIEDG----------KAVIDPEKCIGCGACIEVCPVGAIKIEWEED 64
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 535-614 6.51e-17

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: 77.44  E-value: 6.51e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEaeerEDGSRRTTRyDIDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDKEK 614
Cdd:cd10549     5 PEKCIGCGICVKACPTDAIELG----PNGAIARGP-EIDEDKCVFCGACVEVCPTGAIELTPEGKEYVPKEKEAEIDEEK 79
PRK08222 PRK08222
hydrogenase 4 subunit H; Validated
 507-612 7.97e-17

hydrogenase 4 subunit H; Validated


Pssm-ID: 181301 [Multi-domain]  Cd Length: 181  Bit Score: 78.64  E-value: 7.97e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 507 VTINYPFEKGPLSPRFRGEHALrryptGEERCIACKLCEAVCPAQAITIEAEErEDGSRRttrYDIDMTKCIYCGFCQEA 586
Cdd:PRK08222   14 ATVKYPFAPLEVSPGFRGKPDL-----MPSQCIACGACTCACPANALTIQTDD-QQNSRT---WQLYLGRCIYCGRCEEV 84

                          90       100
                  ....*....|....*....|....*.
gi 2106553066 587 CPVDAIVEGPNFEFATeTHEELLYDK 612
Cdd:PRK08222   85 CPTRAIQLTNNFELTV-TNKADLYTR 109
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 535-600 1.10e-16

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 74.70  E-value: 1.10e-16
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgsrrttRYDIDMTKCIYCGFCQEACPVDAIVEGPNFEF 600
Cdd:COG2221    14 EEKCIGCGLCVAVCPTGAISLDDG----------KLVIDEEKCIGCGACIRVCPTGAIKGEKPKKF 69
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 538-591 2.62e-16

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: 72.94  E-value: 2.62e-16
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 538 CIACKLCEAVCPAQAITIEAEEREDGsrrTTRYDIDMTKCIYCGFCQEACPVDA 591
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKKG---TKTVVIDPERCVGCGACVAVCPTGA 51
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 535-592 1.01e-15

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: 73.97  E-value: 1.01e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEaEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd10549    39 EDKCVFCGACVEVCPTGAIELT-PEGKEYVPKEKEAEIDEEKCIGCGLCVKVCPVDAI 95
ndhI CHL00014
NADH dehydrogenase subunit I
 493-612 3.19e-15

NADH dehydrogenase subunit I


Pssm-ID: 214334 [Multi-domain]  Cd Length: 167  Bit Score: 73.64  E-value: 3.19e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 493 RGLSLTLKYFFDPKVTINYPFEKGPLSPRFRGehalrRYPTGEERCIACKLCEAVCPAQAITIEAE-EREDGSRRTTRYD 571
Cdd:CHL00014   21 QGFMITLSHANRLPVTIQYPYEKLITSERFRG-----RIHFEFDKCIACEVCVRVCPIDLPVVDWKlETDIRKKRLLNYS 95

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2106553066 572 IDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEELLYDK 612
Cdd:CHL00014   96 IDFGVCIFCGNCVEYCPTNCLSMTEEYELSTYDRHELNYNQ 136
NapF COG1145
Ferredoxin [Energy production and conversion];
535-592 4.50e-15

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 75.14  E-value: 4.50e-15
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREdgsrrttrYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG1145   181 AEKCIGCGLCVKVCPTGAIRLKDGKPQ--------IVVDPDKCIGCGACVKVCPVGAI 230
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 535-593 1.34e-14

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 68.92  E-value: 1.34e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEaeereDGSRRttrydIDMTKCIYCGFCQEACPVDAIV 593
Cdd:COG4231    21 EDKCTGCGACVKVCPADAIEEG-----DGKAV-----IDPDLCIGCGSCVQVCPVDAIK 69
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 535-596 3.39e-14

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 67.45  E-value: 3.39e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEaeerEDGsrrttRYDIDMTKCIYCGFCQEACPVDAIVEGP 596
Cdd:COG1149    10 EEKCIGCGLCVEVCPEGAIKLD----DGG-----APVVDPDLCTGCGACVGVCPTGAITLEE 62
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 535-593 4.36e-14

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: 67.77  E-value: 4.36e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgsrrtTRYDIDMTKCIYCGFCQEACPVDAIV 593
Cdd:COG1144    29 EDKCIGCGLCWIVCPDGAIRVDDG---------KYYGIDYDYCKGCGICAEVCPVKAIE 78
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 535-592 1.39e-13

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 65.89  E-value: 1.39e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgSRRTTRYDIDmtKCIYCGFCQEACPVDAI 592
Cdd:COG1146     7 TDKCIGCGACVEVCPVDVLELDEE-----GKKALVINPE--ECIGCGACELVCPVGAI 57
Fer4_9 pfam13187
4Fe-4S dicluster domain;
537-592 3.84e-12

4Fe-4S dicluster domain;


Pssm-ID: 463801 [Multi-domain]  Cd Length: 50  Bit Score: 61.42  E-value: 3.84e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 537 RCIACKLCEAVCPAQAItieaeeREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:pfam13187   1 KCTGCGACVAACPAGAI------VPDLVGQTIRGDIAGLACIGCGACVDACPRGAI 50
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
535-614 1.51e-10

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 63.89  E-value: 1.51e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREdgsrrttrydIDMTKCIYCGFCQEACPVDAIVEgpnfefATETHE--ELLYDK 612
Cdd:COG4624    90 KEKCKNCYPCVRACPVKAIKVDDGKAE----------IDEEKCISCGQCVAVCPFGAITE------KSDIEKvkKALKDP 153


                  ..
gi 2106553066 613 EK 614
Cdd:COG4624   154 EK 155
PRK08348 PRK08348
NADH-plastoquinone oxidoreductase subunit; Provisional
 495-617 1.51e-10

NADH-plastoquinone oxidoreductase subunit; Provisional


Pssm-ID: 181399 [Multi-domain]  Cd Length: 120  Bit Score: 59.08  E-value: 1.51e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 495 LSLTLKYFFDPKVTINYP-FEKGPLSPRFRGEHALRRyptgeERCIACKLCEAVCPAQAITIEAEERedgsrrttRYDID 573
Cdd:PRK08348    5 LPTVLRNLFKKPATNLFPaTEPVPVPEDFRGKILYDV-----DKCVGCRMCVTVCPAGVFVYLPEIR--------KVALW 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2106553066 574 MTKCIYCGFCQEACPVDAIVEGPNFEFATETH--EELLYDKEKLLE 617
Cdd:PRK08348   72 TGRCVFCGQCVDVCPTGALQMSDDFLLASYDRfdEKFIPLKPEKVE 117
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
538-594 2.02e-10

