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Conserved domains on  [gi|1436876146|emb|SUA65164|]
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NADH-quinone oxidoreductase subunit I [Oligella urethralis]

Protein Classification

NuoI/complex I 23 kDa subunit family protein( domain architecture ID 11481829)

NuoI/complex I 23 kDa subunit family protein such as bacterial NADH-quinone oxidoreductase subunit I (NuoI), which is part of the connecting domain of complex I of the respiratory chain that couples the transfer of electrons from NADH to quinone with the translocation of protons across the membrane

EC:  7.1.1.-
Gene Ontology:  GO:0016651|GO:0051539|GO:0016020
PubMed:  23417064|33957129|24059520

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
4-162 1.20e-93

NADH-quinone oxidoreductase subunit NuoI;


:

Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 268.29  E-value: 1.20e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146   4 LKRFMNSFMLTELLKGMMLTGSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIESH 83
Cdd:PRK05888    1 IKQYLKSMLLKELLKGLGVTLKYFFKKKVTIQYPEEKLPLSPRFRGRHALRRDPNGEERCIACKLCAAICPADAITIEAA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  84 EREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSIVETHIHEYHGEKRGDLYFTKDMLLAVGDRYEDEIAKRREADAPYR 162
Cdd:PRK05888   81 EREDGRRRTTRYDINFGRCIFCGFCEEACPTDAIVETPDFELATETREELIYDKEKLLANGDRVEREIAPGKAADANYR 159
 
Name Accession Description Interval E-value
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
4-162 1.20e-93

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 268.29  E-value: 1.20e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146   4 LKRFMNSFMLTELLKGMMLTGSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIESH 83
Cdd:PRK05888    1 IKQYLKSMLLKELLKGLGVTLKYFFKKKVTIQYPEEKLPLSPRFRGRHALRRDPNGEERCIACKLCAAICPADAITIEAA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  84 EREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSIVETHIHEYHGEKRGDLYFTKDMLLAVGDRYEDEIAKRREADAPYR 162
Cdd:PRK05888   81 EREDGRRRTTRYDINFGRCIFCGFCEEACPTDAIVETPDFELATETREELIYDKEKLLANGDRVEREIAPGKAADANYR 159
NuoI TIGR01971
NADH-quinone oxidoreductase, chain I; This model represents the I subunit (one of 14: A->N) of ...
 19-140 1.63e-56

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: 172.99  E-value: 1.63e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  19 GMMLTGSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIESHEREDGTRRTTRYDID 98
Cdd:TIGR01971   1 GLGLTLKYFFSKPVTVQYPEEKLYLPPRFRGRIVLTRDPNGEEKCIGCTLCAAVCPADAIRVVPAEGEDGKRRLKFYEIN 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1436876146  99 LTKCIFCGFCEESCPVDSIVETHIHEYHGEKRGDLYFTKDML 140
Cdd:TIGR01971  81 FGRCIFCGLCEEACPTDAIVLTPEFELATYTRSDLVYGKEDL 122
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 60-132 2.81e-19

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: 76.71  E-value: 2.81e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHERedgtrrTTRYDIDLTKCIFCGFCEESCPVDSIVETHiHEYHGEKRGD 132
Cdd:COG1143     1 EDKCIGCGLCVRVCPVDAITIEDGEP------GKVYVIDPDKCIGCGLCVEVCPTGAISMTP-FELAVEDREE 66
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 60-117 2.40e-13

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: 62.80  E-value: 2.40e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAIsieshEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:cd10549     5 PEKCIGCGICVKACPTDAI-----ELGPNGAIARGPEIDEDKCVFCGACVEVCPTGAI 57
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 63-115 2.90e-10

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: 52.91  E-value: 2.90e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  63 CIACKLCEAVCPAMAISIESHEREDGTRRttrYDIDLTKCIFCGFCEESCPVD 115
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKKGTKT---VVIDPERCVGCGACVAVCPTG 50
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 24-81 2.27e-06

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: 45.62  E-value: 2.27e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  24 GSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIE 81
Cdd:NF038196  148 RKKGPEKKKGFIPRLLSKLVNPLFYKFKVKDKKFHVTDKCIGCGICAKVCPVNNIEME 205
 
Name Accession Description Interval E-value
PRK05888 PRK05888
NADH-quinone oxidoreductase subunit NuoI;
4-162 1.20e-93

NADH-quinone oxidoreductase subunit NuoI;


Pssm-ID: 235637 [Multi-domain]  Cd Length: 164  Bit Score: 268.29  E-value: 1.20e-93
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146   4 LKRFMNSFMLTELLKGMMLTGSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIESH 83
Cdd:PRK05888    1 IKQYLKSMLLKELLKGLGVTLKYFFKKKVTIQYPEEKLPLSPRFRGRHALRRDPNGEERCIACKLCAAICPADAITIEAA 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  84 EREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSIVETHIHEYHGEKRGDLYFTKDMLLAVGDRYEDEIAKRREADAPYR 162
Cdd:PRK05888   81 EREDGRRRTTRYDINFGRCIFCGFCEEACPTDAIVETPDFELATETREELIYDKEKLLANGDRVEREIAPGKAADANYR 159
NuoI TIGR01971
NADH-quinone oxidoreductase, chain I; This model represents the I subunit (one of 14: A->N) of ...
 19-140 1.63e-56

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: 172.99  E-value: 1.63e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  19 GMMLTGSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIESHEREDGTRRTTRYDID 98
Cdd:TIGR01971   1 GLGLTLKYFFSKPVTVQYPEEKLYLPPRFRGRIVLTRDPNGEEKCIGCTLCAAVCPADAIRVVPAEGEDGKRRLKFYEIN 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 1436876146  99 LTKCIFCGFCEESCPVDSIVETHIHEYHGEKRGDLYFTKDML 140
Cdd:TIGR01971  81 FGRCIFCGLCEEACPTDAIVLTPEFELATYTRSDLVYGKEDL 122
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 60-132 2.81e-19

