Citrus Sinensis ID: 022828

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-
Protein Sequence
MCAVRTGEFVSPTGCVCGRGTKSVALLLLSLELVENASSSRGQASSRDSSSNPSISSGISIFLHCLELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccEEccccccccccccccccccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHccccccHHHHHHHHHHHcccccEEEEEEHHcccccccccccEEEEEccccHHccccHHHHHHHHHHHHccccccccccccEEEEEEEcccccccccEEEEcccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEcccEEccccccccccHHHHHHHHHHHHHHHHHHHHcccHHHHcccccccccccccEEEcccccEEEcccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccEEEEEEEEHHHccccccccEEEEEcccccccccccHHHHHHHHHHcccccccccccccEEEEEEEEccccccccEEEEEccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mcavrtgefvsptgcvcgrgtKSVALLLLSLELVENasssrgqassrdsssnpsissGISIFLHCLELCkhldspdnnpdlpwkfsdtNKEKVKEILShypsnykqsaviplldlaqqqhggwlpvsAMNEVAKIIEVAPIRVYEVATFYSMfnrskvgkyhllvcgttpcmvrgsREIEDALLKHLGvkrnevtkdglfsvgemecmgccvnapmitvadysngsegytynyyedvtpKRVIEIVEMLRrgeklppgtqnpkriksgpeggnttllsepkpppcrdldac
Flexible Loop (DISEMBL)
mcavrtgefvsptgcvcgrGTKSVALLLLSLELVENAsssrgqassrdsssnpSISSGISIFLHCLELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLkhlgvkrnevTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLrrgeklppgtqnpkriksgpeggnttllsepkpppcrdldac
Low Complexity Region (SEG)
MCAVRTGEFVSPTGCVCGRGTKsvallllslelvenasssrgqassrdsssnpsissgisiFLHCLELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC
Disordered region (IsUnstruct)
*****TGEFVSPTGCVCGRGTKSVALLLLSLELV***********************GISIFLHCLELCKHLD*********WKF*******VKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEML******************************************
Disordered Region (DISOPRED)
******GEFVSPTGCVCGRGTKSVALLLLS***********************************************NPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRR**********************TTLLSEPKPPP***L***
Disordered Region (DISEMBL)
MCAVRTGEFVSPTGCVCGRGTKSVALLLLSLELVE*******************ISSGISIFLHCLELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC
Disordered Region (DISPRO)
MCAVRTGEFVSPTGCVCGRGTKSVALLLLSLELVENASS*******************ISIFLHCLELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEK*************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MCAVRTGEFVSPTGCVCGRGTKSVALLLLSLELVENASSSRGQASSRDSSSNPSISSGISIFLHCLELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	291	2.2.26 [Sep-21-2011]
O22769	255	NADH dehydrogenase [ubiqu	yes	no	0.769	0.878	0.861	1e-114
P04394	249	NADH dehydrogenase [ubiqu	yes	no	0.701	0.819	0.495	2e-56
P19234	248	NADH dehydrogenase [ubiqu	yes	no	0.701	0.822	0.490	5e-56
Q20719	239	Probable NADH dehydrogena	yes	no	0.725	0.882	0.495	5e-56
Q0MQI7	249	NADH dehydrogenase [ubiqu	N/A	no	0.701	0.819	0.490	6e-56
Q0MQI8	249	NADH dehydrogenase [ubiqu	N/A	no	0.701	0.819	0.490	6e-56
Q0MQI9	249	NADH dehydrogenase [ubiqu	yes	no	0.701	0.819	0.490	7e-56
P19404	249	NADH dehydrogenase [ubiqu	yes	no	0.701	0.819	0.490	7e-56
Q9D6J6	248	NADH dehydrogenase [ubiqu	yes	no	0.701	0.822	0.486	2e-55
Q54F10	247	NADH dehydrogenase [ubiqu	yes	no	0.718	0.846	0.445	2e-52

>sp|O22769|NDUV2_ARATH NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Arabidopsis thaliana GN=At4g02580 PE=1 SV=3

 Score =  412 bits (1058), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 193/224 (86%), Positives = 207/224 (92%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  HLDSPDN PDLPW+FS+ N+ KVKEILS+YPSNYKQSAVIPLLDLAQQQ+GGWLPVS
Sbjct: 32  LNYHLDSPDNKPDLPWEFSEANQSKVKEILSYYPSNYKQSAVIPLLDLAQQQNGGWLPVS 91

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN VAK+IEVAPIRVYEVATFYSMFNR+KVGKYHLLVCGTTPCM+RGSR+IE ALL HL
Sbjct: 92  AMNAVAKVIEVAPIRVYEVATFYSMFNRAKVGKYHLLVCGTTPCMIRGSRDIESALLDHL 151

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           GVKR EVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNY+EDVTP++V+EIVE
Sbjct: 152 GVKRGEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYFEDVTPEKVVEIVE 211

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC 291
            LR+GEK P GTQNPKRIK GPEGGN TLL EPKPP  RDLDAC
Sbjct: 212 KLRKGEKPPHGTQNPKRIKCGPEGGNKTLLGEPKPPQFRDLDAC 255

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.
Arabidopsis thaliana (taxid: 3702)
EC: 1EC: .EC: 6EC: .EC: 9EC: 9EC: .EC: 3

>sp|P04394|NDUV2_BOVIN NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Bos taurus GN=NDUFV2 PE=1 SV=3

 Score =  219 bits (557), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 107/216 (49%), Positives = 152/216 (70%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNP+ P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 38  LFVHRDTPENNPETPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPIS 96

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA+I++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K L
Sbjct: 97  AMNKVAEILQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKL 156

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+TPK + EI++
Sbjct: 157 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTPKDIEEIID 206

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            L+ G+   PG ++  R    P GG T+L   PK P
Sbjct: 207 ELKAGKIPKPGPRS-GRFSCEPAGGLTSLTEPPKGP 241

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Bos taurus (taxid: 9913)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|P19234|NDUV2_RAT NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Rattus norvegicus GN=Ndufv2 PE=1 SV=2

 Score =  218 bits (555), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 106/216 (49%), Positives = 151/216 (69%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNPD P+ F+  N E+++ I+ +YP  ++ +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 37  LFVHRDTPENNPDTPFDFTPENYERIEAIVRNYPEGHRAAAVLPVLDLAQRQNG-WLPIS 95

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I + L + L
Sbjct: 96  AMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRDSDSILETLQRKL 155

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          +YYED+TPK + EI++
Sbjct: 156 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------DYYEDLTPKDIEEIID 205

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            LR G+   PG ++  R    P GG T+L   PK P
Sbjct: 206 ELRAGKVPKPGPRS-GRFCCEPAGGLTSLTEPPKGP 240

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Rattus norvegicus (taxid: 10116)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q20719|NDUV2_CAEEL Probable NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Caenorhabditis elegans GN=F53F4.10 PE=1 SV=1

 Score =  218 bits (554), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 111/224 (49%), Positives = 148/224 (66%), Gaps = 13/224 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+ +NN ++ +KF+  N+E++K I+  YP  +K  A+IPLLDLAQ+QHG WLP+S
Sbjct: 27  LMVHRDTKENNLNVKFKFTSENQERIKAIMDIYPEGHKAGALIPLLDLAQRQHG-WLPIS 85

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AM+EVAKI+EV  +R YEVATFY+MFNR  VGKY L VC TTPCM+RG+  I + + K L
Sbjct: 86  AMHEVAKILEVPRMRAYEVATFYTMFNRQPVGKYFLQVCATTPCMLRGAETITETIEKKL 145

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+   E TKDGLF++ E+EC+G CVNAPMI + D          +Y+ED+TPK V EI++
Sbjct: 146 GIHAGETTKDGLFTLAEVECLGACVNAPMIQIND----------DYFEDLTPKDVNEILD 195

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC 291
            L+ G K P       R+ + P G  T+L   P P P   L A 
Sbjct: 196 DLKAGRK-PAAGPRSGRLAAEPFGELTSLKETP-PGPGFGLQAA 237

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Caenorhabditis elegans (taxid: 6239)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q0MQI7|NDUV2_PONPY NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Pongo pygmaeus GN=NDUFV2 PE=2 SV=1

 Score =  218 bits (554), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 106/216 (49%), Positives = 151/216 (69%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 38  LFVHRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPIS 96

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K L
Sbjct: 97  AMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKL 156

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++
Sbjct: 157 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIID 206

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            L+ G+   PG ++  R    P GG T+L   PK P
Sbjct: 207 ELKAGKIPKPGPRS-GRFSCEPAGGLTSLTEPPKGP 241

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pongo pygmaeus (taxid: 9600)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q0MQI8|NDUV2_GORGO NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Gorilla gorilla gorilla GN=NDUFV2 PE=2 SV=1

 Score =  218 bits (554), Expect = 6e-56,   Method: Compositional matrix adjust.
 Identities = 106/216 (49%), Positives = 151/216 (69%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 38  LFVHRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPIS 96

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K L
Sbjct: 97  AMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKL 156

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++
Sbjct: 157 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIID 206

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            L+ G+   PG ++  R    P GG T+L   PK P
Sbjct: 207 ELKAGKIPKPGPRS-GRFSCEPAGGLTSLTEPPKGP 241

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Gorilla gorilla gorilla (taxid: 9595)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q0MQI9|NDUV2_PANTR NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Pan troglodytes GN=NDUFV2 PE=2 SV=1

 Score =  217 bits (553), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 106/216 (49%), Positives = 151/216 (69%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 38  LFVHRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPIS 96

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K L
Sbjct: 97  AMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKL 156

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++
Sbjct: 157 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIID 206

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            L+ G+   PG ++  R    P GG T+L   PK P
Sbjct: 207 ELKAGKIPKPGPRS-GRFSCEPAGGLTSLTEPPKGP 241

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Pan troglodytes (taxid: 9598)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|P19404|NDUV2_HUMAN NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Homo sapiens GN=NDUFV2 PE=1 SV=2

 Score =  217 bits (553), Expect = 7e-56,   Method: Compositional matrix adjust.
 Identities = 106/216 (49%), Positives = 151/216 (69%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 38  LFVHRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPIS 96

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K L
Sbjct: 97  AMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKL 156

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++
Sbjct: 157 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIID 206

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            L+ G+   PG ++  R    P GG T+L   PK P
Sbjct: 207 ELKAGKIPKPGPRS-GRFSCEPAGGLTSLTEPPKGP 241

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Homo sapiens (taxid: 9606)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q9D6J6|NDUV2_MOUSE NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Mus musculus GN=Ndufv2 PE=1 SV=2

 Score =  216 bits (550), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 105/216 (48%), Positives = 151/216 (69%), Gaps = 12/216 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L  H D+P+NNPD P+ F+  N ++++ I+ +YP  ++ +AV+P+LDLAQ+Q+G WLP+S
Sbjct: 37  LFVHRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHQAAAVLPVLDLAQRQNG-WLPIS 95

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AMN+VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I + L + L
Sbjct: 96  AMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRDSDSILETLQRKL 155

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G+K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+TPK + EI++
Sbjct: 156 GIKVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTPKDIEEIID 205

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
            L+ G+   PG ++  R    P GG T+L   PK P
Sbjct: 206 ELKAGKVPKPGPRS-GRFCCEPAGGLTSLTEPPKGP 240

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Mus musculus (taxid: 10090)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

>sp|Q54F10|NDUV2_DICDI NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial OS=Dictyostelium discoideum GN=ndufv2 PE=3 SV=1

 Score =  206 bits (524), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 98/220 (44%), Positives = 144/220 (65%), Gaps = 11/220 (5%)

Query: 68  LCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVS 127
           L +H+++ DNN   P+ F+  N  KV++IL+ YP  Y+QSA+IPLLDLAQ+Q+GGW+ + 
Sbjct: 37  LSRHVETEDNNEHTPFDFTQENLVKVEKILAKYPKQYRQSALIPLLDLAQRQNGGWISLR 96

Query: 128 AMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHL 187
           AM++VA I  +AP+  YEVA+FY+MFNR+K+G+  + VC TTPCM+RGS EI      HL
Sbjct: 97  AMDKVAHICGIAPMTAYEVASFYTMFNRTKIGENFVQVCTTTPCMLRGSGEIIKTCKSHL 156

Query: 188 GVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           G++  E T D  F++ E+EC+G CVNAPM+ + D          ++YED+T    I +++
Sbjct: 157 GIQVGETTPDNKFTLVEVECLGACVNAPMMCIND----------DFYEDLTSASTINLLD 206

Query: 248 MLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRD 287
            ++  +    G Q  ++   GP+ G TTLL  P  P CRD
Sbjct: 207 QIKNNKPTKIGPQTHRKAAEGPQ-GKTTLLEPPVGPTCRD 245

Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.

Dictyostelium discoideum (taxid: 44689)

EC: 1

EC: .

EC: 6

EC: .

EC: 9

EC: 9

EC: .