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 61.87  E-value: 2.02e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 538 CIACKLCEAVCPAQAITIE---AEeredgsrrttrydIDMTKCIYCGFCQEACPVDAIVE 594
Cdd:PRK07118  215 CIGCGKCVKACPAGAITMEnnlAV-------------IDQEKCTSCGKCVEKCPTKAIRI 261
PRK13984 PRK13984
putative oxidoreductase; Provisional
 500-587 3.33e-10

putative oxidoreductase; Provisional


Pssm-ID: 172486 [Multi-domain]  Cd Length: 604  Bit Score: 62.86  E-value: 3.33e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 500 KYFFDPKVTINYPFEKGPLSPRFRGEHAlrrypTGEERCIACKLCEAVCPAQAIT-IEAEE--REDGSrRTTRYDIDMTK 576
Cdd:PRK13984   14 KFLFRKPVTIKVPNVKREAAERYRGFHI-----NDWEKCIGCGTCSKICPTDAITmVEVPDlpQEYGK-KPQRPVIDYGR 87

                          90
                  ....*....|.
gi 2106553066 577 CIYCGFCQEAC 587
Cdd:PRK13984   88 CSFCALCVDIC 98
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 525-593 6.52e-10

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: 57.40  E-value: 6.52e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 525 EHALRRYPTG-----EERCIACKLCEAVCPAQAITIEAEEREdgsrrttrydidMTKCIYCGF---------CQEACPVD 590
Cdd:cd04410    64 TGAIYKDEDGivlidEDKCIGCGSCVEACPYGAIVFDPEPGK------------AVKCDLCGDrldeglepaCVKACPTG 131


                  ...
gi 2106553066 591 AIV 593
Cdd:cd04410   132 ALT 134
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 526-593 9.92e-10

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 58.42  E-value: 9.92e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 526 HALRRYPTG-----EERCIACKLCEAVCPAQAITIeaeEREDGSrrttrydidMTKCIYCGF---------CQEACPVDA 591
Cdd:COG0437    75 GATYKREDGivlvdYDKCIGCRYCVAACPYGAPRF---NPETGV---------VEKCTFCADrldegllpaCVEACPTGA 142


                  ..
gi 2106553066 592 IV 593
Cdd:COG0437   143 LV 144
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
538-592 4.65e-09

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 55.05  E-value: 4.65e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2106553066 538 CIACKL--CEAVCPAQAITieaeeREDGsrrttRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG1142    52 CRHCEDapCAEVCPVGAIT-----RDDG-----AVVVDEEKCIGCGLCVLACPFGAI 98
EPL1 pfam10513
Enhancer of polycomb-like; This is a family of EPL1 (Enhancer of polycomb-like) proteins. The ...
 37-137 7.70e-09

Enhancer of polycomb-like; This is a family of EPL1 (Enhancer of polycomb-like) proteins. The EPL1 protein is a member of a histone acetyltransferase complex which is involved in transcriptional activation of selected genes.


Pssm-ID: 463128  Cd Length: 168  Bit Score: 55.19  E-value: 7.70e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066  37 QLLRLASSVELDHEVSPVPSK-KLASEIPTPQFVVVDSYERDysptfgqPASYLRA-RGARSELGEFVEYDLDNEDDDWL 114
Cdd:pfam10513  66 KKALSSSKKSQNTSESSVPAPnKERLYLPTPDAGKFREFERP-------PASYIRFsETVEEELDEGVEYDMDEEDEAWL 138

                          90       100
                  ....*....|....*....|....*...
gi 2106553066 115 YEFDKDNK-----QLSPEMFESIIFKLE 137
Cdd:pfam10513 139 EELNEKRKsegveKISEDEFEILMDRFE 166
Fer4_10 pfam13237
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 535-588 9.92e-09

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: 51.87  E-value: 9.92e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEA-EEREDGSRRttryDIDMTKCIYCGFCQEACP 588
Cdd:pfam13237   6 PDKCIGCGRCTAACPAGLTRVGAiVERLEGEAV----RIGVWKCIGCGACVEACP 56
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 535-592 1.01e-08

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: 54.57  E-value: 1.01e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREDGSRRTTRYDIdMTKCIYCGF------CQEACPVDAI 592
Cdd:cd10554    84 EERCIGCKLCVLACPFGAIEMAPTTVPGVDWERGPRAV-AVKCDLCAGreggpaCVEACPTKAL 146
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 529-593 1.24e-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: 53.73  E-value: 1.24e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 529 RRYPTGEERCIACKLCE-----AVCPAQAITIEAEereDGSRRttrydIDMTKCIYCGFCQEACPVDAIV 593
Cdd:cd10550    37 RFEPEGLDVPVVCRQCEdapcvEACPVGAISRDEE---TGAVV-----VDEDKCIGCGMCVEACPFGAIR 98
Fer4_16 pfam13484
4Fe-4S double cluster binding domain;
538-588 1.63e-08

4Fe-4S double cluster binding domain;


Pssm-ID: 463893 [Multi-domain]  Cd Length: 65  Bit Score: 51.34  E-value: 1.63e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 538 CIACKLCEAVCPAQAITIEAEEREdgSRRTTRYDIDMTK--------------CIYCGFCQEACP 588
Cdd:pfam13484   1 CGSCGKCIDACPTGAIVGPEGVLD--ARRCISYLTIEKKglipdelrcllgnrCYGCDICQDVCP 63
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
535-592 1.70e-08

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 57.56  E-value: 1.70e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgsrrtTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG1148   495 PEKCTGCGRCVEVCPYGAISIDEK---------GVAEVNPALCKGCGTCAAACPSGAI 543
PRK06273 PRK06273
ferredoxin; Provisional
 535-617 1.71e-08

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 54.33  E-value: 1.71e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 535 EERCIACKLCEAVCPAQAIT---IEAEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIvegpnFEFATETH-----E 606
Cdd:PRK06273   48 EELCIGCGGCANVCPTKAIEmipVEPVKITEGYVKTKIPKIDYEKCVYCLYCHDFCPVFAL-----FNEISPIHprdvgE 122

                          90
                  ....*....|.
gi 2106553066 607 ELLYDKEKLLE 617
Cdd:PRK06273  123 DIEVDVSKLLE 133
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
535-593 2.11e-08

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 53.12  E-value: 2.11e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREDGSrrttrydidmTKCIYCGF------CQEACPVDAIV 593
Cdd:COG1142    80 EEKCIGCGLCVLACPFGAITMVGEKSRAVA----------VKCDLCGGreggpaCVEACPTGALR 134
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 535-593 2.24e-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: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 53.41  E-value: 2.24e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIA------CKLCEAVCPAQAITIEAEereDGSRRTTrydIDMTKCIYCGFCQEACPVD---AIV 593
Cdd:cd16373    90 KDRCLAwqggtdCGVCVEACPTEAIAIVLE---DDVLRPV---VDEDKCVGCGLCEYVCPVEppkAIV 151
PsrB cd10551
polysulfide reductase beta (PsrB) subunit; This family includes the beta subunit of bacterial ...
 536-601 3.31e-08

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: 53.69  E-value: 3.31e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 536 ERCIACKLCEAVCPAQAITI---EAEEREDGSRRTTRYdidMTKCIYC------G---FCQEACPVDAIVEG----PNFE 599
Cdd:cd10551    83 DKCIGCRYCMAACPYGARYFnpeEPHEFGEVPVRPKGV---VEKCTFCyhrldeGllpACVEACPTGARIFGdlddPNSE 159


                  ..
gi 2106553066 600 FA 601
Cdd:cd10551   160 VS 161
FeFe_hydrog_B1 TIGR04105
[FeFe] hydrogenase, group B1/B3; See for descriptions of different groups.
 536-594 3.82e-08

[FeFe] hydrogenase, group B1/B3; See for descriptions of different groups.


