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Conserved domains on  [gi|488943744|ref|WP_002854819|]
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MULTISPECIES: 4Fe-4S binding protein [Campylobacter]

Protein Classification

oorD family protein( domain architecture ID 11484420)

oorD family protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
oorD PRK09626
2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed
 2-102 1.99e-65

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed


:

Pssm-ID: 236597 [Multi-domain]  Cd Length: 103  Bit Score: 192.24  E-value: 1.99e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943744   2 SMTAPKDTPVWVDEHRCKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVHPESCIGCTECETHCPDFAIMVAKRDEFKFA 81
Cdd:PRK09626   2 KMSAPDNTPVWVDESRCKACDICVSVCPAGVLAMRIDPHAVLGKMIKVVHPESCIGCRECELHCPDFAIYVADRKEFKFA 81

                         90       100
                 ....*....|....*....|.
gi 488943744  82 KLTAEAKDRAVAVKNNKYKKL 102
Cdd:PRK09626  82 KLSKEAKERAEAVKANKYMKL 102
 
Name Accession Description Interval E-value
oorD PRK09626
2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed
 2-102 1.99e-65

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed


Pssm-ID: 236597 [Multi-domain]  Cd Length: 103  Bit Score: 192.24  E-value: 1.99e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943744   2 SMTAPKDTPVWVDEHRCKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVHPESCIGCTECETHCPDFAIMVAKRDEFKFA 81
Cdd:PRK09626   2 KMSAPDNTPVWVDESRCKACDICVSVCPAGVLAMRIDPHAVLGKMIKVVHPESCIGCRECELHCPDFAIYVADRKEFKFA 81

                         90       100
                 ....*....|....*....|.
gi 488943744  82 KLTAEAKDRAVAVKNNKYKKL 102
Cdd:PRK09626  82 KLSKEAKERAEAVKANKYMKL 102
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 9-79 6.80e-16

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 65.89  E-value: 6.80e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488943744   9 TPVWVDEHRCKACNICVSYCPAGVLAMRDDvhavlGQMIEVVHPESCIGCTECETHCPDFAIMVAKRDEFK 79
Cdd:COG1146    1 MMPVIDTDKCIGCGACVEVCPVDVLELDEE-----GKKALVINPEECIGCGACELVCPVGAITVEDDEPEE 66
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 18-66 8.80e-07

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: 42.13  E-value: 8.80e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 488943744   18 CKACNICVSYCPAGVLAMRDDVHAVlGQMIEVVHPESCIGCTECETHCP 66
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKK-GTKTVVIDPERCVGCGACVAVCP 48
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 13-70 1.06e-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: 41.23  E-value: 1.06e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHAVLGqmiEVVHPESCIGCTECETHCPDFAI 70
Cdd:cd10549    3 YDPEKCIGCGICVKACPTDAIELGPNGAIARG---PEIDEDKCVFCGACVEVCPTGAI 57
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 11-70 4.97e-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: 37.08  E-value: 4.97e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488943744   11 VWVDEHRCKACNICVSYCPagvlamrddVHAVLG--QMIEVVHPESCIGCTECETHCPDFAI 70
Cdd:TIGR01944 108 ALIDEDNCIGCTKCIQACP---------VDAIVGaaKAMHTVIADECTGCDLCVEPCPTDCI 160
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 7-75 1.52e-03

EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight conserved Cys residues in two CxxCxxCxxxCP motifs, each of which binds a 4Fe-4S cluster. The N-terminal region resembles flavodoxin domains, with some members of the family recognized by Pfam models PF12724 (Flavodoxin_5) or PF00258 (Flavodoxin_1).


Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 35.99  E-value: 1.52e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 488943744   7 KDTPVWVDEHrCKACNICVSYCPAGVLAMRDDvhavlgqmiEVVHPESCIGCTECETHCPDFAIMVAKR 75
Cdd:NF038196 177 KDKKFHVTDK-CIGCGICAKVCPVNNIEMEDG---------KPVWGHNCTHCLACIHRCPKEAIEYGKK 235
 
Name Accession Description Interval E-value
oorD PRK09626
2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed
 2-102 1.99e-65

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed


Pssm-ID: 236597 [Multi-domain]  Cd Length: 103  Bit Score: 192.24  E-value: 1.99e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943744   2 SMTAPKDTPVWVDEHRCKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVHPESCIGCTECETHCPDFAIMVAKRDEFKFA 81
Cdd:PRK09626   2 KMSAPDNTPVWVDESRCKACDICVSVCPAGVLAMRIDPHAVLGKMIKVVHPESCIGCRECELHCPDFAIYVADRKEFKFA 81

                         90       100
                 ....*....|....*....|.
gi 488943744  82 KLTAEAKDRAVAVKNNKYKKL 102
Cdd:PRK09626  82 KLSKEAKERAEAVKANKYMKL 102
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 9-79 6.80e-16

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 65.89  E-value: 6.80e-16
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488943744   9 TPVWVDEHRCKACNICVSYCPAGVLAMRDDvhavlGQMIEVVHPESCIGCTECETHCPDFAIMVAKRDEFK 79
Cdd:COG1146    1 MMPVIDTDKCIGCGACVEVCPVDVLELDEE-----GKKALVINPEECIGCGACELVCPVGAITVEDDEPEE 66
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
13-87 6.27e-10

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 50.88  E-value: 6.27e-10
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHavlgqmieVVHPESCIGCTECETHCPDFAIMVAKRDEFKFAKLTAEA 87
Cdd:COG2768    8 VDEEKCIGCGACVKVCPVGAISIEDGKA--------VIDPEKCIGCGACIEVCPVGAIKIEWEEDEEFQEKMAEY 74
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 11-77 9.69e-10

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 50.11  E-value: 9.69e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488943744  11 VWVDEHRCKACNICVSYCPAGVLAMRDDVHAVlgqmievVHPESCIGCTECETHCPDFAIMVAKRDE 77
Cdd:COG1149    6 PVIDEEKCIGCGLCVEVCPEGAIKLDDGGAPV-------VDPDLCTGCGACVGVCPTGAITLEEREA 65
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 10-77 1.23e-09

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 50.04  E-value: 1.23e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  10 PVWVDEHRCKACNICVSYCPAGVLAMRDDVHavlgqmieVVHPESCIGCTECETHCPDFAIMVAKRDE 77
Cdd:COG4231   16 RYVIDEDKCTGCGACVKVCPADAIEEGDGKA--------VIDPDLCIGCGSCVQVCPVDAIKLEKRVP 75
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 13-78 2.71e-09

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 49.28  E-value: 2.71e-09
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHavlgqmieVVHPESCIGCTECETHCPDFAIMVAKRDEF 78
Cdd:COG2221   12 IDEEKCIGCGLCVAVCPTGAISLDDGKL--------VIDEEKCIGCGACIRVCPTGAIKGEKPKKF 69
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 10-77 1.73e-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: 47.35  E-value: 1.73e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  10 PVWvDEHRCKACNICVSYCPAGVLAMRDDVHAVlgqmievVHPESCIGCTECETHCPDFAIMVAKRDE 77
Cdd:COG1144   25 PVV-DEDKCIGCGLCWIVCPDGAIRVDDGKYYG-------IDYDYCKGCGICAEVCPVKAIEMVPEEK 84
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 15-70 1.91e-07

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


Pssm-ID: 440758 [Multi-domain]  Cd Length: 66  Bit Score: 44.35  E-value: 1.91e-07
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 488943744  15 EHRCKACNICVSYCPAGVLAMRDDVhavlGQMIEVVHPESCIGCTECETHCPDFAI 70
Cdd:COG1143    1 EDKCIGCGLCVRVCPVDAITIEDGE----PGKVYVIDPDKCIGCGLCVEVCPTGAI 52
NapF COG1145
Ferredoxin [Energy production and conversion];
13-76 3.42e-07

