Psyllid ID: psy11033

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------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-

MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSSTPLIPKR

ccccccccHHHHHccccccccccEEEEEccccccccccccHHHHHcccccccccccHHHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHHHHHHHHccccccccccccccEEEEEEEcccEEEEcHHHHHHHHHccccccccccccccccccccccccccccccccccHHHHHHccHHHHHccccccccccEEEEEEEccccccEEEEcccccHHHHHHHHcccccccccEEEEEEcccccccccccc

cccccccccccccccccccccccccccccccEEEEEEcccccccccccHHHHcccccHHHHHHHHHHHHHcccEEEEEEEHHHHHHHHHHHHHHHHHHHccccccccccccccEEEEEEccccEEEccHHHHHHHHHcccccccccccccccccccccccccEccHHHHEHcHHHHHccHHHHHHccccccccEEEEEEEcccccccEEEEcccccHHHHHHHHccccccccHHcEEEccccccccccccc

mrhdphklveGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKiwsihppwyitvWTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAgligknacgsgydfdvfmhrgagayicgEETALIESiegkqgkprlkppfpadvgvfgcpttvsnvetvavAPEICRRggawfaslgrprnsgtklfnisghvntpctveeemSIPLKELIQRHAGDVIGGWDNllaiipggsstplipkr

MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWfaslgrprnsgtklfnisGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLaiipggsstplipkr

*******LVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAYICGEETALIESIE**********PFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP***********

*****HK****CLVA****GAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSSTPLIP**

******************MGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSST******

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		251	2.2.26 [Sep-21-2011]
P25708		464	NADH dehydrogenase [ubiqu	yes	N/A	0.792	0.428	0.716	4e-97
Q0MQI6		464	NADH dehydrogenase [ubiqu	yes	N/A	0.792	0.428	0.708	4e-96
Q8HXQ9		464	NADH dehydrogenase [ubiqu	N/A	N/A	0.792	0.428	0.708	4e-96
Q0MQI4		464	NADH dehydrogenase [ubiqu	N/A	N/A	0.792	0.428	0.708	6e-96
Q91YT0		464	NADH dehydrogenase [ubiqu	yes	N/A	0.792	0.428	0.708	6e-96
P49821		464	NADH dehydrogenase [ubiqu	yes	N/A	0.792	0.428	0.704	8e-96
Q0MQI5		464	NADH dehydrogenase [ubiqu	N/A	N/A	0.792	0.428	0.7	3e-95
P24917		493	NADH-ubiquinone oxidoredu	N/A	N/A	0.792	0.403	0.636	2e-85
Q54I90		479	NADH dehydrogenase [ubiqu	yes	N/A	0.792	0.415	0.628	3e-84
Q92406		496	NADH-ubiquinone oxidoredu	yes	N/A	0.741	0.375	0.763	1e-82

>sp\|P25708\|NDUV1_BOVIN NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Bos taurus GN=NDUFV1 PE=1 SV=2	Back alignment and function desciption

 Score =  354 bits (908), Expect = 4e-97,   Method: Compositional matrix adjust.
 Identities = 179/250 (71%), Positives = 190/250 (76%), Gaps = 51/250 (20%)

Query: 1   MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
           +RHDPHKLVEGCL                                               
Sbjct: 131 IRHDPHKLVEGCL----------------------------------------------- 143

Query: 61  WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
               V GRAMGA+AAYIYIRGEFYNEASN+QVAI EAY+AGLIGKNACGSGYDFDVF+ R
Sbjct: 144 ----VGGRAMGARAAYIYIRGEFYNEASNLQVAIREAYEAGLIGKNACGSGYDFDVFVVR 199

Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
           GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTV+NVETVAV+P ICRRGG
Sbjct: 200 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVANVETVAVSPTICRRGG 259

Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
           AWFAS GR RNSGTKLFNISGHVN PCTVEEEMS+PLKELI++HAG V GGWDNLLA+IP
Sbjct: 260 AWFASFGRERNSGTKLFNISGHVNNPCTVEEEMSVPLKELIEKHAGGVTGGWDNLLAVIP 319

Query: 241 GGSSTPLIPK 250
           GGSSTPLIPK
Sbjct: 320 GGSSTPLIPK 329

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: 1EC: .EC: 6EC: .EC: 9EC: 9EC: .EC: 3

>sp\|Q0MQI6\|NDUV1_PANTR NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Pan troglodytes GN=NDUFV1 PE=2 SV=1	Back alignment and function description

>sp\|Q8HXQ9\|NDUV1_MACFA NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Macaca fascicularis GN=NDUFV1 PE=2 SV=1	Back alignment and function description

>sp\|Q0MQI4\|NDUV1_PONPY NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Pongo pygmaeus GN=NDUFV1 PE=2 SV=1	Back alignment and function description

>sp\|Q91YT0\|NDUV1_MOUSE NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Mus musculus GN=Ndufv1 PE=1 SV=1	Back alignment and function description

>sp\|P49821\|NDUV1_HUMAN NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Homo sapiens GN=NDUFV1 PE=1 SV=4	Back alignment and function description

>sp\|Q0MQI5\|NDUV1_GORGO NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Gorilla gorilla gorilla GN=NDUFV1 PE=2 SV=1	Back alignment and function description

>sp\|P24917\|NDUV1_NEUCR NADH-ubiquinone oxidoreductase 51 kDa subunit, mitochondrial OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=nuo-51 PE=2 SV=2	Back alignment and function description

>sp\|Q54I90\|NDUV1_DICDI NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial OS=Dictyostelium discoideum GN=ndufv1 PE=2 SV=1	Back alignment and function description

