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Conserved domains on  [gi|1361679462|dbj|GBF42327|]
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4Fe-4S binding protein [Leptospira ellinghausenii]

Protein Classification

epoxyqueuosine reductase( domain architecture ID 11446674)

epoxyqueuosine reductase catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr)

EC:  1.17.99.6
Gene Ontology:  GO:0052693|GO:0051539|GO:0008616|GO:0046872|GO:0008033
SCOP:  4007034|4007775

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
QueG COG1600
Epoxyqueuosine reductase QueG (queuosine biosynthesis) [Translation, ribosomal structure and ...
 11-317 5.09e-109

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


:

Pssm-ID: 441208 [Multi-domain]  Cd Length: 345  Bit Score: 320.61  E-value: 5.09e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  11 QIKSLCEKEGFSFVGFTKAEIPEKDLEYLDHWISEKKHGNMDWFAKDhaLSIRNRFENL--GFKptSAICLGFVYRSSEG 88
Cdd:COG1600    10 EIKAWARELGFDLVGIAPADPLPEAEERLEEWLAAGYHGEMGYMERH--IEKRADPRELlpGAK--SVISLALNYLPEEE 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  89 ENLLAHmkRKVSRYALGTDYHIVLRKKGNQILKELKALYPQNHFRQSVDSLPIAEKILTRESRIVWQGKHTNLIHPKLGS 168
Cdd:COG1600    86 VSDPDR--GKISRYAWGRDYHKVLRKRLKKLAEFLEEEGPGVGYRVFVDTAPVLERALAERAGLGWIGKNTNLITPEFGS 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 169 YFFLSIILTDLELgetNLEETTTDHCGSCRRCLDVCPTNAL-EPYELDASKCISYLTIEdrTHTEVTDSFlkWDK-KGWV 246
Cdd:COG1600   164 WFFLGEILTDLEL---PPDEPVEDHCGSCTRCLDACPTGAIvAPYVLDARRCISYLTIE--LKGPIPEEL--RPKmGNRI 236

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1361679462 247 YGCDLCQEVCPWNEGIAKrnqveTLEPSFLPREFWKDRSFQEKQKLSEEEFQTYFQDSPIERIGLSIWNRN 317
Cdd:COG1600   237 YGCDDCQDVCPWNRFAQP-----TREPDFQPRPELAAPDLEELLALDEAEFRERFGGSAIRRIGRERLLRN 302
 
Name Accession Description Interval E-value
QueG COG1600
Epoxyqueuosine reductase QueG (queuosine biosynthesis) [Translation, ribosomal structure and ...
 11-317 5.09e-109

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


Pssm-ID: 441208 [Multi-domain]  Cd Length: 345  Bit Score: 320.61  E-value: 5.09e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  11 QIKSLCEKEGFSFVGFTKAEIPEKDLEYLDHWISEKKHGNMDWFAKDhaLSIRNRFENL--GFKptSAICLGFVYRSSEG 88
Cdd:COG1600    10 EIKAWARELGFDLVGIAPADPLPEAEERLEEWLAAGYHGEMGYMERH--IEKRADPRELlpGAK--SVISLALNYLPEEE 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  89 ENLLAHmkRKVSRYALGTDYHIVLRKKGNQILKELKALYPQNHFRQSVDSLPIAEKILTRESRIVWQGKHTNLIHPKLGS 168
Cdd:COG1600    86 VSDPDR--GKISRYAWGRDYHKVLRKRLKKLAEFLEEEGPGVGYRVFVDTAPVLERALAERAGLGWIGKNTNLITPEFGS 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 169 YFFLSIILTDLELgetNLEETTTDHCGSCRRCLDVCPTNAL-EPYELDASKCISYLTIEdrTHTEVTDSFlkWDK-KGWV 246
Cdd:COG1600   164 WFFLGEILTDLEL---PPDEPVEDHCGSCTRCLDACPTGAIvAPYVLDARRCISYLTIE--LKGPIPEEL--RPKmGNRI 236