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 46.64  E-value: 3.42e-07
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHAVlgqmieVVHPESCIGCTECETHCPDFAIMVAKRD 76
Cdd:COG1145  179 IDAEKCIGCGLCVKVCPTGAIRLKDGKPQI------VVDPDKCIGCGACVKVCPVGAISLEPKE 236
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 18-66 8.80e-07

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: 42.13  E-value: 8.80e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 488943744   18 CKACNICVSYCPAGVLAMRDDVHAVlGQMIEVVHPESCIGCTECETHCP 66
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKK-GTKTVVIDPERCVGCGACVAVCP 48
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
13-70 1.59e-06

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 44.47  E-value: 1.59e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHAvlgqmieVVHPESCIGCTECETHCPDFAI 70
Cdd:COG1148  493 VDPEKCTGCGRCVEVCPYGAISIDEKGVA-------EVNPALCKGCGTCAAACPSGAI 543
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 13-70 1.06e-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: 41.23  E-value: 1.06e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHAVLGqmiEVVHPESCIGCTECETHCPDFAI 70
Cdd:cd10549    3 YDPEKCIGCGICVKACPTDAIELGPNGAIARG---PEIDEDKCVFCGACVEVCPTGAI 57
psaC CHL00065
photosystem I subunit VII
 18-68 1.18e-05

photosystem I subunit VII


Pssm-ID: 177005 [Multi-domain]  Cd Length: 81  Bit Score: 40.13  E-value: 1.18e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 488943744  18 CKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVHPESCIGCTECETHCP-DF 68
Cdd:CHL00065  11 CIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTEDCVGCKRCESACPtDF 62
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
13-72 1.49e-05

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 41.84  E-value: 1.49e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHAVL--------GQMIEVVHPESCIGCTECETHCPDFAIMV 72
Cdd:PRK07118 165 VDEDKCTGCGACVKACPRNVIELIPKSARVFvacnskdkGKAVKKVCEVGCIGCGKCVKACPAGAITM 232
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 9-70 1.55e-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: 40.84  E-value: 1.55e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 488943744   9 TPVWVDEHRCKACNICVSYCPAGVLAM-RDDVHAVLGQMIEVVHPESCIGCTECETHCPDFAI 70
Cdd:cd10549   33 RGPEIDEDKCVFCGACVEVCPTGAIELtPEGKEYVPKEKEAEIDEEKCIGCGLCVKVCPVDAI 95
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
13-79 1.56e-05

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 41.59  E-value: 1.56e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 488943744  13 VDEHRCKACNICVSYCPAGvLAMRDdvhavlgqmiEVVHPESCIGCTECETHCPDFAIMVAKRDEFK 79
Cdd:COG0348  207 YDRGDCIDCGLCVKVCPMG-IDIRK----------GEINQSECINCGRCIDACPKDAIRFSSRGEKT 262
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
13-72 2.86e-05

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 41.16  E-value: 2.86e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHavlgqmieVVHPESCIGCTECETHCPDFAIMV 72
Cdd:COG4624   88 RDKEKCKNCYPCVRACPVKAIKVDDGKA--------EIDEEKCISCGQCVAVCPFGAITE 139
PRK00783 PRK00783
DNA-directed RNA polymerase subunit D; Provisional
 17-72 3.71e-05

DNA-directed RNA polymerase subunit D; Provisional


Pssm-ID: 234837 [Multi-domain]  Cd Length: 263  Bit Score: 40.64  E-value: 3.71e-05
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 488943744  17 RCKACNICVSYCPAGVLAMRDDVhavlgqmIEVVHPESCIGCTECETHCPDFAIMV 72
Cdd:PRK00783 170 DCDECEKCVEACPRGVLELKEGK-------LVVTDLLNCSLCKLCERACPGKAIRV 218
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 11-66 4.81e-05