>sp\|Q92406\|NDUV1_ASPNG NADH-ubiquinone oxidoreductase 51 kDa subunit, mitochondrial OS=Aspergillus niger GN=NUO51 PE=3 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		251
242019360		472	NADH-ubiquinone oxidoreductase 51 kDa su	0.792	0.421	0.744	1e-99
54792418		462	NADH-quinone oxidoreductase [Nilaparvata	0.796	0.432	0.729	2e-99
289743527		474	NADH dehydrogenase flavoprotein 1 ubiqui	0.796	0.421	0.733	4e-99
312371261		1009	hypothetical protein AND_22330 [Anophele	0.792	0.197	0.724	5e-99
170039879		474	NADH dehydrogenase flavoprotein 1, mitoc	0.792	0.419	0.732	2e-98
283046718		478	NADH dehydrogenase [ubiquinone] flavopro	0.792	0.416	0.732	3e-98
193587168		482	PREDICTED: NADH dehydrogenase [ubiquinon	0.792	0.412	0.732	7e-98
194860015		474	GG10139 [Drosophila erecta] gi\|190661366	0.792	0.419	0.72	2e-97
380015705		469	PREDICTED: NADH dehydrogenase [ubiquinon	0.792	0.424	0.724	3e-97
340720621		469	PREDICTED: NADH dehydrogenase [ubiquinon	0.792	0.424	0.724	3e-97

>gi\|242019360\|ref\|XP_002430129.1\| NADH-ubiquinone oxidoreductase 51 kDa subunit, putative [Pediculus humanus corporis] gi\|212515220\|gb\|EEB17391.1\| NADH-ubiquinone oxidoreductase 51 kDa subunit, putative [Pediculus humanus corporis]	Back alignment and taxonomy information

 Score =  368 bits (944), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 186/250 (74%), Positives = 194/250 (77%), Gaps = 51/250 (20%)

Query: 1   MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
           +R+DPHKL+EGCL                                               
Sbjct: 141 LRNDPHKLIEGCL----------------------------------------------- 153

Query: 61  WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
               VAGRAMGA+AAYIYIRGEFYNEASNMQ+AI+EAYQAGLIGKNAC SGYDFDVFMHR
Sbjct: 154 ----VAGRAMGAQAAYIYIRGEFYNEASNMQIAIAEAYQAGLIGKNACNSGYDFDVFMHR 209

Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
           GAGAYICGEETALIESIEGKQGKPRLKPPFPAD+GVFGCPTTVSNVETVAVAP ICRRGG
Sbjct: 210 GAGAYICGEETALIESIEGKQGKPRLKPPFPADIGVFGCPTTVSNVETVAVAPTICRRGG 269

Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
           +WFAS GRPRNSGTKLFNISGHVN PCTVEEEMSIPLKELIQ HAGDVIGGWDNLLAIIP
Sbjct: 270 SWFASFGRPRNSGTKLFNISGHVNNPCTVEEEMSIPLKELIQLHAGDVIGGWDNLLAIIP 329

Query: 241 GGSSTPLIPK 250
           GGSSTPLIPK
Sbjct: 330 GGSSTPLIPK 339

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi\|54792418\|emb\|CAH65683.1\| NADH-quinone oxidoreductase [Nilaparvata lugens]	Back alignment and taxonomy information

>gi\|289743527\|gb\|ADD20511.1\| NADH dehydrogenase flavoprotein 1 ubiquinone [Glossina morsitans morsitans]	Back alignment and taxonomy information

>gi\|312371261\|gb\|EFR19494.1\| hypothetical protein AND_22330 [Anopheles darlingi]	Back alignment and taxonomy information

>gi\|170039879\|ref\|XP_001847747.1\| NADH dehydrogenase flavoprotein 1, mitochondrial [Culex quinquefasciatus] gi\|167863468\|gb\|EDS26851.1\| NADH dehydrogenase flavoprotein 1, mitochondrial [Culex quinquefasciatus]	Back alignment and taxonomy information

>gi\|283046718\|ref\|NP_001164305.1\| NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial [Tribolium castaneum] gi\|270008216\|gb\|EFA04664.1\| hypothetical protein TcasGA2_TC014119 [Tribolium castaneum]	Back alignment and taxonomy information

>gi\|193587168\|ref\|XP_001946240.1\| PREDICTED: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial-like [Acyrthosiphon pisum]	Back alignment and taxonomy information

>gi\|194860015\|ref\|XP_001969499.1\| GG10139 [Drosophila erecta] gi\|190661366\|gb\|EDV58558.1\| GG10139 [Drosophila erecta]	Back alignment and taxonomy information

>gi\|380015705\|ref\|XP_003691837.1\| PREDICTED: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial-like [Apis florea]	Back alignment and taxonomy information

>gi\|340720621\|ref\|XP_003398732.1\| PREDICTED: NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial-like [Bombus terrestris]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		251
FB\|FBgn0031771		474	CG9140 [Drosophila melanogaste	0.741	0.392	0.897	2.7e-91
UNIPROTKB\|F1RVN1		464	NDUFV1 "Uncharacterized protei	0.741	0.400	0.903	1.2e-90
UNIPROTKB\|P25708		464	NDUFV1 "NADH dehydrogenase [ub	0.741	0.400	0.897	2.5e-90
UNIPROTKB\|E2R514		464	NDUFV1 "Uncharacterized protei	0.741	0.400	0.897	4e-90
ZFIN\|ZDB-GENE-040808-73		492	ndufv1 "NADH dehydrogenase (ub	0.741	0.378	0.892	2.8e-89
UNIPROTKB\|B4DE93		363	NDUFV1 "NADH dehydrogenase [ub	0.741	0.512	0.887	2.8e-89
UNIPROTKB\|G3V0I5		457	NDUFV1 "NADH dehydrogenase (Ub	0.741	0.407	0.887	2.8e-89
UNIPROTKB\|P49821		464	NDUFV1 "NADH dehydrogenase [ub	0.741	0.400	0.887	2.8e-89
MGI\|MGI:107851		464	Ndufv1 "NADH dehydrogenase (ub	0.741	0.400	0.881	1.6e-88
RGD\|1359247		464	Ndufv1 "NADH dehydrogenase (ub	0.741	0.400	0.876	4.1e-88