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1361679462 247 YGCDLCQEVCPWNEGIAKrnqveTLEPSFLPREFWKDRSFQEKQKLSEEEFQTYFQDSPIERIGLSIWNRN 317
Cdd:COG1600   237 YGCDDCQDVCPWNRFAQP-----TREPDFQPRPELAAPDLEELLALDEAEFRERFGGSAIRRIGRERLLRN 302
TIGR00276 TIGR00276
epoxyqueuosine reductase; This model was rebuilt to exclude archaeal homologs, now that there ...
 12-317 9.29e-83

epoxyqueuosine reductase; This model was rebuilt to exclude archaeal homologs, now that there is new information that bacterial members are epoxyqueuosine reductase, QueG, involved in queuosine biosynthesis for tRNA maturation. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 272993 [Multi-domain]  Cd Length: 337  Bit Score: 253.60  E-value: 9.29e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  12 IKSLCEKEGFSFVGFTKAEIPEKDLEYLDHWISEKKHGNMDWFAKDhaLSIRNRFENLGFKPTSAICLGFVYrSSEGENL 91
Cdd:TIGR00276   1 IKAWAKELGFDKIGITDADLFPEEKERLLAWLEAGYHGEMGFMARH--GEKRARPAELLPGTRSVISVRMDY-LPKLAPP 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  92 LAHMKRK----VSRYALGTDYHIVLRKKGNQILKELKALYPQNHFRQSVDSLPIAEKILTRESRIVWQGKHTNLIHPKLG 167
Cdd:TIGR00276  78 AKSLKDPergyISRYALGRDYHKVLRKRLKKLAEFIEEEVGDFGYRVFVDTAPVLERALAERAGLGWIGKHTLLINREAG 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 168 SYFFLSIILTDLELgetNLEETTTDHCGSCRRCLDVCPTNAL-EPYELDASKCISYLTIEdrTHTEVTDSFLKwdKKG-W 245
Cdd:TIGR00276 158 SWFFLGEIFTNLPL---PPDAPVTDHCGSCTACLDACPTGAIvAPYQLDARRCISYLTIE--LKGPIPEEFRP--LIGnR 230

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1361679462 246 VYGCDLCQEVCPWNEGIAKrnqveTLEPSFLPREFWKDRSFQEKQKLSEEEFQTYFQDSPIERIGLSIWNRN 317
Cdd:TIGR00276 231 IYGCDDCQLVCPWNKFADA-----THEPDFQPRHELDAPSLIELLAWDEAEFLERFGGSAIRRIGKKRWLRN 297
Fer4_16 pfam13484
4Fe-4S double cluster binding domain;
194-259 1.07e-24

4Fe-4S double cluster binding domain;


Pssm-ID: 463893 [Multi-domain]  Cd Length: 65  Bit Score: 94.48  E-value: 1.07e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1361679462 194 CGSCRRCLDVCPTNAL--EPYELDASKCISYLTIEDRTHTEVTdsfLKWDKKGWVYGCDLCQEVCPWN 259
Cdd:pfam13484   1 CGSCGKCIDACPTGAIvgPEGVLDARRCISYLTIEKKGLIPDE---LRCLLGNRCYGCDICQDVCPWN 65
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 194-259 1.02e-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: 44.31  E-value: 1.02e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1361679462 194 CGSCRRCLDVCPTNALE-----PYELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCPWN 259
Cdd:cd10549    80 CIGCGLCVKVCPVDAITledelEIVIDKEKCI---------------------------GCGICAEVCPVN 123
PRK06273 PRK06273
ferredoxin; Provisional
 150-298 6.13e-03

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 37.00  E-value: 6.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 150 SRIVWQGKHTNLihpklGSYFFLSIILTDLELGETNLEETT-------TDHCGSCRRCLDVCPTNALEPYELDASKCisy 222
Cdd:PRK06273    5 AKIFLSGIYENL-----ERIIFGSDRYTDKEMRNAILTGTVelpkkvfEELCIGCGGCANVCPTKAIEMIPVEPVKI--- 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1361679462 223 ltiedrTHTEVTDSFLKWDKKGWVYgCDLCQEVCPWnegIAKRNQVETLEPSFLPREFWKDRS--FQEKQKLSEEEFQ 298
Cdd:PRK06273   77 ------TEGYVKTKIPKIDYEKCVY-CLYCHDFCPV---FALFNEISPIHPRDVGEDIEVDVSklLEKPVEISEEQLS 144
 