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


Pssm-ID: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 39.55  E-value: 4.81e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488943744  11 VWVDEHRC------KACNICVSYCPAGVLAMRDDVhavlGQMIEVVHPESCIGCTECETHCP 66
Cdd:cd16373   86 AVIDKDRClawqggTDCGVCVEACPTEAIAIVLED----DVLRPVVDEDKCVGCGLCEYVCP 143
COG1453 COG1453
Predicted oxidoreductase of the aldo/keto reductase family [General function prediction only];
18-66 8.91e-05

Predicted oxidoreductase of the aldo/keto reductase family [General function prediction only];


Pssm-ID: 441062 [Multi-domain]  Cd Length: 365  Bit Score: 39.42  E-value: 8.91e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 488943744  18 CKACNICVSyCPAGV-----LAMRDDVHA---------VLGQMIEVVHPESCIGCTECETHCP 66
Cdd:COG1453  283 CTGCGYCMP-CPQGInipevFRLYNLARAygmreyakeRYNALGPGAKASACIECGACEERCP 344
PRK13795 PRK13795
hypothetical protein; Provisional
 17-66 1.02e-04

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 39.59  E-value: 1.02e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 488943744  17 RCKACNICVSYCPAGVLAMRDDVHAVlgqmieVVHPESCIGCTECETHCP 66
Cdd:PRK13795 582 ECVGCGVCVGACPTGAIRIEEGKRKI------SVDEEKCIHCGKCTEVCP 625
Fer4_10 pfam13237
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 11-66 1.39e-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: 404174 [Multi-domain]  Cd Length: 56  Bit Score: 36.84  E-value: 1.39e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 488943744   11 VWVDEHRCKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVhPESCIGCTECETHCP 66
Cdd:pfam13237   2 VVIDPDKCIGCGRCTAACPAGLTRVGAIVERLEGEAVRIG-VWKCIGCGACVEACP 56
vorD PRK09623
3-methyl-2-oxobutanoate dehydrogenase subunit delta;
13-77 1.80e-04

3-methyl-2-oxobutanoate dehydrogenase subunit delta;


Pssm-ID: 170016 [Multi-domain]  Cd Length: 105  Bit Score: 37.62  E-value: 1.80e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDDVHAvlgqmieVVHPESCIGCTECETHCPDFAIMVAKRDE 77
Cdd:PRK09623  48 VDESKCVKCYICWKFCPEPAIYIKEDGYV-------AIDYDYCKGCGICANECPTKAITMVKEEK 105
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 3-72 2.00e-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: 37.76  E-value: 2.00e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943744   3 MTAPKDTPVWVDEHRCKACNICVSYCPAGVLAMRDDVHAvlgqmieVVHPESCIGCTECETHCPDFAIMV 72
Cdd:cd10549   65 EYVPKEKEAEIDEEKCIGCGLCVKVCPVDAITLEDELEI-------VIDKEKCIGCGICAEVCPVNAIKL 127
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 11-70 4.97e-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: 37.08  E-value: 4.97e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488943744   11 VWVDEHRCKACNICVSYCPagvlamrddVHAVLG--QMIEVVHPESCIGCTECETHCPDFAI 70
Cdd:TIGR01944 108 ALIDEDNCIGCTKCIQACP---------VDAIVGaaKAMHTVIADECTGCDLCVEPCPTDCI 160
PLN00071 PLN00071
photosystem I subunit VII; Provisional
 18-66 6.29e-04

photosystem I subunit VII; Provisional


Pssm-ID: 177700 [Multi-domain]  Cd Length: 81  Bit Score: 35.69  E-value: 6.29e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 488943744  18 CKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVHPESCIGCTECETHCP 66
Cdd:PLN00071  11 CIGCTQCVRACPTDVLEMIPWDGCKAKQIASAPRTEDCVGCKRCESACP 59
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
7-50 7.10e-04