FB\|FBgn0031771 CG9140 [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 167/186 (89%), Positives = 177/186 (95%)

Query:    65 VAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGA 124
             +AGRAMGA+AAYIYIRGEFYNEASNMQ+AI+EAYQAGLIGKNACG+GYDFDVFMHRGAGA
Sbjct:   159 IAGRAMGAQAAYIYIRGEFYNEASNMQLAIAEAYQAGLIGKNACGTGYDFDVFMHRGAGA 218

Query:   125 YICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFA 184
             YICGEETALIES+EGKQGKPRLKPPFPADVGVFGCPTTV+NVETVAVAP ICRRGG WFA
Sbjct:   219 YICGEETALIESLEGKQGKPRLKPPFPADVGVFGCPTTVTNVETVAVAPTICRRGGVWFA 278

Query:   185 SLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSS 244
             S GR RNSGTKLFNISGHVN PCTVEEEMSIPLKELI+RH G V GGWDNLL +IPGGSS
Sbjct:   279 SFGRTRNSGTKLFNISGHVNRPCTVEEEMSIPLKELIERHCGGVTGGWDNLLGVIPGGSS 338

Query:   245 TPLIPK 250
             TP+IPK
Sbjct:   339 TPIIPK 344

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

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

GO:0003954 "NADH dehydrogenase activity" evidence=ISS

GO:0051287 "NAD binding" evidence=IEA

GO:0010181 "FMN binding" evidence=IEA

GO:0051539 "4 iron, 4 sulfur cluster binding" evidence=IEA

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

UNIPROTKB\|F1RVN1 NDUFV1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]	Back alignment and assigned GO terms

UNIPROTKB\|P25708 NDUFV1 "NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial" [Bos taurus (taxid:9913)]	Back alignment and assigned GO terms

UNIPROTKB\|E2R514 NDUFV1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

ZFIN\|ZDB-GENE-040808-73 ndufv1 "NADH dehydrogenase (ubiquinone) flavoprotein 1" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

UNIPROTKB\|B4DE93 NDUFV1 "NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|G3V0I5 NDUFV1 "NADH dehydrogenase (Ubiquinone) flavoprotein 1, 51kDa, isoform CRA_c" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

UNIPROTKB\|P49821 NDUFV1 "NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

MGI\|MGI:107851 Ndufv1 "NADH dehydrogenase (ubiquinone) flavoprotein 1" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

RGD\|1359247 Ndufv1 "NADH dehydrogenase (ubiquinone) flavoprotein 1" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

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)
O07948	NUOF_RHOCA	1, ., 6, ., 9, 9, ., 5	0.6972	0.7370	0.4292	yes	N/A
Q9ZE33	NUOF_RICPR	1, ., 6, ., 9, 9, ., 5	0.6881	0.7410	0.4418	yes	N/A
Q91YT0	NDUV1_MOUSE	1, ., 6, ., 9, 9, ., 3	0.708	0.7928	0.4288	yes	N/A
Q4UKA6	NUOF_RICFE	1, ., 6, ., 9, 9, ., 5	0.7043	0.7410	0.4407	yes	N/A
A8GQT6	NUOF_RICRS	1, ., 6, ., 9, 9, ., 5	0.6935	0.7410	0.4418	yes	N/A
A8GM77	NUOF_RICAH	1, ., 6, ., 9, 9, ., 5	0.6935	0.7410	0.4397	yes	N/A
P56912	NUOF1_RHIME	1, ., 6, ., 9, 9, ., 5	0.5220	0.7848	0.4539	yes	N/A
P25708	NDUV1_BOVIN	1, ., 6, ., 9, 9, ., 3	0.716	0.7928	0.4288	yes	N/A
P29913	NQO1_PARDE	1, ., 6, ., 9, 9, ., 5	0.6576	0.7330	0.4269	yes	N/A
Q56222	NQO1_THET8	1, ., 6, ., 9, 9, ., 5	0.5027	0.7250	0.4155	yes	N/A
Q92JB2	NUOF_RICCN	1, ., 6, ., 9, 9, ., 5	0.6935	0.7410	0.4418	yes	N/A
Q92406	NDUV1_ASPNG	1, ., 6, ., 9, 9, ., 3	0.7634	0.7410	0.375	yes	N/A
A8F0M0	NUOF_RICM5	1, ., 6, ., 9, 9, ., 5	0.6935	0.7410	0.4418	yes	N/A
Q1RHA0	NUOF_RICBR	1, ., 6, ., 9, 9, ., 5	0.564	0.7928	0.4772	yes	N/A
P49821	NDUV1_HUMAN	1, ., 6, ., 9, 9, ., 3	0.704	0.7928	0.4288	yes	N/A
Q9FNN5	NDUV1_ARATH	1, ., 6, ., 9, 9, ., 3	0.616	0.7928	0.4094	yes	N/A
Q0MQI6	NDUV1_PANTR	1, ., 6, ., 9, 9, ., 3	0.708	0.7928	0.4288	yes	N/A
Q54I90	NDUV1_DICDI	1, ., 6, ., 9, 9, ., 3	0.628	0.7928	0.4154	yes	N/A
A8EXI1	NUOF_RICCK	1, ., 6, ., 9, 9, ., 5	0.7043	0.7410	0.4428	yes	N/A
A8GYE0	NUOF_RICB8	1, ., 6, ., 9, 9, ., 5	0.564	0.7928	0.4772	yes	N/A
Q68XY3	NUOF_RICTY	1, ., 6, ., 9, 9, ., 5	0.6989	0.7410	0.4418	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	1.6.99	0.766