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: 76.71  E-value: 2.81e-19
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHERedgtrrTTRYDIDLTKCIFCGFCEESCPVDSIVETHiHEYHGEKRGD 132
Cdd:COG1143     1 EDKCIGCGLCVRVCPVDAITIEDGEP------GKVYVIDPDKCIGCGLCVEVCPTGAISMTP-FELAVEDREE 66
PRK12387 PRK12387
formate hydrogenlyase complex iron-sulfur subunit; Provisional
 12-118 2.63e-16

formate hydrogenlyase complex iron-sulfur subunit; Provisional


Pssm-ID: 183492 [Multi-domain]  Cd Length: 180  Bit Score: 71.99  E-value: 2.63e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  12 MLTeLLKGMMLTGsyffkpKFTLKYPYEKTPMSPRFRGlhalrrYPNGE-ERCIACKLCEAVCPAMAISIEShereDGTR 90
Cdd:PRK12387    1 MFK-LIKKVIKTG------TATSSYPLEPIAVDKNFRG------KPEYNpQQCIGCAACVNACPSNALTVET----DLAT 63

                          90       100
                  ....*....|....*....|....*...
gi 1436876146  91 RTTRYDIDLTKCIFCGFCEESCPVDSIV 118
Cdd:PRK12387   64 GELAWEFNLGRCIFCGRCEEVCPTAAIK 91
PRK08222 PRK08222
hydrogenase 4 subunit H; Validated
 12-134 8.55e-15

hydrogenase 4 subunit H; Validated


Pssm-ID: 181301 [Multi-domain]  Cd Length: 181  Bit Score: 67.86  E-value: 8.55e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  12 MLtELLKGMMLTGSYffkpkfTLKYPYEKTPMSPRFRGLHALrrypnGEERCIACKLCEAVCPAMAISIESHErEDGTRR 91
Cdd:PRK08222    1 ML-KLLKTIMRAGTA------TVKYPFAPLEVSPGFRGKPDL-----MPSQCIACGACTCACPANALTIQTDD-QQNSRT 67

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1436876146  92 ttrYDIDLTKCIFCGFCEESCPVDSIVETHIHEYHGEKRGDLY 134
Cdd:PRK08222   68 ---WQLYLGRCIYCGRCEEVCPTRAIQLTNNFELTVTNKADLY 107
ndhI CHL00014
NADH dehydrogenase subunit I
 18-155 3.29e-14

NADH dehydrogenase subunit I


Pssm-ID: 214334 [Multi-domain]  Cd Length: 167  Bit Score: 66.32  E-value: 3.29e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  18 KGMMLTGSYFFKPKFTLKYPYEKTPMSPRFRGlhalrRYPNGEERCIACKLCEAVCPA-MAISIESHEREDGTRRTTRYD 96
Cdd:CHL00014   21 QGFMITLSHANRLPVTIQYPYEKLITSERFRG-----RIHFEFDKCIACEVCVRVCPIdLPVVDWKLETDIRKKRLLNYS 95

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1436876146  97 IDLTKCIFCGFCEESCPVDSIVETHIHEyhgekrgdlyftkdmlLAVGDRYE---DEIAKRR 155
Cdd:CHL00014   96 IDFGVCIFCGNCVEYCPTNCLSMTEEYE----------------LSTYDRHElnyNQIALGR 141
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 60-117 2.40e-13

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: 62.80  E-value: 2.40e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAIsieshEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:cd10549     5 PEKCIGCGICVKACPTDAI-----ELGPNGAIARGPEIDEDKCVFCGACVEVCPTGAI 57
PRK13984 PRK13984
putative oxidoreductase; Provisional
 26-136 4.94e-13

putative oxidoreductase; Provisional


Pssm-ID: 172486 [Multi-domain]  Cd Length: 604  Bit Score: 65.56  E-value: 4.94e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  26 YFFKPKFTLKYPYEKTPMSPRFRGLHAlrrypNGEERCIACKLCEAVCPAMAIS---IESHEREDGtRRTTRYDIDLTKC 102
Cdd:PRK13984   15 FLFRKPVTIKVPNVKREAAERYRGFHI-----NDWEKCIGCGTCSKICPTDAITmveVPDLPQEYG-KKPQRPVIDYGRC 88

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1436876146 103 IFCGFCEESCPVDSIVETHIHEYHGEKRGDLYFT 136
Cdd:PRK13984   89 SFCALCVDICTTGSLKMTREYIHISPDPEDFIFM 122
DsrA COG2221
Dissimilatory sulfite reductase (desulfoviridin), alpha and beta subunits [Inorganic ion ...
 60-125 1.10e-12

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


Pssm-ID: 441823 [Multi-domain]  Cd Length: 69  Bit Score: 59.68  E-value: 1.10e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHeredgtrrttRYDIDLTKCIFCGFCEESCPVDSIVETHIHEY 125
Cdd:COG2221    14 EEKCIGCGLCVAVCPTGAISLDDG----------KLVIDEEKCIGCGACIRVCPTGAIKGEKPKKF 69
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
51-117 2.29e-12

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 58.97  E-value: 2.29e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1436876146  51 HALRRYPNGEERCIACKLCEAVCPAMAISIESHeredgtrrttRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG2768     1 HSLGKPYVDEEKCIGCGACVKVCPVGAISIEDG----------KAVIDPEKCIGCGACIEVCPVGAI 57
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 60-118 3.38e-12