Pssm-ID: 274983 [Multi-domain]  Cd Length: 462  Bit Score: 56.06  E-value: 3.82e-08
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2106553066 536 ERCIACKLCEAVCPAQAIT------IEA------EEREDGsrrttRYDIDMTKCIYCGFCQEACPVDAIVE 594
Cdd:TIGR04105 142 EKCIECGKCKKACPYNAIVeierpcEKAcpvgaiSSDEDG-----RAVIDYDKCISCGACMVACPFGAISD 207
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
535-592 5.41e-08

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 54.30  E-value: 5.41e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQaITIEAEEredgsrrttrydIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG0348   209 RGDCIDCGLCVKVCPMG-IDIRKGE------------INQSECINCGRCIDACPKDAI 253
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 544-592 6.39e-08

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 53.03  E-value: 6.39e-08
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2106553066 544 CEAVCPAQAITIeaeeREDGSRRttrydIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG0437    68 CVKVCPTGATYK----REDGIVL-----VDYDKCIGCRYCVAACPYGAP 107
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 500-592 1.26e-07

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: 52.94  E-value: 1.26e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 500 KYFFDPKVTINYPFEKGPLSPRFRGEHALRRYPTGEERCIACKLCEAVCPAQAITIEAEEREDGSrrttrydidmtKCIY 579
Cdd:NF038196  149 KKGPEKKKGFIPRLLSKLVNPLFYKFKVKDKKFHVTDKCIGCGICAKVCPVNNIEMEDGKPVWGH-----------NCTH 217

                          90
                  ....*....|...
gi 2106553066 580 CGFCQEACPVDAI 592
Cdd:NF038196  218 CLACIHRCPKEAI 230
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 527-592 1.90e-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: 50.27  E-value: 1.90e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 527 ALRR-YPTG-----EERCIACKLCEAVCPAQAITIEAEEREdgsrrttrydidMTKCIYCG---FCQEACPVDAI 592
Cdd:cd10550    65 AISRdEETGavvvdEDKCIGCGMCVEACPFGAIRVDPETGK------------AIKCDLCGgdpACVKVCPTGAL 127
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 537-592 2.28e-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: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 50.72  E-value: 2.28e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 537 RCIACKLCEAVCPAQAITIEAeeREDGSR--RTTRYDIDMTKCIYCG-FCQEACPVDAI 592
Cdd:cd16373    15 LCIRCGLCVEACPTGVIQPAG--LEDGLEggRTPYLDPREGPCDLCCdACVEVCPTGAL 71
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 570-592 3.25e-07

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: 46.47  E-value: 3.25e-07
                          10        20
                  ....*....|....*....|...
gi 2106553066 570 YDIDMTKCIYCGFCQEACPVDAI 592
Cdd:pfam00037   1 VVIDEEKCIGCGACVEVCPVGAI 23
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 539-592 3.68e-07

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: 49.55  E-value: 3.68e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 539 IACKLCEAVCPAQAITIEAeeREDGSRRTTrydIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd10564    86 VECRSCQDACPTQAIRFRP--RLGGIALPE---LDADACTGCGACVSVCPVGAI 134
DMSOR_beta_like cd16371
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 539-593 4.38e-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: 319893 [Multi-domain]  Cd Length: 140  Bit Score: 49.48  E-value: 4.38e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 539 IACKLCE-----AVCPAQAITIeaeeREDGsrrTTRYDIDmtKCIYCGFCQEACPVDAIV 593
Cdd:cd16371    52 MSCNHCEnpacvKVCPTGAITK----REDG---IVVVDQD--KCIGCGYCVWACPYGAPQ 102
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 538-592 4.81e-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: 49.19  E-value: 4.81e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2106553066 538 CIACKL--CEAVCPAQAItieaEEREDGSrrtTRYDIDmtKCIYCGFCQEACPVDAI 592
Cdd:cd16370    53 CRACEDppCAEACPTGAL----EPRKGGG---VVLDKE--KCIGCGNCVKACIVGAI 100
NapF COG1145
Ferredoxin [Energy production and conversion];
534-597 4.95e-07

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 51.26  E-value: 4.95e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 534 GEERCIACKLCEAVCPAQAITIEAEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIVEGPN 597
Cdd:COG1145   141 EAGLAILGAAAPVDALAISGGKKIEEELKIAIKKAKAVIDAEKCIGCGLCVKVCPTGAIRLKDG 204
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 524-563 7.48e-07

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 46.63  E-value: 7.48e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 2106553066 524 GEHALRRYPtgeERCIACKLCEAVCPAQAITIEAEEREDG 563
Cdd:COG1146    31 GKKALVINP---EECIGCGACELVCPVGAITVEDDEPEEQ 67
PsrB cd10551
polysulfide reductase beta (PsrB) subunit; This family includes the beta subunit of bacterial ...
 544-592 7.70e-07

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: 49.84  E-value: 7.70e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2106553066 544 CEAVCPAQAITIeaeeREDGsrrttRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd10551    61 CVKVCPTGATYK----REDG-----IVLVDYDKCIGCRYCMAACPYGAR 100
PFLE_PFLC TIGR02494
glycyl-radical enzyme activating protein; This subset of the radical-SAM family (pfam04055) ...
 535-592 9.14e-07

glycyl-radical enzyme activating protein; This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA), benzylsuccinate synthase (BssD), gycerol dehydratase (DhaB2) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0 to 8 additional cysteines.


Pssm-ID: 274163 [Multi-domain]  Cd Length: 295  Bit Score: 51.18  E-value: 9.14e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQaiTIEAEEREDGSrrtTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:TIGR02494  47 ENRCLGCGKCVEVCPAG--TARLSELADGR---NRIIIRREKCTHCGKCTEACPSGAL 99
PRK13795 PRK13795
hypothetical protein; Provisional
 537-589 9.34e-07