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 37.15  E-value: 7.10e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....
gi 488943744   7 KDTPVWVDEHRCKACNICVSYCPAGVLAMRDDVHAVLGQMIEVV 50
Cdd:COG1148  517 EKGVAEVNPALCKGCGTCAAACPSGAISLKGFTDDQILAQIDAL 560
SIMIBI_bact_arch cd03110
bacterial and archaeal subfamily of SIMIBI; Uncharacterized bacterial and archaeal subfamily ...
 13-76 1.19e-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: 36.21  E-value: 1.19e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAmrddvhaVLGQMIEVVhPESCIGCTECETHCPDFAIMVAKRD 76
Cdd:cd03110   61 IDQEKCIRCGNCERVCKFGAIL-------EFFQKLIVD-ESLCEGCGACVIICPRGAIYLKDRD 116
PRK08222 PRK08222
hydrogenase 4 subunit H; Validated
 14-81 1.29e-03

hydrogenase 4 subunit H; Validated


Pssm-ID: 181301 [Multi-domain]  Cd Length: 181  Bit Score: 35.88  E-value: 1.29e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 488943744  14 DEHRCKACNICVSYCPAGVLAMRDDVHAvlGQMIEVVHPESCIGCTECETHCPDFAIMVAkrDEFKFA 81
Cdd:PRK08222  36 MPSQCIACGACTCACPANALTIQTDDQQ--NSRTWQLYLGRCIYCGRCEEVCPTRAIQLT--NNFELT 99
PsaC COG5703
Photosystem I reaction center iron-sulfur center subunit VII, PsaC [Energy production and ...
 13-72 1.34e-03

Photosystem I reaction center iron-sulfur center subunit VII, PsaC [Energy production and conversion]; Photosystem I reaction center iron-sulfur center subunit VII, PsaC is part of the Pathway/BioSystem: Photosystem I


Pssm-ID: 444413 [Multi-domain]  Cd Length: 82  Bit Score: 34.80  E-value: 1.34e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488943744  13 VDEHR-CKACNICVSYCPAGVLAMRDDVHAVLGQMIEVVHPESCIGCTECETHCPDFAIMV 72
Cdd:COG5703    5 VKIYDtCIGCTQCVRACPTDVLEMVPWDGCKAGQIAASPRTEDCVGCKRCETACPTDFLSI 65
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 7-75 1.52e-03

EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight conserved Cys residues in two CxxCxxCxxxCP motifs, each of which binds a 4Fe-4S cluster. The N-terminal region resembles flavodoxin domains, with some members of the family recognized by Pfam models PF12724 (Flavodoxin_5) or PF00258 (Flavodoxin_1).


Pssm-ID: 468407 [Multi-domain]  Cd Length: 243  Bit Score: 35.99  E-value: 1.52e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 488943744   7 KDTPVWVDEHrCKACNICVSYCPAGVLAMRDDvhavlgqmiEVVHPESCIGCTECETHCPDFAIMVAKR 75
Cdd:NF038196 177 KDKKFHVTDK-CIGCGICAKVCPVNNIEMEDG---------KPVWGHNCTHCLACIHRCPKEAIEYGKK 235
RNAP_D cd07030
D subunit of Archaeal RNA polymerase; The D subunit of archaeal RNA polymerase (RNAP) is ...
 17-72 1.80e-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: 35.71  E-value: 1.80e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 488943744  17 RCKACNICVSYCPAGVLAMRDDVhavlgqmIEVVHPESCIGCTECETHCPDFAIMV 72
Cdd:cd07030  170 DCDGCGKCVEECPRGVLELEEGK-------VVVEDLEDCSLCKLCERACDAGAIRV 218
PRK13409 PRK13409
ribosome biogenesis/translation initiation ATPase RLI;
13-72 1.97e-03

ribosome biogenesis/translation initiation ATPase RLI;