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


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 60.10  E-value: 3.38e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEsheredgtrRTTRYDIDLTKCIFCGFCEESCPVDSIV 118
Cdd:cd10549    77 EEKCIGCGLCVKVCPVDAITLE---------DELEIVIDKEKCIGCGICAEVCPVNAIK 126
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 60-117 3.49e-12

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


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 60.10  E-value: 3.49e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEShEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:cd10549    39 EDKCVFCGACVEVCPTGAIELTP-EGKEYVPKEKEAEIDEEKCIGCGLCVKVCPVDAI 95
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 60-118 1.25e-11

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: 57.37  E-value: 1.25e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESheredgtrrTTRYDIDLTKCIFCGFCEESCPVDSIV 118
Cdd:COG1144    29 EDKCIGCGLCWIVCPDGAIRVDD---------GKYYGIDYDYCKGCGICAEVCPVKAIE 78
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 60-118 8.03e-11

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 55.05  E-value: 8.03e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPAMAISIesherEDGTRRttrydIDLTKCIFCGFCEESCPVDSIV 118
Cdd:COG4231    21 EDKCTGCGACVKVCPADAIEE-----GDGKAV-----IDPDLCIGCGSCVQVCPVDAIK 69
NapF COG1145
Ferredoxin [Energy production and conversion];
60-117 9.53e-11

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 58.20  E-value: 9.53e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREdgtrrttrYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG1145   181 AEKCIGCGLCVKVCPTGAIRLKDGKPQ--------IVVDPDKCIGCGACVKVCPVGAI 230
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 63-115 2.90e-10

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: 52.91  E-value: 2.90e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  63 CIACKLCEAVCPAMAISIESHEREDGTRRttrYDIDLTKCIFCGFCEESCPVD 115
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKKGTKT---VVIDPERCVGCGACVAVCPTG 50
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 60-117 6.85e-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: 52.42  E-value: 6.85e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEsheredgtrRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG1149    10 EEKCIGCGLCVEVCPEGAIKLD---------DGGAPVVDPDLCTGCGACVGVCPTGAI 58
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 60-117 8.47e-10

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 52.02  E-value: 8.47e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEsherEDGTRRttrYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG1146     7 TDKCIGCGACVEVCPVDVLELD----EEGKKA---LVINPEECIGCGACELVCPVGAI 57
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
63-120 2.68e-09

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 54.17  E-value: 2.68e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  63 CIACKLCEAVCPAMAISIEsheredgtrrTTRYDIDLTKCIFCGFCEESCPVDSIVET 120
Cdd:PRK07118  215 CIGCGKCVKACPAGAITME----------NNLAVIDQEKCTSCGKCVEKCPTKAIRIL 262
Fer4_9 pfam13187
4Fe-4S dicluster domain;
62-117 5.93e-09

4Fe-4S dicluster domain;


Pssm-ID: 463801 [Multi-domain]  Cd Length: 50  Bit Score: 49.47  E-value: 5.93e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1436876146  62 RCIACKLCEAVCPAMAIsiesheREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:pfam13187   1 KCTGCGACVAACPAGAI------VPDLVGQTIRGDIAGLACIGCGACVDACPRGAI 50
PRK08348 PRK08348
NADH-plastoquinone oxidoreductase subunit; Provisional
 28-149 4.17e-08

NADH-plastoquinone oxidoreductase subunit; Provisional


Pssm-ID: 181399 [Multi-domain]  Cd Length: 120  Bit Score: 49.06  E-value: 4.17e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  28 FKPKFTLKYP-YEKTPMSPRFRGLHALRRypngeERCIACKLCEAVCPAMAISIesheredgTRRTTRYDIDLTKCIFCG 106
Cdd:PRK08348   13 FKKPATNLFPaTEPVPVPEDFRGKILYDV-----DKCVGCRMCVTVCPAGVFVY--------LPEIRKVALWTGRCVFCG 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1436876146 107 FCEESCPvdsivethiheyhgekRGDLYFTKDMLLAVGDRYED 149
Cdd:PRK08348   80 QCVDVCP----------------TGALQMSDDFLLASYDRFDE 106
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
60-119 4.65e-08

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 51.18  E-value: 4.65e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREdgtrrttrydIDLTKCIFCGFCEESCPVDSIVE 119
Cdd:COG4624    90 KEKCKNCYPCVRACPVKAIKVDDGKAE----------IDEEKCISCGQCVAVCPFGAITE 139
HdrA COG1148
Heterodisulfide reductase, subunit A (polyferredoxin) [Energy production and conversion];
60-142 6.71e-08

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


Pssm-ID: 440762 [Multi-domain]  Cd Length: 563  Bit Score: 50.63  E-value: 6.71e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEsherEDGTRRttrydIDLTKCIFCGFCEESCPVDSIVETHiheyhgekrgdlyFTKDM 139
Cdd:COG1148   495 PEKCTGCGRCVEVCPYGAISID----EKGVAE-----VNPALCKGCGTCAAACPSGAISLKG-------------FTDDQ 552


                  ...
gi 1436876146 140 LLA 142
Cdd:COG1148   553 ILA 555
PRK13795 PRK13795
hypothetical protein; Provisional
 62-114 7.21e-08

hypothetical protein; Provisional


Pssm-ID: 237510 [Multi-domain]  Cd Length: 636  Bit Score: 50.76  E-value: 7.21e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  62 RCIACKLCEAVCPAMAISIESHERedgtrrttRYDIDLTKCIFCGFCEESCPV 114
Cdd:PRK13795  582 ECVGCGVCVGACPTGAIRIEEGKR--------KISVDEEKCIHCGKCTEVCPV 626
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 60-114 4.02e-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: 46.86  E-value: 4.02e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1436876146  60 EERCIA------CKLCEAVCPAMAISIEshEREDGTRRTtrydIDLTKCIFCGFCEESCPV 114
Cdd:cd16373    90 KDRCLAwqggtdCGVCVEACPTEAIAIV--LEDDVLRPV----VDEDKCVGCGLCEYVCPV 144
PRK06273 PRK06273
ferredoxin; Provisional
 60-129 5.09e-07