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 51.92  E-value: 9.34e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 537 RCIACKLCEAVCPAQAITIEAEERedgsrrttRYDIDMTKCIYCGFCQEACPV 589
Cdd:PRK13795  582 ECVGCGVCVGACPTGAIRIEEGKR--------KISVDEEKCIHCGKCTEVCPV 626
DMSOR_beta_like cd16374
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 537-592 9.71e-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: 319896 [Multi-domain]  Cd Length: 139  Bit Score: 48.43  E-value: 9.71e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 537 RCIACK--LCEAVCPAQAITIEaeerEDGSRRttrydIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd16374    42 RCRHCEdaPCMEVCPTGAIYRD----EDGAVL-----VDPDKCIGCGMCAMACPFGVP 90
Fer4_8 pfam13183
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 537-590 1.14e-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: 433017 [Multi-domain]  Cd Length: 64  Bit Score: 46.15  E-value: 1.14e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 537 RCIACKLCEAVCPA---------QAITIEAEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVD 590
Cdd:pfam13183   1 RCIRCGACLAACPVylvtggrfpGDPRGGAAALLGRLEALEGLAEGLWLCTLCGACTEVCPVG 63
PRK12771 PRK12771
putative glutamate synthase (NADPH) small subunit; Provisional
 538-596 1.36e-06

putative glutamate synthase (NADPH) small subunit; Provisional


Pssm-ID: 237198 [Multi-domain]  Cd Length: 564  Bit Score: 51.41  E-value: 1.36e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 538 CIACKLCEAVCPAQAITIEAEERedgsrrttRYDIDMTKCIYCGFCQEACPVDAIVEGP 596
Cdd:PRK12771  512 CFECDNCYGACPQDAIIKLGPGR--------RYHFDYDKCTGCHICADVCPCGAIEMGP 562
PRK14028 PRK14028
pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional
 537-592 1.53e-06

pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional


Pssm-ID: 172522 [Multi-domain]  Cd Length: 312  Bit Score: 50.38  E-value: 1.53e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 537 RCIACKLCEAVCPAQAItIEAEEREDGSR----RTTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:PRK14028  248 KCIMCRKCWLYCPDDAI-IEAWREAEGPRgrkfRMKMIDFDYQYCKGCGVCAEVCPTGAI 306
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 572-607 2.01e-06

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 45.47  E-value: 2.01e-06
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 2106553066 572 IDMTKCIYCGFCQEACPVDAIVEGPNFEFATETHEE 607
Cdd:COG1146     5 IDTDKCIGCGACVEVCPVDVLELDEEGKKALVINPE 40
DMSOR_beta_like cd16374
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 527-603 2.10e-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: 319896 [Multi-domain]  Cd Length: 139  Bit Score: 47.65  E-value: 2.10e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 527 ALRRYPTG-----EERCIACKLCEAVCPAQAITIEAEEREdgsrrttrydidMTKCIYCG---------FCQEACPVDAI 592
Cdd:cd16374    59 AIYRDEDGavlvdPDKCIGCGMCAMACPFGVPRFDPSLKV------------AVKCDLCIdrrregklpACVEACPTGAL 126

                          90
                  ....*....|.
gi 2106553066 593 VEGPNFEFATE 603
Cdd:cd16374   127 KFGDIEELLKE 137
vorD PRK09623
3-methyl-2-oxobutanoate dehydrogenase subunit delta;
535-592 2.10e-06

3-methyl-2-oxobutanoate dehydrogenase subunit delta;


Pssm-ID: 170016 [Multi-domain]  Cd Length: 105  Bit Score: 46.86  E-value: 2.10e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIeaeeREDGSrrttrYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:PRK09623   50 ESKCVKCYICWKFCPEPAIYI----KEDGY-----VAIDYDYCKGCGICANECPTKAI 98
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 536-592 2.47e-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: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 47.19  E-value: 2.47e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 536 ERCIACKLCEAVC---------PAQA-ITIEAEEREDgsrrttrYDIDMTkCIYCG--FCQEACPVDAI 592
Cdd:cd10550     6 EKCTGCRTCELACslkhegvfnPSLSrIRVVRFEPEG-------LDVPVV-CRQCEdaPCVEACPVGAI 66
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 527-592 2.50e-06

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


Pssm-ID: 319892 [Multi-domain]  Cd Length: 131  Bit Score: 47.27  E-value: 2.50e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2106553066 527 ALRRYPTG-----EERCIACKLCEAVCPAQAITIEAEeredgsrrtTRYDIdmtKCIYCGFCQEACPVDAI 592
Cdd:cd16370    69 ALEPRKGGgvvldKEKCIGCGNCVKACIVGAIFWDEE---------TNKPI---ICIHCGYCARYCPHDVL 127
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 535-596 2.84e-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: 47.00  E-value: 2.84e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPaQAITIEAEEREDGSRRTTRYDIDM----TKCIYCGF--CQEACPVDAIVEGP 596
Cdd:cd04410     5 LDRCIGCGTCEVACK-QEHGLRPGPDWSRIKVIEGGGLERaflpVSCMHCEDppCVKACPTGAIYKDE 71
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 566-597 3.96e-06

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 45.03  E-value: 3.96e-06
                          10        20        30
                  ....*....|....*....|....*....|....
gi 2106553066 566 RTT--RYDIDMTKCIYCGFCQEACPVDAIVEGPN 597
Cdd:COG4231    11 RTTamRYVIDEDKCTGCGACVKVCPADAIEEGDG 44
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
537-592 5.19e-06

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 49.25  E-value: 5.19e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 537 RCIACKLCEAVCPAQAITIEAEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG4624    53 RCCLCCCCCCRCCVAISCIQVRGIIIIDKRGPSIIRDKEKCKNCYPCVRACPVKAI 108
DMSOR_beta_like cd16371
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 535-592 5.38e-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: 319893 [Multi-domain]  Cd Length: 140  Bit Score: 46.40  E-value: 5.38e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2106553066 535 EERCIACKLCEAVCPAQAITIeaeeREDGSRrttrydidMTKCIYC------G---FCQEACPVDAI 592
Cdd:cd16371    83 QDKCIGCGYCVWACPYGAPQY----NPETGK--------MDKCDMCvdrldeGekpACVAACPTRAL 137
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 557-603 6.85e-06

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: 44.66  E-value: 6.85e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2106553066 557 AEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAI--VEGPNFEFATE 603
Cdd:COG1144    12 TAAYKTGGWRVERPVVDEDKCIGCGLCWIVCPDGAIrvDDGKYYGIDYD 60
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 535-592 7.70e-06

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: 47.68  E-value: 7.70e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEaeerEDGSRRttrydIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG2878   136 EYGCIGCGDCIKACPFDAIVGA----AKGMHT-----VDEDKCTGCGLCVEACPVDCI 184
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 533-597 9.36e-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: 45.40  E-value: 9.36e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2106553066 533 TGEERCIACKLCEAVCpAQAITIEaEEREDGSRRTTRYD--IDMTKCIYCGFCQEACPVDAIVEGPN 597
Cdd:cd16372     5 TDPEKCIGCLQCEEAC-SKTFFKE-EDREKSCIRITETEggYAINVCNQCGECIDVCPTGAITRDAN 69
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 535-563 9.60e-06

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 43.56  E-value: 9.60e-06
                          10        20
                  ....*....|....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIeaEEREDG 563
Cdd:COG1149    40 PDLCTGCGACVGVCPTGAITL--EEREAG 66
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 529-592 1.10e-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: 45.31  E-value: 1.10e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 529 RRYPTGEE-----RCIACKLCEAVCPAQAITIeaeeredGSRRTTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd10564     1 RPPWAVDEalfldLCTRCGDCVEACPEGIIVR-------GDGGFPELDFSRGECTFCGACAEACPEGAL 62
PRK09898 PRK09898
ferredoxin-like protein;
535-592 1.69e-05

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 46.37  E-value: 1.69e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREDgsrrttrydidmTKCIYCGFCQEACPVDAI 592
Cdd:PRK09898  153 HKRCIGCSACTTACPWMMATVNTESKKS------------SKCVLCGECANACPTGAL 198
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 572-593 1.82e-05