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Alignment Graph	Length	Definition	E-value
Query		251
PRK13596		433	PRK13596, PRK13596, NADH dehydrogenase I subunit F	1e-136
PTZ00304		461	PTZ00304, PTZ00304, NADH dehydrogenase [ubiquinone	1e-134
PLN03132		461	PLN03132, PLN03132, NADH dehydrogenase (ubiquinone	1e-122
COG1894		424	COG1894, NuoF, NADH:ubiquinone oxidoreductase, NAD	1e-106
TIGR01959		411	TIGR01959, nuoF_fam, NADH-quinone oxidoreductase,	1e-103
PRK11278		448	PRK11278, PRK11278, NADH dehydrogenase I subunit F	6e-53
pfam01512		150	pfam01512, Complex1_51K, Respiratory-chain NADH de	6e-24
pfam01512		150	pfam01512, Complex1_51K, Respiratory-chain NADH de	5e-10
pfam10531		52	pfam10531, SLBB, SLBB domain	5e-04

>gnl\|CDD\|237441 PRK13596, PRK13596, NADH dehydrogenase I subunit F; Provisional	Back alignment and domain information

 Score =  390 bits (1003), Expect = e-136
 Identities = 148/250 (59%), Positives = 173/250 (69%), Gaps = 51/250 (20%)

Query: 1   MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
           +RHDPHKL+EGCL+A  AMGA AAYIYIRGEF  E   +                     
Sbjct: 98  LRHDPHKLIEGCLIASFAMGAHAAYIYIRGEFIREREAL--------------------- 136

Query: 61  WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
                                         Q AI EAY+AGLIGKNACGSG+DFD+++H 
Sbjct: 137 ------------------------------QAAIDEAYEAGLIGKNACGSGWDFDIYVHH 166

Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
           GAGAYICGEETAL+ES+EGK+G+PRLKPPFPA+VG++GCPTTV+NVE++AV P I RRG 
Sbjct: 167 GAGAYICGEETALLESLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGA 226

Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
           AWFAS+GRP N+GTKLF ISGHVN PC VEE M IP +ELI++HAG V GGWDNLLA+IP
Sbjct: 227 AWFASIGRPNNTGTKLFCISGHVNKPCNVEEAMGIPFRELIEKHAGGVRGGWDNLLAVIP 286

Query: 241 GGSSTPLIPK 250
           GGSS PLIP 
Sbjct: 287 GGSSVPLIPA 296

Length = 433

>gnl\|CDD\|185547 PTZ00304, PTZ00304, NADH dehydrogenase [ubiquinone] flavoprotein 1; Provisional	Back alignment and domain information

>gnl\|CDD\|178678 PLN03132, PLN03132, NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional	Back alignment and domain information

>gnl\|CDD\|224806 COG1894, NuoF, NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]	Back alignment and domain information

>gnl\|CDD\|131014 TIGR01959, nuoF_fam, NADH-quinone oxidoreductase, F subunit	Back alignment and domain information

>gnl\|CDD\|236891 PRK11278, PRK11278, NADH dehydrogenase I subunit F; Provisional	Back alignment and domain information

>gnl\|CDD\|216542 pfam01512, Complex1_51K, Respiratory-chain NADH dehydrogenase 51 Kd subunit	Back alignment and domain information

>gnl\|CDD\|216542 pfam01512, Complex1_51K, Respiratory-chain NADH dehydrogenase 51 Kd subunit	Back alignment and domain information

>gnl\|CDD\|220798 pfam10531, SLBB, SLBB domain	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		251
COG1894		424	NuoF NADH:ubiquinone oxidoreductase, NADH-binding	100.0
PLN03132		461	NADH dehydrogenase (ubiquinone) flavoprotein 1; Pr	100.0
PRK11278		448	NADH dehydrogenase I subunit F; Provisional	100.0
PRK13596		433	NADH dehydrogenase I subunit F; Provisional	100.0
PTZ00304		461	NADH dehydrogenase [ubiquinone] flavoprotein 1; Pr	100.0
KOG2658\|consensus		478		100.0
TIGR01959		411	nuoF_fam NADH-quinone oxidoreductase, F subunit. T	100.0
TIGR01945		435	rnfC electron transport complex, RnfABCDGE type, C	100.0
PRK05035		695	electron transport complex protein RnfC; Provision	100.0
COG4656		529	RnfC Predicted NADH:ubiquinone oxidoreductase, sub	99.96
PF01512		151	Complex1_51K: Respiratory-chain NADH dehydrogenase	99.92
PRK05352		448	Na(+)-translocating NADH-quinone reductase subunit	99.88
TIGR01936		447	nqrA NADH:ubiquinone oxidoreductase, Na(+)-translo	99.86
PLN03132		461	NADH dehydrogenase (ubiquinone) flavoprotein 1; Pr	98.81
PTZ00304		461	NADH dehydrogenase [ubiquinone] flavoprotein 1; Pr	98.79
PRK11278		448	NADH dehydrogenase I subunit F; Provisional	98.64
PRK13596		433	NADH dehydrogenase I subunit F; Provisional	98.62
PF10531		59	SLBB: SLBB domain; InterPro: IPR019554 The soluble	98.59
TIGR01959		411	nuoF_fam NADH-quinone oxidoreductase, F subunit. T	98.5
PF01512		151	Complex1_51K: Respiratory-chain NADH dehydrogenase	98.06
TIGR01945		435	rnfC electron transport complex, RnfABCDGE type, C	97.29
PRK05035		695	electron transport complex protein RnfC; Provision	96.47
KOG2658\|consensus		478		96.12
PF11973		51	NQRA_SLBB: NQRA C-terminal domain; InterPro: IPR02	94.87
TIGR03027		165	pepcterm_export putative polysaccharide export pro	90.09
COG1894		424	NuoF NADH:ubiquinone oxidoreductase, NADH-binding	89.6
TIGR03028		239	EpsE polysaccharide export protein EpsE. Sequences	85.53
TIGR03028		239	EpsE polysaccharide export protein EpsE. Sequences	85.43
COG1596		239	Wza Periplasmic protein involved in polysaccharide	83.26