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 47.01  E-value: 5.09e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1436876146  60 EERCIACKLCEAVCPAMAI---SIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSIVE--THIHEYH-GEK 129
Cdd:PRK06273   48 EELCIGCGGCANVCPTKAIemiPVEPVKITEGYVKTKIPKIDYEKCVYCLYCHDFCPVFALFNeiSPIHPRDvGED 123
ferrodoxin_EFR1 NF038196
EFR1 family ferrodoxin; Members of the family have a C-terminal ferrodoxin domain, with eight ...
 24-81 2.27e-06

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: 45.62  E-value: 2.27e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  24 GSYFFKPKFTLKYPYEKTPMSPRFRGLHALRRYPNGEERCIACKLCEAVCPAMAISIE 81
Cdd:NF038196  148 RKKGPEKKKGFIPRLLSKLVNPLFYKFKVKDKKFHVTDKCIGCGICAKVCPVNNIEME 205
NapH COG0348
Polyferredoxin NapH [Energy production and conversion];
60-117 2.45e-06

Polyferredoxin NapH [Energy production and conversion];


Pssm-ID: 440117 [Multi-domain]  Cd Length: 263  Bit Score: 45.82  E-value: 2.45e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPaMAISIESHEredgtrrttrydIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG0348   209 RGDCIDCGLCVKVCP-MGIDIRKGE------------INQSECINCGRCIDACPKDAI 253
PFLE_PFLC TIGR02494
glycyl-radical enzyme activating protein; This subset of the radical-SAM family (pfam04055) ...
 60-113 2.54e-06

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: 45.79  E-value: 2.54e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  60 EERCIACKLCEAVCPAmAISIESHEREDGTRRttryDIDLTKCIFCGFCEESCP 113
Cdd:TIGR02494  47 ENRCLGCGKCVEVCPA-GTARLSELADGRNRI----IIRREKCTHCGKCTEACP 95
PRK14028 PRK14028
pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional
 62-117 2.80e-06

pyruvate ferredoxin oxidoreductase subunit gamma/delta; Provisional


Pssm-ID: 172522 [Multi-domain]  Cd Length: 312  Bit Score: 45.76  E-value: 2.80e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  62 RCIACKLCEAVCPAMAIsIESHEREDGTR----RTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:PRK14028  248 KCIMCRKCWLYCPDDAI-IEAWREAEGPRgrkfRMKMIDFDYQYCKGCGVCAEVCPTGAI 306
PorD COG1144
Pyruvate:ferredoxin oxidoreductase or related 2-oxoacid:ferredoxin oxidoreductase, delta ...
 75-125 1.78e-05

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: 41.19  E-value: 1.78e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1436876146  75 AMAISIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSIVETHIHEY 125
Cdd:COG1144     5 AITEPGGTAAYKTGGWRVERPVVDEDKCIGCGLCWIVCPDGAIRVDDGKYY 55
vorD PRK09623
3-methyl-2-oxobutanoate dehydrogenase subunit delta;
60-117 1.83e-05

3-methyl-2-oxobutanoate dehydrogenase subunit delta;


Pssm-ID: 170016 [Multi-domain]  Cd Length: 105  Bit Score: 41.47  E-value: 1.83e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIesheREDGTrrttrYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:PRK09623   50 ESKCVKCYICWKFCPEPAIYI----KEDGY-----VAIDYDYCKGCGICANECPTKAI 98
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 44-118 1.91e-05

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


Pssm-ID: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 41.79  E-value: 1.91e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  44 SPRFRGLHALRRYPNGEERCIACKLCE-----AVCPAMAISIESherEDGTRRttrydIDLTKCIFCGFCEESCPVDSIV 118
Cdd:cd10550    27 NPSLSRIRVVRFEPEGLDVPVVCRQCEdapcvEACPVGAISRDE---ETGAVV-----VDEDKCIGCGMCVEACPFGAIR 98
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 60-117 3.70e-05

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: 42.29  E-value: 3.70e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1436876146  60 EERCIACKLCEAVCPAMAISIES---HEredgtrrttrydIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG2878   136 EYGCIGCGDCIKACPFDAIVGAAkgmHT------------VDEDKCTGCGLCVEACPVDCI 184
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 51-118 3.75e-05

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 41.86  E-value: 3.75e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  51 HALRRYPNG-----EERCIACKLCEAVCPAMAISIeshEREDGTrrttrydidLTKCIFCGF---------CEESCPVDS 116
Cdd:COG0437    75 GATYKREDGivlvdYDKCIGCRYCVAACPYGAPRF---NPETGV---------VEKCTFCADrldegllpaCVEACPTGA 142


                  ..
gi 1436876146 117 IV 118
Cdd:COG0437   143 LV 144
PRK09898 PRK09898
ferredoxin-like protein;
60-117 3.83e-05

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 42.13  E-value: 3.83e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREDgtrrttrydidlTKCIFCGFCEESCPVDSI 117
Cdd:PRK09898  153 HKRCIGCSACTTACPWMMATVNTESKKS------------SKCVLCGECANACPTGAL 198
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 61-118 4.94e-05

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: 40.84  E-value: 4.94e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  61 ERCIACK--LCEAVCPAMAIsiesHEREDGtrrttRYDIDLTKCIFCGFCEESCPVDSIV 118
Cdd:cd04410    48 VSCMHCEdpPCVKACPTGAI----YKDEDG-----IVLIDEDKCIGCGSCVEACPYGAIV 98
Nar1 COG4624
Iron only hydrogenase large subunit, C-terminal domain [Energy production and conversion];
62-117 5.70e-05