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 42.79  E-value: 1.82e-05
                          10        20
                  ....*....|....*....|..
gi 2106553066 572 IDMTKCIYCGFCQEACPVDAIV 593
Cdd:COG1149     8 IDEEKCIGCGLCVEVCPEGAIK 29
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 538-592 1.97e-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: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 44.25  E-value: 1.97e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 538 CIACKLCEAVCPAQAItIEAEEREDGSrrttrydidmtKCIYCGFCQEACPVDAI 592
Cdd:cd16372    79 CVGCLMCVGFCPEGAM-FKHEDYPEPF-----------KCIACGICVKACPTGAL 121
CooF_like cd10563
CooF, iron-sulfur subunit of carbon monoxide dehydrogenase; This family includes CooF, the ...
 527-593 2.15e-05

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


Pssm-ID: 319885 [Multi-domain]  Cd Length: 140  Bit Score: 44.55  E-value: 2.15e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 527 ALRRYP-TG-----EERCIACKLCEAVCPAQAITIEAEEREdgsrrttrydidMTKCIYCGF-----CQEACPVDAIV 593
Cdd:cd10563    73 AMHKDPeTGivihdEEKCVGCWMCVMVCPYGAIRPDKERKV------------ALKCDLCPDretpaCVEACPTGALV 138
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 538-593 2.21e-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: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 44.25  E-value: 2.21e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 538 CIACKLCEAVCPAQAITieaeeredgsrRTTR--YDIDMTKCIYCGFCQEACPVDAIV 593
Cdd:cd16372    49 CNQCGECIDVCPTGAIT-----------RDANgvVMINKKLCVGCLMCVGFCPEGAMF 95
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
535-570 2.33e-05

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 42.80  E-value: 2.33e-05
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREDGSRRTTRY 570
Cdd:COG2768    39 PEKCIGCGACIEVCPVGAIKIEWEEDEEFQEKMAEY 74
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 535-593 2.37e-05

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: 45.17  E-value: 2.37e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAITieaeeredGSRRTTRYDIdMTKCIYCGFCQEACPVDAIV 593
Cdd:TIGR01944 112 EDNCIGCTKCIQACPVDAIV--------GAAKAMHTVI-ADECTGCDLCVEPCPTDCIE 161
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 535-554 3.68e-05

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: 40.69  E-value: 3.68e-05
                          10        20
                  ....*....|....*....|
gi 2106553066 535 EERCIACKLCEAVCPAQAIT 554
Cdd:pfam00037   5 EEKCIGCGACVEVCPVGAIT 24
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 535-592 3.90e-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: 434137 [Multi-domain]  Cd Length: 59  Bit Score: 41.50  E-value: 3.90e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2106553066 535 EERCIACKLCEAVCPA---QAITIEAEeredgsrrtTRYDIDMTKCIYCGFCQEACPV-DAI 592
Cdd:pfam14697   5 EDTCIGCGKCYIACPDtshQAIVGDGK---------RHHTVIEDECTGCNLCVSVCPVdDCI 57
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 539-592 4.77e-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: 4.77e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 539 IACKLCE-----AVCPAQAITieaeeREDGSRRttrydIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd10554    54 VQCRQCEdapcaNVCPVGAIS-----QEDGVVQ-----VDEERCIGCKLCVLACPFGAI 102
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 535-561 5.37e-05

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 41.95  E-value: 5.37e-05
                          10        20
                  ....*....|....*....|....*..
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEERE 561
Cdd:COG4231    50 PDLCIGCGSCVQVCPVDAIKLEKRVPE 76
porD PRK09624
pyruvate ferredoxin oxidoreductase subunit delta; Reviewed
 535-593 6.98e-05

pyruvate ferredoxin oxidoreductase subunit delta; Reviewed


Pssm-ID: 170017 [Multi-domain]  Cd Length: 105  Bit Score: 42.32  E-value: 6.98e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEredgsrrttrYDI-DMTKCIYCGFCQEACPVDAIV 593
Cdd:PRK09624   50 RDKCVRCYLCYIYCPEPAIYLDEEG----------YPVfDYDYCKGCGICANECPTKAIE 99
DMSOR_beta_like cd16367
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 522-597 1.05e-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: 42.68  E-value: 1.05e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 522 FRGEHALRRyptGEERCIACKLCEAVCpaqaitieaEEREDGS----RRTTRYD-IDM-TKCIYC--GFCQEACPVDAIV 593
Cdd:cd16367     8 IQGTNLLVI---DLDRCIRCDNCEKAC---------ADTHDGHsrldRNGLRFGnLLVpTACRHCvdPVCMIGCPTGAIH 75


                  ....
gi 2106553066 594 EGPN 597
Cdd:cd16367    76 RDDG 79
NapF COG1145
Ferredoxin [Energy production and conversion];
535-561 1.12e-04

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 44.33  E-value: 1.12e-04
                          10        20
                  ....*....|....*....|....*..
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEERE 561
Cdd:COG1145   212 PDKCIGCGACVKVCPVGAISLEPKEIE 238
DMSOR_beta_like cd16369
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 538-588 1.25e-04

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


Pssm-ID: 319891 [Multi-domain]  Cd Length: 172  Bit Score: 43.15  E-value: 1.25e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 538 CIACKL--CEAVCPAQAITIEaeerEDGSRRTTrydiDMTKCIYCGFCQEACP 588
Cdd:cd16369    51 CMHCEDptCAEVCPADAIKVT----EDGVVQSA----LKPRCIGCSNCVNACP 95
FDH_b_like cd10562
uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes ...
 544-592 1.29e-04

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: 42.68  E-value: 1.29e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 2106553066 544 CEAVCPAQAITIEaeerEDGSrrttrYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd10562    78 CVKVCPTGALYKT----ENGA-----VVVDEDKCIGCGYCVAACPFDVP 117
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 571-612 1.78e-04

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


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 41.61  E-value: 1.78e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 2106553066 571 DIDMTKCIYCGFCQEACPVDAIVEGPNfeFATETHEELLYDK 612
Cdd:cd10549     2 KYDPEKCIGCGICVKACPTDAIELGPN--GAIARGPEIDEDK 41
PRK06991 PRK06991
electron transport complex subunit RsxB;
523-596 1.86e-04

electron transport complex subunit RsxB;


Pssm-ID: 235903 [Multi-domain]  Cd Length: 270  Bit Score: 43.63  E-value: 1.86e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 523 RGEHALRRYPTGEERCIAcKLCEAV-CPAqaITIEAEEREDGSRRTTRydIDMTKCIYCGFCQEACPVDAIVEGP 596
Cdd:PRK06991   37 AGEANYNRCPPGGAEGIA-RLAALLgKPV--IPLDPANGVERPRAVAV--IDEQLCIGCTLCMQACPVDAIVGAP 106
PRK08318 PRK08318
NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;
535-594 1.88e-04

NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;