Name Accession Description Interval E-value
QueG COG1600
Epoxyqueuosine reductase QueG (queuosine biosynthesis) [Translation, ribosomal structure and ...
 11-317 5.09e-109

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


Pssm-ID: 441208 [Multi-domain]  Cd Length: 345  Bit Score: 320.61  E-value: 5.09e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  11 QIKSLCEKEGFSFVGFTKAEIPEKDLEYLDHWISEKKHGNMDWFAKDhaLSIRNRFENL--GFKptSAICLGFVYRSSEG 88
Cdd:COG1600    10 EIKAWARELGFDLVGIAPADPLPEAEERLEEWLAAGYHGEMGYMERH--IEKRADPRELlpGAK--SVISLALNYLPEEE 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  89 ENLLAHmkRKVSRYALGTDYHIVLRKKGNQILKELKALYPQNHFRQSVDSLPIAEKILTRESRIVWQGKHTNLIHPKLGS 168
Cdd:COG1600    86 VSDPDR--GKISRYAWGRDYHKVLRKRLKKLAEFLEEEGPGVGYRVFVDTAPVLERALAERAGLGWIGKNTNLITPEFGS 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 169 YFFLSIILTDLELgetNLEETTTDHCGSCRRCLDVCPTNAL-EPYELDASKCISYLTIEdrTHTEVTDSFlkWDK-KGWV 246
Cdd:COG1600   164 WFFLGEILTDLEL---PPDEPVEDHCGSCTRCLDACPTGAIvAPYVLDARRCISYLTIE--LKGPIPEEL--RPKmGNRI 236

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1361679462 247 YGCDLCQEVCPWNEGIAKrnqveTLEPSFLPREFWKDRSFQEKQKLSEEEFQTYFQDSPIERIGLSIWNRN 317
Cdd:COG1600   237 YGCDDCQDVCPWNRFAQP-----TREPDFQPRPELAAPDLEELLALDEAEFRERFGGSAIRRIGRERLLRN 302
TIGR00276 TIGR00276
epoxyqueuosine reductase; This model was rebuilt to exclude archaeal homologs, now that there ...
 12-317 9.29e-83

epoxyqueuosine reductase; This model was rebuilt to exclude archaeal homologs, now that there is new information that bacterial members are epoxyqueuosine reductase, QueG, involved in queuosine biosynthesis for tRNA maturation. [Protein synthesis, tRNA and rRNA base modification]


Pssm-ID: 272993 [Multi-domain]  Cd Length: 337  Bit Score: 253.60  E-value: 9.29e-83
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  12 IKSLCEKEGFSFVGFTKAEIPEKDLEYLDHWISEKKHGNMDWFAKDhaLSIRNRFENLGFKPTSAICLGFVYrSSEGENL 91
Cdd:TIGR00276   1 IKAWAKELGFDKIGITDADLFPEEKERLLAWLEAGYHGEMGFMARH--GEKRARPAELLPGTRSVISVRMDY-LPKLAPP 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462  92 LAHMKRK----VSRYALGTDYHIVLRKKGNQILKELKALYPQNHFRQSVDSLPIAEKILTRESRIVWQGKHTNLIHPKLG 167
Cdd:TIGR00276  78 AKSLKDPergyISRYALGRDYHKVLRKRLKKLAEFIEEEVGDFGYRVFVDTAPVLERALAERAGLGWIGKHTLLINREAG 157

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 168 SYFFLSIILTDLELgetNLEETTTDHCGSCRRCLDVCPTNAL-EPYELDASKCISYLTIEdrTHTEVTDSFLKwdKKG-W 245
Cdd:TIGR00276 158 SWFFLGEIFTNLPL---PPDAPVTDHCGSCTACLDACPTGAIvAPYQLDARRCISYLTIE--LKGPIPEEFRP--LIGnR 230