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


Pssm-ID: 443663 [Multi-domain]  Cd Length: 450  Bit Score: 41.94  E-value: 5.70e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1436876146  62 RCIACKLCEAVCPAMAISIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG4624    53 RCCLCCCCCCRCCVAISCIQVRGIIIIDKRGPSIIRDKEKCKNCYPCVRACPVKAI 108
NapF_like cd10564
NapF, iron-sulfur subunit of periplasmic nitrate reductase; This family contains NapF protein, ...
 64-117 6.49e-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: 40.69  E-value: 6.49e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  64 IACKLCEAVCPAMAISIEshereDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:cd10564    86 VECRSCQDACPTQAIRFR-----PRLGGIALPELDADACTGCGACVSVCPVGAI 134
Fer4_10 pfam13237
4Fe-4S dicluster domain; This family includes proteins containing domains which bind to ...
 60-113 9.25e-05

4Fe-4S dicluster domain; This family includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. The structure of the domain is an alpha-antiparallel beta sandwich.


Pssm-ID: 404174 [Multi-domain]  Cd Length: 56  Bit Score: 38.39  E-value: 9.25e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  60 EERCIACKLCEAVCPAmaiSIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCP 113
Cdd:pfam13237   6 PDKCIGCGRCTAACPA---GLTRVGAIVERLEGEAVRIGVWKCIGCGACVEACP 56
DMSOR_beta_like cd16371
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 69-113 9.39e-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: 319893 [Multi-domain]  Cd Length: 140  Bit Score: 40.24  E-value: 9.39e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1436876146  69 CEAVCPAMAIsiesHEREDGTRRttrydIDLTKCIFCGFCEESCP 113
Cdd:cd16371    62 CVKVCPTGAI----TKREDGIVV-----VDQDKCIGCGYCVWACP 97
HycB_like cd10554
HycB, HydN and similar proteins; This family includes HycB, the FeS subunit of a ...
 60-113 9.91e-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: 40.32  E-value: 9.91e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCPAMAISIeSHEREDGTRRTTRYDIDLTKCIFCGF------CEESCP 113
Cdd:cd10554    84 EERCIGCKLCVLACPFGAIEM-APTTVPGVDWERGPRAVAVKCDLCAGreggpaCVEACP 142
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
60-118 1.27e-04

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 39.64  E-value: 1.27e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHeredgTRRTTRYdidltKCIFCGF------CEESCPVDSIV 118
Cdd:COG1142    80 EEKCIGCGLCVLACPFGAITMVGE-----KSRAVAV-----KCDLCGGreggpaCVEACPTGALR 134
PRK12771 PRK12771
putative glutamate synthase (NADPH) small subunit; Provisional
 63-117 1.36e-04

putative glutamate synthase (NADPH) small subunit; Provisional


Pssm-ID: 237198 [Multi-domain]  Cd Length: 564  Bit Score: 41.01  E-value: 1.36e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1436876146  63 CIACKLCEAVCPAMAISiesheredGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:PRK12771  512 CFECDNCYGACPQDAII--------KLGPGRRYHFDYDKCTGCHICADVCPCGAI 558
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
61-118 2.78e-04

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 38.87  E-value: 2.78e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  61 ERCIACKLCEAVCPAmaisieSHEREDGTRRTTRydIDLTK---------CIFC--GFCEESCPVDSIV 118
Cdd:COG1142    10 EKCIGCRTCEAACAV------AHEGEEGEPFLPR--IRVVRkagvsapvqCRHCedAPCAEVCPVGAIT 70
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
63-117 3.01e-04

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 38.87  E-value: 3.01e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1436876146  63 CIACKL--CEAVCPAMAISiesheREDGtrrttRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG1142    52 CRHCEDapCAEVCPVGAIT-----RDDG-----AVVVDEEKCIGCGLCVLACPFGAI 98
PsrB cd10551
polysulfide reductase beta (PsrB) subunit; This family includes the beta subunit of bacterial ...
 69-113 3.26e-04

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: 39.05  E-value: 3.26e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1436876146  69 CEAVCPAMAisieSHEREDGTrrttrYDIDLTKCIFCGFCEESCP 113
Cdd:cd10551    61 CVKVCPTGA----TYKREDGI-----VLVDYDKCIGCRYCMAACP 96
PRK06259 PRK06259
succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Provisional
 63-113 3.50e-04

succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Provisional


Pssm-ID: 235756 [Multi-domain]  Cd Length: 486  Bit Score: 39.60  E-value: 3.50e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  63 CIACKLCEAVCPAMAIS-------------IESHEREDGTRRTTRYDIDLTKCIFCGFCEESCP 113
Cdd:PRK06259  135 CIECLSCVSTCPARKVSdypgptfmrqlarFAFDPRDEGDREKEAFDEGLYNCTTCGKCVEVCP 198
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 60-84 4.01e-04

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 37.01  E-value: 4.01e-04
                          10        20
                  ....*....|....*....|....*
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHE 84
Cdd:COG1149    40 PDLCTGCGACVGVCPTGAITLEERE 64
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 95-117 4.13e-04

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


Pssm-ID: 459642 [Multi-domain]  Cd Length: 24  Bit Score: 36.07  E-value: 4.13e-04
                          10        20
                  ....*....|....*....|...
gi 1436876146  95 YDIDLTKCIFCGFCEESCPVDSI 117
Cdd:pfam00037   1 VVIDEEKCIGCGACVEVCPVGAI 23
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 60-118 5.57e-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: 38.24  E-value: 5.57e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPAMAISiesheredGTRRTTRYDIdLTKCIFCGFCEESCPVDSIV 118
Cdd:TIGR01944 112 EDNCIGCTKCIQACPVDAIV--------GAAKAMHTVI-ADECTGCDLCVEPCPTDCIE 161
PsrB cd10551
polysulfide reductase beta (PsrB) subunit; This family includes the beta subunit of bacterial ...
 61-118 6.25e-04

