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Conserved domains on  [gi|502626215|ref|WP_012862938|]
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ferredoxin family protein [Sebaldella termitidis]

Protein Classification

ferredoxin family protein( domain architecture ID 11439153)

ferredoxin-like protein that may be a iron-sulfur cluster-containing protein which mediates electron transfer

CATH:  3.30.70.20
Gene Ontology:  GO:0046872|GO:0009055|GO:0051536
PubMed:  3078742|2185975

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 1-66 9.59e-15

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


:

Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 61.65  E-value: 9.59e-15
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215  1 MPTKVDDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVTYEEECWHCGICWMECPKRAIDIVLPPSLW 66
Cdd:COG1146   1 MMPVIDTDKCIGCGACVEVCPVDVLELDEEGKKALVINPEECIGCGACELVCPVGAITVEDDEPEE 66
 
Name Accession Description Interval E-value
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 1-66 9.59e-15

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 61.65  E-value: 9.59e-15
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215  1 MPTKVDDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVTYEEECWHCGICWMECPKRAIDIVLPPSLW 66
Cdd:COG1146   1 MMPVIDTDKCIGCGACVEVCPVDVLELDEEGKKALVINPEECIGCGACELVCPVGAITVEDDEPEE 66
PRK13409 PRK13409
ribosome biogenesis/translation initiation ATPase RLI;
16-62 3.07e-07

ribosome biogenesis/translation initiation ATPase RLI;


Pssm-ID: 184037 [Multi-domain]  Cd Length: 590  Bit Score: 44.80  E-value: 3.07e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 502626215  16 CYNLCPL-----DVFTWQEEIKKPkVTYEEECWHCGICWMECPKRAIDIV-LP 62
Cdd:PRK13409  21 CIKYCPVvrtgeETIEIDEDDGKP-VISEELCIGCGICVKKCPFDAISIVnLP 72
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 6-60 3.39e-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: 43.80  E-value: 3.39e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 502626215   6 DDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVtyeeeCWHCGICWMECPKRAIDIV 60
Cdd:cd16370   81 DKEKCIGCGNCVKACIVGAIFWDEETNKPII-----CIHCGYCARYCPHDVLAME 130
aprB TIGR02060
adenosine phosphosulphate reductase, beta subunit; During dissimilatory sulfate reduction and ...
 1-59 6.11e-07

adenosine phosphosulphate reductase, beta subunit; During dissimilatory sulfate reduction and sulfur oxidation, adenylylsulfate (APS) reductase catalyzes reversibly the two-electron reduction of APS to sulfite and AMP. Found in several bacterial lineages and in Archaeoglobales, APS reductase is a heterodimer composed of an alpha subunit containing a noncovalently bound FAD, and a beta subunit containing two [4Fe-4S] clusters. Described by this model is the beta subunit of APS reductase, sharing common evolutionary origin with other iron-sulfur cluster-binding proteins. [Central intermediary metabolism, Sulfur metabolism]


Pssm-ID: 131115 [Multi-domain]  Cd Length: 132  Bit Score: 43.04  E-value: 6.11e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 502626215    1 MPTKVDDNQCIGCK-----KCYNLCPLDVFTWQEEIKKPKVTYEEECWHCGICWMECPKRAIDI 59
Cdd:TIGR02060   1 MPTFVYPTKCDGCKagektACVYICPNDLMHLDTEIMKAYNIEPDMCWECYSCVKACPQGAIDV 64
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 4-59 1.24e-05

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: 40.23  E-value: 1.24e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 502626215   4 KVDDNqCIGCKKCYNLCPLDVFTWQEeiKKPKvtYEEECWHC--GICWmeCPKRAIDI 59
Cdd:NF038196 182 HVTDK-CIGCGICAKVCPVNNIEMED--GKPV--WGHNCTHClaCIHR--CPKEAIEY 232
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 10-56 2.56e-04

4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.