Pssm-ID: 184037 [Multi-domain]  Cd Length: 590  Bit Score: 35.94  E-value: 1.97e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 488943744  13 VDEHRCKA--CNI-CVSYCPagVLAMRDDVhavlgqmIE--------VVHPESCIGCTECETHCPDFAIMV 72
Cdd:PRK13409   7 VDYDRCQPkkCNYeCIKYCP--VVRTGEET-------IEideddgkpVISEELCIGCGICVKKCPFDAISI 68
napG PRK09476
quinol dehydrogenase periplasmic component; Provisional
 11-76 2.56e-03

quinol dehydrogenase periplasmic component; Provisional


Pssm-ID: 236534 [Multi-domain]  Cd Length: 254  Bit Score: 35.37  E-value: 2.56e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488943744  11 VWVDEHRCKA-----CNICVSYCP----AGVLAM----RDDVHAVLgqmIEVVHPESCIGCTECETHC--PDFAIMVAKR 75
Cdd:PRK09476 132 VLVDQENCLNfqglrCDVCYRVCPlidkAITLELerneRTGKHAFF---LPTVHSDACTGCGKCEKACvlEKAAIKVLPR 208


                 .
gi 488943744  76 D 76
Cdd:PRK09476 209 S 209
PRK06273 PRK06273
ferredoxin; Provisional
 13-70 4.70e-03

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 34.30  E-value: 4.70e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488943744  13 VDEHRCKACNICVSYCPAGVLAMRDdVHAV------LGQMIEVVHPESCIGCTECETHCPDFAI 70
Cdd:PRK06273  46 VFEELCIGCGGCANVCPTKAIEMIP-VEPVkitegyVKTKIPKIDYEKCVYCLYCHDFCPVFAL 108
PRK09898 PRK09898
ferredoxin-like protein;
6-72 5.26e-03

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 34.43  E-value: 5.26e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488943744   6 PKDTPVWVDEHRCKACNICVSYCPagvlamrddvhavlgQMIEVVHPES-----CIGCTECETHCPDFAIMV 72
Cdd:PRK09898 144 QKEGCITVDHKRCIGCSACTTACP---------------WMMATVNTESkksskCVLCGECANACPTGALKI 200
Rli1 COG1245
Translation initiation factor RLI1, contains Fe-S and AAA+ ATPase domains [Translation, ...
 13-72 5.51e-03

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: 34.37  E-value: 5.51e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 488943744  13 VDEHRCKA--CNI-CVSYCP---AGVLAM---RDDVHAVlgqmievVHPESCIGCTECETHCPDFAIMV 72
Cdd:COG1245    7 VDRDRCQPkkCNYeCIKYCPvnrTGKEAIeidEDDGKPV-------ISEELCIGCGICVKKCPFDAISI 68
PRK06991 PRK06991
electron transport complex subunit RsxB;
13-66 7.13e-03

electron transport complex subunit RsxB;


Pssm-ID: 235903 [Multi-domain]  Cd Length: 270  Bit Score: 34.00  E-value: 7.13e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 488943744  13 VDEHRCKACNICVSYCPagvlamrddVHAVLG---QMIEVVhPESCIGCTECETHCP 66
Cdd:PRK06991  82 IDEQLCIGCTLCMQACP---------VDAIVGapkQMHTVL-ADLCTGCDLCVPPCP 128
FDH_beta_like cd16366
beta FeS subunits of formate dehydrogenase N (FDH-N) and similar proteins; This family ...
 18-66 7.45e-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: 33.91  E-value: 7.45e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 488943744  18 CKACN--ICVSYCPAGVLAmRDDVHAVlgqmieVVHPESCIGCTECETHCP 66
Cdd:cd16366   70 CMHCTdaGCLAACPTGAII-RTETGTV------VVDPETCIGCGYCVNACP 113
 
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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