EC: 3

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	291
TAIR|locus:2132387	255	AT4G02580 [Arabidopsis thalian	0.759	0.866	0.868	1.4e-105
UNIPROTKB|Q6L4W7	274	OSJNBb0108E17.13 "Putative NAD	0.759	0.806	0.823	8.6e-104
UNIPROTKB|Q6V9B3	282	NUO5 "NADH:ubiquinone oxidored	0.749	0.773	0.521	5.1e-67
UNIPROTKB|E1BUZ0	246	NDUFV2 "Uncharacterized protei	0.690	0.817	0.514	6.1e-55
UNIPROTKB|E2QVP4	249	NDUFV2 "Uncharacterized protei	0.687	0.803	0.504	2.1e-54
UNIPROTKB|F1SM98	249	NDUFV2 "Uncharacterized protei	0.687	0.803	0.509	2.1e-54
UNIPROTKB|P04394	249	NDUFV2 "NADH dehydrogenase [ub	0.687	0.803	0.504	5.5e-54
UNIPROTKB|E7EPT4	252	NDUFV2 "NADH dehydrogenase [ub	0.687	0.793	0.5	1.9e-53
UNIPROTKB|P19404	249	NDUFV2 "NADH dehydrogenase [ub	0.687	0.803	0.5	1.9e-53
UNIPROTKB|Q0MQI9	249	NDUFV2 "NADH dehydrogenase [ub	0.687	0.803	0.5	1.9e-53

TAIR|locus:2132387 AT4G02580 [Arabidopsis thaliana (taxid:3702)]

 Score = 1045 (372.9 bits), Expect = 1.4e-105, P = 1.4e-105
 Identities = 192/221 (86%), Positives = 206/221 (93%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             HLDSPDN PDLPW+FS+ N+ KVKEILS+YPSNYKQSAVIPLLDLAQQQ+GGWLPVSAMN
Sbjct:    35 HLDSPDNKPDLPWEFSEANQSKVKEILSYYPSNYKQSAVIPLLDLAQQQNGGWLPVSAMN 94

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
              VAK+IEVAPIRVYEVATFYSMFNR+KVGKYHLLVCGTTPCM+RGSR+IE ALL HLGVK
Sbjct:    95 AVAKVIEVAPIRVYEVATFYSMFNRAKVGKYHLLVCGTTPCMIRGSRDIESALLDHLGVK 154

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
             R EVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNY+EDVTP++V+EIVE LR
Sbjct:   155 RGEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYFEDVTPEKVVEIVEKLR 214

Query:   251 RGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC 291
             +GEK P GTQNPKRIK GPEGGN TLL EPKPP  RDLDAC
Sbjct:   215 KGEKPPHGTQNPKRIKCGPEGGNKTLLGEPKPPQFRDLDAC 255

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS;IBA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS;IBA

GO:0016491 "oxidoreductase activity" evidence=IEA

GO:0051287 "NAD binding" evidence=IEA

GO:0055114 "oxidation-reduction process" evidence=IEA

GO:0006979 "response to oxidative stress" evidence=IDA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0006511 "ubiquitin-dependent protein catabolic process" evidence=RCA

GO:0009853 "photorespiration" evidence=RCA

GO:0051788 "response to misfolded protein" evidence=RCA

GO:0080129 "proteasome core complex assembly" evidence=RCA

UNIPROTKB|Q6L4W7 OSJNBb0108E17.13 "Putative NADH-ubiquinone oxidoreductase" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 1028 (366.9 bits), Expect = 8.6e-104, P = 8.6e-104
 Identities = 182/221 (82%), Positives = 204/221 (92%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             HLDSP+NNPD+PW+F++ N +KV EILSHYPSNYKQS +IP+LDLAQQQHGGW+PV+AMN
Sbjct:    54 HLDSPENNPDMPWEFTEANMKKVNEILSHYPSNYKQSGIIPMLDLAQQQHGGWVPVAAMN 113

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
              +AKI+EVAPIRVYEVATFY+MFNR+KVGKYHLLVCGTTPCM+RGSREIE+ALL+HLGVK
Sbjct:   114 AIAKIVEVAPIRVYEVATFYTMFNRTKVGKYHLLVCGTTPCMIRGSREIEEALLEHLGVK 173

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
             RNEVT DGLFSVGEMECMGCCVNAPMI VADYS GSEGYTYNYYED+TPKRV+EIVEML+
Sbjct:   174 RNEVTSDGLFSVGEMECMGCCVNAPMIAVADYSKGSEGYTYNYYEDLTPKRVVEIVEMLK 233

Query:   251 RGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC 291
             RGE  P GTQ+P+R   GP GGNTTL  EPKPPPCRDLDAC
Sbjct:   234 RGETPPRGTQHPERKNCGPAGGNTTLHGEPKPPPCRDLDAC 274

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS

UNIPROTKB|Q6V9B3 NUO5 "NADH:ubiquinone oxidoreductase 24 kDa subunit" [Chlamydomonas reinhardtii (taxid:3055)]

 Score = 681 (244.8 bits), Expect = 5.1e-67, P = 5.1e-67
 Identities = 121/232 (52%), Positives = 174/232 (75%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NN    ++FS+   + V +I++ YP NYKQSA+IP+LD+ QQ++GGWL ++AMN
Sbjct:    51 HKDTPENNAATSFEFSEATLKVVNDIIARYPPNYKQSAIIPVLDVTQQENGGWLSLAAMN 110

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
              VAK++++APIRVYEVATFY+MFNR+K+GKYH+ +CGTTPC ++GS++IE+A+ KHLG+ 
Sbjct:   111 RVAKLLDMAPIRVYEVATFYTMFNRTKIGKYHVQICGTTPCRLQGSQKIEEAITKHLGIG 170

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               + T+DGLF++GEMECMG CVNAPM+ +ADY+ G  G+ Y YYED+TPK ++ I++ ++
Sbjct:   171 IGQTTQDGLFTLGEMECMGACVNAPMVAIADYTKGVSGFEYIYYEDLTPKDIVNILDTIK 230

Query:   251 RGEKLPPGTQNPKRIKSGPEG------------GNTTLLSEPKPPPCRDLDA 290
             +G K  PG+Q   R+K+ P G            G TTL   P+ P CRDL+A
Sbjct:   231 KGGKPKPGSQY--RLKAEPAGAVHGGEKWVPKDGETTLTGAPRAPYCRDLNA 280

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS

UNIPROTKB|E1BUZ0 NDUFV2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 567 (204.7 bits), Expect = 6.1e-55, P = 6.1e-55
 Identities = 110/214 (51%), Positives = 153/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEK-VKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAM 129
             H DSP+NNPD P++F+  NK+K ++ I+S+YP  +K +AV+ +LDLAQ+QHG WLP+SAM
Sbjct:    37 HRDSPENNPDTPFEFTPENKKKRIEAIISNYPGGHKSAAVMAVLDLAQRQHG-WLPISAM 95

Query:   130 NEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGV 189
             N+VA+I+E+ P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+
Sbjct:    96 NKVAEILEMPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRDSDSILEAIQKKLGI 155

Query:   190 KRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEML 249
             K  E T D LF++ E+EC+G CVNAPM+ + D          NYYED+TPK + +I++ L
Sbjct:   156 KVGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTPKDIEDIIDEL 205

Query:   250 RRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPP 283
             + G+   PG ++  R    P GG T+L   PK P
Sbjct:   206 KAGKVPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 238

GO:0046872 "metal ion binding" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0048738 "cardiac muscle tissue development" evidence=IEA

UNIPROTKB|E2QVP4 NDUFV2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 108/214 (50%), Positives = 153/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+SAMN
Sbjct:    41 HRDTPENNPDTPFDFTPENYKRIEAIIKNYPEGHKAAAVLPVLDLAQRQNG-WLPISAMN 99

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
             +VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+K
Sbjct:   100 KVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKLGIK 159

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               E T D LF++ E+EC+G CVNAPM+ + D          NYYED+TPK + EI++ L+
Sbjct:   160 VGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTPKDIEEIIDELK 209

Query:   251 RGEKLP-PGTQNPKRIKSGPEGGNTTLLSEPKPP 283
              G K+P PG ++  R    P GG T+L   PK P
Sbjct:   210 AG-KIPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 241

GO:0048738 "cardiac muscle tissue development" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

UNIPROTKB|F1SM98 NDUFV2 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 109/214 (50%), Positives = 153/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+SAMN
Sbjct:    41 HRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPISAMN 99

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
             +VA+I++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+K
Sbjct:   100 KVAEILQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKLGIK 159

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               E T D LF++ E+EC+G CVNAPM+ + D          NYYED+TPK + EI++ L+
Sbjct:   160 VGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTPKDIEEIIDELK 209

Query:   251 RGEKLP-PGTQNPKRIKSGPEGGNTTLLSEPKPP 283
              G K+P PG ++  R    P GG T+L   PK P
Sbjct:   210 AG-KIPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 241

GO:0048738 "cardiac muscle tissue development" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=IEA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IEA

UNIPROTKB|P04394 NDUFV2 "NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 558 (201.5 bits), Expect = 5.5e-54, P = 5.5e-54
 Identities = 108/214 (50%), Positives = 153/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NNP+ P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+SAMN
Sbjct:    41 HRDTPENNPETPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPISAMN 99

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
             +VA+I++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+K
Sbjct:   100 KVAEILQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKLGIK 159

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               E T D LF++ E+EC+G CVNAPM+ + D          NYYED+TPK + EI++ L+
Sbjct:   160 VGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTPKDIEEIIDELK 209

Query:   251 RGEKLP-PGTQNPKRIKSGPEGGNTTLLSEPKPP 283
              G K+P PG ++  R    P GG T+L   PK P
Sbjct:   210 AG-KIPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 241

GO:0005739 "mitochondrion" evidence=ISS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

GO:0048738 "cardiac muscle tissue development" evidence=IEA

GO:0007399 "nervous system development" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|E7EPT4 NDUFV2 "NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 107/214 (50%), Positives = 152/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+SAMN
Sbjct:    44 HRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPISAMN 102

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
             +VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+K
Sbjct:   103 KVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKLGIK 162

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++ L+
Sbjct:   163 VGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIIDELK 212

Query:   251 RGEKLP-PGTQNPKRIKSGPEGGNTTLLSEPKPP 283
              G K+P PG ++  R    P GG T+L   PK P
Sbjct:   213 AG-KIPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 244

GO:0016491 "oxidoreductase activity" evidence=IEA

UNIPROTKB|P19404 NDUFV2 "NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 107/214 (50%), Positives = 152/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+SAMN
Sbjct:    41 HRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPISAMN 99

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
             +VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+K
Sbjct:   100 KVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKLGIK 159

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++ L+
Sbjct:   160 VGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIIDELK 209

Query:   251 RGEKLP-PGTQNPKRIKSGPEGGNTTLLSEPKPP 283
              G K+P PG ++  R    P GG T+L   PK P
Sbjct:   210 AG-KIPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 241

GO:0046872 "metal ion binding" evidence=IEA

GO:0051537 "2 iron, 2 sulfur cluster binding" evidence=IEA

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=IMP;NAS

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=IMP;NAS

GO:0005739 "mitochondrion" evidence=IDA

GO:0005747 "mitochondrial respiratory chain complex I" evidence=IDA;NAS;IMP

GO:0048738 "cardiac muscle tissue development" evidence=IMP

GO:0007399 "nervous system development" evidence=IMP

GO:0009055 "electron carrier activity" evidence=NAS

GO:0022904 "respiratory electron transport chain" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0005743 "mitochondrial inner membrane" evidence=TAS

UNIPROTKB|Q0MQI9 NDUFV2 "NADH dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial" [Pan troglodytes (taxid:9598)]

 Score = 553 (199.7 bits), Expect = 1.9e-53, P = 1.9e-53
 Identities = 107/214 (50%), Positives = 152/214 (71%)

Query:    71 HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
             H D+P+NNPD P+ F+  N ++++ I+ +YP  +K +AV+P+LDLAQ+Q+G WLP+SAMN
Sbjct:    41 HRDTPENNPDTPFDFTPENYKRIEAIVKNYPEGHKAAAVLPVLDLAQRQNG-WLPISAMN 99

Query:   131 EVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVK 190
             +VA++++V P+RVYEVATFY+M+NR  VGKYH+ VC TTPCM+R S  I +A+ K LG+K
Sbjct:   100 KVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTPCMLRNSDSILEAIQKKLGIK 159

Query:   191 RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
               E T D LF++ E+EC+G CVNAPM+ + D          NYYED+T K + EI++ L+
Sbjct:   160 VGETTPDKLFTLIEVECLGACVNAPMVQIND----------NYYEDLTAKDIEEIIDELK 209

Query:   251 RGEKLP-PGTQNPKRIKSGPEGGNTTLLSEPKPP 283
              G K+P PG ++  R    P GG T+L   PK P
Sbjct:   210 AG-KIPKPGPRSG-RFSCEPAGGLTSLTEPPKGP 241

GO:0005747 "mitochondrial respiratory chain complex I" evidence=ISS

GO:0006120 "mitochondrial electron transport, NADH to ubiquinone" evidence=ISS

GO:0008137 "NADH dehydrogenase (ubiquinone) activity" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O22769	NDUV2_ARATH	1, ., 6, ., 9, 9, ., 3	0.8616	0.7697	0.8784	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.6.5.3	0.991
3rd Layer	1.6.99	0.976
3rd Layer	1.6.99.3	0.991
3rd Layer	1.6.5	0.976

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pm.C_LG_V0527	hypothetical protein (254 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	estExt_fgenesh4_pg.C_LG_X0463	hypothetical protein (485 aa)	•		•	•	•	•	•		0.974
	grail3.0635000201	hypothetical protein (190 aa)	•		•	•	•	•	•		0.965
	gw1.8947.1.1	Predicted protein (324 aa)	•		•	•	•	•	•		0.965
	estExt_Genewise1_v1.C_LG_IV3721	hypothetical protein (737 aa)	•		•	•	•	•	•		0.954
	eugene3.00002200	hypothetical protein (740 aa)	•		•	•	•	•	•		0.952
	estExt_fgenesh4_pm.C_LG_IX0254	hypothetical protein (222 aa)	•		•	•	•	•	•		0.911
	fgenesh4_kg.C_LG_IV000054	hypothetical protein (222 aa)	•		•	•	•	•	•		0.897
	ndhE	NADH-plastoquinone oxidoreductase chain 4L ; NDH shuttles electrons from NAD(P)H-plastoquinone, [...] (101 aa)	•			•		•	•		0.894
	gw1.5262.1.1	annotation not avaliable (234 aa)	•			•		•	•		0.873
	gw1.VIII.2452.1	annotation not avaliable (435 aa)	•		•	•		•	•		0.869

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	291
pfam01257	145	pfam01257, Complex1_24kDa, Respiratory-chain NADH	8e-76
PRK07539	154	PRK07539, PRK07539, NADH dehydrogenase subunit E;	6e-68
COG1905	160	COG1905, NuoE, NADH:ubiquinone oxidoreductase 24 k	5e-63
TIGR01958	148	TIGR01958, nuoE_fam, NADH-quinone oxidoreductase,	5e-57
PRK12373	400	PRK12373, PRK12373, NADH dehydrogenase subunit E;	4e-48
cd03064	80	cd03064, TRX_Fd_NuoE, TRX-like [2Fe-2S] Ferredoxin	1e-31
PRK07571	169	PRK07571, PRK07571, bidirectional hydrogenase comp	1e-19
cd02980	77	cd02980, TRX_Fd_family, Thioredoxin (TRX)-like [2F	1e-19
PRK05988	156	PRK05988, PRK05988, formate dehydrogenase subunit	3e-09
cd03083	80	cd03083, TRX_Fd_NuoE_hoxF, TRX-like [2Fe-2S] Ferre	7e-09
cd03081	80	cd03081, TRX_Fd_NuoE_FDH_gamma, TRX-like [2Fe-2S]	6e-05

>gnl|CDD|216393 pfam01257, Complex1_24kDa, Respiratory-chain NADH dehydrogenase 24 Kd subunit