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1361679462 246 VYGCDLCQEVCPWNEGIAKrnqveTLEPSFLPREFWKDRSFQEKQKLSEEEFQTYFQDSPIERIGLSIWNRN 317
Cdd:TIGR00276 231 IYGCDDCQLVCPWNKFADA-----THEPDFQPRHELDAPSLIELLAWDEAEFLERFGGSAIRRIGKKRWLRN 297
Fer4_16 pfam13484
4Fe-4S double cluster binding domain;
194-259 1.07e-24

4Fe-4S double cluster binding domain;


Pssm-ID: 463893 [Multi-domain]  Cd Length: 65  Bit Score: 94.48  E-value: 1.07e-24
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1361679462 194 CGSCRRCLDVCPTNAL--EPYELDASKCISYLTIEDRTHTEVTdsfLKWDKKGWVYGCDLCQEVCPWN 259
Cdd:pfam13484   1 CGSCGKCIDACPTGAIvgPEGVLDARRCISYLTIEKKGLIPDE---LRCLLGNRCYGCDICQDVCPWN 65
QueG_DUF1730 pfam08331
Epoxyqueuosine reductase QueG, DUF1730; This domain of unknown function occurs in ...
 63-138 7.31e-14

Epoxyqueuosine reductase QueG, DUF1730; This domain of unknown function occurs in Epoxyqueuosine reductase QueG, an iron-sulfur cluster-binding protein, together with the 4Fe-4S binding domain (pfam00037). QueG catalyzes the conversion of epoxyqueuosine (oQ) to queuosine (Q), which is a hypermodified base found in the wobble positions of tRNA(Asp), tRNA(Asn), tRNA(His) and tRNA(Tyr).


Pssm-ID: 462431 [Multi-domain]  Cd Length: 77  Bit Score: 65.64  E-value: 7.31e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1361679462  63 RNRFENLGFKPTSAICLGFVYRSSE-GENLLAHMKRKVSRYALGTDYHIVLRKKGNQILKELKALYPQNHFRQSVDS 138
Cdd:pfam08331   1 RADPRLLLPGARSVISLALNYYPPKdPPALLDPDRGKISRYAWGRDYHDVLKKRLKALAAWLEAEVPGGEYRVFVDT 77
RDH TIGR02486
reductive dehalogenase; This model represents a family of corrin and 8-iron Fe-S ...
 161-263 3.22e-07

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


Pssm-ID: 274158  Cd Length: 314  Bit Score: 50.90  E-value: 3.22e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 161 LIHPKLGSYFFLS-IILTDLELGETN-LEETTTDHCGSCRRCLDVCPtnalepyeldaSKCISY-----LTIEDRTHTEV 233
Cdd:TIGR02486 172 IISPEYGPRVRIAkVILTDLPLVPTKpIDAGMAKFCETCGKCADECP-----------SGAISKggeptWDPEDSNGDPP 240

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1361679462 234 TDSF--LKWDKKGW-----------VYGCDLCQEVCPWNEGIA 263
Cdd:TIGR02486 241 GENNpgLKWQYDGWrcllfrcynegGGGCGVCQAVCPFNKKPN 283
Fer4_7 pfam12838
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 194-259 2.61e-06

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


Pssm-ID: 463724 [Multi-domain]  Cd Length: 51  Bit Score: 44.05  E-value: 2.61e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1361679462 194 CGSCRRCLDVCPTNALEPYELDASKCISYLTIEDRTHTevtdsflkwdkkgwvyGCDLCQEVCPWN 259
Cdd:pfam12838   1 CIGCGACVAACPVGAITLDEVGEKKGTKTVVIDPERCV----------------GCGACVAVCPTG 50
NapF COG1145
Ferredoxin [Energy production and conversion];
191-259 4.73e-06

Ferredoxin [Energy production and conversion];


Pssm-ID: 440760 [Multi-domain]  Cd Length: 238  Bit Score: 47.02  E-value: 4.73e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1361679462 191 TDHCGSCRRCLDVCPTNALE------PYELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCPWN 259
Cdd:COG1145   181 AEKCIGCGLCVKVCPTGAIRlkdgkpQIVVDPDKCI---------------------------GCGACVKVCPVG 228
COG1149 COG1149
MinD superfamily P-loop ATPase, contains an inserted ferredoxin domain [General function ...
 191-257 6.12e-06