Pssm-ID: 236237 [Multi-domain]  Cd Length: 420  Bit Score: 44.16  E-value: 1.88e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 535 EERCIACKLCEAVC---PAQAITIEaeerEDGSRRttrYDIDMTKCIYCGFCQEACPVDAIVE 594
Cdd:PRK08318  341 QDKCIGCGRCYIACedtSHQAIEWD----EDGTRT---PEVIEEECVGCNLCAHVCPVEGCIT 396
Fer4_17 pfam13534
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 537-590 2.06e-04

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: 39.75  E-value: 2.06e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 537 RCIACKLCEAVCP-AQAITIE----AEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVD 590
Cdd:pfam13534   1 RCIQCGCCVDECPrYLLNGDEpkklMRAAYLGDLEELQANKVANLCSECGLCEYACPMG 59
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 535-556 2.45e-04

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


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 41.23  E-value: 2.45e-04
                          10        20
                  ....*....|....*....|..
gi 2106553066 535 EERCIACKLCEAVCPAQAITIE 556
Cdd:cd10549   107 KEKCIGCGICAEVCPVNAIKLV 128
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 541-600 2.54e-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: 41.86  E-value: 2.54e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2106553066 541 CKLCEAVCPAQAITIEAEERED---GsrrTTRYDIDmtKCI-Y-----CGFCQEACPVDAIVEGPNFEF 600
Cdd:cd16373    59 CDACVEVCPTGALRPLDLEEQKvkmG---VAVIDKD--RCLaWqggtdCGVCVEACPTEAIAIVLEDDV 122
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 567-592 3.49e-04

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 39.26  E-value: 3.49e-04
                          10        20
                  ....*....|....*....|....*.
gi 2106553066 567 TTRYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:COG2221     7 TWPPKIDEEKCIGCGLCVAVCPTGAI 32
oorD PRK09626
2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed
 535-606 3.70e-04

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed


Pssm-ID: 236597 [Multi-domain]  Cd Length: 103  Bit Score: 40.09  E-value: 3.70e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEeredgSRRTTRYDIDMT---KCIYCGFCQEACPVDAI--VEGPNFEFATETHE 606
Cdd:PRK09626   15 ESRCKACDICVSVCPAGVLAMRID-----PHAVLGKMIKVVhpeSCIGCRECELHCPDFAIyvADRKEFKFAKLSKE 86
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 572-598 4.27e-04

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: 41.32  E-value: 4.27e-04
                          10        20
                  ....*....|....*....|....*..
gi 2106553066 572 IDMTKCIYCGFCQEACPVDAIVEGPNF 598
Cdd:TIGR01944 110 IDEDNCIGCTKCIQACPVDAIVGAAKA 136
FDH_beta_like cd16366
beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family ...
 527-595 6.79e-04

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: 40.46  E-value: 6.79e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 527 ALRRYPTG-----EERCIACKLCEAVCPAQAITIEAEeredgsrrttryDIDMTKCIYC------GF---CQEACPVDAI 592
Cdd:cd16366    86 AIIRTETGtvvvdPETCIGCGYCVNACPFDIPRFDEE------------TGRVAKCTLCydrisnGLqpaCVKTCPTGAL 153


                  ...
gi 2106553066 593 VEG 595
Cdd:cd16366   154 TFG 156
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 536-559 7.51e-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: 38.88  E-value: 7.51e-04
                          10        20
                  ....*....|....*....|....
gi 2106553066 536 ERCIACKLCEAVCPAQAITIEAEE 559
Cdd:COG1144    60 DYCKGCGICAEVCPVKAIEMVPEE 83
Fer4_6 pfam12837
4Fe-4S binding domain; This superfamily includes proteins containing domains which bind to ...
 535-553 7.78e-04

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: 37.21  E-value: 7.78e-04
                          10
                  ....*....|....*....
gi 2106553066 535 EERCIACKLCEAVCPAQAI 553
Cdd:pfam12837   6 PDKCIGCGRCVVVCPYGAI 24
PRK12769 PRK12769
putative oxidoreductase Fe-S binding subunit; Reviewed
 535-592 7.83e-04

putative oxidoreductase Fe-S binding subunit; Reviewed


Pssm-ID: 183733 [Multi-domain]  Cd Length: 654  Bit Score: 42.43  E-value: 7.83e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREDGSRRTTRYdidmtKCIYCG------FCQEACPVDAI 592
Cdd:PRK12769   84 QQKCIGCKSCVVACPFGTMQIVLTPVAAGKVKATAH-----KCDLCAgrengpACVENCPADAL 142
PRK09898 PRK09898
ferredoxin-like protein;
536-588 8.54e-04

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 40.97  E-value: 8.54e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 536 ERCIACK--LCEAVCPAQAITIEAEEredGSrrttrYDIDMTKCIYCGFCQEACP 588
Cdd:PRK09898  121 DTCRQCKepQCMNVCPIGAITWQQKE---GC-----ITVDHKRCIGCSACTTACP 167
PRK06259 PRK06259
succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Provisional
 538-629 8.74e-04

succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Provisional


Pssm-ID: 235756 [Multi-domain]  Cd Length: 486  Bit Score: 42.30  E-value: 8.74e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 538 CIACKLCEAVCPAQAIT-------------IEAEEREDGSRRTTRYDIDMTKCIYCGFCQEACPVDAIVEGPnfefATET 604
Cdd:PRK06259  135 CIECLSCVSTCPARKVSdypgptfmrqlarFAFDPRDEGDREKEAFDEGLYNCTTCGKCVEVCPKEIDIPGK----AIEK 210

                          90       100
                  ....*....|....*....|....*
gi 2106553066 605 HEELLYDKEKLLENgdrwETEIAEN 629
Cdd:PRK06259  211 LRALAFKKGLGLPA----HLEVREN 231
HybA_like cd10561
the FeS subunit of hydrogenase 2; This subfamily includes the beta-subunit of hydrogenase 2 ...
 526-622 1.01e-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: 40.66  E-value: 1.01e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 526 HALRRYPTG-----EERCIACKLCEAVCPAQAITIEaeeredgsrrttrYDI---DMTKCIYCgF----------CQEAC 587
Cdd:cd10561    84 GALRKTPEGpvtydEDKCIGCRYCMVACPFNIPKYE-------------WDSanpKIRKCTMC-YdrlkegkqpaCVEAC 149

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2106553066 588 PVDAIVEGPnfefatetHEELLYD-KEKLLENGDRW 622
Cdd:cd10561   150 PTGALLFGK--------REELLAEaKRRIAANPGRY 177
DMSOR_beta_like cd16369
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 536-596 1.02e-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: 319891 [Multi-domain]  Cd Length: 172  Bit Score: 40.45  E-value: 1.02e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2106553066 536 ERCIACKLCEAVCpaqaitiEAEEREDGSRRTTRYDID--------MTKCIYC--GFCQEACPVDAIVEGP 596
Cdd:cd16369     9 SRCIGCRACVAAC-------RECGTHRGKSMIHVDYIDrgestqtaPTVCMHCedPTCAEVCPADAIKVTE 72
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 536-598 1.06e-03