 Score =  227 bits (581), Expect = 8e-76
 Identities = 78/158 (49%), Positives = 110/158 (69%), Gaps = 13/158 (8%)

Query: 93  VKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSM 152
           + EI++ YP   K+SA+IPLL LAQ+Q+G +LP  A+  +A+++ + P RVYEVATFYSM
Sbjct: 1   IDEIIAKYP--RKRSALIPLLHLAQEQYG-YLPDEAIEYIAELLGIPPARVYEVATFYSM 57

Query: 153 FNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCV 212
           FN   VGKYH+ VC TTPC +RGS E+ +AL + LG+K  E T DG F++ E+EC+G C 
Sbjct: 58  FNLKPVGKYHIQVCTTTPCHLRGSDELLEALEEKLGIKPGETTPDGKFTLEEVECLGACG 117

Query: 213 NAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
           NAP++ + D           YY D+TP++V EI+E L+
Sbjct: 118 NAPVMQINDD----------YYGDLTPEKVDEILEALK 145

Length = 145

>gnl|CDD|181024 PRK07539, PRK07539, NADH dehydrogenase subunit E; Validated

 Score =  207 bits (530), Expect = 6e-68
 Identities = 65/167 (38%), Positives = 97/167 (58%), Gaps = 13/167 (7%)

Query: 84  KFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRV 143
             S      ++  ++ YP    +SAVIP L + Q+Q G W+P  A+  VA  + +  I V
Sbjct: 1   MLSAEELAAIEREIAKYP--RPRSAVIPALKIVQEQRG-WVPDEAIEAVADYLGMPAIDV 57

Query: 144 YEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVG 203
            EVATFYSM  R  VG++ + VC +TPC +RG   I  AL K LG+K  E T DG F++ 
Sbjct: 58  EEVATFYSMIFRQPVGRHVIQVCTSTPCWLRGGEAILAALKKKLGIKPGETTADGRFTLL 117

Query: 204 EMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
           E+EC+G C NAP++ + D            YED+TP+++ E+++ L+
Sbjct: 118 EVECLGACDNAPVVMINDD----------TYEDLTPEKIDELLDELK 154

Length = 154

>gnl|CDD|224817 COG1905, NuoE, NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]

 Score =  195 bits (498), Expect = 5e-63
 Identities = 67/170 (39%), Positives = 102/170 (60%), Gaps = 13/170 (7%)

Query: 84  KFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRV 143
            FS  N E ++ I++ YP   K+SA+IPLL +AQ+Q G WLP  A+ E+A ++ +   RV
Sbjct: 4   AFSAENLELIEAIIAKYP--DKRSALIPLLHIAQEQFG-WLPPEAIEEIADMLGIPRARV 60

Query: 144 YEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVG 203
           Y VATFY+ F    VG++H+ VC  T C ++GS  +  AL K LG+K  E T DG F++ 
Sbjct: 61  YGVATFYTQFFLKPVGRHHIRVCTGTACHLKGSEALLKALEKKLGIKPGETTADGKFTLE 120

Query: 204 EMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGE 253
            +EC+G C  AP++ + D            Y  +TP+++ EI+E L+  +
Sbjct: 121 PVECLGACGQAPVVMINDD----------VYGRLTPEKLEEILEKLKAKK 160

Length = 160

>gnl|CDD|131013 TIGR01958, nuoE_fam, NADH-quinone oxidoreductase, E subunit

 Score =  179 bits (457), Expect = 5e-57
 Identities = 66/159 (41%), Positives = 102/159 (64%), Gaps = 11/159 (6%)

Query: 92  KVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYS 151
            ++EI++ YP + K+SA++P L +AQ+Q G W+   A+  VA+++ + P+ VYEVATFYS
Sbjct: 1   LIEEIIAKYPDDQKRSAIMPALMIAQEQKG-WVTPEAIAAVAEMLGIPPVWVYEVATFYS 59

Query: 152 MFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCC 211
           MF+   VG+YHL VC   PC +RGS  +   L   LG+K  E T DG F++ E+EC+G C
Sbjct: 60  MFDTEPVGRYHLQVCTNVPCALRGSEALLKYLENKLGIKPGETTPDGRFTLVEVECLGAC 119

Query: 212 VNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR 250
            NAP++ + D          +YYE +TP+++ E++E   
Sbjct: 120 GNAPVMMIND----------DYYEFLTPEKLDELLERYE 148

This model describes the E chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. This model does not identify proteins from chloroplast and cyanobacteria [Energy metabolism, Electron transport]. Length = 148

>gnl|CDD|237082 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional

 Score =  164 bits (417), Expect = 4e-48
 Identities = 83/217 (38%), Positives = 121/217 (55%), Gaps = 20/217 (9%)

Query: 71  HLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMN 130
           H D PD+     + F+  N    ++ ++ YP   + SAVIPLL  AQ+Q G W+  +A+ 
Sbjct: 6   HEDQPDS-----FAFTPENAAWAEKQITKYPEGRQASAVIPLLMRAQEQEG-WVTRAAIE 59

Query: 131 EVAKIIEVAPIRVYEVATFYSMFNRSKVG-KYHLLVCGTTPCMVRGSREIEDALLKHLGV 189
           +VA ++++A IRV EVATFY+ F    VG + H+ VCGTTPCM+RGS  +       +  
Sbjct: 60  KVADMLDMAYIRVLEVATFYTQFQLQPVGTRAHIQVCGTTPCMLRGSEALMAVCKSKIHA 119

Query: 190 KRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEML 249
             +E+  DG  S  E+EC+G CVNAPM+ +            +YYED+TP+R+ EI++  
Sbjct: 120 HPHELNADGTLSWEEVECLGACVNAPMVQIGK----------DYYEDLTPERLEEIIDAF 169

Query: 250 RRGE--KLPPGTQNPKRIKSGPEGGNTTLLSEPKPPP 284
             G+   + PG Q   R  S P GG T+L  E     
Sbjct: 170 AAGKGPVVKPGPQI-GRYASEPAGGLTSLTEEAGKAR 205

Length = 400

>gnl|CDD|239362 cd03064, TRX_Fd_NuoE, TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes

 Score =  111 bits (281), Expect = 1e-31
 Identities = 33/90 (36%), Positives = 52/90 (57%), Gaps = 10/90 (11%)

Query: 160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITV 219
           K+ + VC  T C +RG+  + +AL K LG+K  E T DG F++ E+EC+G C  AP++ +
Sbjct: 1   KHVIRVCTGTACHLRGAEALLEALEKKLGIKPGETTPDGRFTLEEVECLGACDLAPVMMI 60

Query: 220 ADYSNGSEGYTYNYYEDVTPKRVIEIVEML 249
            D          + Y  +TP++V  I+E L
Sbjct: 61  ND----------DVYGRLTPEKVDAILEAL 80

It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] cluster and also binds the NADH substrate and FMN. Length = 80

>gnl|CDD|236053 PRK07571, PRK07571, bidirectional hydrogenase complex protein HoxE; Reviewed

 Score = 83.6 bits (207), Expect = 1e-19
 Identities = 43/114 (37%), Positives = 64/114 (56%), Gaps = 1/114 (0%)

Query: 104 YKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHL 163
           Y+Q A+I +L  AQ+  G +L    +  VA+ +++   RVY VATFY +F+    G++  
Sbjct: 33  YRQDALIEVLHKAQELFG-YLERDLLLYVARQLKLPLSRVYGVATFYHLFSLKPSGEHTC 91

Query: 164 LVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMI 217
           +VC  T C V+GS  I + L   LG+K  E T DG  S+    C+G C  AP +
Sbjct: 92  VVCTGTACYVKGSAAILEDLENELGIKAGETTADGKLSLLTARCLGACGIAPAV 145

Length = 169

>gnl|CDD|239278 cd02980, TRX_Fd_family, Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE)

 Score = 80.7 bits (200), Expect = 1e-19
 Identities = 34/89 (38%), Positives = 50/89 (56%), Gaps = 12/89 (13%)

Query: 161 YHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVA 220
           +H+LVC  T C +RG+ E+ +AL K LG++      DG  +V  + C+G C  AP++ V 
Sbjct: 1   HHILVCTGTACGLRGAEELLEALEKELGIRGG----DGRVTVERVGCLGACGLAPVVVV- 55

Query: 221 DYSNGSEGYTYNYYEDVTPKRVIEIVEML 249
                 +G    +Y  VTP+ V EIVE L
Sbjct: 56  ----YPDGV---WYGRVTPEDVEEIVEEL 77

TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers. Length = 77

>gnl|CDD|180339 PRK05988, PRK05988, formate dehydrogenase subunit gamma; Validated

 Score = 54.6 bits (132), Expect = 3e-09
 Identities = 33/144 (22%), Positives = 64/144 (44%), Gaps = 11/144 (7%)

Query: 108 AVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCG 167
           A++P+L  A Q   G++P  A+  +A+ + ++   V+ V TFY  F     G++ L +C 
Sbjct: 24  ALLPILH-AIQDEFGYVPEDAVPVIAEALNLSRAEVHGVITFYHDFRTHPPGRHVLKLCR 82

Query: 168 TTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSE 227
              C   G   +       LG+  ++ T DG  ++  + C+G C  +P   +        
Sbjct: 83  AEACQAMGGDALAAHAKARLGIDFHQTTADGAVTLEPVYCLGLCACSPAAMLDG------ 136

Query: 228 GYTYNYYEDVTPKRVIEIVEMLRR 251
                 +  + P+R+  ++   RR
Sbjct: 137 ----EVHGRLDPQRLDALLAEARR 156

Length = 156

>gnl|CDD|239381 cd03083, TRX_Fd_NuoE_hoxF, TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16

 Score = 51.6 bits (124), Expect = 7e-09
 Identities = 21/90 (23%), Positives = 42/90 (46%), Gaps = 10/90 (11%)

Query: 160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITV 219
           KY + +  +    + G + + DAL + LG++  EV +DG+  +    C G C   P + +
Sbjct: 1   KYRIYLSDSITDRMNGYKAVLDALCRELGIRFGEVDEDGMVGLFFTSCTGLCDQGPALLI 60

Query: 220 ADYSNGSEGYTYNYYEDVTPKRVIEIVEML 249
            +            +  +TP R+ +I E++
Sbjct: 61  NNRV----------FTRLTPGRIDQIAELI 80

HoxS is a cytoplasmic hydrogenase catalyzing the oxidation of molecular hydrogen accompanied by the reduction of NAD. It is composed of four structural subunits encoded by the genes hoxF, hoxU, hoxY and hoxH. The hoxF protein (or alpha subunit) is a fusion protein containing an N-terminal NuoE-like domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. HoxF may be involved in the electron transport chain during the NAD-dependent oxidation of hydrogen through its NuoF domain. The NuoE-like domain of hoxF contains only one conserved cysteine in its putative active site, compared to four cysteines in NuoE, and may have lost the ability to bind [2Fe-2S] clusters. Length = 80

>gnl|CDD|239379 cd03081, TRX_Fd_NuoE_FDH_gamma, TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH

 Score = 40.4 bits (95), Expect = 6e-05
 Identities = 17/90 (18%), Positives = 36/90 (40%), Gaps = 10/90 (11%)

Query: 160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITV 219
           ++ L +C    C   G+  +   +   LG+  +E T DG  ++  + C+G C  +P   +
Sbjct: 1   RHVLKLCRAEACQAMGAEALAAHIKARLGIDFHETTADGSVTLEPVYCLGLCACSPAAMI 60

Query: 220 ADYSNGSEGYTYNYYEDVTPKRVIEIVEML 249
                         +  V P++   ++  L
Sbjct: 61  DG----------EVHGRVDPEKFDALLAEL 80

FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidation of formate. Length = 80

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	291
KOG3196	233	consensus NADH:ubiquinone oxidoreductase, NDUFV2/2	100.0
PRK12373	400	NADH dehydrogenase subunit E; Provisional	100.0
COG1905	160	NuoE NADH:ubiquinone oxidoreductase 24 kD subunit	100.0
PRK07571	169	bidirectional hydrogenase complex protein HoxE; Re	100.0
PRK05988	156	formate dehydrogenase subunit gamma; Validated	100.0
PRK07539	154	NADH dehydrogenase subunit E; Validated	100.0
TIGR01958	148	nuoE_fam NADH-quinone oxidoreductase, E subunit. T	100.0
PF01257	145	2Fe-2S_thioredx: Thioredoxin-like [2Fe-2S] ferredo	100.0
cd03081	80	TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin	99.9
cd03083	80	TRX_Fd_NuoE_hoxF TRX-like [2Fe-2S] Ferredoxin (Fd)	99.88
cd03064	80	TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) fami	99.85
cd03082	72	TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxi	99.75
cd02980	77	TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferr	99.73
cd03063	92	TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd)	99.53
cd03062	97	TRX_Fd_Sucrase TRX-like [2Fe-2S] Ferredoxin (Fd) f	99.38
COG3411	64	Ferredoxin [Energy production and conversion]	99.02
PF06999	230	Suc_Fer-like: Sucrase/ferredoxin-like; InterPro: I	97.94
PF07845	116	DUF1636: Protein of unknown function (DUF1636); In	97.87
COG5469	143	Predicted metal-binding protein [Function unknown]	97.65
PF07293	78	DUF1450: Protein of unknown function (DUF1450); In	96.29
PRK13669	78	hypothetical protein; Provisional	94.08
PF14297	87	DUF4373: Domain of unknown function (DUF4373)	82.14
TIGR02435	390	CobG precorrin-3B synthase. An iron-sulfur protein	80.96

>KOG3196 consensus NADH:ubiquinone oxidoreductase, NDUFV2/24 kD subunit [Energy production and conversion]

Probab=100.00  E-value=1.1e-68  Score=473.73  Aligned_cols=214  Identities=58%  Similarity=1.004  Sum_probs=210.4

Q ss_pred             ccceeccCCCCCCCCCCCCCChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhh
Q 022828           66 LELCKHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYE  145 (291)
Q Consensus        66 ~~~~~h~~~~~~~~~~~~~~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~  145 (291)
                      +.|++|||||+||++++|+|++||.+++++|++.||..+++++|||+|+++|+|+ ||||..+|++||+.++||+++|||
T Consensus        20 ~~l~~h~dt~en~~~~~feFt~eN~~rvkAIla~YP~~~k~~AliPLLDLAQRQ~-GWlpiSAM~~VA~~~~v~~mrvye   98 (233)
T KOG3196|consen   20 QPLFVHRDTPENNPDLPFEFTPENQKRVKAILAIYPEGHKAGALIPLLDLAQRQH-GWLPISAMNEVAEVLEVPPMRVYE   98 (233)
T ss_pred             cccccccCCcccCCCCCcccCHHHHHHHHHHHHHCcccccccchhhhhHHHHHhc-CCcCHHHHHHHHHHHcCChHHHHH
Confidence            8999999999999999999999999999999999999999999999999999998 899999999999999999999999


Q ss_pred             hhhhhcccccccCCceEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCC
Q 022828          146 VATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNG  225 (291)
Q Consensus       146 VaTFY~~f~~~P~gK~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G  225 (291)
                      ||+||+||+++|+|||||+||++++|+++|+++|.+++++.||++.|+||+|+.|+|++++|||+|.+||+|.|||    
T Consensus        99 vatfYtmf~r~p~gKy~v~VC~ttpC~lrg~d~i~ea~~k~lgi~~Gett~d~~Ftl~e~eClGaCvnaPmi~IND----  174 (233)
T KOG3196|consen   99 VATFYTMFFRKPVGKYHVQVCTTTPCMLRGSDDILEACKKQLGIKVGETTKDGLFTLEEVECLGACVNAPMIAIND----  174 (233)
T ss_pred             HHHHHHHhhccCCCCceEEEecCcHHhhhccHHHHHHHHHHhCccccccccccceeeecchhhhhhccCceeeecc----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999998    


Q ss_pred             CCCccceEecCCChhhHHHHHHHHHcCCCCCCCCCCCCCccCCCCCCCccccCCCCCCCCCCCCCC
Q 022828          226 SEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPKRIKSGPEGGNTTLLSEPKPPPCRDLDAC  291 (291)
Q Consensus       226 ~~g~~~~~Y~~vTpE~V~~ILe~l~~G~~~~~g~~~~~r~~~~p~~g~~~l~~~~~~~~~~~~~~~  291 (291)
                            ++|+++|++++.+|+++|++|+.|++||++ +|-++||.||+|||.++|+||+|+...+|
T Consensus       175 ------~yyedlt~k~l~eIle~L~~~k~pp~Gprn-gR~a~eP~Gg~tsL~~~P~~PgF~~q~~~  233 (233)
T KOG3196|consen  175 ------DYYEDLTPKKLVEILEDLKAGKKPPAGPRN-GRFASEPKGGLTSLKEEPKGPGFGLQAAL  233 (233)
T ss_pred             ------hhhccCCHHHHHHHHHHHhcCCCCCCCCCC-CccccCCCCCccccccCCCCCCchhcccC
Confidence                  899999999999999999999999999999 69999999999999999999999988765

>PRK12373 NADH dehydrogenase subunit E; Provisional

Probab=100.00  E-value=2.2e-55  Score=425.84  Aligned_cols=194  Identities=43%  Similarity=0.764  Sum_probs=185.9

Q ss_pred             eccCCCCCCCCCCCCCChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhh
Q 022828           70 KHLDSPDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATF  149 (291)
Q Consensus        70 ~h~~~~~~~~~~~~~~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTF  149 (291)
                      .|.+.|.     .|.|+++++++|++||++||.++++++|||+||++|+++ ||||+++|++||+.|+||+++||+|+||
T Consensus         5 ~~~~~p~-----~f~f~~e~~~~i~~ii~~yp~~~~~salIplL~~~Qe~~-GyIp~~ai~~VAe~Lgvp~~~V~eVATF   78 (400)
T PRK12373          5 LHEDQPD-----SFAFTPENAAWAEKQITKYPEGRQASAVIPLLMRAQEQE-GWVTRAAIEKVADMLDMAYIRVLEVATF   78 (400)
T ss_pred             ccccCCc-----cccCCHHHHHHHHHHHHHCCCccCHHHHHHHHHHHHHHc-CCCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            3666666     899999999999999999997678999999999999986 9999999999999999999999999999


Q ss_pred             hcccccccCCc-eEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCC
Q 022828          150 YSMFNRSKVGK-YHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEG  228 (291)
Q Consensus       150 Y~~f~~~P~gK-~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g  228 (291)
                      |+||+++|+|| |+|+||++++|+++|+++|+++|+++||++.|+||.||+|+|+++.|||+|++||+|+||+       
T Consensus        79 YtmF~~~P~Gk~~~I~VC~~t~C~l~Ga~~ll~~le~~Lgik~GeTT~DG~FTLe~veCLGaC~~APv~~Ind-------  151 (400)
T PRK12373         79 YTQFQLQPVGTRAHIQVCGTTPCMLRGSEALMAVCKSKIHAHPHELNADGTLSWEEVECLGACVNAPMVQIGK-------  151 (400)
T ss_pred             hhcccccCCCCceEEEEcCChHHHhCChHHHHHHHHHHhCCCCCCcCCCCeEEEEeeeecCccCCCCeEEECC-------
Confidence            99999999998 9999999999999999999999999999999999999999999999999999999999998       


Q ss_pred             ccceEecCCChhhHHHHHHHHHcCCCCC--CCCCCCCCccCCCCCCCccccCCC
Q 022828          229 YTYNYYEDVTPKRVIEIVEMLRRGEKLP--PGTQNPKRIKSGPEGGNTTLLSEP  280 (291)
Q Consensus       229 ~~~~~Y~~vTpE~V~~ILe~l~~G~~~~--~g~~~~~r~~~~p~~g~~~l~~~~  280 (291)
                         ++|++||++++.+||++++.|++++  +|||+ +|..++|.||+|||+++.
T Consensus       152 ---~~y~~LTpe~v~~IL~~l~ag~~~~~~~g~~~-~r~~~~p~~g~t~l~~~~  201 (400)
T PRK12373        152 ---DYYEDLTPERLEEIIDAFAAGKGPVVKPGPQI-GRYASEPAGGLTSLTEEA  201 (400)
T ss_pred             ---EEeCCCCHHHHHHHHHHHhCCCCCCCCCCCCC-CccccCCCCCCcccCCCC
Confidence               8999999999999999999999887  99998 899999999999999854

>COG1905 NuoE NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]

Probab=100.00  E-value=2e-50  Score=350.01  Aligned_cols=158  Identities=42%  Similarity=0.798  Sum_probs=152.8

Q ss_pred             CCCChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceE
Q 022828           83 WKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYH  162 (291)
Q Consensus        83 ~~~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~  162 (291)
                      |.|++++.+.+++++++||  ++|++|||+||++|+++ ||||++++++||+.|+||+++||||+|||+||+++|+|||+
T Consensus         3 ~~~~~~~~~~~~~~i~~yp--~~rsAlip~L~~aQ~~~-G~l~~~ai~~iA~~L~i~~~~v~~VaTFY~~f~~~P~Gr~~   79 (160)
T COG1905           3 FAFSAENLELIEAIIAKYP--DKRSALIPLLHIAQEQF-GWLPPEAIEEIADMLGIPRARVYGVATFYTQFFLKPVGRHH   79 (160)
T ss_pred             cccchhHHHHHHHHHHHCc--cchhHHHHHHHHHHHHh-CCCCHHHHHHHHHHhCCCHHHheeeeeeehhhccCcCCCeE
Confidence            4489999999999999999  48999999999999997 99999999999999999999999999999999999999999


Q ss_pred             EEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhH
Q 022828          163 LLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRV  242 (291)
Q Consensus       163 I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V  242 (291)
                      |+||++++|+++|+++|+++|+++|++++|+||.||+|+|++++|||+|++||+|+|||          ++|+++|||++
T Consensus        80 i~VC~~t~C~l~Gs~~l~~~l~~~lgi~~gett~DG~ftl~~v~ClGaC~~AP~vmind----------~~~~~lt~e~l  149 (160)
T COG1905          80 IRVCTGTACHLKGSEALLKALEKKLGIKPGETTADGKFTLEPVECLGACGQAPVVMIND----------DVYGRLTPEKL  149 (160)
T ss_pred             EEEeCCcHHhhcChHHHHHHHHHHhCCCCCCcCCCCeEEEeeeeeecccccCCEEEECC----------chhccCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999998          79999999999


Q ss_pred             HHHHHHHHcCC
Q 022828          243 IEIVEMLRRGE  253 (291)
Q Consensus       243 ~~ILe~l~~G~  253 (291)
                      .+||+++++++
T Consensus       150 ~eil~~~~~~~  160 (160)
T COG1905         150 EEILEKLKAKK  160 (160)
T ss_pred             HHHHHHHhcCC
Confidence            99999988653

>PRK07571 bidirectional hydrogenase complex protein HoxE; Reviewed

Probab=100.00  E-value=1.5e-48  Score=341.68  Aligned_cols=158  Identities=30%  Similarity=0.469  Sum_probs=152.3

Q ss_pred             CCCCCCChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCC
Q 022828           80 DLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVG  159 (291)
Q Consensus        80 ~~~~~~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~g  159 (291)
                      .....++++.++++++||++||.  ++++|||+||++|+++ ||||++++++||+.||||+++||||+|||+||+++|+|
T Consensus        11 ~~~~~~~~~~~~~i~~ii~~~~~--~~~~li~~L~~iQ~~~-GyIp~e~~~~iA~~l~v~~a~V~gVatFY~~f~~~P~G   87 (169)
T PRK07571         11 SATHPSGDKRFKVLEATMKRNQY--RQDALIEVLHKAQELF-GYLERDLLLYVARQLKLPLSRVYGVATFYHLFSLKPSG   87 (169)
T ss_pred             CccCcCcHHHHHHHHHHHHHcCC--CHHHHHHHHHHHHHHc-CCCCHHHHHHHHHHhCcCHHHHHHHHHHccccCcCCCC
Confidence            44567999999999999999985  7999999999999976 99999999999999999999999999999999999999


Q ss_pred             ceEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCCh
Q 022828          160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTP  239 (291)
Q Consensus       160 K~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTp  239 (291)
                      ||+|+||+|++|+++|+++|+++|+++||++.|++|+||+|+|+.+.|+|+|+.||+|+||+          ++|++||+
T Consensus        88 k~~I~VC~g~aC~~~G~~~ll~~l~~~Lgi~~gett~DG~ftL~~~~ClG~C~~AP~~~Vn~----------~~~~~lt~  157 (169)
T PRK07571         88 EHTCVVCTGTACYVKGSAAILEDLENELGIKAGETTADGKLSLLTARCLGACGIAPAVVFDG----------KVAGKQTP  157 (169)
T ss_pred             CEEEEEcCChHHHHCCcHHHHHHHHHHhCCCCCCcCCCCeEEEEEecccCccCCCCeEEECC----------EEeCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999997          89999999


Q ss_pred             hhHHHHHHHHH
Q 022828          240 KRVIEIVEMLR  250 (291)
Q Consensus       240 E~V~~ILe~l~  250 (291)
                      +++++||++++
T Consensus       158 e~v~~il~~~~  168 (169)
T PRK07571        158 ESVLEKVQGWL  168 (169)
T ss_pred             HHHHHHHHHHh
Confidence            99999999885

>PRK05988 formate dehydrogenase subunit gamma; Validated

Probab=100.00  E-value=4.2e-48  Score=334.63  Aligned_cols=152  Identities=21%  Similarity=0.442  Sum_probs=146.4

Q ss_pred             ChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceEEEE
Q 022828           86 SDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLV  165 (291)
Q Consensus        86 ~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~I~V  165 (291)
                      ++...+++++|+++|+.  ++++|||+||++|+++ ||||+++|++||+.|+||+++||+|+|||+||+++|+|||+|+|
T Consensus         4 ~~~~~~~i~~ii~~y~~--~~~~li~~L~~vQ~~~-G~Ip~e~~~~iA~~l~v~~~~V~~vatFY~~f~~~p~Gk~~I~V   80 (156)
T PRK05988          4 EPWDAARIAAIIAEHKH--LEGALLPILHAIQDEF-GYVPEDAVPVIAEALNLSRAEVHGVITFYHDFRTHPPGRHVLKL   80 (156)
T ss_pred             chhHHHHHHHHHHHcCC--CHHHHHHHHHHHHHHc-CCCCHHHHHHHHHHhCCCHHHHHHHHHHhhccCCCCCCCEEEEE
Confidence            45677789999999985  7899999999999986 99999999999999999999999999999999999999999999


Q ss_pred             cCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhHHHH
Q 022828          166 CGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEI  245 (291)
Q Consensus       166 C~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V~~I  245 (291)
                      |+|++|+++|+++|+++|+++||++.|+||+||+|+|+++.|+|+|+.||+|+||+          ++|++||++++++|
T Consensus        81 C~~~~C~~~G~~~ll~~l~~~Lgi~~gett~Dg~ftL~~~~ClG~C~~aP~~~in~----------~~~~~lt~~~~~~i  150 (156)
T PRK05988         81 CRAEACQAMGGDALAAHAKARLGIDFHQTTADGAVTLEPVYCLGLCACSPAAMLDG----------EVHGRLDPQRLDAL  150 (156)
T ss_pred             eCCchhhcCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEeeeecCccCCCCeEEECC----------EEeCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999998          89999999999999


Q ss_pred             HHHHH
Q 022828          246 VEMLR  250 (291)
Q Consensus       246 Le~l~  250 (291)
                      |++++
T Consensus       151 l~~~~  155 (156)
T PRK05988        151 LAEAR  155 (156)
T ss_pred             HHHhh
Confidence            99876

>PRK07539 NADH dehydrogenase subunit E; Validated

Probab=100.00  E-value=2e-47  Score=328.75  Aligned_cols=153  Identities=42%  Similarity=0.780  Sum_probs=147.7

Q ss_pred             CChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceEEE
Q 022828           85 FSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLL  164 (291)
Q Consensus        85 ~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~I~  164 (291)
                      |+++.++++++|+++|+.  ++++|||+||++|+++ ||||+++|++||+.|++|+++||+|+|||+||+++|+|||+|+
T Consensus         2 ~~~~~~~~~~~i~~~~~~--~~~~ll~~L~~vQ~~~-g~ip~~~~~~iA~~l~v~~~~v~~v~tFY~~f~~~p~gk~~I~   78 (154)
T PRK07539          2 LSAEELAAIEREIAKYPR--PRSAVIPALKIVQEQR-GWVPDEAIEAVADYLGMPAIDVEEVATFYSMIFRQPVGRHVIQ   78 (154)
T ss_pred             CCHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHhCcCHHHHHHHHHHHhhhCcCCCCCEEEE
Confidence            778888999999999994  7999999999999985 9999999999999999999999999999999999999999999