Pssm-ID: 463724 [Multi-domain]  Cd Length: 51  Bit Score: 34.81  E-value: 2.56e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 502626215  10 CIGCKKCYNLCPLDVFTWQEEIKKPKVTY----EEECWHCGICWMECPKRA 56
Cdd:pfam12838  1 CIGCGACVAACPVGAITLDEVGEKKGTKTvvidPERCVGCGACVAVCPTGA 51
 
Name Accession Description Interval E-value
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 1-66 9.59e-15

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 61.65  E-value: 9.59e-15
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215  1 MPTKVDDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVTYEEECWHCGICWMECPKRAIDIVLPPSLW 66
Cdd:COG1146   1 MMPVIDTDKCIGCGACVEVCPVDVLELDEEGKKALVINPEECIGCGACELVCPVGAITVEDDEPEE 66
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
4-59 3.94e-10

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 53.33  E-value: 3.94e-10
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215   4 KVDDNQCIGCKKCYNLCPLDVFTWqEEIKKPKVTyEEECWHCGICWMECPKRAIDI 59
Cdd:COG1148  492 EVDPEKCTGCGRCVEVCPYGAISI-DEKGVAEVN-PALCKGCGTCAAACPSGAISL 545
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 4-60 1.55e-08

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 45.87  E-value: 1.55e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 502626215  4 KVDDNQCIGCKKCYNLCPLDVFTWQEEikKPKVTYEEECWHCGICWMECPKRAIDIV 60
Cdd:COG1149   7 VIDEEKCIGCGLCVEVCPEGAIKLDDG--GAPVVDPDLCTGCGACVGVCPTGAITLE 61
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 5-60 2.97e-08

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: 45.43  E-value: 2.97e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215  5 VDDNQCIGCKKCYNLCPLDVFTWqEEIKKPKVTYEEeCWHCGICWMECPKRAIDIV 60
Cdd:COG1144  27 VDEDKCIGCGLCWIVCPDGAIRV-DDGKYYGIDYDY-CKGCGICAEVCPVKAIEMV 80
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 1-57 4.14e-08

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: 4.14e-08
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 502626215  1 MPTKVDDNQCIGCKKCYNLCPLDVFtwqEEIKKPKVTYEEECWHCGICWMECPKRAI 57
Cdd:COG4231  15 MRYVIDEDKCTGCGACVKVCPADAI---EEGDGKAVIDPDLCIGCGSCVQVCPVDAI 68
PRK13409 PRK13409
ribosome biogenesis/translation initiation ATPase RLI;
16-62 3.07e-07

ribosome biogenesis/translation initiation ATPase RLI;


Pssm-ID: 184037 [Multi-domain]  Cd Length: 590  Bit Score: 44.80  E-value: 3.07e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 502626215  16 CYNLCPL-----DVFTWQEEIKKPkVTYEEECWHCGICWMECPKRAIDIV-LP 62
Cdd:PRK13409  21 CIKYCPVvrtgeETIEIDEDDGKP-VISEELCIGCGICVKKCPFDAISIVnLP 72
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 6-60 3.39e-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: 43.80  E-value: 3.39e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 502626215   6 DDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVtyeeeCWHCGICWMECPKRAIDIV 60
Cdd:cd16370   81 DKEKCIGCGNCVKACIVGAIFWDEETNKPII-----CIHCGYCARYCPHDVLAME 130
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 2-62 3.80e-07

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 42.35  E-value: 3.80e-07
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 502626215  2 PTKVDDNQCIGCKKCYNLCPLDVFTWQEeiKKPKVTyEEECWHCGICWMECPKRAIDIVLP 62
Cdd:COG2221   9 PPKIDEEKCIGCGLCVAVCPTGAISLDD--GKLVID-EEKCIGCGACIRVCPTGAIKGEKP 66
aprB TIGR02060
adenosine phosphosulphate reductase, beta subunit; During dissimilatory sulfate reduction and ...
 1-59 6.11e-07

adenosine phosphosulphate reductase, beta subunit; During dissimilatory sulfate reduction and sulfur oxidation, adenylylsulfate (APS) reductase catalyzes reversibly the two-electron reduction of APS to sulfite and AMP. Found in several bacterial lineages and in Archaeoglobales, APS reductase is a heterodimer composed of an alpha subunit containing a noncovalently bound FAD, and a beta subunit containing two [4Fe-4S] clusters. Described by this model is the beta subunit of APS reductase, sharing common evolutionary origin with other iron-sulfur cluster-binding proteins. [Central intermediary metabolism, Sulfur metabolism]