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


Pssm-ID: 440763 [Multi-domain]  Cd Length: 68  Bit Score: 43.18  E-value: 6.12e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1361679462 191 TDHCGSCRRCLDVCPTNALE-----PYELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCP 257
Cdd:COG1149    10 EEKCIGCGLCVEVCPEGAIKlddggAPVVDPDLCT---------------------------GCGACVGVCP 54
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 194-259 1.02e-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: 44.31  E-value: 1.02e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1361679462 194 CGSCRRCLDVCPTNALE-----PYELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCPWN 259
Cdd:cd10549    80 CIGCGLCVKVCPVDAITledelEIVIDKEKCI---------------------------GCGICAEVCPVN 123
NuoI COG1143
Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy ...
 191-257 1.03e-05

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


Pssm-ID: 440758 [Multi-domain]  Cd Length: 66  Bit Score: 42.81  E-value: 1.03e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1361679462 191 TDHCGSCRRCLDVCPTNALEP--------YELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCP 257
Cdd:COG1143     1 EDKCIGCGLCVRVCPVDAITIedgepgkvYVIDPDKCI---------------------------GCGLCVEVCP 48
IorA COG4231
TPP-dependent indolepyruvate ferredoxin oxidoreductase, alpha subunit [Energy production and ...
 191-259 7.87e-05

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


Pssm-ID: 443375 [Multi-domain]  Cd Length: 76  Bit Score: 40.41  E-value: 7.87e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1361679462 191 TDHCGSCRRCLDVCPTNALE----PYELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCPWN 259
Cdd:COG4231    21 EDKCTGCGACVKVCPADAIEegdgKAVIDPDLCI---------------------------GCGSCVQVCPVD 66
DMSOR_beta_like cd16373
uncharacterized subfamily of DMSO Reductase beta subunit family; This family consists of the ...
 192-257 1.25e-04

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


Pssm-ID: 319895 [Multi-domain]  Cd Length: 154  Bit Score: 41.47  E-value: 1.25e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1361679462 192 DHCgsCRRCLDVCPTNALEPYEL------------DASKCISYLTIEDrthtevtdsflkwdkkgwvygCDLCQEVCP 257
Cdd:cd16373    56 DLC--CDACVEVCPTGALRPLDLeeqkvkmgvaviDKDRCLAWQGGTD---------------------CGVCVEACP 110
activase_YjjW TIGR04041
glycine radical enzyme activase, YjjW family; Members of this family are radical SAM enzymes, ...
 190-257 4.40e-04

glycine radical enzyme activase, YjjW family; Members of this family are radical SAM enzymes, designated YjjW in E. coli, that are paired with and appear to activate a glycyl radical enzyme of unknown function, designated YjjI. This activase and its target are found in Clostridial species as well as E. coli and cousins. Members of this family may be misannotated as pyruvate formate lyase activating enzyme. [Protein fate, Protein modification and repair]


Pssm-ID: 274938 [Multi-domain]  Cd Length: 276  Bit Score: 41.08  E-value: 4.40e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1361679462 190 TTDHCGSCRRCLDVCPTNALEpyeldaskcisyltiedrthteVTDSFLKWDKKGWVyGCDLCQEVCP 257
Cdd:TIGR04041  39 TINHCDHCGDCVAGCPAGALS----------------------LVDGKVVWDKERCI-GCDTCIKVCP 83
rnfB TIGR01944
electron transport complex, RnfABCDGE type, B subunit; The six subunit complex RnfABCDGE in ...
 192-257 7.00e-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: 39.78  E-value: 7.00e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1361679462 192 DHCGSCRRCLDVCPTNALepyeLDASKCIsyltiedrtHTEVTDsflkwdkkgWVYGCDLCQEVCP 257
Cdd:TIGR01944 113 DNCIGCTKCIQACPVDAI----VGAAKAM---------HTVIAD---------ECTGCDLCVEPCP 156
MtMvhB_like cd10549
Uncharacterized polyferredoxin-like protein; This family contains uncharacterized ...
 192-257 2.56e-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: 37.38  E-value: 2.56e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 192 DHCGSCRRCLDVCPTNALE---------PYELDASKCI-----------SYLTIedrthTEVTDSFLKWDKKGWVY---- 247
Cdd:cd10549     6 EKCIGCGICVKACPTDAIElgpngaiarGPEIDEDKCVfcgacvevcptGAIEL-----TPEGKEYVPKEKEAEIDeekc 80