>COG1894 NuoF NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]	Back alignment and domain information

Probab=100.00  E-value=4.2e-68  Score=494.91  Aligned_cols=198  Identities=58%  Similarity=1.047  Sum_probs=193.5

Q ss_pred             CCCCchhHhHHHHHHHHHhCCCeEEEEEeccccchhHHHHHHHHHHhhhhccCcHhHHhHhHHHHHHHHhcCceEEEEec
Q psy11033          1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVAGRAMGAKAAYIYIR   80 (251)
Q Consensus         1 ~~~~~~~~~~g~~~~~~~~~a~~~~i~i~~e~~~~~~~~~~a~~~~~~~~~~~d~~l~~~~~~~i~a~a~gA~~~~I~i~   80 (251)
                      |++|||+|||||+||+||+||+++|||||                                                   
T Consensus       103 me~dPH~LIEGm~IA~yA~gA~~~YiYiR---------------------------------------------------  131 (424)
T COG1894         103 MEGDPHLLIEGMIIAAYAVGATKGYIYIR---------------------------------------------------  131 (424)
T ss_pred             HhcCcHHHHHHHHHHHHHhccceeEEEEe---------------------------------------------------
Confidence            78999999999999999999999999999                                                   


Q ss_pred             cCcHHHHHHHHHHHHHHHHcCccCcCCCCCCCcccEEEEEcCccccCChHHHHHHHHcCCCCCCCCCCCCCcccCCCCCC
Q psy11033         81 GEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCP  160 (251)
Q Consensus        81 ~~~~~a~~~l~~ai~e~~~~g~~g~~~~g~~~~~~I~v~~~~~~Yp~GeE~aLi~sl~G~~~~P~~kpp~P~~~G~~g~P  160 (251)
                      .||+.+++.|++||+|+|++||||+|||||+|+++|.||.++++|+||||||||+|||||++.||.|||||+..|+||+|
T Consensus       132 gEy~~a~~~l~~AI~eA~~~GlLGknilGSgfdfdl~vh~GAGAYICGEETALl~SLEGkrg~PR~KPPfPa~~GL~G~P  211 (424)
T COG1894         132 GEYPEAIERLQKAIEEAYAAGLLGKNILGSGFDFDLYVHHGAGAYICGEETALLESLEGKRGQPRLKPPFPATSGLYGKP  211 (424)
T ss_pred             cchHHHHHHHHHHHHHHHHhCcccccccCCCcceEEEEecCCcceecchHHHHHHHhcCCCCCCCCCCCCccccCccCCC
Confidence            67788889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeecHHHHHHHHHHHHcCHHHHHhcCCCCCCCceEEEeeecccCceeEEecccCcHHHHHHhhcCCCCCCCcccceEEe
Q psy11033        161 TTVSNVETVAVAPEICRRGGAWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP  240 (251)
Q Consensus       161 TvV~NVeTla~V~~a~r~G~pw~~~~g~~~~~GtrLvTVsG~V~~Pgv~evpiGtpl~~LI~~~aGG~~~~~~~~~~vi~  240 (251)
                      |+||||||+++||.++++|..||+++|++.++|||+++|||+|++||+||+|+|+|+++||+++|||+.++| ++|+|++
T Consensus       212 T~INNVET~a~vP~Ii~~G~~wf~~~G~~~s~GTKlf~~sG~V~~pg~~E~pmG~tlrelie~~aGG~r~G~-~lKAv~p  290 (424)
T COG1894         212 TVINNVETLANVPAIIRRGADWFRSIGKPNSRGTKLFSLSGHVKNPGLYEVPMGTTLRELIEDYAGGVRGGW-KLKAVQP  290 (424)
T ss_pred             ceeecchhhhhhHHHHHhhHHHHHhcCCCCCCCceEEEeeccccCCceEEecCCCcHHHHHHHhcCCcCCCc-eeEEEee
Confidence            999999999999999999999999999999999999999999999999999999999999988999999996 8999999


Q ss_pred             CCCCCCCCCC
Q psy11033        241 GGSSTPLIPK  250 (251)
Q Consensus       241 GGpm~G~l~~  250 (251)
                      |||+++++|+
T Consensus       291 GG~s~~~l~~  300 (424)
T COG1894         291 GGPSGPCLPE  300 (424)
T ss_pred             CCCCcccCCH
Confidence            9999999985