Pssm-ID: 131115 [Multi-domain]  Cd Length: 132  Bit Score: 43.04  E-value: 6.11e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 502626215    1 MPTKVDDNQCIGCK-----KCYNLCPLDVFTWQEEIKKPKVTYEEECWHCGICWMECPKRAIDI 59
Cdd:TIGR02060   1 MPTFVYPTKCDGCKagektACVYICPNDLMHLDTEIMKAYNIEPDMCWECYSCVKACPQGAIDV 64
Rli1 COG1245
Translation initiation factor RLI1, contains Fe-S and AAA+ ATPase domains [Translation, ...
 16-62 1.37e-06

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


Pssm-ID: 440858 [Multi-domain]  Cd Length: 592  Bit Score: 43.23  E-value: 1.37e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 502626215  16 CYNLCPL-----DVFTWQEEIKKPkVTYEEECWHCGICWMECPKRAIDIV-LP 62
Cdd:COG1245   21 CIKYCPVnrtgkEAIEIDEDDGKP-VISEELCIGCGICVKKCPFDAISIVnLP 72
PRK08348 PRK08348
NADH-plastoquinone oxidoreductase subunit; Provisional
 6-57 1.96e-06

NADH-plastoquinone oxidoreductase subunit; Provisional


Pssm-ID: 181399 [Multi-domain]  Cd Length: 120  Bit Score: 41.74  E-value: 1.96e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 502626215   6 DDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVtYEEECWHCGICWMECPKRAI 57
Cdd:PRK08348  40 DVDKCVGCRMCVTVCPAGVFVYLPEIRKVAL-WTGRCVFCGQCVDVCPTGAL 90
oorD PRK09626
2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed
 2-57 9.59e-06

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed


Pssm-ID: 236597 [Multi-domain]  Cd Length: 103  Bit Score: 39.32  E-value: 9.59e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 502626215   2 PTKVDDNQCIGCKKCYNLCPLDVFTWQEEIKKP-----KVTYEEECWHCGICWMECPKRAI 57
Cdd:PRK09626  10 PVWVDESRCKACDICVSVCPAGVLAMRIDPHAVlgkmiKVVHPESCIGCRECELHCPDFAI 70
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 4-59 1.24e-05

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: 40.23  E-value: 1.24e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 502626215   4 KVDDNqCIGCKKCYNLCPLDVFTWQEeiKKPKvtYEEECWHC--GICWmeCPKRAIDI 59
Cdd:NF038196 182 HVTDK-CIGCGICAKVCPVNNIEMED--GKPV--WGHNCTHClaCIHR--CPKEAIEY 232
PorD_KorD TIGR02179
2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; A number ...
 5-61 1.27e-05

2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; A number of anaerobic and microaerophilic species lack pyruvate dehydrogenase and have instead a four subunit, oxygen-sensitive pyruvate oxidoreductase, with either ferredoxins or flavodoxins used as the acceptor. Several related four-subunit enzymes may exist in the same species. This model describes a subfamily of delta subunits, representing mostly pyruvate, 2-ketoisovalerate, and 2-oxoglutarate specific enzymes. The delta subunit is the smallest and resembles ferredoxins.


Pssm-ID: 131234 [Multi-domain]  Cd Length: 78  Bit Score: 38.47  E-value: 1.27e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVFTWQEEiKKPKVTYEEeCWHCGICWMECPKRAIDIVL 61
Cdd:TIGR02179 22 VDKEKCIKCKNCWLYCPEGAIQEDEG-GFVGIDYDY-CKGCGICANVCPVKAIEMVR 76
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
4-63 1.36e-05

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 40.30  E-value: 1.36e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 502626215   4 KVDDNQCIGCKKCYNLCPLDVFTWQEEIkkPKVTYeEECWHCGICWMECPKRAIDIVLPP 63
Cdd:PRK07118 209 KVCEVGCIGCGKCVKACPAGAITMENNL--AVIDQ-EKCTSCGKCVEKCPTKAIRILNKP 265
PRK14028 PRK14028
pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional
 5-60 1.95e-05

pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional


Pssm-ID: 172522 [Multi-domain]  Cd Length: 312  Bit Score: 39.98  E-value: 1.95e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVF--TWQE-------EIKKPKVTYEEE-CWHCGICWMECPKRAIDIV 60
Cdd:PRK14028 244 IDHSKCIMCRKCWLYCPDDAIieAWREaegprgrKFRMKMIDFDYQyCKGCGVCAEVCPTGAIQMV 309
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
4-59 2.02e-05