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: 39.94  E-value: 1.06e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 536 ERCIACKLCEAVCpAQAitieAEEREDGSRRTTRYDI----------DMTKCIYC-----GFCQEACPVDAIVEGPNF 598
Cdd:cd10554     7 DKCIGCRTCEVAC-AAA----HSGKGIFEAGTDGLPFlprlrvvktgEVTAPVQCrqcedAPCANVCPVGAISQEDGV 79
PRK06991 PRK06991
electron transport complex subunit RsxB;
535-592 1.24e-03

electron transport complex subunit RsxB;


Pssm-ID: 235903 [Multi-domain]  Cd Length: 270  Bit Score: 41.32  E-value: 1.24e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 535 EERCIACKLCEAVCPAQAI--------TIEAEEredgsrrttrydidmtkCIYCGFCQEACPVDAI 592
Cdd:PRK06991   84 EQLCIGCTLCMQACPVDAIvgapkqmhTVLADL-----------------CTGCDLCVPPCPVDCI 132
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 535-599 1.24e-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: 41.13  E-value: 1.24e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 535 EERCIACKLCEAVCPAQAITIEAEEREDgSRRTTRYDIDMTKCIYC-GFCQEACPVDAIVEGPNFE 599
Cdd:COG2878   166 EDKCTGCGLCVEACPVDCIEMVPVSPTV-VVSSWDKGKAVRKVVGCiGLCCKKCCPAAAITVNNLA 230
FDH_b_like cd10562
uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes ...
 535-596 1.29e-03

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


Pssm-ID: 319884 [Multi-domain]  Cd Length: 161  Bit Score: 39.98  E-value: 1.29e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2106553066 535 EERCIACKLCEAVCPAQAItieaeeredgsrRTTRYDIDMTKCIYC------GF---CQEACPVDAIVEGP 596
Cdd:cd10562    99 EDKCIGCGYCVAACPFDVP------------RYDETTNKITKCTLCfdrienGMqpaCVKTCPTGALTFGD 157
napF TIGR00402
ferredoxin-type protein NapF; The gene codes for a ferredoxin-type cytosolic protein, NapF, of ...
 537-602 1.36e-03

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: 38.39  E-value: 1.36e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 537 RCIACKLCEAVCPAQAItieaeEREDGSRRTTRydIDMTKCIYCGFCQEACPVDAIveGPNFEFAT 602
Cdd:TIGR00402  35 VCTRCGECASACENNIL-----QLGQQGQPTVE--FDNAECDFCGKCAEACPTNAF--HPRFPGDW 91
PRK00783 PRK00783
DNA-directed RNA polymerase subunit D; Provisional
 523-604 1.42e-03

DNA-directed RNA polymerase subunit D; Provisional


Pssm-ID: 234837 [Multi-domain]  Cd Length: 263  Bit Score: 41.02  E-value: 1.42e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 523 RG-EHA---------LRRYP--TGEERCIACKLCEAVCPAQAITIEAEEREDGsrrttrydiDMTKCIYCGFCQEACPVD 590
Cdd:PRK00783  144 RGkEHAkwqpgsacgYKYYPriEVSEDCDECEKCVEACPRGVLELKEGKLVVT---------DLLNCSLCKLCERACPGK 214

                          90
                  ....*....|....*..
gi 2106553066 591 AIVEG--PN-FEFATET 604
Cdd:PRK00783  215 AIRVSddENkFIFTVES 231
Fer4_6 pfam12837
4Fe-4S binding domain; This superfamily includes proteins containing domains which bind to ...
 572-592 1.52e-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: 36.05  E-value: 1.52e-03
                          10        20
                  ....*....|....*....|.
gi 2106553066 572 IDMTKCIYCGFCQEACPVDAI 592
Cdd:pfam12837   4 VDPDKCIGCGRCVVVCPYGAI 24
PRK10330 PRK10330
electron transport protein HydN;
535-593 1.84e-03

electron transport protein HydN;


Pssm-ID: 182382 [Multi-domain]  Cd Length: 181  Bit Score: 39.87  E-value: 1.84e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 535 EERCIACKLCEAVCP--AQAITIEAEEREDGSRRTTR-YDIDMTKCIYCGF------CQEACPVDAIV 593
Cdd:PRK10330   86 QERCIGCKTCVVACPygAMEVVVRPVIRNSGAGLNVRaEKAEANKCDLCNHredgpaCMAACPTHALI 153
Fer4_18 pfam13746
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 523-587 2.85e-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: 404610 [Multi-domain]  Cd Length: 114  Bit Score: 37.76  E-value: 2.85e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2106553066 523 RGEHALRRYPTG------EER-------CIACKLCEAVCPAqAITIeaeeredgsRRTTRYDidmtkCIYCGFCQEAC 587
Cdd:pfam13746  33 RGEGIYGRKPPKaglktkELRqqkgvgdCIDCESCVQVCPT-GIDI---------RKGLQLE-----CINCGLCIDAC 95
Fer COG1141
Ferredoxin [Energy production and conversion];
535-592 2.97e-03

Ferredoxin [Energy production and conversion];


Pssm-ID: 440756 [Multi-domain]  Cd Length: 63  Bit Score: 36.40  E-value: 2.97e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2106553066 535 EERCIACKLCEAVCP----------AQAI--TIEAEEREDgsrrttrydidmtkciycgfCQEA---CPVDAI 592
Cdd:COG1141     7 RDTCIGCGLCVALAPevfeldddgkAVVLdeEVPEELEED--------------------VREAadaCPVGAI 59
QueG COG1600
Epoxyqueuosine reductase QueG (queuosine biosynthesis) [Translation, ribosomal structure and ...
 535-617 3.52e-03

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


Pssm-ID: 441208 [Multi-domain]  Cd Length: 345  Bit Score: 40.19  E-value: 3.52e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 535 EERCIACKLCEAVCPAQAI---------------TIE------AEEREdgsrrttrydiDMTKCIY-CGFCQEACPVdai 592
Cdd:COG1600   183 EDHCGSCTRCLDACPTGAIvapyvldarrcisylTIElkgpipEELRP-----------KMGNRIYgCDDCQDVCPW--- 248

                          90       100
                  ....*....|....*....|....*
gi 2106553066 593 vegpNfEFATETHEELLYDKEKLLE 617
Cdd:COG1600   249 ----N-RFAQPTREPDFQPRPELAA 268
FDH_beta_like cd16366
beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family ...
 537-592 3.76e-03

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


Pssm-ID: 319888 [Multi-domain]  Cd Length: 156  Bit Score: 38.53  E-value: 3.76e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2106553066 537 RCIACKLCE-----AVCPAQAITieaeEREDGSrrttrYDIDMTKCIYCGFCQEACPVDAI 592
Cdd:cd16366    66 RKDQCMHCTdagclAACPTGAII----RTETGT-----VVVDPETCIGCGYCVNACPFDIP 117
RDH TIGR02486
reductive dehalogenase; This model represents a family of corrin and 8-iron Fe-S ...
 538-588 4.21e-03

reductive dehalogenase; This model represents a family of corrin and 8-iron Fe-S cluster-containing reductive dehalogenases found primarily in halorespiring microorganisms such as dehalococcoides ethenogenes which contains as many as 17 enzymes of this type with varying substrate ranges. One example of a characterized species is the tetrachloroethene reductive dehalogenase (1.97.1.8) which also acts on trichloroethene converting it to dichloroethene.