Q ss_pred             EcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhHHH
Q 022828          165 VCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIE  244 (291)
Q Consensus       165 VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V~~  244 (291)
                      ||+|++|+++|+++|+++|+++|+++.|++|+||+|+|++++|||.|+.||+|+||+          +||++||++++++
T Consensus        79 VC~g~~C~~~Ga~~l~~~l~~~L~i~~g~tt~dg~~~l~~~~ClG~C~~gPvv~V~~----------~~y~~vt~e~v~~  148 (154)
T PRK07539         79 VCTSTPCWLRGGEAILAALKKKLGIKPGETTADGRFTLLEVECLGACDNAPVVMIND----------DTYEDLTPEKIDE  148 (154)
T ss_pred             EcCCchHHHCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEEccccCccCCCCEEEECC----------EEeCCCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999987          8999999999999


Q ss_pred             HHHHHH
Q 022828          245 IVEMLR  250 (291)
Q Consensus       245 ILe~l~  250 (291)
                      ||++++
T Consensus       149 il~~~~  154 (154)
T PRK07539        149 LLDELK  154 (154)
T ss_pred             HHHhcC
Confidence            998763

>TIGR01958 nuoE_fam NADH-quinone oxidoreductase, E subunit

Probab=100.00  E-value=1.1e-46  Score=322.04  Aligned_cols=146  Identities=45%  Similarity=0.892  Sum_probs=140.5

Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceEEEEcCCCccc
Q 022828           93 VKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCM  172 (291)
Q Consensus        93 i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~I~VC~gtsC~  172 (291)
                      +++|+++||.+.++++|||+||++|+++ ||||++++++||+.|+||+++||+|+|||+||+++|+|||+|+||+|++|+
T Consensus         2 ~~~i~~~~~~~~~~~~li~~L~~vQ~~~-G~i~~~~~~~iA~~l~~~~~~v~~v~tFY~~f~~~p~gk~~I~VC~g~~C~   80 (148)
T TIGR01958         2 IEEIIAKYPDDQKRSAIMPALMIAQEQK-GWVTPEAIAAVAEMLGIPPVWVYEVATFYSMFDTEPVGRYHLQVCTNVPCA   80 (148)
T ss_pred             hHHHHHHCCCCCChhHHHHHHHHHHHHh-CCCCHHHHHHHHHHhCcCHHHHHHHHhHHhhcCcCCCCCEEEEEcCCchhh
Confidence            6899999995337899999999999985 999999999999999999999999999999999999999999999999999


Q ss_pred             ccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhHHHHHHHH
Q 022828          173 VRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEML  249 (291)
Q Consensus       173 ~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V~~ILe~l  249 (291)
                      ++|+++|+++|+++|+++.|++|+||+|+|+.++|||+|+.||+|+||+          ++|++||++++++||+++
T Consensus        81 ~~Ga~~v~~~l~~~L~i~~g~~t~dg~~~l~~~~ClG~C~~aP~v~V~~----------~~y~~vt~e~v~~il~~~  147 (148)
T TIGR01958        81 LRGSEALLKYLENKLGIKPGETTPDGRFTLVEVECLGACGNAPVMMIND----------DYYEFLTPEKLDELLERY  147 (148)
T ss_pred             hcCHHHHHHHHHHHhCCCCCCCCCCCeEEEEEcCccCccCCCCEEEECC----------EEeCCCCHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999987          899999999999999875

This model describes the E chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. This model does not identify proteins from chloroplast and cyanobacteria.

>PF01257 2Fe-2S_thioredx: Thioredoxin-like [2Fe-2S] ferredoxin; InterPro: IPR002023 NADH:ubiquinone oxidoreductase (complex I) (1

Probab=100.00  E-value=1.3e-46  Score=320.71  Aligned_cols=145  Identities=43%  Similarity=0.832  Sum_probs=131.4

Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceEEEEcCCCccc
Q 022828           93 VKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLLVCGTTPCM  172 (291)
Q Consensus        93 i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~I~VC~gtsC~  172 (291)
                      |++||++||.  ++++|||+||++|+++ ||||++++++||+.|+||+++||+|+|||+||+++|.|||+|+||+|++|+
T Consensus         1 i~~i~~~~~~--~~~~ll~~L~~~Q~~~-g~i~~~~~~~iA~~l~i~~~~v~~v~tFY~~f~~~p~gk~~I~VC~g~~C~   77 (145)
T PF01257_consen    1 IEEIIARYPS--KRSALLPILHEVQEEY-GYIPEEALEEIAEALGIPPAEVYGVATFYSMFRLEPKGKHHIRVCTGTSCH   77 (145)
T ss_dssp             -HHHHHTS----GGGGHHHHHHHHHHHH-SS--HHHHHHHHHHHTS-HHHHHHHHHHSSSS-SSS--SEEEEEE-SHHHH
T ss_pred             ChHHHHHCCC--CHHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHcccCCCCCcEEEeCCCchHH
Confidence            6899999995  8999999999999986 999999999999999999999999999999999999999999999999999


Q ss_pred             ccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhHHHHHHHHH
Q 022828          173 VRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLR  250 (291)
Q Consensus       173 ~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V~~ILe~l~  250 (291)
                      ++|+++|+++|+++|+++.|+++.||+|+|+.++|+|.|+.||+|+||+          +||++||+|++++||++++
T Consensus        78 ~~Ga~~l~~~l~~~l~i~~g~~~~dg~~~l~~~~ClG~C~~aP~v~V~~----------~~y~~vt~e~v~~il~~lk  145 (145)
T PF01257_consen   78 LRGAEELLEALEEELGIKPGETTEDGKFTLEETGCLGACDQAPVVMVDG----------EWYGNVTPEKVDEILEELK  145 (145)
T ss_dssp             TTTHHHHHHHHHHHHCTSCCCCSTTTTEEEEEESSSSSGGGSSEEEECC----------CEEESSSCCHHHHHHHHH-
T ss_pred             hCCCHHHHHHHHHHhCCcccccCCCceEEEEECCCccccCCCCEEEECC----------EEECCCCHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999987          8999999999999999875

6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 24 kDa (in mammals), which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 2Fe-2S iron-sulphur cluster. The 24 kDa subunit is nuclear encoded, as a precursor form with a transit peptide in mammals and in Neurospora crassa. There is a highly conserved region located in the central section of this subunit that contains two conserved cysteines, that are probably involved in the binding of the 2Fe-2S centre. The 24 kDa subunit is highly similar to [, ]: Subunit E of Escherichia coli NADH-ubiquinone oxidoreductase (gene nuoE) Subunit NQO2 of Paracoccus denitrificans NADH-ubiquinone oxidoreductase ; GO: 0016491 oxidoreductase activity, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 1M2D_A 1M2A_B 1F37_B 1M2B_B 2FUG_B 3M9S_B 3IAM_B 3IAS_K 2YBB_2 3I9V_B ....

>cd03081 TRX_Fd_NuoE_FDH_gamma TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD+ to NADH

Probab=99.90  E-value=1e-23  Score=163.19  Aligned_cols=80  Identities=21%  Similarity=0.477  Sum_probs=77.1

Q ss_pred             ceEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCCh
Q 022828          160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTP  239 (291)
Q Consensus       160 K~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTp  239 (291)
                      ||+|+||+|++|+++|+++|+++|+++|+++.|+++.||+|+|+.++|||.|+.||+|+||+          +||+++|+
T Consensus         1 ~~~i~vC~~~~C~~~G~~~ll~~l~~~l~~~~g~~~~dg~~~l~~~~ClG~C~~gP~~~v~~----------~~~~~~~~   70 (80)
T cd03081           1 RHVLKLCRAEACQAMGAEALAAHIKARLGIDFHETTADGSVTLEPVYCLGLCACSPAAMIDG----------EVHGRVDP   70 (80)
T ss_pred             CeEEEEcCChHHHhCCHHHHHHHHHHHhCCCCCCcCCCCeEEEEEeeecCccCCCCEEEECC----------EEECCCCH
Confidence            68999999999999999999999999999999999999999999999999999999999987          89999999


Q ss_pred             hhHHHHHHHH
Q 022828          240 KRVIEIVEML  249 (291)
Q Consensus       240 E~V~~ILe~l  249 (291)
                      ++|++||+++
T Consensus        71 e~i~~il~~~   80 (80)
T cd03081          71 EKFDALLAEL   80 (80)
T ss_pred             HHHHHHHHcC
Confidence            9999999763

FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH gamma subunit is closely related to NuoE, which is part of a multisubunit complex (Nuo) catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE. Similarly, the FDH gamma subunit is hypothesized to be involved in an electron transport chain involving other FDH subunits, upon the oxidat

>cd03083 TRX_Fd_NuoE_hoxF TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, hoxF; composed of proteins similar to the NAD-reducing hydrogenase (hoxS) alpha subunit of Alcaligenes eutrophus H16

Probab=99.88  E-value=1.1e-22  Score=157.34  Aligned_cols=80  Identities=26%  Similarity=0.569  Sum_probs=76.7

Q ss_pred             ceEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCCh
Q 022828          160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTP  239 (291)
Q Consensus       160 K~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTp  239 (291)
                      ||+|+||++++|+++||++++++|+++|+++.|++|.||.|+|++++|+|.|+.||+|+|++          ++|+++|+
T Consensus         1 ~~~i~vC~~~~C~~~Ga~~v~~~l~~~l~~~~~~~t~d~~v~l~~~gClG~C~~~P~v~V~~----------~~y~~v~~   70 (80)
T cd03083           1 KYRIYLSDSITDRMNGYKAVLDALCRELGIRFGEVDEDGMVGLFFTSCTGLCDQGPALLINN----------RVFTRLTP   70 (80)
T ss_pred             CEEEEEcCChHHHhCCHHHHHHHHHHHHCCCCCCcCCCCeEEEEEeceecCcCCCCeEEECC----------EEECCCCH
Confidence            69999999999999999999999999999999999999999999999999999999999976          89999999


Q ss_pred             hhHHHHHHHH
Q 022828          240 KRVIEIVEML  249 (291)
Q Consensus       240 E~V~~ILe~l  249 (291)
                      +++++|++++
T Consensus        71 ~~v~~iv~~~   80 (80)
T cd03083          71 GRIDQIAELI   80 (80)
T ss_pred             HHHHHHHhcC
Confidence            9999999753

HoxS is a cytoplasmic hydrogenase catalyzing the oxidation of molecular hydrogen accompanied by the reduction of NAD. It is composed of four structural subunits encoded by the genes hoxF, hoxU, hoxY and hoxH. The hoxF protein (or alpha subunit) is a fusion protein containing an N-terminal NuoE-like domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. HoxF may be involved

>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes

Probab=99.85  E-value=4.3e-21  Score=147.44  Aligned_cols=80  Identities=41%  Similarity=0.763  Sum_probs=75.8

Q ss_pred             ceEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCCh
Q 022828          160 KYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTP  239 (291)
Q Consensus       160 K~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTp  239 (291)
                      ||+|+||++++|+.+|+++++++|+++++++.++++.|+.|+|++++|||.|+.||+|+|++          .||+++|+
T Consensus         1 ~~~v~vC~~~~C~~~Ga~~~~~~l~~~l~~~~~~~~~~~~v~v~~t~ClG~C~~gP~v~v~g----------~~y~~vt~   70 (80)
T cd03064           1 KHVIRVCTGTACHLRGAEALLEALEKKLGIKPGETTPDGRFTLEEVECLGACDLAPVMMIND----------DVYGRLTP   70 (80)
T ss_pred             CEEEEECCCcHHHhCCHHHHHHHHHHHhCCCCCCcCCCCEEEEEEecCcCcCCCCCEEEECC----------EEECCCCH
Confidence            68999999999999999999999999999888888899999999999999999999999975          89999999


Q ss_pred             hhHHHHHHHH
Q 022828          240 KRVIEIVEML  249 (291)
Q Consensus       240 E~V~~ILe~l  249 (291)
                      +++++|++++
T Consensus        71 ~~i~~i~~~~   80 (80)
T cd03064          71 EKVDAILEAL   80 (80)
T ss_pred             HHHHHHHHhC
Confidence            9999999864

It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu

>cd03082 TRX_Fd_NuoE_W_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens

Probab=99.75  E-value=3.9e-18  Score=130.15  Aligned_cols=70  Identities=30%  Similarity=0.479  Sum_probs=65.7

Q ss_pred             eEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChh
Q 022828          161 YHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPK  240 (291)
Q Consensus       161 ~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE  240 (291)
                      ++|+||++++|+.+|+++|+++|+++|+++        +|+|..++|||.|+.||+|+||+          ++|+++|++
T Consensus         2 ~~I~vC~~~~C~~~Ga~~l~~~l~~~L~~~--------~v~l~~~~ClG~C~~gP~v~V~~----------~~~~~~t~~   63 (72)
T cd03082           2 LTVRVCDSLSCAMAGAEELLAALEAGLGPE--------GVRVVRAPCVGRCERAPAALVGQ----------RPVDGATPA   63 (72)
T ss_pred             eEEEEcCChHHHHCCHHHHHHHHHHHhCCC--------eEEEEecCcCCccCCCCeEEECC----------EEeCCcCHH
Confidence            689999999999999999999999999753        69999999999999999999998          899999999


Q ss_pred             hHHHHHHH
Q 022828          241 RVIEIVEM  248 (291)
Q Consensus       241 ~V~~ILe~  248 (291)
                      ++++++++
T Consensus        64 ~i~~~~~~   71 (72)
T cd03082          64 AVAAAVEA   71 (72)
T ss_pred             HHHHHHhc
Confidence            99999863

W-FDH is a heterodimeric NAD-dependent enzyme catalyzing the conversion of formate to carbon dioxide. The beta subunit is a fusion protein containing an N-terminal NuoE domain and a C-terminal NuoF domain. NuoE and NuoF are components of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster in NuoE and the [4Fe-4S] cluster in NuoF. In addition, NuoF is also the NADH- and FMN-binding subunit. Similarly, the beta subunit of W-FDH is most likely involved in the electron transport chain during the NAD-dependen

>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE)

Probab=99.73  E-value=1.2e-17  Score=125.85  Aligned_cols=76  Identities=43%  Similarity=0.787  Sum_probs=68.9

Q ss_pred             eEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChh
Q 022828          161 YHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPK  240 (291)
Q Consensus       161 ~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE  240 (291)
                      ++|+||++++|..+|+++|+++|+++++...+    |+.|++.+++|+|.|..||+|.|++  ++      .||+++|++
T Consensus         1 ~~I~VC~~~~C~~~G~~~l~~~l~~~~~~~~~----~~~v~v~~~~Clg~C~~~P~v~i~~--~~------~~y~~v~~~   68 (77)
T cd02980           1 HHILVCTGTACGLRGAEELLEALEKELGIRGG----DGRVTVERVGCLGACGLAPVVVVYP--DG------VWYGRVTPE   68 (77)
T ss_pred             CEEEEccCCCcccCCHHHHHHHHHHHHhhhcC----CCeEEEEEcCCcCcccCCCEEEEeC--CC------eEEccCCHH
Confidence            57999999999999999999999999986532    6789999999999999999999984  22      899999999


Q ss_pred             hHHHHHHH
Q 022828          241 RVIEIVEM  248 (291)
Q Consensus       241 ~V~~ILe~  248 (291)
                      ++++||++
T Consensus        69 ~~~~il~~   76 (77)
T cd02980          69 DVEEIVEE   76 (77)
T ss_pred             HHHHHHHh
Confidence            99999986

TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.