                          90
                  ....*....|.
gi 1361679462 248 -GCDLCQEVCP 257
Cdd:cd10549    81 iGCGLCVKVCP 91
HycB COG1142
Fe-S-cluster-containing hydrogenase component 2 [Energy production and conversion];
193-258 3.34e-03

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


Pssm-ID: 440757 [Multi-domain]  Cd Length: 138  Bit Score: 37.33  E-value: 3.34e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 193 HCGScRRCLDVCPTNALEP----YELDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCPW 258
Cdd:COG1142    54 HCED-APCAEVCPVGAITRddgaVVVDEEKCI---------------------------GCGLCVLACPF 95
GlpC COG0247
Fe-S cluster-containing oxidoreductase, includes glycolate oxidase subunit GlcF [Energy ...
 192-257 4.62e-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: 38.52  E-value: 4.62e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1361679462 192 DHCGSCRRCLDVCPTNALEPYELDASKCISYLT---IEDRTHTEVTDSFlkwdkKGWVY---GCDLCQEVCP 257
Cdd:COG0247    78 DACVGCGFCRAMCPSYKATGDEKDSPRGRINLLrevLEGELPLDLSEEV-----YEVLDlclTCKACETACP 144
HybA COG0437
Fe-S-cluster-containing dehydrogenase component (DMSO reductase) [Energy production and ...
 200-259 4.95e-03

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


Pssm-ID: 440206 [Multi-domain]  Cd Length: 184  Bit Score: 37.23  E-value: 4.95e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1361679462 200 CLDVCPTNALEPYE-----LDASKCIsyltiedrthtevtdsflkwdkkgwvyGCDLCQEVCPWN 259
Cdd:COG0437    68 CVKVCPTGATYKREdgivlVDYDKCI---------------------------GCRYCVAACPYG 105
PRK06273 PRK06273
ferredoxin; Provisional
 150-298 6.13e-03

ferredoxin; Provisional


Pssm-ID: 235764 [Multi-domain]  Cd Length: 165  Bit Score: 37.00  E-value: 6.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1361679462 150 SRIVWQGKHTNLihpklGSYFFLSIILTDLELGETNLEETT-------TDHCGSCRRCLDVCPTNALEPYELDASKCisy 222
Cdd:PRK06273    5 AKIFLSGIYENL-----ERIIFGSDRYTDKEMRNAILTGTVelpkkvfEELCIGCGGCANVCPTKAIEMIPVEPVKI--- 76

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1361679462 223 ltiedrTHTEVTDSFLKWDKKGWVYgCDLCQEVCPWnegIAKRNQVETLEPSFLPREFWKDRS--FQEKQKLSEEEFQ 298
Cdd:PRK06273   77 ------TEGYVKTKIPKIDYEKCVY-CLYCHDFCPV---FALFNEISPIHPRDVGEDIEVDVSklLEKPVEISEEQLS 144
Fer4_21 pfam14697
4Fe-4S dicluster domain; Superfamily includes proteins containing domains which bind to ...
 192-262 6.54e-03

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


Pssm-ID: 434137 [Multi-domain]  Cd Length: 59  Bit Score: 34.56  E-value: 6.54e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1361679462 192 DHCGSCRRCLDVCPTNALEPYELDAskcisyltieDRTHTEVTDSflkwdkkgwVYGCDLCQEVCPWNEGI 262
Cdd:pfam14697   6 DTCIGCGKCYIACPDTSHQAIVGDG----------KRHHTVIEDE---------CTGCNLCVSVCPVDDCI 57
 
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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