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 38.17  E-value: 2.02e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215  4 KVDDNQCIGCKKCYNLCPLDVFTWQEEIkkpKVTYEEECWHCGICWMECPKRAIDI 59
Cdd:COG2768   7 YVDEEKCIGCGACVKVCPVGAISIEDGK---AVIDPEKCIGCGACIEVCPVGAIKI 59
NapF COG1145
Ferredoxin [Energy production and conversion];
2-60 2.10e-05

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 40.09  E-value: 2.10e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 502626215   2 PTKVDDNQCIGCKKCYNLCPLDVFTWQEEiKKPKVTYEEECWHCGICWMECPKRAIDIV 60
Cdd:COG1145  176 KAVIDAEKCIGCGLCVKVCPTGAIRLKDG-KPQIVVDPDKCIGCGACVKVCPVGAISLE 233
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 10-59 2.43e-05

Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]; Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) is part of the Pathway/BioSystem: NADH dehydrogenase


Pssm-ID: 440758 [Multi-domain]  Cd Length: 66  Bit Score: 37.80  E-value: 2.43e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|.
gi 502626215 10 CIGCKKCYNLCPLDVFTWQEEIKKPKVTY-EEECWHCGICWMECPKRAIDI 59
Cdd:COG1143   4 CIGCGLCVRVCPVDAITIEDGEPGKVYVIdPDKCIGCGLCVEVCPTGAISM 54
porD PRK09624
pyruvate ferredoxin oxidoreductase subunit delta; Reviewed
 4-60 4.07e-05

pyruvate ferredoxin oxidoreductase subunit delta; Reviewed


Pssm-ID: 170017 [Multi-domain]  Cd Length: 105  Bit Score: 38.09  E-value: 4.07e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 502626215   4 KVDDNQCIGCKKCYNLCPLDVFTWQEEiKKPKVTYEEeCWHCGICWMECPKRAIDIV 60
Cdd:PRK09624  47 EFNRDKCVRCYLCYIYCPEPAIYLDEE-GYPVFDYDY-CKGCGICANECPTKAIEMV 101
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 5-60 6.84e-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: 37.85  E-value: 6.84e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 502626215    5 VDDNQCIGCKKCYNLCPLDVFtwqeeIKKPK---VTYEEECWHCGICWMECPKRAIDIV 60
Cdd:TIGR01944 110 IDEDNCIGCTKCIQACPVDAI-----VGAAKamhTVIADECTGCDLCVEPCPTDCIEMI 163
PRK06991 PRK06991
electron transport complex subunit RsxB;
5-60 8.28e-05

electron transport complex subunit RsxB;


Pssm-ID: 235903 [Multi-domain]  Cd Length: 270  Bit Score: 38.24  E-value: 8.28e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVFtwqeeIKKPK---VTYEEECWHCGICWMECPKRAIDIV 60
Cdd:PRK06991  82 IDEQLCIGCTLCMQACPVDAI-----VGAPKqmhTVLADLCTGCDLCVPPCPVDCIDMV 135
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 3-60 9.01e-05

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: 37.38  E-value: 9.01e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 502626215   3 TKVDDNQCIGCKKCYNLCPLDVFTwqEEIKKPKVTYEEECWHCGICWMECPKRAIDIV 60
Cdd:cd10549   73 AEIDEEKCIGCGLCVKVCPVDAIT--LEDELEIVIDKEKCIGCGICAEVCPVNAIKLV 128
PRK00783 PRK00783
DNA-directed RNA polymerase subunit D; Provisional
 10-59 1.09e-04

DNA-directed RNA polymerase subunit D; Provisional


Pssm-ID: 234837 [Multi-domain]  Cd Length: 263  Bit Score: 37.56  E-value: 1.09e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 502626215  10 CIGCKKCYNLCPLDVFtwQEEIKKPKVTYEEECWHCGICWMECPKRAIDI 59
Cdd:PRK00783 171 CDECEKCVEACPRGVL--ELKEGKLVVTDLLNCSLCKLCERACPGKAIRV 218
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
4-57 1.11e-04

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 37.73  E-value: 1.11e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 502626215   4 KVDDNQCIGCKKCYNLCPLDVftwqeEIKKPKVTYeEECWHCGICWMECPKRAI 57
Cdd:COG0348  206 RYDRGDCIDCGLCVKVCPMGI-----DIRKGEINQ-SECINCGRCIDACPKDAI 253
SIMIBI_bact_arch cd03110
bacterial and archaeal subfamily of SIMIBI; Uncharacterized bacterial and archaeal subfamily ...
 5-60 1.27e-04