>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH

Probab=99.53  E-value=2.8e-14  Score=114.20  Aligned_cols=78  Identities=17%  Similarity=0.261  Sum_probs=67.0

Q ss_pred             EEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhh
Q 022828          162 HLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKR  241 (291)
Q Consensus       162 ~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~  241 (291)
                      +|+||++|.|.+.||++++++|++++..+ | .    .+.+..+||+|+|+.+|+|.|.+ |+|     .++|.+||+++
T Consensus         2 ~I~Vc~gT~ciAaGA~~V~~al~~ei~~~-g-l----~v~v~~tGC~G~C~~ePlV~V~~-p~g-----~v~Y~~V~~ed   69 (92)
T cd03063           2 RIYVPRDAAALALGADEVAEAIEAEAAAR-G-L----AATIVRNGSRGMYWLEPLVEVET-PGG-----RVAYGPVTPAD   69 (92)
T ss_pred             EEEEeCChhhhhhCHHHHHHHHHHHHHHc-C-C----eEEEEEecCceecCCCCEEEEEe-CCC-----cEEEEeCCHHH
Confidence            59999999999999999999999999742 2 1    48999999999999999999963 222     28999999999


Q ss_pred             HHHHHHHHHc
Q 022828          242 VIEIVEMLRR  251 (291)
Q Consensus       242 V~~ILe~l~~  251 (291)
                      +++|++++..
T Consensus        70 v~~Iv~~~~~   79 (92)
T cd03063          70 VASLLDAGAL   79 (92)
T ss_pred             HHHHHHHHhh
Confidence            9999999553

FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c

>cd03062 TRX_Fd_Sucrase TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity

Probab=99.38  E-value=1.8e-12  Score=104.02  Aligned_cols=80  Identities=28%  Similarity=0.355  Sum_probs=66.5

Q ss_pred             eEEEEcCC----CcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecC
Q 022828          161 YHLLVCGT----TPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYED  236 (291)
Q Consensus       161 ~~I~VC~g----tsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~  236 (291)
                      .+|+||+.    ..|...| .+|+++|++++... |    .+.+.+..++|||.|..||+|+|.+..+|      +||+.
T Consensus         2 ~~ilVCth~rrd~~C~~~g-~~l~~~l~~~l~~~-~----~~~v~v~~~~clG~c~~gp~vvvyP~~~g------~wy~~   69 (97)
T cd03062           2 PLVLVCTHGKRDKRCGICG-PPLAAELRAELPEH-G----PGGVRVWEVSHVGGHKFAGNVIIYPKGDG------IWYGR   69 (97)
T ss_pred             CEEEEeCCCCCCcChhhcC-HHHHHHHHHHHHHh-C----CCceEEEeCCcCCccCcCCEEEEEeCCCe------eEEee
Confidence            58999995    6788888 68999999998633 2    35689999999999999999999431055      99999


Q ss_pred             CChhhHHHHHHHHHcC
Q 022828          237 VTPKRVIEIVEMLRRG  252 (291)
Q Consensus       237 vTpE~V~~ILe~l~~G  252 (291)
                      |||+++++||+++..+
T Consensus        70 v~p~~v~~Iv~~hl~~   85 (97)
T cd03062          70 VTPEHVPPIVDRLILG   85 (97)
T ss_pred             cCHHHHHHHHHHHhcC
Confidence            9999999999986544

The putative active site of the Fd-like domain of the enzyme contains two cysteines and two histidines for possible binding to iron-sulfur clusters, compared to four cysteines present in the active site of Fd.

>COG3411 Ferredoxin [Energy production and conversion]

Probab=99.02  E-value=4.2e-10  Score=84.48  Aligned_cols=52  Identities=25%  Similarity=0.503  Sum_probs=44.9

Q ss_pred             cEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhHHHHHHHH-HcCCCCCCC
Q 022828          199 LFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEML-RRGEKLPPG  258 (291)
Q Consensus       199 ~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V~~ILe~l-~~G~~~~~g  258 (291)
                      .+.+..++|||.|..||+|.|.+  +|      .||.+||++++++|++++ .+|+++...
T Consensus         2 ~i~~t~tgCl~~C~~gPvl~vYp--eg------vWY~~V~p~~a~rIv~~hl~~Gr~Ve~~   54 (64)
T COG3411           2 SIRVTRTGCLGVCQDGPVLVVYP--EG------VWYTRVDPEDARRIVQSHLLGGRPVEEL   54 (64)
T ss_pred             ceEEeecchhhhhccCCEEEEec--CC------eeEeccCHHHHHHHHHHHHhCCCcchhh
Confidence            57889999999999999999954  66      999999999999999995 567776553

>PF06999 Suc_Fer-like: Sucrase/ferredoxin-like; InterPro: IPR009737 This family contains a number of bacterial and eukaryotic proteins approximately 400 residues long that resemble ferredoxin and appear to have sucrolytic activity []

Probab=97.94  E-value=4.9e-05  Score=68.67  Aligned_cols=92  Identities=26%  Similarity=0.382  Sum_probs=71.5

Q ss_pred             ccccCCceEEEEcCC----CcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcc--cCCCCC
Q 022828          154 NRSKVGKYHLLVCGT----TPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVAD--YSNGSE  227 (291)
Q Consensus       154 ~~~P~gK~~I~VC~g----tsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd--~~~G~~  227 (291)
                      ..+...+..|+||+-    ..|...| ..|+++|++.+... + .  +.. .|-.+..+|.+.-||+|+|..  .++|  
T Consensus       126 ~~~~~~~~~iLVCtHg~RD~rCg~~G-p~l~~~l~~~~~~~-~-l--~~~-~V~~iSHiGGHkfAgNvIiy~~~~p~g--  197 (230)
T PF06999_consen  126 PREPPDKPLILVCTHGKRDKRCGILG-PPLARELEKELRER-G-L--SRD-RVWEISHIGGHKFAGNVIIYSKPKPDG--  197 (230)
T ss_pred             CcccCCCCEEEEcCCCCcCCchhccc-HHHHHHHHHHhhhc-C-C--ccc-eEEEecccccceecCeEEEEecCCCcE--
Confidence            344456789999986    4788876 57999999998633 1 1  111 289999999999999999960  0344  


Q ss_pred             CccceEecCCChhhHHHHHHH-HHcCCCCCC
Q 022828          228 GYTYNYYEDVTPKRVIEIVEM-LRRGEKLPP  257 (291)
Q Consensus       228 g~~~~~Y~~vTpE~V~~ILe~-l~~G~~~~~  257 (291)
                          .||++|+|++++.||++ +.+|+..+.
T Consensus       198 ----~wyGrv~p~~v~~iv~~t~~~g~vi~~  224 (230)
T PF06999_consen  198 ----IWYGRVTPEDVEGIVDATILDGKVIPE  224 (230)
T ss_pred             ----EEEEeeCHHHHHHHHHHHHhCCcCcCc
Confidence                99999999999999999 888887764

>PF07845 DUF1636: Protein of unknown function (DUF1636); InterPro: IPR012863 The sequences featured in this family are derived from a number of hypothetical prokaryotic proteins

Probab=97.87  E-value=4.9e-05  Score=63.49  Aligned_cols=79  Identities=19%  Similarity=0.260  Sum_probs=57.8

Q ss_pred             ccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCCh-hhHHHHHHHHHc
Q 022828          173 VRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTP-KRVIEIVEMLRR  251 (291)
Q Consensus       173 ~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTp-E~V~~ILe~l~~  251 (291)
                      .++++.|+++|+..+.-.    .....|+|++++||..|+.+=+|.+..  .|+.   ..+|++++| ++++.||+-...
T Consensus        18 ~~~G~~L~~aL~~~~~~~----~~~~~v~v~~v~CL~~C~r~CtVA~~~--~gK~---tYlfGdl~p~~~a~~il~~a~~   88 (116)
T PF07845_consen   18 PRPGAALLDALRAALADA----PLPDGVEVRPVECLSACDRPCTVALQA--PGKW---TYLFGDLDPDEDAEDILAFAAL   88 (116)
T ss_pred             CChHHHHHHHHHHHHhcC----CCCCceEEEeccHHhcCCCceEEEEEc--CCCc---EEEEecCCcccCHHHHHHHHHH
Confidence            358899999999998632    122359999999999999999998874  3332   368999999 889999976443


Q ss_pred             CCCCCCCCC
Q 022828          252 GEKLPPGTQ  260 (291)
Q Consensus       252 G~~~~~g~~  260 (291)
                      --..+.|-.
T Consensus        89 Y~~s~dG~v   97 (116)
T PF07845_consen   89 YAASPDGLV   97 (116)
T ss_pred             HHhCCCCcc
Confidence            222344433

The region in question is approximately 130 amino acids long.

>COG5469 Predicted metal-binding protein [Function unknown]

Probab=97.65  E-value=0.00021  Score=61.31  Aligned_cols=83  Identities=19%  Similarity=0.373  Sum_probs=61.6

Q ss_pred             cccCCceEEEEcCCCcccc----------cChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCC
Q 022828          155 RSKVGKYHLLVCGTTPCMV----------RGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSN  224 (291)
Q Consensus       155 ~~P~gK~~I~VC~gtsC~~----------~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~  224 (291)
                      ..+..+|.++||+.  |+.          .++..|++.|++.....    .....|+|+.|+||.+|+.+=+|.+..  +
T Consensus        12 ~~~~~~htlfVCks--C~~~~~~~~~~~p~~G~~Ll~kl~~l~qe~----~~~~e~~I~~VeCl~~C~r~c~vA~~~--~   83 (143)
T COG5469          12 INGMPKHTLFVCKS--CRDVSQEGKENGPSDGSILLDKLQELAQEW----EIAHEFEIQTVECLAACNRGCVVAFSG--P   83 (143)
T ss_pred             ccccCceEEEEecc--ccccccCCccCCCCcHHHHHHHHHHHHhhh----hhhccceeeeeHhhhhcCCCeEEEEec--C
Confidence            34556899999984  432          35778999988765421    122359999999999999999888865  3


Q ss_pred             CCCCccceEecCCChhh-HHHHHHH
Q 022828          225 GSEGYTYNYYEDVTPKR-VIEIVEM  248 (291)
Q Consensus       225 G~~g~~~~~Y~~vTpE~-V~~ILe~  248 (291)
                      |++   -.+|+++||++ ..+||+-
T Consensus        84 ~k~---sYLFgdL~p~d~a~dLl~~  105 (143)
T COG5469          84 GKP---SYLFGDLTPDDSASDLLEF  105 (143)
T ss_pred             CCc---eEEEccCCccccHHHHHHH
Confidence            433   36899999998 8888875

>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families

Probab=96.29  E-value=0.016  Score=45.40  Aligned_cols=65  Identities=18%  Similarity=0.331  Sum_probs=48.1

Q ss_pred             EEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCC---CCCeEEEcccCCCCCCccceEecCCC
Q 022828          162 HLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCV---NAPMITVADYSNGSEGYTYNYYEDVT  238 (291)
Q Consensus       162 ~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~---~aPvV~Vnd~~~G~~g~~~~~Y~~vT  238 (291)
                      .|.+|.+-  ...|++.+++.|++.-           .+.+.+.+|++.|+   ..|-.+||+          ++...-|
T Consensus         4 iVefC~~N--l~~g~~~~~~~Le~~p-----------~~~Vie~gCl~~Cg~C~~~pFAlVnG----------~~V~A~t   60 (78)
T PF07293_consen    4 IVEFCVSN--LASGTDQVYEKLEKDP-----------DIDVIEYGCLSYCGPCAKKPFALVNG----------EIVAAET   60 (78)
T ss_pred             eEEEcccC--chhhhHHHHHHHhcCC-----------CccEEEcChhhhCcCCCCCccEEECC----------EEEecCC
Confidence            57888753  5579999888887431           26789999999775   689999987          6777778


Q ss_pred             hhhHHHHHHHH
Q 022828          239 PKRVIEIVEML  249 (291)
Q Consensus       239 pE~V~~ILe~l  249 (291)
                      +|++-+-|.+.
T Consensus        61 ~eeL~~kI~~~   71 (78)
T PF07293_consen   61 AEELLEKIKEK   71 (78)
T ss_pred             HHHHHHHHHHH
Confidence            87765555443

Members contain four highly conserved cysteine residues and their function is unknown.

>PRK13669 hypothetical protein; Provisional

Probab=94.08  E-value=0.19  Score=39.56  Aligned_cols=64  Identities=25%  Similarity=0.388  Sum_probs=45.5

Q ss_pred             EEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCC---CCCeEEEcccCCCCCCccceEecCCC
Q 022828          162 HLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCV---NAPMITVADYSNGSEGYTYNYYEDVT  238 (291)
Q Consensus       162 ~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~---~aPvV~Vnd~~~G~~g~~~~~Y~~vT  238 (291)
                      .|.+|.+.  ...|++.+++.|++           |..+.|.+.+|++.|+   ..|-.+||+          ++...-|
T Consensus         4 iVEfC~sN--l~~G~~~~~~~Le~-----------dP~~dVie~gCls~CG~C~~~~FAlVng----------~~V~a~t   60 (78)
T PRK13669          4 IVEFCVSN--LASGSQAAFEKLEK-----------DPNLDVLEYGCLGYCGICSEGLFALVNG----------EVVEGET   60 (78)
T ss_pred             eeeehhcc--hhhhHHHHHHHHHh-----------CCCceEEEcchhhhCcCcccCceEEECC----------eEeecCC
Confidence            57788865  45688887776632           2347899999998765   689999987          5666778


Q ss_pred             hhhHHHHHHH
Q 022828          239 PKRVIEIVEM  248 (291)
Q Consensus       239 pE~V~~ILe~  248 (291)
                      +|++.+-|.+
T Consensus        61 ~eeL~~kI~~   70 (78)
T PRK13669         61 PEELVENIYA   70 (78)
T ss_pred             HHHHHHHHHH
Confidence            7775544444

>PF14297 DUF4373: Domain of unknown function (DUF4373)

Probab=82.14  E-value=4.6  Score=31.42  Aligned_cols=67  Identities=19%  Similarity=0.302  Sum_probs=54.6

Q ss_pred             hHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCC-CCHHHHHHHHHHhCCCchhhhhhhhhhccccccc
Q 022828           89 NKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGW-LPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSK  157 (291)
Q Consensus        89 ~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~Gy-Ip~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P  157 (291)
                      +-.+++.+.++|..+ .-+..+-+|..+-++. || ++-+.+..+|+.++++...|..|+.=|..|...-
T Consensus        10 ~D~ki~~l~~~~G~~-G~~~y~~ll~~iy~~~-~y~~~~~~~~~~a~~~~~~~~~v~~II~~~~LF~~~~   77 (87)
T PF14297_consen   10 SDPKIRRLMAEYGCE-GYGIYWYLLEYIYKQG-GYYLWWDKLFLIARKLGVSEEYVEEIINEYGLFDIEE   77 (87)
T ss_pred             cCHHHHHHHHHcCCc-hHHHHHHHHHHHHcCC-CeEeeHHHHHHHHHHHCcCHHHHHHHHHHhCCcccCC
Confidence            345788999999863 4567777888887765 55 7777799999999999999999999888888554

>TIGR02435 CobG precorrin-3B synthase

Probab=80.96  E-value=8.5  Score=37.86  Aligned_cols=86  Identities=16%  Similarity=0.280  Sum_probs=54.5

Q ss_pred             CCCCHHHHHHHHHHh-------------------CCCchhhhhhhhhhccccc--ccCC-ceEEEEcCCC-cccc--cCh
Q 022828          122 GWLPVSAMNEVAKII-------------------EVAPIRVYEVATFYSMFNR--SKVG-KYHLLVCGTT-PCMV--RGS  176 (291)
Q Consensus       122 GyIp~eam~~IAe~L-------------------~ip~~~V~~VaTFY~~f~~--~P~g-K~~I~VC~gt-sC~~--~Gs  176 (291)
                      |+|+.+.+..||+..                   +|+..++.+|...-..+..  .+.+ ...|..|.|. .|..  .-+
T Consensus       266 G~i~~~~l~~la~ia~~~g~~~irlT~~Q~l~i~~i~~~~~~~~~~~l~~~gl~~~~~~~~~~v~aC~G~~~C~~~~~~t  345 (390)
T TIGR02435       266 GQLTAAQLRGLAQLAQALGDGDLRLTPWRALLVLGLPPERADAAQRALAALGLVTSASDPRARIIACTGAPGCASALADT  345 (390)
T ss_pred             cccCHHHHHHHHHHHHHhCCCeEEEcCCcceEEcCCCHHHHHHHHHHHHHCCCCcCCCCCeeeEEECCCccccccchhhH
Confidence            566777766666543                   4555555555444333222  2322 3458899995 7763  347


Q ss_pred             HHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCC
Q 022828          177 REIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNA  214 (291)
Q Consensus       177 ~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~a  214 (291)
                      +.+..+|.+.++..     .  .++|.-+||-..|...
T Consensus       346 ~~~a~~l~~~~~~~-----~--~~~i~vSGC~n~C~~~  376 (390)
T TIGR02435       346 RADAEALAAYCEPT-----A--PITVHLSGCAKGCAHP  376 (390)
T ss_pred             HHHHHHHHHHhccc-----C--CcEEEEeCCcccccCC
Confidence            77888888877532     1  1899999999999973

An iron-sulfur protein. An oxygen atom from dioxygen is incorporated into the macrocycle at C-20. In the aerobic cobalamin biosythesis pathway, four enzymes are involved in the conversion of precorrin-3A to precorrin-6A. The first of the four steps is carried out by EC 1.14.13.83, precorrin-3B synthase (CobG), yielding precorrin-3B as the product. This is followed by three methylation reactions, which introduce a methyl group at C-17 (CobJ; EC 2.1.1.131), C-11 (CobM; EC 2.1.1.133) and C-1 (CobF; EC 2.1.1.152) of the macrocycle, giving rise to precorrin-4, precorrin-5 and precorrin-6A, respectively.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	291
2fug_2	181	Crystal Structure Of The Hydrophilic Domain Of Resp		6e-27
2auv_A	85	Solution Structure Of Hndac : A Thioredoxin-Like [2		1e-07

>pdb|2FUG|2 Chain 2, Crystal Structure Of The Hydrophilic Domain Of Respiratory Complex I From Thermus Thermophilus Length = 181

Iteration: 1
 Score =  117 bits (294), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 64/171 (37%), Positives = 97/171 (56%), Gaps = 10/171 (5%)
Query: 85  FSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVY 144
           F D  ++ ++E  + YP   +++A++PLL   QQ+ G W+    + E+A+++   P  V 
Sbjct: 3   FFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEEG-WIRPERIEEIARLVGTTPTEVM 61
Query: 145 EVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGE 204
            VA+FYS +     GKYHL VC T  C + G+ E+ D L + LG+   EVT DGLFSV +
Sbjct: 62  GVASFYSYYQFVPTGKYHLQVCATLSCKLAGAEELWDYLTETLGIGPGEVTPDGLFSVQK 121
Query: 205 MECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKL 255
           +EC+G C  AP+I V D           Y E VT  R+  ++  LR G++L
Sbjct: 122 VECLGSCHTAPVIQVNDEP---------YVECVTRARLEALLAGLRAGKRL 163

>pdb|2AUV|A Chain A, Solution Structure Of Hndac : A Thioredoxin-Like [2fe-2s] Ferredoxin Involved In The Nadp-Reducing Hydrogenase Complex Length = 85

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 29/88 (32%), Positives = 47/88 (53%), Gaps = 10/88 (11%)
Query: 159 GKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMIT 218
           GKY + VC  T C V+G+ ++  A  + L +   +VT DG FS+  + C+G C  AP++ 
Sbjct: 5   GKYPISVCMGTACFVKGADKVVHAFKEQLKIDIGDVTPDGRFSIDTLRCVGGCALAPIVM 64
Query: 219 VADYSNGSEGYTYNYYEDVTPKRVIEIV 246
           V +            Y +VTP +V +I+
Sbjct: 65  VGE----------KVYGNVTPGQVKKIL 82

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	291
3i9v_2	181	NADH-quinone oxidoreductase subunit 2; electron tr	5e-93
2auv_A	85	Potential NAD-reducing hydrogenase subunit; thiore	3e-35
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-09
1m2d_A	110	[2Fe-2S] ferredoxin; thioredoxin-like fold, [2Fe-2	4e-08

>3i9v_2 NADH-quinone oxidoreductase subunit 2; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_2* 2fug_2* 3iam_2* 3ias_2* 3m9s_2* Length = 181

 Score =  271 bits (696), Expect = 5e-93
 Identities = 65/180 (36%), Positives = 98/180 (54%), Gaps = 10/180 (5%)

Query: 84  KFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRV 143
            F D  ++ ++E  + YP   +++A++PLL   QQ+ G W+    + E+A+++   P  V
Sbjct: 2   GFFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEEG-WIRPERIEEIARLVGTTPTEV 60

Query: 144 YEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVG 203
             VA+FYS +     GKYHL VC T  C + G+ E+ D L + LG+   EVT DGLFSV 
Sbjct: 61  MGVASFYSYYQFVPTGKYHLQVCATLSCKLAGAEELWDYLTETLGIGPGEVTPDGLFSVQ 120

Query: 204 EMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPK 263
           ++EC+G C  AP+I V D           Y E VT  R+  ++  LR G++L       K
Sbjct: 121 KVECLGSCHTAPVIQVND---------EPYVECVTRARLEALLAGLRAGKRLEEIELPGK 171

>2auv_A Potential NAD-reducing hydrogenase subunit; thioredoxin, thiordoxin-like, oxidoreductase; NMR {Desulfovibrio fructosovorans} Length = 85

 Score =  121 bits (305), Expect = 3e-35
 Identities = 29/90 (32%), Positives = 47/90 (52%), Gaps = 10/90 (11%)

Query: 158 VGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMI 217
            GKY + VC  T C V+G+ ++  A  + L +   +VT DG FS+  + C+G C  AP++
Sbjct: 4   KGKYPISVCMGTACFVKGADKVVHAFKEQLKIDIGDVTPDGRFSIDTLRCVGGCALAPIV 63

Query: 218 TVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
            V +            Y +VTP +V +I+ 
Sbjct: 64  MVGE----------KVYGNVTPGQVKKILA 83

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 55.6 bits (133), Expect = 8e-09
 Identities = 41/260 (15%), Positives = 88/260 (33%), Gaps = 71/260 (27%)

Query: 17  CGRGTKSV-ALLLLSLELVENASSSR------GQASSRDSSSNPSISSGISIFLHCLELC 69
            G   K+  AL +     V+     +         +S ++           +     +L 
Sbjct: 161 SG---KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET-----------VLEMLQKLL 206

Query: 70  KHLDS-----PDNNPDLPWKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWL 124
             +D       D++ ++  +     + +++ +L   P  Y+   ++ LL++   +     
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSI-QAELRRLLKSKP--YENCLLV-LLNVQNAKA---- 258

Query: 125 PVSAMNEVAKIIEVAPI--RVYEVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDA 182
             +A N   KI+    +  R  +V  F S    + +   H  +   TP       E++  
Sbjct: 259 -WNAFNLSCKIL----LTTRFKQVTDFLSAATTTHISLDHHSM-TLTP------DEVKSL 306

Query: 183 LLKHLGVK----RNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVT 238
           LLK+L  +      EV       +             +I      +G    T++ ++ V 
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLS------------II-AESIRDGLA--TWDNWKHVN 351

Query: 239 PKRVIEIVEM-LRRGEKLPP 257
             ++  I+E  L     L P
Sbjct: 352 CDKLTTIIESSL---NVLEP 368

>1m2d_A [2Fe-2S] ferredoxin; thioredoxin-like fold, [2Fe-2S] cluster, Cys59Ser variant, electron transport; 1.05A {Aquifex aeolicus} SCOP: c.47.1.11 PDB: 1m2a_A 1f37_A 1m2b_A Length = 110

 Score = 49.4 bits (118), Expect = 4e-08
 Identities = 24/96 (25%), Positives = 35/96 (36%), Gaps = 19/96 (19%)

Query: 160 KYHLLVCGTTP--------CMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCC 211
             H+ VC            C  RGSRE+  A ++ +           +   G   CM   
Sbjct: 3   FKHVFVCVQDRPPGHPQGSCAQRGSREVFQAFMEKIQTDPQLFMTTVITPTG---CMNAS 59

Query: 212 VNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVE 247
           +  P++ V       +G  Y     V P+ V EIVE
Sbjct: 60  MMGPVVVVYP-----DGVWYGQ---VKPEDVDEIVE 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	291
3i9v_2	181	NADH-quinone oxidoreductase subunit 2; electron tr	100.0
2auv_A	85	Potential NAD-reducing hydrogenase subunit; thiore	99.9
1m2d_A	110	[2Fe-2S] ferredoxin; thioredoxin-like fold, [2Fe-2	99.77

>3i9v_2 NADH-quinone oxidoreductase subunit 2; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_2* 2fug_2* 3iam_2* 3ias_2* 3m9s_2*

Probab=100.00  E-value=3.8e-51  Score=359.72  Aligned_cols=163  Identities=39%  Similarity=0.736  Sum_probs=155.9

Q ss_pred             CCCChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceE
Q 022828           83 WKFSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYH  162 (291)
Q Consensus        83 ~~~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~  162 (291)
                      |.|++++.+++++||++||.++++++|||+||++|+++ ||||+++|++||+.|+||+++||||||||+||+++|+|||+
T Consensus         1 m~~~~~~~~~i~~ii~~y~~~~~~~~li~~L~~~Q~~~-G~l~~~~~~~iA~~l~l~~~~V~~VatFY~~f~~~P~gk~~   79 (181)
T 3i9v_2            1 MGFFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEE-GWIRPERIEEIARLVGTTPTEVMGVASFYSYYQFVPTGKYH   79 (181)
T ss_dssp             --CTTTCHHHHHHHHTTSCTTCCGGGHHHHHHHHHHHH-SSCCHHHHHHHHHHHTSCHHHHHHHHTTCSSCCSSCCCSEE
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCChhHHHHHHHHHHHHh-CCCCHHHHHHHHHHhCcCHHHHHHHHhHHhhcCCCCCCCEE
Confidence            46899999999999999997668999999999999987 99999999999999999999999999999999999999999


Q ss_pred             EEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccce-EecCCChhh
Q 022828          163 LLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYN-YYEDVTPKR  241 (291)
Q Consensus       163 I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~-~Y~~vTpE~  241 (291)
                      |+||+|++|+++||++|+++|+++|+++.|++|.||+|+|+.++|+|+|+.||+|+||+          + ||++||+|+
T Consensus        80 I~VC~gt~C~~~Ga~~i~~~l~~~L~i~~gett~Dg~~tl~~~~ClG~C~~gPvv~V~~----------~~~y~~vt~e~  149 (181)
T 3i9v_2           80 LQVCATLSCKLAGAEELWDYLTETLGIGPGEVTPDGLFSVQKVECLGSCHTAPVIQVND----------EPYVECVTRAR  149 (181)
T ss_dssp             EEEECSHHHHTTTHHHHHHHHHHHHTCCTTCCCTTSCEEEEEESCCSCGGGCSCEECSS----------SCCBCCCCHHH
T ss_pred             EEECCCchhhhcCHHHHHHHHHHHhCcCCCCcCCCCcEEEEEcCCCCccCCCCEEEECC----------EEEEcCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999986          7 999999999


Q ss_pred             HHHHHHHHHcCCCCC
Q 022828          242 VIEIVEMLRRGEKLP  256 (291)
Q Consensus       242 V~~ILe~l~~G~~~~  256 (291)
                      +++||+++++|+++.
T Consensus       150 v~~Il~~l~~g~~ve  164 (181)
T 3i9v_2          150 LEALLAGLRAGKRLE  164 (181)
T ss_dssp             HHHHHHHHHTTCCGG
T ss_pred             HHHHHHHHHcCCChh
Confidence            999999999998753