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: 38.28  E-value: 6.25e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  61 ERCIACKLCEAVCPAMAISI---ESHEREDGTRRTTRYdidLTKCIFC------G---FCEESCPVDSIV 118
Cdd:cd10551    83 DKCIGCRYCMAACPYGARYFnpeEPHEFGEVPVRPKGV---VEKCTFCyhrldeGllpACVEACPTGARI 149
NapF COG1145
Ferredoxin [Energy production and conversion];
59-117 6.75e-04

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 38.94  E-value: 6.75e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  59 GEERCIACKLCEAVCPAMAISIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCPVDSI 117
Cdd:COG1145   141 EAGLAILGAAAPVDALAISGGKKIEEELKIAIKKAKAVIDAEKCIGCGLCVKVCPTGAI 199
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 51-118 7.57e-04

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: 37.75  E-value: 7.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  51 HALRRYPNG-----EERCIACKLCEAVCPAMAISIESHEREdgtrrttrydidLTKCIFCGF---------CEESCPVDS 116
Cdd:cd04410    65 GAIYKDEDGivlidEDKCIGCGSCVEACPYGAIVFDPEPGK------------AVKCDLCGDrldeglepaCVKACPTGA 132


                  ..
gi 1436876146 117 IV 118
Cdd:cd04410   133 LT 134
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 60-117 8.46e-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: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 37.56  E-value: 8.46e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  60 EERCIACKLCEAVCPAMAIsiesheredgtrrttRYDIDL---TKCIFCG---FCEESCPVDSI 117
Cdd:cd10550    79 EDKCIGCGMCVEACPFGAI---------------RVDPETgkaIKCDLCGgdpACVKVCPTGAL 127
PRK08318 PRK08318
NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;
60-119 1.02e-03

NAD-dependent dihydropyrimidine dehydrogenase subunit PreA;


Pssm-ID: 236237 [Multi-domain]  Cd Length: 420  Bit Score: 38.39  E-value: 1.02e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  60 EERCIACKLCEAVC---PAMAISIEsherEDGTRRttrYDIDLTKCIFCGFCEESCPVDSIVE 119
Cdd:PRK08318  341 QDKCIGCGRCYIACedtSHQAIEWD----EDGTRT---PEVIEEECVGCNLCAHVCPVEGCIT 396
oorD PRK09626
2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed
 60-113 1.03e-03

2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed


Pssm-ID: 236597 [Multi-domain]  Cd Length: 103  Bit Score: 36.62  E-value: 1.03e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPA--MAISIESHeredgtrRTTRYDIDLT---KCIFCGFCEESCP 113
Cdd:PRK09626   15 ESRCKACDICVSVCPAgvLAMRIDPH-------AVLGKMIKVVhpeSCIGCRECELHCP 66
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 69-113 1.25e-03

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 37.62  E-value: 1.25e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 1436876146  69 CEAVCPAMAISIesheREDGTRRttrydIDLTKCIFCGFCEESCP 113
Cdd:COG0437    68 CVKVCPTGATYK----REDGIVL-----VDYDKCIGCRYCVAACP 103
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 91-119 1.41e-03

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 35.79  E-value: 1.41e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1436876146  91 RTT--RYDIDLTKCIFCGFCEESCPVDSIVE 119
Cdd:COG4231    11 RTTamRYVIDEDKCTGCGACVKVCPADAIEE 41
PRK00783 PRK00783
DNA-directed RNA polymerase subunit D; Provisional
 60-121 1.51e-03

DNA-directed RNA polymerase subunit D; Provisional


Pssm-ID: 234837 [Multi-domain]  Cd Length: 263  Bit Score: 37.56  E-value: 1.51e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREDGtrrttrydiDLTKCIFCGFCEESCPVDSIVETH 121
Cdd:PRK00783  168 SEDCDECEKCVEACPRGVLELKEGKLVVT---------DLLNCSLCKLCERACPGKAIRVSD 220
Fer4 pfam00037
4Fe-4S binding domain; Superfamily includes proteins containing domains which bind to ...
 60-79 1.62e-03

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


Pssm-ID: 459642 [Multi-domain]  Cd Length: 24  Bit Score: 34.53  E-value: 1.62e-03
                          10        20
                  ....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCPAMAIS 79
Cdd:pfam00037   5 EEKCIGCGACVEVCPVGAIT 24
DMSOR_beta-like cd04410
Beta subunit of the DMSO Reductase (DMSOR) family; This family consists of the small beta ...
 60-117 1.62e-03

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: 36.60  E-value: 1.62e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  60 EERCIACKLCEAVCPaMAISIESHEREDGTRRTTRYDIDL----TKCIFCGF--CEESCPVDSI 117
Cdd:cd04410     5 LDRCIGCGTCEVACK-QEHGLRPGPDWSRIKVIEGGGLERaflpVSCMHCEDppCVKACPTGAI 67
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
60-118 1.68e-03