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: 37.75  E-value: 1.27e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVFTWQEeiKKPKVtYEEECWHCGICWMECPKRAIDIV 60
Cdd:cd03110   61 IDQEKCIRCGNCERVCKFGAILEFF--QKLIV-DESLCEGCGACVIICPRGAIYLK 113
PRK08222 PRK08222
hydrogenase 4 subunit H; Validated
 6-57 1.85e-04

hydrogenase 4 subunit H; Validated


Pssm-ID: 181301 [Multi-domain]  Cd Length: 181  Bit Score: 37.04  E-value: 1.85e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 502626215   6 DDNQCIGCKKCYNLCPLDVFTWQEEIKKPKVTYE---EECWHCGICWMECPKRAI 57
Cdd:PRK08222  36 MPSQCIACGACTCACPANALTIQTDDQQNSRTWQlylGRCIYCGRCEEVCPTRAI 90
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 10-56 2.56e-04

4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contains two 4Fe4S clusters.


Pssm-ID: 463724 [Multi-domain]  Cd Length: 51  Bit Score: 34.81  E-value: 2.56e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 502626215  10 CIGCKKCYNLCPLDVFTWQEEIKKPKVTY----EEECWHCGICWMECPKRA 56
Cdd:pfam12838  1 CIGCGACVAACPVGAITLDEVGEKKGTKTvvidPERCVGCGACVAVCPTGA 51
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 5-60 2.92e-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: 35.84  E-value: 2.92e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 502626215   5 VDDNQCIGCKKCYNLCPLDV------FTWQEEIKKPKVTYEEECWHCGICWMECPKRAIDIV 60
Cdd:cd10549   37 IDEDKCVFCGACVEVCPTGAieltpeGKEYVPKEKEAEIDEEKCIGCGLCVKVCPVDAITLE 98
PRK08318 PRK08318
NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;
3-53 2.94e-04

NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;


Pssm-ID: 236237 [Multi-domain]  Cd Length: 420  Bit Score: 36.46  E-value: 2.94e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 502626215   3 TKVDDNQCIGCKKCYNLC---PLDVFTWQEEIKKPKVTYEEECWHCGICWMECP 53
Cdd:PRK08318 337 ARIDQDKCIGCGRCYIACedtSHQAIEWDEDGTRTPEVIEEECVGCNLCAHVCP 390
PRK09898 PRK09898
ferredoxin-like protein;
5-60 2.98e-04

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 36.35  E-value: 2.98e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVFTWQEEIKKpkvtyEEECWHCGICWMECPKRAIDIV 60
Cdd:PRK09898 151 VDHKRCIGCSACTTACPWMMATVNTESKK-----SSKCVLCGECANACPTGALKII 201
RNAP_D cd07030
D subunit of Archaeal RNA polymerase; The D subunit of archaeal RNA polymerase (RNAP) is ...
 7-60 3.13e-04

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


Pssm-ID: 132908 [Multi-domain]  Cd Length: 259  Bit Score: 36.48  E-value: 3.13e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 502626215   7 DNQCIGCKKCYNLCPLDVFtwQEEIKKPKVTYEEECWHCGICWMECPKRAIDIV 60
Cdd:cd07030  168 DEDCDGCGKCVEECPRGVL--ELEEGKVVVEDLEDCSLCKLCERACDAGAIRVG 219
PRK12771 PRK12771
putative glutamate synthase (NADPH) small subunit; Provisional
 9-63 1.34e-03

putative glutamate synthase (NADPH) small subunit; Provisional


Pssm-ID: 237198 [Multi-domain]  Cd Length: 564  Bit Score: 34.85  E-value: 1.34e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 502626215   9 QCIGCKKCYNLCPldvftwQEEIKKPKVTYEEE-----CWHCGICWMECPKRAIDIVLPP 63
Cdd:PRK12771 511 NCFECDNCYGACP------QDAIIKLGPGRRYHfdydkCTGCHICADVCPCGAIEMGPGE 564
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
3-60 1.39e-03