>PLN03132 NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional	Back alignment and domain information

>PRK11278 NADH dehydrogenase I subunit F; Provisional	Back alignment and domain information

>PRK13596 NADH dehydrogenase I subunit F; Provisional	Back alignment and domain information

>PTZ00304 NADH dehydrogenase [ubiquinone] flavoprotein 1; Provisional	Back alignment and domain information

>KOG2658\|consensus	Back alignment and domain information

>TIGR01959 nuoF_fam NADH-quinone oxidoreductase, F subunit	Back alignment and domain information

>TIGR01945 rnfC electron transport complex, RnfABCDGE type, C subunit	Back alignment and domain information

>PRK05035 electron transport complex protein RnfC; Provisional	Back alignment and domain information

>COG4656 RnfC Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]	Back alignment and domain information

>PF01512 Complex1_51K: Respiratory-chain NADH dehydrogenase 51 Kd subunit; InterPro: IPR011538 NADH:ubiquinone oxidoreductase (complex I) (1	Back alignment and domain information

>PRK05352 Na(+)-translocating NADH-quinone reductase subunit A; Provisional	Back alignment and domain information

>TIGR01936 nqrA NADH:ubiquinone oxidoreductase, Na(+)-translocating, A subunit	Back alignment and domain information

>PLN03132 NADH dehydrogenase (ubiquinone) flavoprotein 1; Provisional	Back alignment and domain information

>PTZ00304 NADH dehydrogenase [ubiquinone] flavoprotein 1; Provisional	Back alignment and domain information

>PRK11278 NADH dehydrogenase I subunit F; Provisional	Back alignment and domain information

>PRK13596 NADH dehydrogenase I subunit F; Provisional	Back alignment and domain information

>PF10531 SLBB: SLBB domain; InterPro: IPR019554 The soluble ligand-binding beta-grasp domain (SLBB) contains a beta-grasp fold	Back alignment and domain information

>TIGR01959 nuoF_fam NADH-quinone oxidoreductase, F subunit	Back alignment and domain information

>PF01512 Complex1_51K: Respiratory-chain NADH dehydrogenase 51 Kd subunit; InterPro: IPR011538 NADH:ubiquinone oxidoreductase (complex I) (1	Back alignment and domain information

>TIGR01945 rnfC electron transport complex, RnfABCDGE type, C subunit	Back alignment and domain information

>PRK05035 electron transport complex protein RnfC; Provisional	Back alignment and domain information

>KOG2658\|consensus	Back alignment and domain information

>PF11973 NQRA_SLBB: NQRA C-terminal domain; InterPro: IPR022615 This domain is found in bacterial Na(+)-translocating NADH-quinone reductase subunit A (NQRA) proteins	Back alignment and domain information

>TIGR03027 pepcterm_export putative polysaccharide export protein, PEP-CTERM sytem-associated	Back alignment and domain information

>COG1894 NuoF NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]	Back alignment and domain information

>TIGR03028 EpsE polysaccharide export protein EpsE	Back alignment and domain information

>TIGR03028 EpsE polysaccharide export protein EpsE	Back alignment and domain information

>COG1596 Wza Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		251
2fug_1		438	Crystal Structure Of The Hydrophilic Domain Of Resp		1e-45

>pdb|2FUG|1 Chain 1, Crystal Structure Of The Hydrophilic Domain Of Respiratory Complex I From Thermus Thermophilus Length = 438

Back alignment and structure

Iteration: 1

Score = 179 bits (454), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 93/185 (50%), Positives = 120/185 (64%), Gaps = 3/185 (1%) Query: 65 VAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGA 124 +AG A+ A YIY+RGE+ A ++ AI EA G +GKN G+ + FD+ +HRGAGA Sbjct: 120 LAGYAIRATVGYIYVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHRGAGA 179 Query: 125 YICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFA 184 YICGEETAL+ S+EG + PRLKPPFPA G++G PTT++NVET+A I RG WFA Sbjct: 180 YICGEETALMNSLEGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWFA 239 Query: 185 SLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSS 244 +G ++ G KL+ ISG V P E M +ELI AG G + + AIIPGGSS Sbjct: 240 QMGTEQSKGMKLYQISGPVKRPGVYELPMGTTFRELIYEWAG---GPLEPIQAIIPGGSS 296 Query: 245 TPLIP 249 TP +P Sbjct: 297 TPPLP 301

PyMOL of 2fug

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		251
3i9v_1		438	NADH-quinone oxidoreductase subunit 1; electron tr	1e-118

>3i9v_1 NADH-quinone oxidoreductase subunit 1; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_1* 2fug_1* 3iam_1* 3ias_1* 3m9s_1* Length = 438	Back alignment and structure

 Score =  342 bits (880), Expect = e-118
 Identities = 98/250 (39%), Positives = 128/250 (51%), Gaps = 54/250 (21%)

Query: 1   MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
           +   PH L+EG ++AG A+ A   YIY+RGE+   A  ++ AI E               
Sbjct: 107 LEDVPHLLIEGMILAGYAIRATVGYIYVRGEYRRAADRLEQAIKE--------------- 151

Query: 61  WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
                                               A   G +GKN  G+ + FD+ +HR
Sbjct: 152 ------------------------------------ARARGYLGKNLFGTDFSFDLHVHR 175

Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
           GAGAYICGEETAL+ S+EG +  PRLKPPFPA  G++G PTT++NVET+A    I  RG 
Sbjct: 176 GAGAYICGEETALMNSLEGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGA 235

Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
            WFA +G  ++ G KL+ ISG V  P   E  M    +ELI   AG   G  + + AIIP
Sbjct: 236 DWFAQMGTEQSKGMKLYQISGPVKRPGVYELPMGTTFRELIYEWAG---GPLEPIQAIIP 292

Query: 241 GGSSTPLIPK 250
           GGSSTP +P 
Sbjct: 293 GGSSTPPLPF 302

PyMOL of 3i9v

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		251
3i9v_1		438	NADH-quinone oxidoreductase subunit 1; electron tr	100.0
3i9v_1		438	NADH-quinone oxidoreductase subunit 1; electron tr	98.62
2j58_A		359	WZA, outer membrane lipoprotein WZA; membrane prot	83.56

>3i9v_1 NADH-quinone oxidoreductase subunit 1; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_1* 2fug_1* 3iam_1* 3ias_1* 3m9s_1*	Back alignment and structure

Probab=100.00  E-value=1.7e-57  Score=434.35  Aligned_cols=199  Identities=47%  Similarity=0.797  Sum_probs=192.9

Q ss_pred             hhhhccCcHhHHhHhHH------HHHHHHhcCceEEEEeccCcHHHHHHHHHHHHHHHHcCccCcCCCCCCCcccEEEEE
Q psy11033         47 LKIWSIHPPWYITVWTH------GVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR  120 (251)
Q Consensus        47 ~~~~~~~d~~l~~~~~~------~i~a~a~gA~~~~I~i~~~~~~a~~~l~~ai~e~~~~g~~g~~~~g~~~~~~I~v~~  120 (251)
                      -||++.+|++||+.+||      .|+++++||+++|||||+||++++++|++|+++++++||||+|||||+|+++|+|+.
T Consensus        96 ~EPg~~~Dr~lm~~~p~~vieG~~i~~~a~ga~~~~I~ir~e~~~ai~~l~~Ai~~a~~~g~lg~~i~gs~~~~~i~v~~  175 (438)
T 3i9v_1           96 SEPGSFKDRYILEDVPHLLIEGMILAGYAIRATVGYIYVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHR  175 (438)
T ss_dssp             CSTTCCSHHHHHHHCHHHHHHHHHHHHHHHTCCEEEEEECTTCHHHHHHHHHHHHHHHHTTSSBTTGGGSSCCBEEEEEE
T ss_pred             CCccchhhHHHHHHCHHHHHHHHHHHHHHhCCCEEEEEEccCcHHHHHHHHHHHHHHHHcCCCcccccCCCCCceEEEEE
Confidence            58999999999999997      679999999999999999999999999999999999999999999999999999999


Q ss_pred             cCccccCChHHHHHHHHcCCCCCCCCCCCCCcccCCCCCCceeecHHHHHHHHHHHHcCHHHHHhcCCCCCCCceEEEee
Q psy11033        121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFASLGRPRNSGTKLFNIS  200 (251)
Q Consensus       121 ~~~~Yp~GeE~aLi~sl~G~~~~P~~kpp~P~~~G~~g~PTvV~NVeTla~V~~a~r~G~pw~~~~g~~~~~GtrLvTVs  200 (251)
                      ++++|||||||+||++++|+++.||.|||+|+++|+||+||+||||||+++|++++++|.+||+++|++.++|+|++|||
T Consensus       176 ~~g~Yp~GeEtaLi~sleGk~~~Pr~~Pp~Pa~~Gl~g~PtvV~NVeTla~v~~iv~~G~~~~~~~G~~~~~gtk~~tvs  255 (438)
T 3i9v_1          176 GAGAYICGEETALMNSLEGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWFAQMGTEQSKGMKLYQIS  255 (438)
T ss_dssp             CCSCGGGGSHHHHHHHHTTSCCCCCCCSSCTTTSCGGGSCEEEEEHHHHHTHHHHHHSCHHHHHTBBCSSSBSEEEEEEE
T ss_pred             cCCcCCCChHHHHHHHHhCCccCCCCCCCCchhcCCcCCceEEECHHHHHHHHHHHHhCcHHHHhcCCCCCCCcEEEEEe
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecccCceeEEecccCcHHHHHHhhcCCCCCCCcccceEEeCCCCCCCC
Q psy11033        201 GHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSSTPLI  248 (251)
Q Consensus       201 G~V~~Pgv~evpiGtpl~~LI~~~aGG~~~~~~~~~~vi~GGpm~G~l  248 (251)
                      |+|++|++|++|+|||+++||+++|||+..   ++++|++||||++++
T Consensus       256 G~V~~pg~~evp~Gt~l~eli~~~~GG~~~---~~~~vi~GG~sg~~~  300 (438)
T 3i9v_1          256 GPVKRPGVYELPMGTTFRELIYEWAGGPLE---PIQAIIPGGSSTPPL  300 (438)
T ss_dssp             SSBSSCEEEEEETTCBHHHHHHTTTCCBSS---CEEEEECSSSSSCCE
T ss_pred             CccCCCceEEEeCCCCHHHHHHHHcCCccc---cCCEEEECCCCCccc
Confidence            999999999999999999999548999874   589999999999887

PyMOL of 3i9v

>3i9v_1 NADH-quinone oxidoreductase subunit 1; electron transport, respiratory chain, cell flavoprotein, FMN, iron, iron-sulfur, membrane; HET: FMN; 3.10A {Thermus thermophilus} PDB: 2ybb_1* 2fug_1* 3iam_1* 3ias_1* 3m9s_1*	Back alignment and structure