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 37.61  E-value: 1.68e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCP-----------AMAISIESHEREDGTRRTTRydidlTKCIFCGFCEESCPVDSIV 118
Cdd:PRK07118  167 EDKCTGCGACVKACPrnvielipksaRVFVACNSKDKGKAVKKVCE-----VGCIGCGKCVKACPAGAIT 231
PRK12769 PRK12769
putative oxidoreductase Fe-S binding subunit; Reviewed
 60-117 1.74e-03

putative oxidoreductase Fe-S binding subunit; Reviewed


Pssm-ID: 183733 [Multi-domain]  Cd Length: 654  Bit Score: 37.80  E-value: 1.74e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREDGTRRTTRYdidltKCIFCG------FCEESCPVDSI 117
Cdd:PRK12769   84 QQKCIGCKSCVVACPFGTMQIVLTPVAAGKVKATAH-----KCDLCAgrengpACVENCPADAL 142
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 66-130 1.85e-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: 36.85  E-value: 1.85e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  66 CKLCEAVCPAMAISIESHERED---GTRRttrydIDLTKCI------FCGFCEESCPVDSIvetHIHEYHGEKR 130
Cdd:cd16373    59 CDACVEVCPTGALRPLDLEEQKvkmGVAV-----IDKDRCLawqggtDCGVCVEACPTEAI---AIVLEDDVLR 124
PreA COG1146
NAD-dependent dihydropyrimidine dehydrogenase, PreA subunit [Nucleotide transport and ...
 60-88 2.03e-03

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


Pssm-ID: 440761 [Multi-domain]  Cd Length: 67  Bit Score: 35.07  E-value: 2.03e-03
                          10        20
                  ....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREDG 88
Cdd:COG1146    39 PEECIGCGACELVCPVGAITVEDDEPEEQ 67
DMSOR_beta_like cd16369
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 63-113 2.35e-03

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


Pssm-ID: 319891 [Multi-domain]  Cd Length: 172  Bit Score: 36.60  E-value: 2.35e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  63 CIACKL--CEAVCPAMAISIEsherEDGTRRTTRYdidlTKCIFCGFCEESCP 113
Cdd:cd16369    51 CMHCEDptCAEVCPADAIKVT----EDGVVQSALK----PRCIGCSNCVNACP 95
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
60-95 2.61e-03

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 35.09  E-value: 2.61e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1436876146  60 EERCIACKLCEAVCPAMAISIESHEREDGTRRTTRY 95
Cdd:COG2768    39 PEKCIGCGACIEVCPVGAIKIEWEEDEEFQEKMAEY 74
FDH_b_like cd10562
uncharacterized subfamily of beta subunit of formate dehydrogenase; This subfamily includes ...
 69-115 3.10e-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: 36.13  E-value: 3.10e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 1436876146  69 CEAVCPAMAISIEsherEDGTrrttrYDIDLTKCIFCGFCEESCPVD 115
Cdd:cd10562    78 CVKVCPTGALYKT----ENGA-----VVVDEDKCIGCGYCVAACPFD 115
PRK12576 PRK12576
succinate dehydrogenase/fumarate reductase iron-sulfur subunit;
63-115 3.11e-03

succinate dehydrogenase/fumarate reductase iron-sulfur subunit;


Pssm-ID: 237143 [Multi-domain]  Cd Length: 279  Bit Score: 36.65  E-value: 3.11e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1436876146  63 CIACKLCEAVCPAMAISIE--------------SHEREDGTRRTTRYDID-LTKCIFCGFCEESCPVD 115
Cdd:PRK12576  154 CIWCGLCVSACPVVAIDPEflgpaahakgyrflADPRDTITEERMKILIDsSWRCTYCYSCSNVCPRD 221
PRK10330 PRK10330
electron transport protein HydN;
60-130 3.11e-03

electron transport protein HydN;


Pssm-ID: 182382 [Multi-domain]  Cd Length: 181  Bit Score: 36.41  E-value: 3.11e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCP--AMAISIESHEREDGTRRTTR-YDIDLTKCIFCGF------CEESCPVDSIV---ETHIHEYHG 127
Cdd:PRK10330   86 QERCIGCKTCVVACPygAMEVVVRPVIRNSGAGLNVRaEKAEANKCDLCNHredgpaCMAACPTHALIcvdRNKLEQLSA 165


                  ...
gi 1436876146 128 EKR 130
Cdd:PRK10330  166 EKR 168
porD PRK09624
pyruvate ferredoxin oxidoreductase subunit delta; Reviewed
 60-118 3.27e-03

pyruvate ferredoxin oxidoreductase subunit delta; Reviewed


Pssm-ID: 170017 [Multi-domain]  Cd Length: 105  Bit Score: 35.39  E-value: 3.27e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEsherEDGtrrttrYDI-DLTKCIFCGFCEESCPVDSIV 118
Cdd:PRK09624   50 RDKCVRCYLCYIYCPEPAIYLD----EEG------YPVfDYDYCKGCGICANECPTKAIE 99
GlpC COG0247
Fe-S cluster-containing oxidoreductase, includes glycolate oxidase subunit GlcF [Energy ...
 61-115 3.83e-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: 36.59  E-value: 3.83e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1436876146  61 ERCIACKLCEAVCPAMAisiESHEREDGTR---------RTTRYDIDLTK--------CIFCGFCEESCPVD 115
Cdd:COG0247    78 DACVGCGFCRAMCPSYK---ATGDEKDSPRgrinllrevLEGELPLDLSEevyevldlCLTCKACETACPSG 146
Fer4_8 pfam13183
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 62-115 3.97e-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: 34.21  E-value: 3.97e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1436876146  62 RCIACKLCEAVCPA---------MAISIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCPVD 115
Cdd:pfam13183   1 RCIRCGACLAACPVylvtggrfpGDPRGGAAALLGRLEALEGLAEGLWLCTLCGACTEVCPVG 63
DMSOR_beta_like cd10550
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 61-117 3.98e-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: 319872 [Multi-domain]  Cd Length: 130  Bit Score: 35.63  E-value: 3.98e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  61 ERCIACKLCEAVC---------PAMA-ISIESHEREDgtrrttrYDIDLTkCIFCG--FCEESCPVDSI 117
Cdd:cd10550     6 EKCTGCRTCELACslkhegvfnPSLSrIRVVRFEPEG-------LDVPVV-CRQCEdaPCVEACPVGAI 66
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 60-81 4.35e-03