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 34.62  E-value: 1.39e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 502626215   3 TKVDDNQCIGCKKCYNLCPLDVFTWQEEIKKPKvtyEEECWHCGICWMECPKRAIDIV 60
Cdd:COG4624   86 IIRDKEKCKNCYPCVRACPVKAIKVDDGKAEID---EEKCISCGQCVAVCPFGAITEK 140
vorD PRK09623
3-methyl-2-oxobutanoate dehydrogenase subunit delta;
5-60 1.55e-03

3-methyl-2-oxobutanoate dehydrogenase subunit delta;


Pssm-ID: 170016 [Multi-domain]  Cd Length: 105  Bit Score: 33.77  E-value: 1.55e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVFTWQEEiKKPKVTYEEeCWHCGICWMECPKRAIDIV 60
Cdd:PRK09623  48 VDESKCVKCYICWKFCPEPAIYIKED-GYVAIDYDY-CKGCGICANECPTKAITMV 101
PRK06273 PRK06273
ferredoxin; Provisional
 2-53 1.61e-03

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 34.30  E-value: 1.61e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 502626215   2 PTKVDDNQCIGCKKCYNLCPLDVFTWQE----EIKK-------PKVTYeEECWHCGICWMECP 53
Cdd:PRK06273  43 PKKVFEELCIGCGGCANVCPTKAIEMIPvepvKITEgyvktkiPKIDY-EKCVYCLYCHDFCP 104
PRK13795 PRK13795
hypothetical protein; Provisional
 10-53 1.65e-03

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 34.58  E-value: 1.65e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 502626215  10 CIGCKKCYNLCPLDVFTWQEEIKKPKVTyEEECWHCGICWMECP 53
Cdd:PRK13795 583 CVGCGVCVGACPTGAIRIEEGKRKISVD-EEKCIHCGKCTEVCP 625
Fer COG1141
Ferredoxin [Energy production and conversion];
1-30 1.95e-03

Ferredoxin [Energy production and conversion];


Pssm-ID: 440756 [Multi-domain]  Cd Length: 63  Bit Score: 32.55  E-value: 1.95e-03
                        10        20        30
                ....*....|....*....|....*....|
gi 502626215  1 MPTKVDDNQCIGCKKCYNLCPlDVFTWQEE 30
Cdd:COG1141   1 MKVTVDRDTCIGCGLCVALAP-EVFELDDD 29
PRK12387 PRK12387
formate hydrogenlyase complex iron-sulfur subunit; Provisional
 2-57 2.64e-03

formate hydrogenlyase complex iron-sulfur subunit; Provisional


Pssm-ID: 183492 [Multi-domain]  Cd Length: 180  Bit Score: 33.85  E-value: 2.64e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 502626215   2 PTKVDDN----------QCIGCKKCYNLCPLDVFTWQEEIKKPKVTYE---EECWHCGICWMECPKRAI 57
Cdd:PRK12387  22 PIAVDKNfrgkpeynpqQCIGCAACVNACPSNALTVETDLATGELAWEfnlGRCIFCGRCEEVCPTAAI 90
PRK09898 PRK09898
ferredoxin-like protein;
10-53 3.50e-03

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 33.66  E-value: 3.50e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 502626215  10 CIGCK--KCYNLCPLDVFTWQEEIKKPKVTyEEECWHCGICWMECP 53
Cdd:PRK09898 123 CRQCKepQCMNVCPIGAITWQQKEGCITVD-HKRCIGCSACTTACP 167
DMSOR_beta_like cd16372
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 5-60 6.15e-03

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


Pssm-ID: 319894 [Multi-domain]  Cd Length: 125  Bit Score: 32.31  E-value: 6.15e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 502626215   5 VDDNQCIGCKKCYNLCPLDVFTWQEEIKKPKvtyeeECWHCGICWMECPKRAIDIV 60
Cdd:cd16372   74 INKKLCVGCLMCVGFCPEGAMFKHEDYPEPF-----KCIACGICVKACPTGALELV 124
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 4-60 7.99e-03

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


Pssm-ID: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 32.23  E-value: 7.99e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 502626215   4 KVDDNQCI------GCKKCYNLCPLD--VFTWQEEIKKPKVtYEEECWHCGICWMECP---KRAIDIV 60
Cdd:cd16373   87 VIDKDRCLawqggtDCGVCVEACPTEaiAIVLEDDVLRPVV-DEDKCVGCGLCEYVCPvepPKAIVVE 153
 
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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