>2auv_A Potential NAD-reducing hydrogenase subunit; thioredoxin, thiordoxin-like, oxidoreductase; NMR {Desulfovibrio fructosovorans}

Probab=99.90  E-value=8.2e-25  Score=168.75  Aligned_cols=85  Identities=34%  Similarity=0.681  Sum_probs=81.4

Q ss_pred             cccCCceEEEEcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEe
Q 022828          155 RSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYY  234 (291)
Q Consensus       155 ~~P~gK~~I~VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y  234 (291)
                      ++|+||++|+||+|++|+++||++|+++|+++|+++.++||+||+|+|+.++|||.|+.||+|+|++          +||
T Consensus         1 ~~p~g~~~I~VC~g~~C~~~Ga~~v~~~l~~~l~~~~~~tt~d~~v~l~~~~ClG~C~~~P~v~V~~----------~~y   70 (85)
T 2auv_A            1 MVPKGKYPISVCMGTACFVKGADKVVHAFKEQLKIDIGDVTPDGRFSIDTLRCVGGCALAPIVMVGE----------KVY   70 (85)
T ss_dssp             CCSCCSBCEECCCCHHHHTTTHHHHHHHHHHHHCCSSSSSSSSCCBCCBSSSSSSSCTTSCCCEEGG----------GCC
T ss_pred             CCCCCCEEEEECCCchHHHcCHHHHHHHHHHHhCcccCCcCCCCeEEEEECCccCcCCCCCEEEECC----------EEE
Confidence            4799999999999999999999999999999999999999999999999999999999999999986          899


Q ss_pred             cCCChhhHHHHHHHH
Q 022828          235 EDVTPKRVIEIVEML  249 (291)
Q Consensus       235 ~~vTpE~V~~ILe~l  249 (291)
                      ++||++++++||+++
T Consensus        71 ~~vt~e~v~~il~~~   85 (85)
T 2auv_A           71 GNVTPGQVKKILAEY   85 (85)
T ss_dssp             CCSSSSHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHhC
Confidence            999999999999863

>1m2d_A [2Fe-2S] ferredoxin; thioredoxin-like fold, [2Fe-2S] cluster, Cys59Ser variant, electron transport; 1.05A {Aquifex aeolicus} SCOP: c.47.1.11 PDB: 1m2a_A 1f37_A 1m2b_A

Probab=99.77  E-value=3.6e-19  Score=143.45  Aligned_cols=87  Identities=30%  Similarity=0.521  Sum_probs=75.3

Q ss_pred             CceEEEEcCC--------CcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCcc
Q 022828          159 GKYHLLVCGT--------TPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYT  230 (291)
Q Consensus       159 gK~~I~VC~g--------tsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~  230 (291)
                      .||+|+||++        ++|+.+||++|+++|+++|+++.|.+   ++|+|+.++|||.|+.||+|+|++  +|     
T Consensus         2 ~~~~I~VC~~~r~~~~~~~~C~~~Ga~~l~~~l~~~l~~~~g~~---~~v~v~~~~ClG~C~~gP~v~V~P--~~-----   71 (110)
T 1m2d_A            2 EFKHVFVCVQDRPPGHPQGSCAQRGSREVFQAFMEKIQTDPQLF---MTTVITPTGCMNASMMGPVVVVYP--DG-----   71 (110)
T ss_dssp             -CEEEEEECCCCCTTCTTCCTGGGTHHHHHHHHHHHHHHCHHHH---TTEEEEEESCCSCGGGCSCEEEET--TT-----
T ss_pred             CceEEEECCCCCCCCCCCCCchhcCHHHHHHHHHHHHHHhcCCC---CeEEEEECCCCCccCCCCEEEEEe--CC-----
Confidence            3789999999        89999999999999999998654543   679999999999999999999953  33     


Q ss_pred             ceEecCCChhhHHHHHHH-HHcCCCCC
Q 022828          231 YNYYEDVTPKRVIEIVEM-LRRGEKLP  256 (291)
Q Consensus       231 ~~~Y~~vTpE~V~~ILe~-l~~G~~~~  256 (291)
                       +||++||++++++||++ +.+|+++.
T Consensus        72 -~~y~~vt~e~v~~il~~~l~~g~~v~   97 (110)
T 1m2d_A           72 -VWYGQVKPEDVDEIVEKHLKGGEPVE   97 (110)
T ss_dssp             -EEECSCCGGGHHHHHHHTTTTSCCCG
T ss_pred             -EEEecCCHHHHHHHHHHHHHCCcChH
Confidence             89999999999999999 56676543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	291
d2fug21	178	c.47.1.21 (2:3-180) NADH-quinone oxidoreductase ch	1e-48
d1m2da_	101	c.47.1.11 (A:) Thioredoxin-like 2Fe-2S ferredoxin	4e-14

>d2fug21 c.47.1.21 (2:3-180) NADH-quinone oxidoreductase chain 2, NQO2 {Thermus thermophilus [TaxId: 274]} Length = 178

class: Alpha and beta proteins (a/b)
fold: Thioredoxin fold
superfamily: Thioredoxin-like
family: NQO2-like
domain: NADH-quinone oxidoreductase chain 2, NQO2
species: Thermus thermophilus [TaxId: 274]

 Score =  157 bits (398), Expect = 1e-48
 Identities = 65/186 (34%), Positives = 99/186 (53%), Gaps = 11/186 (5%)

Query: 85  FSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVY 144
           F D  ++ ++E  + YP   +++A++PLL   QQ+ G W+    + E+A+++   P  V 
Sbjct: 1   FFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEEG-WIRPERIEEIARLVGTTPTEVM 59

Query: 145 EVATFYSMFNRSKVGKYHLLVCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGE 204
            VA+FYS +     GKYHL VC T  C + G+ E+ D L + LG+   EVT DGLFSV +
Sbjct: 60  GVASFYSYYQFVPTGKYHLQVCATLSCKLAGAEELWDYLTETLGIGPGEVTPDGLFSVQK 119

Query: 205 MECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEKLPPGTQNPKR 264
           +EC+G C  AP+I V D           Y E VT  R+  ++  LR G++L      P +
Sbjct: 120 VECLGSCHTAPVIQVND---------EPYVECVTRARLEALLAGLRAGKRLEEIEL-PGK 169

Query: 265 IKSGPE 270
                 
Sbjct: 170 CGHHVH 175

>d1m2da_ c.47.1.11 (A:) Thioredoxin-like 2Fe-2S ferredoxin {Aquifex aeolicus [TaxId: 63363]} Length = 101

class: Alpha and beta proteins (a/b)
fold: Thioredoxin fold
superfamily: Thioredoxin-like
family: Thioredoxin-like 2Fe-2S ferredoxin
domain: Thioredoxin-like 2Fe-2S ferredoxin
species: Aquifex aeolicus [TaxId: 63363]

 Score = 65.0 bits (158), Expect = 4e-14
 Identities = 23/101 (22%), Positives = 36/101 (35%), Gaps = 19/101 (18%)

Query: 162 HLLVCGTTP--------CMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVN 213
           H+ VC            C  RGSRE+  A ++ +              +    CM   + 
Sbjct: 3   HVFVCVQDRPPGHPQGSCAQRGSREVFQAFMEKIQTDPQL---FMTTVITPTGCMNASMM 59

Query: 214 APMITVADYSNGSEGYTYNYYEDVTPKRVIEIVEMLRRGEK 254
            P++ V             +Y  V P+ V EIVE   +G +
Sbjct: 60  GPVVVVYPD--------GVWYGQVKPEDVDEIVEKHLKGGE 92

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	291
d2fug21	178	NADH-quinone oxidoreductase chain 2, NQO2 {Thermus	100.0
d1m2da_	101	Thioredoxin-like 2Fe-2S ferredoxin {Aquifex aeolic	99.72

>d2fug21 c.47.1.21 (2:3-180) NADH-quinone oxidoreductase chain 2, NQO2 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Thioredoxin fold
superfamily: Thioredoxin-like
family: NQO2-like
domain: NADH-quinone oxidoreductase chain 2, NQO2
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.5e-49  Score=346.92  Aligned_cols=165  Identities=39%  Similarity=0.712  Sum_probs=155.9

Q ss_pred             CChhhHHHHHHHHHhCCCCCCcccHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCchhhhhhhhhhcccccccCCceEEE
Q 022828           85 FSDTNKEKVKEILSHYPSNYKQSAVIPLLDLAQQQHGGWLPVSAMNEVAKIIEVAPIRVYEVATFYSMFNRSKVGKYHLL  164 (291)
Q Consensus        85 ~~~~~~~~i~~il~~yp~~~~~~alipiL~~~Q~~~~GyIp~eam~~IAe~L~ip~~~V~~VaTFY~~f~~~P~gK~~I~  164 (291)
                      |++++.+.|++||++||.+.++++|||+||++|+++ ||||+++|++||+.|+||+++||+|+|||+||+++|+|||+|.
T Consensus         1 f~~~~~~~i~~ii~~Yp~~~~~~ali~~L~~iQ~~~-Gyip~~al~~iA~~l~v~~a~V~~vatFY~~f~~~p~gk~~i~   79 (178)
T d2fug21           1 FFDDKQDFLEETFAKYPPEGRRAAIMPLLRRVQQEE-GWIRPERIEEIARLVGTTPTEVMGVASFYSYYQFVPTGKYHLQ   79 (178)
T ss_dssp             CTTTTHHHHHHHHHTSCSSCGGGGHHHHHHHHHHHH-SSCCHHHHHHHHHHHTSCHHHHHHHHHHSSSSCSSCCCSEEEE
T ss_pred             CCHHHHHHHHHHHHHCCCccchhHHHHHHHHHHHHc-CCCCHHHHHHHHHHHCCCHHHHHHHHHhcchhcccccccceeE
Confidence            778899999999999998778999999999999986 9999999999999999999999999999999999999999999


Q ss_pred             EcCCCcccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceEecCCChhhHHH
Q 022828          165 VCGTTPCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNYYEDVTPKRVIE  244 (291)
Q Consensus       165 VC~gtsC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~Y~~vTpE~V~~  244 (291)
                      ||++++|+++|+++|+++++++||++.|+||+||+|+|+++.|||+|+.||+|+||+.         .++++||++++++
T Consensus        80 VC~~~~C~~~G~~~l~~~l~~~Lgi~~gett~Dg~ftle~v~ClG~C~~APa~~In~~---------~y~~~lt~e~~~~  150 (178)
T d2fug21          80 VCATLSCKLAGAEELWDYLTETLGIGPGEVTPDGLFSVQKVECLGSCHTAPVIQVNDE---------PYVECVTRARLEA  150 (178)
T ss_dssp             EECSHHHHTTTHHHHHHHHHHHHCCCTTCCCTTSCEEEEEESCCSCTTSSSCEECSSS---------SBCCSCCHHHHHH
T ss_pred             ecCchhhhhccchhhHHHHHhhcccccccccCCCCEEEEEeeccCccCCCCeEEEcCE---------EecCCCCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999872         3457899999999


Q ss_pred             HHHHHHcCCCCCCCC
Q 022828          245 IVEMLRRGEKLPPGT  259 (291)
Q Consensus       245 ILe~l~~G~~~~~g~  259 (291)
                      ||++|++|+.++..+
T Consensus       151 il~~lr~~~~~~~~~  165 (178)
T d2fug21         151 LLAGLRAGKRLEEIE  165 (178)
T ss_dssp             HHHHHHTTCCGGGCC
T ss_pred             HHHHHHcCCCCCCCC
Confidence            999999998765543

>d1m2da_ c.47.1.11 (A:) Thioredoxin-like 2Fe-2S ferredoxin {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: Thioredoxin fold
superfamily: Thioredoxin-like
family: Thioredoxin-like 2Fe-2S ferredoxin
domain: Thioredoxin-like 2Fe-2S ferredoxin
species: Aquifex aeolicus [TaxId: 63363]

Probab=99.72  E-value=2e-18  Score=135.87  Aligned_cols=84  Identities=31%  Similarity=0.553  Sum_probs=72.6

Q ss_pred             EEEEcCCC--------cccccChHHHHHHHHHHhCCCCCcccCCCcEEEEEecCCCCCCCCCeEEEcccCCCCCCccceE
Q 022828          162 HLLVCGTT--------PCMVRGSREIEDALLKHLGVKRNEVTKDGLFSVGEMECMGCCVNAPMITVADYSNGSEGYTYNY  233 (291)
Q Consensus       162 ~I~VC~gt--------sC~~~Gs~~lleaL~~~Lgi~~Gett~DG~ftL~~v~CLG~C~~aPvV~Vnd~~~G~~g~~~~~  233 (291)
                      ||+||+++        +|..+|+++++++|+++|+.+.+   .|+.+++..++|+|.|..||+|.|++  +|      .|
T Consensus         3 Hi~VC~~~r~~~~~~~~C~~~G~~~v~~~l~~~l~~~~~---~~~~v~v~~tgClG~C~~gP~v~i~P--~~------~~   71 (101)
T d1m2da_           3 HVFVCVQDRPPGHPQGSCAQRGSREVFQAFMEKIQTDPQ---LFMTTVITPTGCMNASMMGPVVVVYP--DG------VW   71 (101)
T ss_dssp             EEEEECCCCCTTCTTCCTGGGTHHHHHHHHHHHHHHCHH---HHTTEEEEEESCCSCGGGCSCEEEET--TT------EE
T ss_pred             EEEEeCCCCCCCCCCCcchhcCHHHHHHHHHHHhhhhcC---CCCcEEEEEccCCcccCCCceEEEcC--Cc------cE
Confidence            69999997        59999999999999999964322   36789999999999999999999965  44      89


Q ss_pred             ecCCChhhHHHHHHH-HHcCCCCC
Q 022828          234 YEDVTPKRVIEIVEM-LRRGEKLP  256 (291)
Q Consensus       234 Y~~vTpE~V~~ILe~-l~~G~~~~  256 (291)
                      |++||++++++||++ +.+|++++
T Consensus        72 Y~~v~~e~v~~Iv~~hl~~g~~ve   95 (101)
T d1m2da_          72 YGQVKPEDVDEIVEKHLKGGEPVE   95 (101)
T ss_dssp             ECSCCGGGHHHHHHHTTTTSCCCG
T ss_pred             EecCCHHHHHHHHHHHHHCCcCch
Confidence            999999999999999 56776553