Pssm-ID: 274158  Cd Length: 314  Bit Score: 39.73  E-value: 4.21e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2106553066 538 CIACKLCEAVCPAQAITIEAEEREDGSRRTTRYD----------IDMTKCI----------YCGFCQEACP 588
Cdd:TIGR02486 207 CETCGKCADECPSGAISKGGEPTWDPEDSNGDPPgennpglkwqYDGWRCLlfrcynegggGCGVCQAVCP 277
GlpC COG0247
Fe-S cluster-containing oxidoreductase, includes glycolate oxidase subunit GlcF [Energy ...
 536-590 4.56e-03

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


Pssm-ID: 440017 [Multi-domain]  Cd Length: 420  Bit Score: 39.68  E-value: 4.56e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2106553066 536 ERCIACKLCEAVCPAQAIT-----------------IEAEEREDGSRRTTRYdidMTKCIYCGFCQEACPVD 590
Cdd:COG0247    78 DACVGCGFCRAMCPSYKATgdekdsprgrinllrevLEGELPLDLSEEVYEV---LDLCLTCKACETACPSG 146
Fer4_8 pfam13183
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 576-622 4.67e-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: 36.13  E-value: 4.67e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2106553066 576 KCIYCGFCQEACPVdAIVEGPNFEFAT-ETHEELLYDKEKLLENGDRW 622
Cdd:pfam13183   1 RCIRCGACLAACPV-YLVTGGRFPGDPrGGAAALLGRLEALEGLAEGL 47
PRK05113 PRK05113
electron transport complex protein RnfB; Provisional
 572-593 5.14e-03

electron transport complex protein RnfB; Provisional


Pssm-ID: 235347 [Multi-domain]  Cd Length: 191  Bit Score: 38.39  E-value: 5.14e-03
                          10        20
                  ....*....|....*....|..
gi 2106553066 572 IDMTKCIYCGFCQEACPVDAIV 593
Cdd:PRK05113  111 IDEDNCIGCTKCIQACPVDAIV 132
PRK08764 PRK08764
Rnf electron transport complex subunit RnfB;
521-593 5.86e-03

Rnf electron transport complex subunit RnfB;


Pssm-ID: 181550 [Multi-domain]  Cd Length: 135  Bit Score: 37.59  E-value: 5.86e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2106553066 521 RFRGEHALRRYP-TGEERCIACKLCEAVCPAQAITIEAEEredgsrrttRYDIDMTKCIYCGFCQEACPVDAIV 593
Cdd:PRK08764   69 RSRGTHKLPQVAwIVEADCIGCTKCIQACPVDAIVGGAKH---------MHTVIAPLCTGCELCVPACPVDCIE 133
PRK09326 PRK09326
F420H2 dehydrogenase subunit F; Provisional
 538-594 7.15e-03

F420H2 dehydrogenase subunit F; Provisional


Pssm-ID: 181779 [Multi-domain]  Cd Length: 341  Bit Score: 39.05  E-value: 7.15e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 538 CIACKLCEAVCPAQAITIE--AEEREDGSRRTTRYDIDMTKCIYCGFCQEACPV-DAIVE 594
Cdd:PRK09326   14 CTACGACEAVCPIGAITVDkkAEIRDPNDLELYEKGAAPNVCEGCLTCSRICPVvDGYIE 73
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 572-597 7.25e-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: 35.33  E-value: 7.25e-03
                          10        20
                  ....*....|....*....|....*....
gi 2106553066 572 IDMTKCIYCGFCQEACP---VDAIVEGPN 597
Cdd:pfam14697   3 IDEDTCIGCGKCYIACPdtsHQAIVGDGK 31
Fer4_2 pfam12797
4Fe-4S binding domain; This superfamily includes proteins containing domains which bind to ...
 535-550 7.58e-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: 463711 [Multi-domain]  Cd Length: 22  Bit Score: 34.30  E-value: 7.58e-03
                          10
                  ....*....|....*.
gi 2106553066 535 EERCIACKLCEAVCPA 550
Cdd:pfam12797   7 ADKCIGCGACVSACPA 22
RNAP_D cd07030
D subunit of Archaeal RNA polymerase; The D subunit of archaeal RNA polymerase (RNAP) is ...
 525-630 8.38e-03

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


Pssm-ID: 132908 [Multi-domain]  Cd Length: 259  Bit Score: 38.40  E-value: 8.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 525 EHA---------LRRYPTGE--ERCIACKLCEAVCPAQAITIEAEEREDGsrrttrydiDMTKCIYCGFCQEACPVDAIV 593
Cdd:cd07030   147 EHAkwqpttacgYKYYPVIEidEDCDGCGKCVEECPRGVLELEEGKVVVE---------DLEDCSLCKLCERACDAGAIR 217

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2106553066 594 EGP---NFEFATETH-----EELLydKEKLLENGDRWEtEIAENL 630
Cdd:cd07030   218 VGWdedRFIFEVESDgslppKEIL--LEALRILKEKAD-ELIEAL 259
SIMIBI_bact_arch cd03110
bacterial and archaeal subfamily of SIMIBI; Uncharacterized bacterial and archaeal subfamily ...
 535-596 8.47e-03

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


Pssm-ID: 349764 [Multi-domain]  Cd Length: 246  Bit Score: 38.52  E-value: 8.47e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2106553066 535 EERCIACKLCEAVCPAQAITieaeerEDGsrrtTRYDIDMTKCIYCGFCQEACPVDAIVEGP 596
Cdd:cd03110    63 QEKCIRCGNCERVCKFGAIL------EFF----QKLIVDESLCEGCGACVIICPRGAIYLKD 114
PRK12576 PRK12576
succinate dehydrogenase/fumarate reductase iron-sulfur subunit;
467-590 8.63e-03

succinate dehydrogenase/fumarate reductase iron-sulfur subunit;


Pssm-ID: 237143 [Multi-domain]  Cd Length: 279  Bit Score: 38.58  E-value: 8.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2106553066 467 LAKEISKDWNTVFerSINTLFLTEMVRGLSLTLKYFFD------PKVTINYPFEKGPLSPRFRGEHALRRYPTGEerCIA 540
Cdd:PRK12576   81 LVLDVAKKYNSVI--TIEPMDYFKVVKDLIVDFDEFYErmfkvkPRLYRAKEVLEGKAEHRLKPEDQKELWKFAQ--CIW 156

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2106553066 541 CKLCEAVCPAQAITIE--------------AEEREDGSRRTTRYDIDMT-KCIYCGFCQEACPVD 590
Cdd:PRK12576  157 CGLCVSACPVVAIDPEflgpaahakgyrflADPRDTITEERMKILIDSSwRCTYCYSCSNVCPRD 221
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
538-593 9.60e-03

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 38.38  E-value: 9.60e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2106553066 538 CIACKLCEAVCPAQAITIEaeereDGSRRttrydIDMTKCIYCGFCQEACPVDAIV 593
Cdd:PRK07118  141 CLGLGSCVAACPFDAIHIE-----NGLPV-----VDEDKCTGCGACVKACPRNVIE 186
 
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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