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


Pssm-ID: 319871 [Multi-domain]  Cd Length: 128  Bit Score: 35.45  E-value: 4.35e-03
                          10        20
                  ....*....|....*....|..
gi 1436876146  60 EERCIACKLCEAVCPAMAISIE 81
Cdd:cd10549   107 KEKCIGCGICAEVCPVNAIKLV 128
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 62-113 5.16e-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: 35.31  E-value: 5.16e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1436876146  62 RCIACKLCEAVCPAMAISIESHerEDGTR--RTTRYDIDLTKCIFCG-FCEESCP 113
Cdd:cd16373    15 LCIRCGLCVEACPTGVIQPAGL--EDGLEggRTPYLDPREGPCDLCCdACVEVCP 67
rnfC TIGR01945
electron transport complex, RnfABCDGE type, C subunit; The six subunit complex RnfABCDGE in ...
 53-113 6.41e-03

electron transport complex, RnfABCDGE type, C 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 C subunit. [Energy metabolism, Electron transport]


Pssm-ID: 273888 [Multi-domain]  Cd Length: 435  Bit Score: 36.17  E-value: 6.41e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1436876146  53 LRRYPNGEerCIACKLCEAVCPAMAISIESHEREDGTRRTTRYDIDLTKCIFCGFCEESCP 113
Cdd:TIGR01945 357 TPESPEKP--CIRCGKCVQVCPMNLLPQQLNWLALADEFDEAEEHNLMDCIECGCCSYVCP 415
PRK09898 PRK09898
ferredoxin-like protein;
61-113 6.48e-03

ferredoxin-like protein;


Pssm-ID: 182135 [Multi-domain]  Cd Length: 208  Bit Score: 35.58  E-value: 6.48e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1436876146  61 ERCIACK--LCEAVCPAMAISIEsheREDGTrrttrYDIDLTKCIFCGFCEESCP 113
Cdd:PRK09898  121 DTCRQCKepQCMNVCPIGAITWQ---QKEGC-----ITVDHKRCIGCSACTTACP 167
PRK07118 PRK07118
Fe-S cluster domain-containing protein;
63-118 7.38e-03

Fe-S cluster domain-containing protein;


Pssm-ID: 235941 [Multi-domain]  Cd Length: 280  Bit Score: 35.68  E-value: 7.38e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1436876146  63 CIACKLCEAVCPAMAISIEshereDGTRRttrydIDLTKCIFCGFCEESCPVDSIV 118
Cdd:PRK07118  141 CLGLGSCVAACPFDAIHIE-----NGLPV-----VDEDKCTGCGACVKACPRNVIE 186
RNAP_D cd07030
D subunit of Archaeal RNA polymerase; The D subunit of archaeal RNA polymerase (RNAP) is ...
 52-118 8.85e-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: 35.32  E-value: 8.85e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  52 ALRRYPNGE--ERCIACKLCEAVCPAMAISIESHEREDGtrrttrydiDLTKCIFCGFCEESCPVDSIV 118
Cdd:cd07030   158 GYKYYPVIEidEDCDGCGKCVEECPRGVLELEEGKVVVE---------DLEDCSLCKLCERACDAGAIR 217
PRK05113 PRK05113
electron transport complex protein RnfB; Provisional
 60-123 8.86e-03

electron transport complex protein RnfB; Provisional


Pssm-ID: 235347 [Multi-domain]  Cd Length: 191  Bit Score: 35.31  E-value: 8.86e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1436876146  60 EERCIACKLCEAVCPAMAISiesheredGTRRTTRYDI-DLtkCIFCGFCEESCPVDSI----VETHIH 123
Cdd:PRK05113  113 EDNCIGCTKCIQACPVDAIV--------GATKAMHTVIsDL--CTGCDLCVAPCPTDCIemipVAETPD 171
DMSOR_beta_like cd16370
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 52-117 9.43e-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: 319892 [Multi-domain]  Cd Length: 131  Bit Score: 34.56  E-value: 9.43e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1436876146  52 ALRRYPNG-----EERCIACKLCEAVCPAMAIsiesheredgtrrttRYDIDLTK---CIFCGFCEESCPVDSI 117
Cdd:cd16370    69 ALEPRKGGgvvldKEKCIGCGNCVKACIVGAI---------------FWDEETNKpiiCIHCGYCARYCPHDVL 127
RnfB COG2878
Na+-translocating ferredoxin:NAD+ oxidoreductase RNF, RnfB subunit [Energy production and ...
 60-120 9.50e-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: 35.36  E-value: 9.50e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1436876146  60 EERCIACKLCEAVCPAMAISIEShEREDGTRRTTRYDIDLTKCIFC-GFCEESCPVDSIVET 120
Cdd:COG2878   166 EDKCTGCGLCVEACPVDCIEMVP-VSPTVVVSSWDKGKAVRKVVGCiGLCCKKCCPAAAITV 226
COG2768 COG2768
Uncharacterized Fe-S cluster protein [Function unknown];
94-129 9.95e-03

Uncharacterized Fe-S cluster protein [Function unknown];


Pssm-ID: 442050 [Multi-domain]  Cd Length: 74  Bit Score: 33.55  E-value: 9.95e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 1436876146  94 RYDIDLTKCIFCGFCEESCPVDSI-VETHIHEYHGEK 129
Cdd:COG2768     5 KPYVDEEKCIGCGACVKVCPVGAIsIEDGKAVIDPEK 41
 
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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