>2j58_A WZA, outer membrane lipoprotein WZA; membrane protein; 2.26A {Escherichia coli} PDB: 2w8i_A 2w8h_A*	Back alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Alignment Graph	Length	Definition	E-value
Query		251
d2fug12		243	c.142.1.1 (1:7-249) NADH-quinone oxidoreductase ch	2e-50
d2fug13		84	d.15.13.1 (1:250-333) NADH-quinone oxidoreductase	7e-13

>d2fug12 c.142.1.1 (1:7-249) NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus thermophilus [TaxId: 274]} Length = 243	Back information, alignment and structure


class: Alpha and beta proteins (a/b)
fold: Nqo1 FMN-binding domain-like
superfamily: Nqo1 FMN-binding domain-like
family: Nqo1 FMN-binding domain-like
domain: NADH-quinone oxidoreductase chain 1, Nqo1
species: Thermus thermophilus [TaxId: 274]

 Score =  163 bits (413), Expect = 2e-50
 Identities = 70/190 (36%), Positives = 101/190 (53%), Gaps = 6/190 (3%)

Query: 10  EGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITVWTHGVA--- 66
              L      G      +      +   +  +  ++  +  S    + +    H +    
Sbjct: 53  RSGLRGRGGAGFPTGLKWSFMPKDDGKQHYLICNADESEPGSFKDRYILEDVPHLLIEGM 112

Query: 67  ---GRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAG 123
              G A+ A   YIY+RGE+   A  ++ AI EA   G +GKN  G+ + FD+ +HRGAG
Sbjct: 113 ILAGYAIRATVGYIYVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHRGAG 172

Query: 124 AYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWF 183
           AYICGEETAL+ S+EG +  PRLKPPFPA  G++G PTT++NVET+A    I  RG  WF
Sbjct: 173 AYICGEETALMNSLEGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWF 232

Query: 184 ASLGRPRNSG 193
           A +G  ++ G
Sbjct: 233 AQMGTEQSKG 242

PyMOL of d2fug12

>d2fug13 d.15.13.1 (1:250-333) NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus thermophilus [TaxId: 274]} Length = 84	Back information, alignment and structure

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		251
d2fug12		243	NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus	100.0
d2fug13		84	NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus	99.51
d2fug12		243	NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus	98.92

>d2fug12 c.142.1.1 (1:7-249) NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Nqo1 FMN-binding domain-like
superfamily: Nqo1 FMN-binding domain-like
family: Nqo1 FMN-binding domain-like
domain: NADH-quinone oxidoreductase chain 1, Nqo1
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.4e-45  Score=326.09  Aligned_cols=147  Identities=47%  Similarity=0.836  Sum_probs=144.3

Q ss_pred             hhhhccCcHhHHhHhHH------HHHHHHhcCceEEEEeccCcHHHHHHHHHHHHHHHHcCccCcCCCCCCCcccEEEEE
Q psy11033         47 LKIWSIHPPWYITVWTH------GVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR  120 (251)
Q Consensus        47 ~~~~~~~d~~l~~~~~~------~i~a~a~gA~~~~I~i~~~~~~a~~~l~~ai~e~~~~g~~g~~~~g~~~~~~I~v~~  120 (251)
                      -||.+.+|++||+..||      .|+|+++||+++||||+++|+++++.|++||++++++||+|++|+|++|+++|+|+.
T Consensus        90 ~EPg~~kDr~Ll~~~Ph~vieG~~iaa~avgA~~~~I~ir~e~~~ai~~l~~ai~~a~~~g~lg~~i~g~~~~~~i~v~~  169 (243)
T d2fug12          90 SEPGSFKDRYILEDVPHLLIEGMILAGYAIRATVGYIYVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHR  169 (243)
T ss_dssp             CSTTCCSHHHHHHHCHHHHHHHHHHHHHHTTCSEEEEEECTTCHHHHHHHHHHHHHHHHTTSSBSSTTSTTCCBEEEEEE
T ss_pred             CCccccCCHHHHHHhHHHHHHHHHHHHHHhCcceEEEEeccccHHHHHHHHHHHHHHHHcCCCCccccCCCCCeeEEEEE
Confidence            58999999999999998      678999999999999999999999999999999999999999999999999999999


Q ss_pred             cCccccCChHHHHHHHHcCCCCCCCCCCCCCcccCCCCCCceeecHHHHHHHHHHHHcCHHHHHhcCCCCCCC
Q psy11033        121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFASLGRPRNSG  193 (251)
Q Consensus       121 ~~~~Yp~GeE~aLi~sl~G~~~~P~~kpp~P~~~G~~g~PTvV~NVeTla~V~~a~r~G~pw~~~~g~~~~~G  193 (251)
                      ++++|||||||+||+|+||+++.||.|||+|+++|+||+||+||||||+++|+.++++|..||+++|++.++|
T Consensus       170 ~~g~Yi~GEEtaLi~sleG~~~~pr~~pP~p~~~Gl~g~PTvV~NVeTla~v~~ii~~G~~~f~~~G~~~~~G  242 (243)
T d2fug12         170 GAGAYICGEETALMNSLEGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWFAQMGTEQSKG  242 (243)
T ss_dssp             CCSCGGGGSHHHHHHHHTTSCCCCCCSSSCTTTSBGGGBCEEEEEHHHHHHHHHHHHSCHHHHHSSBCSSCBS
T ss_pred             CCCccccchhHHHHHHhcCCccCCCCCCCCccccCcCCCCCeeeHHHHHHHHHHHHHHhHHHHHhcCCCCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999887

PyMOL of d2fug12

>d2fug13 d.15.13.1 (1:250-333) NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure

>d2fug12 c.142.1.1 (1:7-249) NADH-quinone oxidoreductase chain 1, Nqo1 {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure