Citrus Sinensis ID: 029180

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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-------
Protein Sequence
MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYSSPAKYC
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccccccEEEEEEccccEEEEEEEEccccccEEEEEEccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHccccccccEEEEEEEEcccccEEEEEEEEcccccEEEEEEEEEccccccc
Coil and Loop (DISEMBL)
maeekestsiplsqaenggedpedpvkspptssasstrQACCYVLQSWISkkfmtgcvVLFPVAVTFFITWWFVQFVdgffsplyehlgfdifglGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISaaispdqnttafKEVAiirhprvgeyaFGFITSTVTLQVLVVYVVYSSPAKYC
Flexible Loop (DISEMBL)
maeekestsiplsqaenggedpedpvkspptssasstrQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISaaispdqntTAFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYSSPAKYC
Low Complexity Region (SEG)
MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITslvfvflvgvfvsswlGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFItstvtlqvlvvyvvyssPAKYC
Disordered region (IsUnstruct)
***************************************ACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYS******
Disordered Region (DISOPRED)
***********************************************WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAIS******AFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYS******
Disordered Region (DISEMBL)
**************************************QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYSSPAKYC
Disordered Region (DISPRO)
**************************************QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYSSP***C
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVTLQVLVVYVVYSSPAKYC
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

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	197
449448444	257	PREDICTED: uncharacterized protein LOC10	0.923	0.708	0.895	1e-89
356516319	258	PREDICTED: uncharacterized protein LOC10	0.923	0.705	0.846	3e-88
357464469	258	hypothetical protein MTR_3g095210 [Medic	0.923	0.705	0.852	9e-88
388496372	258	unknown [Lotus japonicus]	0.923	0.705	0.842	2e-86
217072534	258	unknown [Medicago truncatula]	0.923	0.705	0.846	2e-86
388509196	215	unknown [Lotus japonicus]	0.923	0.846	0.842	1e-85
358249218	258	uncharacterized protein LOC100792693 [Gl	0.923	0.705	0.857	5e-85
212722772	258	COV1-like protein isoform 1 [Zea mays] g	0.918	0.701	0.820	1e-84
242059357	258	hypothetical protein SORBIDRAFT_03g04101	0.918	0.701	0.831	1e-84
115441275	259	Os01g0867900 [Oryza sativa Japonica Grou	0.918	0.698	0.820	3e-84

>gi|449448444|ref|XP_004141976.1| PREDICTED: uncharacterized protein LOC101210357 [Cucumis sativus] gi|449497697|ref|XP_004160483.1| PREDICTED: uncharacterized LOC101210357 [Cucumis sativus]

 Score =  333 bits (855), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 163/182 (89%), Positives = 176/182 (96%)

Query: 1   MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVVL 60
           MAEEKESTS+PLSQ +NGG+DPEDPVKSPP+S  SSTR+ACCYVLQSW+SKKFMTGCVVL
Sbjct: 1   MAEEKESTSVPLSQVDNGGQDPEDPVKSPPSSPNSSTRKACCYVLQSWVSKKFMTGCVVL 60

Query: 61  FPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVF 120
           FPVAVTFF+TWWF+QFVDGFFSPLYE LG DIFGLGFITSL+FVF VG+FVSSWLGST+F
Sbjct: 61  FPVAVTFFVTWWFIQFVDGFFSPLYERLGVDIFGLGFITSLLFVFFVGIFVSSWLGSTLF 120

Query: 121 WVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVT 180
           W+GEWFI+RMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVT
Sbjct: 121 WLGEWFIQRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVT 180

Query: 181 LQ 182
           LQ
Sbjct: 181 LQ 182

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356516319|ref|XP_003526843.1| PREDICTED: uncharacterized protein LOC100801920 [Glycine max]

 Score =  330 bits (845), Expect = 3e-88,   Method: Compositional matrix adjust.
 Identities = 155/183 (84%), Positives = 170/183 (92%), Gaps = 1/183 (0%)

Query: 1   MAEEKESTSIPLSQAENGG-EDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVV 59
           MAEEKESTSIPLSQ +N   +DPEDP KSP +S  SSTR+ACC+VLQSW+SKKFMTGCVV
Sbjct: 1   MAEEKESTSIPLSQGDNASRDDPEDPAKSPLSSPNSSTRRACCFVLQSWVSKKFMTGCVV 60

Query: 60  LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119
           LFPVAVTFFITWWF+QFVDGFFSP+Y  LG D+FGLGF+TSL FVFL+GVFVSSW+G+TV
Sbjct: 61  LFPVAVTFFITWWFIQFVDGFFSPIYSRLGIDVFGLGFVTSLAFVFLIGVFVSSWMGATV 120

Query: 120 FWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 179
           FW+GEWFIKRMP VRH+YSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV
Sbjct: 121 FWIGEWFIKRMPLVRHIYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 180

Query: 180 TLQ 182
           TLQ
Sbjct: 181 TLQ 183

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357464469|ref|XP_003602516.1| hypothetical protein MTR_3g095210 [Medicago truncatula] gi|355491564|gb|AES72767.1| hypothetical protein MTR_3g095210 [Medicago truncatula] gi|388521451|gb|AFK48787.1| unknown [Medicago truncatula]

 Score =  328 bits (840), Expect = 9e-88,   Method: Compositional matrix adjust.
 Identities = 156/183 (85%), Positives = 170/183 (92%), Gaps = 1/183 (0%)

Query: 1   MAEEKESTSIPLSQAEN-GGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVV 59
           MAEEKESTSIPLSQA+N   EDPEDP K+PPTS  SSTR+ACC+VLQSW+SKKFMTGCVV
Sbjct: 1   MAEEKESTSIPLSQADNVSCEDPEDPAKTPPTSPNSSTRRACCFVLQSWVSKKFMTGCVV 60

Query: 60  LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119
           LFPVAVTFFITWWF+QFVDGFFSPLY   G +IFGLGFITSL FVF++GVFVSSW+G+TV
Sbjct: 61  LFPVAVTFFITWWFIQFVDGFFSPLYSSFGVEIFGLGFITSLAFVFVIGVFVSSWMGATV 120

Query: 120 FWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 179
           FW+GEW IK+MP VRH+YSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV
Sbjct: 121 FWIGEWLIKQMPLVRHIYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 180

Query: 180 TLQ 182
           TLQ
Sbjct: 181 TLQ 183

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388496372|gb|AFK36252.1| unknown [Lotus japonicus]

 Score =  323 bits (829), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 155/184 (84%), Positives = 166/184 (90%), Gaps = 2/184 (1%)

Query: 1   MAEEKESTSIPLSQAENGG--EDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCV 58
           M EEKESTSIPLSQAE+    +DPEDP KSPP S  SSTR+ACC+VLQSW SKKFMTGCV
Sbjct: 1   MPEEKESTSIPLSQAEDNASCDDPEDPAKSPPNSPNSSTRRACCFVLQSWFSKKFMTGCV 60

Query: 59  VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118
           VLFPVAVTFFITWWF+QFVDGFFSP+Y  LG DIFGLGFITSL FVFL+GVFVSSW+G T
Sbjct: 61  VLFPVAVTFFITWWFIQFVDGFFSPIYSRLGIDIFGLGFITSLSFVFLIGVFVSSWIGGT 120

Query: 119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITST 178
           VFW+GEWFIK+MP VRH+YSASKQISAAISPDQNTT FKEVAIIRHPRVGEYAFGFITST
Sbjct: 121 VFWIGEWFIKQMPLVRHIYSASKQISAAISPDQNTTVFKEVAIIRHPRVGEYAFGFITST 180

Query: 179 VTLQ 182
           V LQ
Sbjct: 181 VILQ 184

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217072534|gb|ACJ84627.1| unknown [Medicago truncatula]

 Score =  323 bits (828), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 155/183 (84%), Positives = 169/183 (92%), Gaps = 1/183 (0%)

Query: 1   MAEEKESTSIPLSQAEN-GGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVV 59
           MAEEKESTSIPLSQA+N   EDPEDP K+PPTS  SSTR+AC +VLQSW+SKKFMTGCVV
Sbjct: 1   MAEEKESTSIPLSQADNVSCEDPEDPAKTPPTSPNSSTRRACRFVLQSWVSKKFMTGCVV 60

Query: 60  LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119
           LFPVAVTFFITWWF+QFVDGFFSPLY   G +IFGLGFITSL FVF++GVFVSSW+G+TV
Sbjct: 61  LFPVAVTFFITWWFIQFVDGFFSPLYSSFGVEIFGLGFITSLAFVFVIGVFVSSWMGATV 120

Query: 120 FWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 179
           FW+GEW IK+MP VRH+YSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV
Sbjct: 121 FWIGEWLIKQMPLVRHIYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 180

Query: 180 TLQ 182
           TLQ
Sbjct: 181 TLQ 183

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388509196|gb|AFK42664.1| unknown [Lotus japonicus]

 Score =  321 bits (823), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 155/184 (84%), Positives = 166/184 (90%), Gaps = 2/184 (1%)

Query: 1   MAEEKESTSIPLSQAENGG--EDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCV 58
           M EEKESTSIPLSQAE+    +DPEDP KSPP S  SSTR+ACC+VLQSW SKKFMTGCV
Sbjct: 1   MPEEKESTSIPLSQAEDNASCDDPEDPAKSPPNSPNSSTRRACCFVLQSWFSKKFMTGCV 60

Query: 59  VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118
           VLFPVAVTFFITWWF+QFVDGFFSP+Y  LG DIFGLGFITSL FVFL+GVFVSSW+G T
Sbjct: 61  VLFPVAVTFFITWWFIQFVDGFFSPIYSRLGIDIFGLGFITSLAFVFLIGVFVSSWIGGT 120

Query: 119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITST 178
           VFW+GEWFIK+MP VRH+YSASKQISAAISPDQNTTAFK VAIIRHPRVGEYAFGFITST
Sbjct: 121 VFWIGEWFIKQMPLVRHIYSASKQISAAISPDQNTTAFKGVAIIRHPRVGEYAFGFITST 180

Query: 179 VTLQ 182
           V LQ
Sbjct: 181 VILQ 184

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358249218|ref|NP_001240268.1| uncharacterized protein LOC100792693 [Glycine max] gi|255640177|gb|ACU20379.1| unknown [Glycine max]

 Score =  319 bits (817), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 157/183 (85%), Positives = 170/183 (92%), Gaps = 1/183 (0%)

Query: 1   MAEEKESTSIPLSQAENGG-EDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVV 59
           MAEEKESTSIPLSQ EN   +DPEDP KSPP+S  SSTR+ACC+VLQSW+SKKFMTGCVV
Sbjct: 1   MAEEKESTSIPLSQGENASRDDPEDPAKSPPSSPNSSTRKACCFVLQSWVSKKFMTGCVV 60

Query: 60  LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTV 119
           LFPVAVTFFITWWF+QFVDGFFSP+Y  LG D+FGLGFITSL FVFL+GVFVSSW+G+TV
Sbjct: 61  LFPVAVTFFITWWFIQFVDGFFSPIYSRLGIDVFGLGFITSLAFVFLIGVFVSSWMGATV 120

Query: 120 FWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 179
           FW+GEWFIKRMP VRH+YSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV
Sbjct: 121 FWIGEWFIKRMPLVRHIYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTV 180

Query: 180 TLQ 182
            LQ
Sbjct: 181 ILQ 183

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|212722772|ref|NP_001131970.1| COV1-like protein isoform 1 [Zea mays] gi|194693066|gb|ACF80617.1| unknown [Zea mays] gi|194693894|gb|ACF81031.1| unknown [Zea mays] gi|195647116|gb|ACG43026.1| COV1-like protein [Zea mays] gi|414879522|tpg|DAA56653.1| TPA: COV1-like protein isoform 1 [Zea mays] gi|414879523|tpg|DAA56654.1| TPA: COV1-like protein isoform 2 [Zea mays] gi|414879524|tpg|DAA56655.1| TPA: COV1-like protein isoform 3 [Zea mays]

 Score =  318 bits (814), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 151/184 (82%), Positives = 168/184 (91%), Gaps = 3/184 (1%)

Query: 1   MAEEKESTSIPLSQAENGGEDPEDPVKSPP--TSSASSTRQACCYVLQSWISKKFMTGCV 58
           MAEEKESTSIPLSQA     DPEDP KSPP  +S  +STR+ACC VLQSW+S+KFMTGCV
Sbjct: 1   MAEEKESTSIPLSQAAEA-VDPEDPAKSPPRPSSPTTSTRKACCAVLQSWVSRKFMTGCV 59

Query: 59  VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118
           VLFPVAVTFFITWWF+QFVDGFFSPLY  +G DIFGLGF+TS+VF+FLVG+FVSSW+GST
Sbjct: 60  VLFPVAVTFFITWWFIQFVDGFFSPLYAKIGIDIFGLGFLTSMVFIFLVGIFVSSWVGST 119

Query: 119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITST 178
           +FWVGEWFIK+MPFVRH+YSASKQ+S AISPDQNTTAFKEVAIIRHPR+GEYAFGFITST
Sbjct: 120 IFWVGEWFIKKMPFVRHIYSASKQVSTAISPDQNTTAFKEVAIIRHPRIGEYAFGFITST 179

Query: 179 VTLQ 182
           V LQ
Sbjct: 180 VVLQ 183

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242059357|ref|XP_002458824.1| hypothetical protein SORBIDRAFT_03g041010 [Sorghum bicolor] gi|241930799|gb|EES03944.1| hypothetical protein SORBIDRAFT_03g041010 [Sorghum bicolor]

 Score =  317 bits (813), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 153/184 (83%), Positives = 167/184 (90%), Gaps = 3/184 (1%)

Query: 1   MAEEKESTSIPLSQAENGGEDPEDPVKSPP--TSSASSTRQACCYVLQSWISKKFMTGCV 58
           MAEEKESTSIPLSQA     DPEDP KSPP  +S  +STR+ACC VLQSW+S+KFMTGCV
Sbjct: 1   MAEEKESTSIPLSQAAEA-VDPEDPAKSPPRPSSPTTSTRKACCAVLQSWVSRKFMTGCV 59

Query: 59  VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118
           VLFPVAVTFFITWWF+QFVDGFFSPLY   G DIFGLGF+TSLVF+FLVG+FVSSW+GST
Sbjct: 60  VLFPVAVTFFITWWFIQFVDGFFSPLYAKFGVDIFGLGFLTSLVFIFLVGLFVSSWVGST 119

Query: 119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITST 178
           +FWVGEWFIK+MPFVRHLYSASKQ+S AISPDQNTTAFKEVAIIRHPR+GEYAFGFITST
Sbjct: 120 IFWVGEWFIKKMPFVRHLYSASKQVSTAISPDQNTTAFKEVAIIRHPRIGEYAFGFITST 179

Query: 179 VTLQ 182
           V LQ
Sbjct: 180 VVLQ 183

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115441275|ref|NP_001044917.1| Os01g0867900 [Oryza sativa Japonica Group] gi|20160853|dbj|BAB89792.1| membrane protein COV-like [Oryza sativa Japonica Group] gi|113534448|dbj|BAF06831.1| Os01g0867900 [Oryza sativa Japonica Group] gi|125528506|gb|EAY76620.1| hypothetical protein OsI_04571 [Oryza sativa Indica Group] gi|125572770|gb|EAZ14285.1| hypothetical protein OsJ_04209 [Oryza sativa Japonica Group] gi|215692460|dbj|BAG87880.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  316 bits (810), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 151/184 (82%), Positives = 168/184 (91%), Gaps = 3/184 (1%)

Query: 1   MAEEKESTSIPLSQAENGGEDPEDPVKSPP--TSSASSTRQACCYVLQSWISKKFMTGCV 58
           MAE++ESTSIPLSQA     DPEDP KSPP  +S  +STR+ACC VLQSW+S+KFMTGCV
Sbjct: 1   MAEKEESTSIPLSQAAEA-VDPEDPAKSPPRPSSPTTSTRKACCAVLQSWVSRKFMTGCV 59

Query: 59  VLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGST 118
           VLFPVAVTFFITWWF+QFVDGFFSPLY  LG DIFGLGF+TSLVF+FLVG+FVSSW+GST
Sbjct: 60  VLFPVAVTFFITWWFIQFVDGFFSPLYAKLGIDIFGLGFLTSLVFIFLVGIFVSSWVGST 119

Query: 119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITST 178
           +FWVGEWFIK+MPFVRH+YSASKQ+S AISPDQNTTAFKEVAIIRHPR+GEYAFGFITST
Sbjct: 120 IFWVGEWFIKKMPFVRHIYSASKQVSTAISPDQNTTAFKEVAIIRHPRIGEYAFGFITST 179

Query: 179 VTLQ 182
           V LQ
Sbjct: 180 VVLQ 183

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	197
TAIR|locus:2018640	261	LCV2 "AT1G43130" [Arabidopsis	0.888	0.670	0.714	4.7e-64
TAIR|locus:2061668	268	COV1 "AT2G20120" [Arabidopsis	0.888	0.652	0.544	4.6e-50
TAIR|locus:2061654	256	LCV1 "AT2G20130" [Arabidopsis	0.888	0.683	0.558	1.2e-49
UNIPROTKB|Q5LRR3	224	SPO2062 "Uncharacterized prote	0.619	0.544	0.323	2.1e-13
TIGR_CMR|SPO_2062	224	SPO_2062 "conserved hypothetic	0.619	0.544	0.323	2.1e-13
UNIPROTKB|Q3AEZ4	211	CHY_0429 "Putative uncharacter	0.598	0.559	0.335	1.5e-12
TIGR_CMR|CHY_0429	211	CHY_0429 "conserved hypothetic	0.598	0.559	0.335	1.5e-12
UNIPROTKB|Q0C0Q5	237	HNE_1988 "Putative uncharacter	0.649	0.540	0.271	2.2e-10
UNIPROTKB|Q3Z7T7	214	DET0989 "Putative uncharacteri	0.629	0.579	0.230	3.6e-09
TIGR_CMR|DET_0989	214	DET_0989 "conserved hypothetic	0.629	0.579	0.230	3.6e-09

TAIR|locus:2018640 LCV2 "AT1G43130" [Arabidopsis thaliana (taxid:3702)]

 Score = 653 (234.9 bits), Expect = 4.7e-64, P = 4.7e-64
 Identities = 125/175 (71%), Positives = 139/175 (79%)

Query:     1 MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQACCYVLQSWISKKFMTGCVVL 60
             MAE KE+T+  LSQ     +DP+D  KSPP S  SSTR+AC  VLQSW+SKKFMTG VVL
Sbjct:     1 MAEGKEATTSSLSQGLTPHQDPDDAPKSPPNSPNSSTRKACYGVLQSWVSKKFMTGFVVL 60

Query:    61 FPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITXXXXXXXXXXXXXXXXGSTVF 120
             FPVAVTF ITWWF+QFVDGFFSP+YE+LG DIFGLGFIT                GSTVF
Sbjct:    61 FPVAVTFLITWWFIQFVDGFFSPIYENLGVDIFGLGFITSVLFTFFVGIFASSWLGSTVF 120

Query:   121 WVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFI 175
             W+GE FI+RMPFV+H+YSASKQIS AISPDQNTTAFKEVAIIRHPR+GEYAFGFI
Sbjct:   121 WLGEQFIRRMPFVKHIYSASKQISTAISPDQNTTAFKEVAIIRHPRIGEYAFGFI 175

GO:0003674 "molecular_function" evidence=ND

GO:0010222 "stem vascular tissue pattern formation" evidence=ISS

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0005802 "trans-Golgi network" evidence=IDA

TAIR|locus:2061668 COV1 "AT2G20120" [Arabidopsis thaliana (taxid:3702)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 98/180 (54%), Positives = 123/180 (68%)

Query:     1 MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASST-----RQACCYVLQSWISKKFMT 55
             MA  +    + +  A++G +D     K   +SSASS+      +     ++ W SKKFMT
Sbjct:    10 MANRERDRELLIPVADSGDKDDGSSSKPSSSSSASSSSHQSSHETLSLFIRGWASKKFMT 69

Query:    56 GCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITXXXXXXXXXXXXXXXX 115
             GCV+L P+A+TF+ITWWF+ FVDGFFSP+Y  LG ++FG GF+T                
Sbjct:    70 GCVILLPIAITFYITWWFIHFVDGFFSPIYAQLGINVFGFGFLTSIAFIFLVGVFMSSWL 129

Query:   116 GSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFI 175
             G++V  +GEWFIKRMPFVRH+Y+ASKQIS AISPDQNT AFKEVAIIRHPRVGEYAFGFI
Sbjct:   130 GASVLNLGEWFIKRMPFVRHIYNASKQISTAISPDQNTQAFKEVAIIRHPRVGEYAFGFI 189

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0009734 "auxin mediated signaling pathway" evidence=IGI

GO:0010222 "stem vascular tissue pattern formation" evidence=IMP

GO:0016021 "integral to membrane" evidence=ISS

GO:0005794 "Golgi apparatus" evidence=IDA

TAIR|locus:2061654 LCV1 "AT2G20130" [Arabidopsis thaliana (taxid:3702)]

 Score = 517 (187.1 bits), Expect = 1.2e-49, P = 1.2e-49
 Identities = 100/179 (55%), Positives = 122/179 (68%)

Query:     1 MAEEKESTSIPLSQAENGGEDPEDPVKSPPTSSASSTRQA----CCYVLQSWISKKFMTG 56
             MA  +    + +  A+ G +D     K   +SSASS+ Q+        ++ W SKKFMTG
Sbjct:     1 MANRERDRELLIPVADFGDKDDGSSSKPSSSSSASSSHQSGHETLSLFIRGWASKKFMTG 60

Query:    57 CVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITXXXXXXXXXXXXXXXXG 116
             CV+L P+AVTF+ TWWF+ FVDGFFSP+Y  LG +IFG GF+T                G
Sbjct:    61 CVILLPIAVTFYTTWWFIHFVDGFFSPIYALLGINIFGFGFLTSIAFIFLVGVFMSSWLG 120

Query:   117 STVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFI 175
             ++V  +GEWFIKRMPFVRH+Y+ASKQIS AISPDQNT AFKEVAIIRHPRVGEYAFGFI
Sbjct:   121 ASVLNLGEWFIKRMPFVRHIYNASKQISTAISPDQNTQAFKEVAIIRHPRVGEYAFGFI 179

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0005794 "Golgi apparatus" evidence=IDA

UNIPROTKB|Q5LRR3 SPO2062 "Uncharacterized protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 42/130 (32%), Positives = 65/130 (50%)

Query:    53 FMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEH-------LGFDIFGLGFITXXXXXX 105
             F+TG VV+ PV +T ++ W  V +VD F  PL  H       +G ++ G+G I       
Sbjct:    24 FLTGIVVIAPVGLTIWLFWSVVGWVDSFVLPLVPHQFRPEQYIGINLRGVGVIFLLVFTI 83

Query:   106 XXXXXXXXXXGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHP 165
                       G ++    E  + RMP VR +YS  KQIS  +   Q   +F++  +I++P
Sbjct:    84 VVGWIAKGIIGRSLIQYAEGVVDRMPVVRSVYSGIKQISETVFA-QTERSFEQACLIQYP 142

Query:   166 RVGEYAFGFI 175
             R G +A GF+
Sbjct:   143 RRGIWAIGFV 152

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|SPO_2062 SPO_2062 "conserved hypothetical protein" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 42/130 (32%), Positives = 65/130 (50%)

Query:    53 FMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEH-------LGFDIFGLGFITXXXXXX 105
             F+TG VV+ PV +T ++ W  V +VD F  PL  H       +G ++ G+G I       
Sbjct:    24 FLTGIVVIAPVGLTIWLFWSVVGWVDSFVLPLVPHQFRPEQYIGINLRGVGVIFLLVFTI 83

Query:   106 XXXXXXXXXXGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHP 165
                       G ++    E  + RMP VR +YS  KQIS  +   Q   +F++  +I++P
Sbjct:    84 VVGWIAKGIIGRSLIQYAEGVVDRMPVVRSVYSGIKQISETVFA-QTERSFEQACLIQYP 142

Query:   166 RVGEYAFGFI 175
             R G +A GF+
Sbjct:   143 RRGIWAIGFV 152

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q3AEZ4 CHY_0429 "Putative uncharacterized protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 43/128 (33%), Positives = 62/128 (48%)

Query:    53 FMTGCVVLFPVAVTFFITWWFVQFVD----GFFSPLYEHLGFDIFGLGFITXXXXXXXXX 108
             F+TG  V+ P A+T +I +    F D    GFF+ ++   G DI GLG +T         
Sbjct:    18 FLTGLAVITPAAITIYILFALFSFFDRPLRGFFAQIF---GIDIPGLGVLTVALLVPIVG 74

Query:   109 XXXXXXXGSTVFWVGEWFIKRMPFVRHLYSASKQ-ISAAISPDQNTTAFKEVAIIRHPRV 167
                    G  +    E    ++P  R LY  SKQ I   + P+++  AFK V + R+P+ 
Sbjct:    75 MLATNFIGRKILKKFEQLFIKIPVTRSLYKTSKQLIETFLHPERD--AFKSVVLARYPKD 132

Query:   168 GEYAFGFI 175
             G YA GFI
Sbjct:   133 GSYALGFI 140

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|CHY_0429 CHY_0429 "conserved hypothetical protein" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 167 (63.8 bits), Expect = 1.5e-12, P = 1.5e-12
 Identities = 43/128 (33%), Positives = 62/128 (48%)

Query:    53 FMTGCVVLFPVAVTFFITWWFVQFVD----GFFSPLYEHLGFDIFGLGFITXXXXXXXXX 108
             F+TG  V+ P A+T +I +    F D    GFF+ ++   G DI GLG +T         
Sbjct:    18 FLTGLAVITPAAITIYILFALFSFFDRPLRGFFAQIF---GIDIPGLGVLTVALLVPIVG 74

Query:   109 XXXXXXXGSTVFWVGEWFIKRMPFVRHLYSASKQ-ISAAISPDQNTTAFKEVAIIRHPRV 167
                    G  +    E    ++P  R LY  SKQ I   + P+++  AFK V + R+P+ 
Sbjct:    75 MLATNFIGRKILKKFEQLFIKIPVTRSLYKTSKQLIETFLHPERD--AFKSVVLARYPKD 132

Query:   168 GEYAFGFI 175
             G YA GFI
Sbjct:   133 GSYALGFI 140

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q0C0Q5 HNE_1988 "Putative uncharacterized protein" [Hyphomonas neptunium ATCC 15444 (taxid:228405)]

 Score = 147 (56.8 bits), Expect = 2.2e-10, P = 2.2e-10
 Identities = 38/140 (27%), Positives = 62/140 (44%)

Query:    45 LQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYE-------HLGFDIFGLGF 97
             L +W+  +F+ G ++  P+  TF I  + +  +D    PL         +L + + G G 
Sbjct:    22 LLAWLRARFVAGMLIALPIVATFVILEFLINLIDSRVVPLLPPSLRPETYLDYAVPGFGL 81

Query:    98 ITXXXXXXXXXXXXXXXXGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTA-- 155
             I                 G     + +  + R+P VR +YS  KQI       QN TA  
Sbjct:    82 IILILFLTLVGAVATNFLGKFFVDLTDRVLTRVPVVRSVYSVFKQIRDVF---QNNTAGQ 138

Query:   156 FKEVAIIRHPRVGEYAFGFI 175
             +KEVA++ +PR G +  GF+
Sbjct:   139 YKEVAMVEYPREGSWVIGFV 158

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|Q3Z7T7 DET0989 "Putative uncharacterized protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 30/130 (23%), Positives = 56/130 (43%)

Query:    49 ISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIF--GLGFITXXXXXXX 106
             +  +F+TG   + P+     +  W    +DG   P+ E   F+ +  GLG +        
Sbjct:    12 LRNRFLTGLAFVLPIGAALGLLIWVFNIIDGLLKPVIEFF-FNWYFPGLGLLVTLVLIYL 70

Query:   107 XXXXXXXXXGSTVF-WVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHP 165
                      G  +  WV +  +K +P    +Y+++KQ+   +    N  +FKE  ++  P
Sbjct:    71 VGLILSNYFGKQILGWVDKILVK-VPIFNQVYNSAKQVIETLGVS-NKVSFKEAVMVEFP 128

Query:   166 RVGEYAFGFI 175
             R G ++  FI
Sbjct:   129 RTGMHSLAFI 138

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TIGR_CMR|DET_0989 DET_0989 "conserved hypothetical protein" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 30/130 (23%), Positives = 56/130 (43%)

Query:    49 ISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIF--GLGFITXXXXXXX 106
             +  +F+TG   + P+     +  W    +DG   P+ E   F+ +  GLG +        
Sbjct:    12 LRNRFLTGLAFVLPIGAALGLLIWVFNIIDGLLKPVIEFF-FNWYFPGLGLLVTLVLIYL 70

Query:   107 XXXXXXXXXGSTVF-WVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHP 165
                      G  +  WV +  +K +P    +Y+++KQ+   +    N  +FKE  ++  P
Sbjct:    71 VGLILSNYFGKQILGWVDKILVK-VPIFNQVYNSAKQVIETLGVS-NKVSFKEAVMVEFP 128

Query:   166 RVGEYAFGFI 175
             R G ++  FI
Sbjct:   129 RTGMHSLAFI 138

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	197
pfam04367	108	pfam04367, DUF502, Protein of unknown function (DU	2e-23
COG2928	222	COG2928, COG2928, Uncharacterized conserved protei	4e-23

>gnl|CDD|218047 pfam04367, DUF502, Protein of unknown function (DUF502)

 Score = 89.5 bits (223), Expect = 2e-23
 Identities = 27/87 (31%), Positives = 53/87 (60%), Gaps = 1/87 (1%)

Query: 97  FITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAF 156
            I +L+ +FLVG+   +++G  +  +GE  + R+P VR +YS+ KQ+   +  D+   +F
Sbjct: 1   LILTLLLIFLVGLLARNFIGRWLLSLGERLLNRIPLVRSIYSSVKQLVETLLGDKK-KSF 59

Query: 157 KEVAIIRHPRVGEYAFGFITSTVTLQV 183
           ++V ++ +PR G +A GF+T     ++
Sbjct: 60  RKVVLVEYPRPGLWAIGFVTGEDGGEL 86

Predicted to be an integral membrane protein. Length = 108

>gnl|CDD|225480 COG2928, COG2928, Uncharacterized conserved protein [Function unknown]

 Score = 91.6 bits (228), Expect = 4e-23
 Identities = 42/134 (31%), Positives = 78/134 (58%), Gaps = 8/134 (5%)

Query: 51  KKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPL-------YEHLGFDIFGLGFITSLVF 103
           K F+TG +VL P+A+T ++  W    +D F  PL         +  F+I GLG I +++ 
Sbjct: 8   KYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGPLLPDRLRPAVYFPFNIPGLGVILAIIL 67

Query: 104 VFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIR 163
           +FL+G    + +G ++  +G+  ++R+P V+ +Y ++KQ+   +  DQ + +FK+V ++ 
Sbjct: 68  IFLLGFLARNMIGRSLLSLGDSLLRRIPLVKSIYKSAKQVVETLLSDQ-SGSFKQVVLVE 126

Query: 164 HPRVGEYAFGFITS 177
            PR G +A  F+T 
Sbjct: 127 FPRRGIWAIAFVTG 140

Length = 222

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	197
COG2928	222	Uncharacterized conserved protein [Function unknow	100.0
PF04367	108	DUF502: Protein of unknown function (DUF502); Inte	99.96
PRK15350	88	type III secretion system protein SsaS; Provisiona	91.5
PRK05700	89	fliQ flagellar biosynthesis protein FliQ; Validate	90.96
TIGR01402	88	fliQ flagellar biosynthetic protein FliQ. This mod	90.93
TIGR02120	399	GspF general secretion pathway protein F. This mem	90.57
PRK06010	88	fliQ flagellar biosynthesis protein FliQ; Reviewed	89.65
TIGR01403	81	fliQ_rel_III type III secretion protein, HrpO fami	88.92
PRK12781	88	fliQ flagellar biosynthesis protein FliQ; Reviewed	87.83
PRK10573	399	type IV pilin biogenesis protein; Provisional	87.32
PF01311	249	Bac_export_1: Bacterial export proteins, family 1;	86.44
PRK12772	609	bifunctional flagellar biosynthesis protein FliR/F	85.38
PF11947	153	DUF3464: Protein of unknown function (DUF3464); In	85.38
PRK15333	86	type III secretion system protein SpaQ; Provisiona	84.22
PRK09824	627	PTS system beta-glucoside-specific transporter sub	83.35
COG1459	397	PulF Type II secretory pathway, component PulF [Ce	83.26
COG1684	258	FliR Flagellar biosynthesis pathway, component Fli	83.14
COG1987	89	FliQ Flagellar biosynthesis pathway, component Fli	81.64

>COG2928 Uncharacterized conserved protein [Function unknown]

Probab=100.00  E-value=4.6e-40  Score=278.82  Aligned_cols=147  Identities=31%  Similarity=0.684  Sum_probs=133.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhh-------ccccchhhhHHHHHHHHHHHHHHHHHhhhhhH
Q 029180           46 QSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYE-------HLGFDIFGLGFITSLVFVFLVGVFVSSWLGST  118 (197)
Q Consensus        46 ~~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~-------~~g~~~pglgll~~l~li~~iG~la~~~~g~~  118 (197)
                      ++++|++|++||++++|+++|+|+++|+++++|+++.|.+.       +++.+++++|+++.+++++++|+++++.+||+
T Consensus         3 ~~~lk~~fltGLlvllPlaiT~~vv~~i~~~l~~~~~~~lp~~~~~~~~~~~~i~~lg~il~iili~l~G~l~~~~ig~~   82 (222)
T COG2928           3 AKRLKKYFLTGLLVLLPLAITLWVVSWIFGLLDQFVGPLLPDRLRPAVYFPFNIPGLGVILAIILIFLLGFLARNMIGRS   82 (222)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhccchhchhhcCchhhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence            45689999999999999999999999999999999998553       23566899999999999999999999999999


Q ss_pred             HHHHHHHHhcccchhhHHHHHHHHHHHHhCCCCCCcccCcEEEEEeCCCCeeEEEEEeeeec-------CceEE-EEEeC
Q 029180          119 VFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITSTVT-------LQVLV-VYVVY  190 (197)
Q Consensus       119 l~~~~e~ll~rIPvVksIYssiKql~~~f~g~~~~~~f~~VVlVe~P~~g~~~iGFvT~~~~-------~~~~v-VfvP~  190 (197)
                      +++++|++++|||++|+||+++||+++++.++++ ++||+||+||||++|+|++||+|++..       +++|+ ||+||
T Consensus        83 l~~~~d~~L~RiPlv~~IY~s~kqi~etll~~~~-~sfk~vvlVefP~~G~~~i~fvtg~~~~e~~~~~~~~~v~VfvPT  161 (222)
T COG2928          83 LLSLGDSLLRRIPLVKSIYKSAKQVVETLLSDQS-GSFKQVVLVEFPRRGIWAIAFVTGEKAGELKEKEGRPMVAVFVPT  161 (222)
T ss_pred             HHHHHHHHHccCccHHHHHHHHHHHHHHHHhcCC-ccceeeEEEECCCCCcEEEEEeccCCCcchhcccCCceEEEEcCC
Confidence            9999999999999999999999999999998764 589999999999999999999998772       24677 99998


Q ss_pred             CCC
Q 029180          191 SSP  193 (197)
Q Consensus       191 t~p  193 (197)
                      ||-
T Consensus       162 TPN  164 (222)
T COG2928         162 TPN  164 (222)
T ss_pred             CCC
Confidence            874

>PF04367 DUF502: Protein of unknown function (DUF502); InterPro: IPR007462 This entry contains proteins that are predicted to be integral membrane proteins

Probab=99.96  E-value=1.4e-28  Score=188.79  Aligned_cols=95  Identities=31%  Similarity=0.610  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcccchhhHHHHHHHHHHHHhCCCCCCcccCcEEEEEeCCCCeeEEEEEee
Q 029180           98 ITSLVFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFVRHLYSASKQISAAISPDQNTTAFKEVAIIRHPRVGEYAFGFITS  177 (197)
Q Consensus        98 l~~l~li~~iG~la~~~~g~~l~~~~e~ll~rIPvVksIYssiKql~~~f~g~~~~~~f~~VVlVe~P~~g~~~iGFvT~  177 (197)
                      ++++++|+++|+++++++|+++++++|+++.|||+||+||+++||++++|+++++ ++|++||+||||++|+|++||+|+
T Consensus         2 l~~l~~i~~iG~l~~~~~g~~l~~~~e~ll~riP~v~~iY~~~k~~~~~~~~~~~-~~f~~vVlV~~p~~g~~~igFvT~   80 (108)
T PF04367_consen    2 LILLLLIFLIGLLARNYFGKWLLNWLERLLQRIPLVKSIYSSIKQLVESFSGDKK-KSFKKVVLVEFPRPGMYVIGFVTG   80 (108)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCchHHHHHHHHHHHHHHhhccc-ccCCeEEEEEecCCCcEEEEEEec
Confidence            5678899999999999999999999999999999999999999999999999864 459999999999999999999999


Q ss_pred             eecC-------ceEE-EEEeCCCC
Q 029180          178 TVTL-------QVLV-VYVVYSSP  193 (197)
Q Consensus       178 ~~~~-------~~~v-VfvP~t~p  193 (197)
                      +..+       ++++ ||+|+||-
T Consensus        81 ~~~~~~~~~~~~~~v~VfvPtsPn  104 (108)
T PF04367_consen   81 EDPGELPGKTGEEMVAVFVPTSPN  104 (108)
T ss_pred             cCcchhhccCCCCEEEEEeCCCCC
Confidence            8843       2566 99997653

>PRK15350 type III secretion system protein SsaS; Provisional

Probab=91.50  E-value=4.7  Score=30.21  Aligned_cols=79  Identities=13%  Similarity=0.188  Sum_probs=51.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 029180           47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF  126 (197)
Q Consensus        47 ~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~l  126 (197)
                      ...++.+...+.+..|+.+.-.+++-+++.+...-+       ..-.-+.++-=++.++++=++.-.|..+.+.++.+++
T Consensus         8 ~l~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~TQ-------IQEqTLsFvPKliav~~~l~~~gpWm~~~l~~ft~~i   80 (88)
T PRK15350          8 QFVTQLLWIVLFTSMPVVLVASVVGVIVSLVQALTQ-------IQDQTLQFMIKLLAIAITLMVSYPWLSGILLNYTRQI   80 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788999999999999988888887776555431       1111223332233333334444556777788899999


Q ss_pred             hcccch
Q 029180          127 IKRMPF  132 (197)
Q Consensus       127 l~rIPv  132 (197)
                      +.+||-
T Consensus        81 f~~i~~   86 (88)
T PRK15350         81 MLRIGE   86 (88)
T ss_pred             HHhhhh
Confidence            999883

>PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated

Probab=90.96  E-value=5.4  Score=29.91  Aligned_cols=79  Identities=13%  Similarity=0.237  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 029180           47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF  126 (197)
Q Consensus        47 ~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~l  126 (197)
                      ...++.+...+.+..|+.+.-.+++-+++.+...-+       ..-.-++++-=++.++++=++.-.|.++.+.++.+++
T Consensus         8 ~l~~~al~~~l~ls~P~l~~alvVGlvIsi~QA~TQ-------IqEqTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i   80 (89)
T PRK05700          8 DLFREAMKVALMLAAPLLLVALVVGLVVSIFQAATQ-------INEQTLSFIPKILAVLLTLIIAGPWMLNTLLDYTRTL   80 (89)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788999999999999888888877776555431       1111233333333344444455567778888999999


Q ss_pred             hcccch
Q 029180          127 IKRMPF  132 (197)
Q Consensus       127 l~rIPv  132 (197)
                      +++||-
T Consensus        81 f~~i~~   86 (89)
T PRK05700         81 FSNIPT   86 (89)
T ss_pred             HHHHHh
Confidence            999985

>TIGR01402 fliQ flagellar biosynthetic protein FliQ

Probab=90.93  E-value=5.4  Score=29.87  Aligned_cols=79  Identities=11%  Similarity=0.214  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 029180           47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF  126 (197)
Q Consensus        47 ~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~l  126 (197)
                      ...++.+...+.+..|+.+.-.+++-+++.+...-+       ..-.-+.++-=++.++++-++.-.|.++.+.++.+++
T Consensus         8 ~l~~~al~~~l~~s~P~l~~alvVGlvIsi~QA~TQ-------IqEqTLsFvPKliav~~~l~~~gpWm~~~l~~f~~~~   80 (88)
T TIGR01402         8 DLGREAIWLTLLLSAPVLLVALVVGLVISIFQAATQ-------IQEQTLSFIPKIIAILLALALLGPWMLTKLLDFTREI   80 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788999999999999888888877776555431       1111233333333344444455567778888999999


Q ss_pred             hcccch
Q 029180          127 IKRMPF  132 (197)
Q Consensus       127 l~rIPv  132 (197)
                      +.+||-
T Consensus        81 f~~i~~   86 (88)
T TIGR01402        81 FQRIPQ   86 (88)
T ss_pred             HHHhhh
Confidence            999985

This model describes FliQ, a protein involved in biosynthesis of bacterial flagella. A related family of proteins, excluded from this model, participates in bacterial type III protein secretion systems.

>TIGR02120 GspF general secretion pathway protein F

Probab=90.57  E-value=4.9  Score=36.59  Aligned_cols=22  Identities=14%  Similarity=0.102  Sum_probs=18.4

Q ss_pred             HHHHHHHHhcccchhhHHHHHH
Q 029180          119 VFWVGEWFIKRMPFVRHLYSAS  140 (197)
Q Consensus       119 l~~~~e~ll~rIPvVksIYssi  140 (197)
                      .-.+.|+++.|||+++++|...
T Consensus       243 ~r~~~~~~l~kiP~~g~~~~~~  264 (399)
T TIGR02120       243 FRLRFDRRLLRLPVIGRLVRGL  264 (399)
T ss_pred             HHHHHHHHHhcccchHHHHHHH
Confidence            4467899999999999998754

This membrane protein is a component of the terminal branch complex of the general secretion pathway (GSP), also known as the"Type II" secretion pathway. The GSP transports proteins (generally virulence-associated cell wall hydrolases) across the outer membrase of the bacterial cell. Transport across the inner membrane is often, but not exclusively handled by the Sec system. This model was constructed from the broader subfamily model, pfam00482 which includes components of pilin complexes (PilC) as well as other related genes. GspF is nearly always gene clustered with other GSP subunits. Some genes from Xylella and Xanthomonas strains score below the trusted cutoff due to excessive divergence from the family such that a sequence from Deinococcus which does not appear to be GspF scores higher.

>PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed

Probab=89.65  E-value=7.1  Score=29.25  Aligned_cols=79  Identities=11%  Similarity=0.175  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 029180           47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF  126 (197)
Q Consensus        47 ~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~l  126 (197)
                      ...++.+...+.+.+|+.+.-.+++-+++.+...-+       ..-.-+.++-=++.++++=++.-.|..+.+.++.+++
T Consensus         8 ~l~~~al~~~l~~s~P~L~~alvVGliIsi~QA~TQ-------IqEqTLsFvPKliav~~~l~~~g~Wm~~~l~~f~~~i   80 (88)
T PRK06010          8 DIVRDAIWTVLVASGPAVLAAMVVGVAIALFQALTQ-------IQEMTLTFVPKIVAIFVTLLLTLPFMGAQISAFTLLI   80 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788999999999999988888877776555431       1111223332223333333344456667788899999


Q ss_pred             hcccch
Q 029180          127 IKRMPF  132 (197)
Q Consensus       127 l~rIPv  132 (197)
                      +.+||-
T Consensus        81 f~~i~~   86 (88)
T PRK06010         81 YSRIAG   86 (88)
T ss_pred             HHhhcc
Confidence            999883

>TIGR01403 fliQ_rel_III type III secretion protein, HrpO family

Probab=88.92  E-value=7.6  Score=28.63  Aligned_cols=78  Identities=15%  Similarity=0.328  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Q 029180           47 SWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWF  126 (197)
Q Consensus        47 ~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~l  126 (197)
                      ...++.+...+.+-.|..+.-.+++-+++.+...-+       ..-.-+.++-=++.+++.=++...|..+.+.++.+++
T Consensus         4 ~~~~~al~~~l~~s~P~L~~alvVGLvIsi~QA~TQ-------IqEqTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~i   76 (81)
T TIGR01403         4 QLTNQALLLVLILSLPPVLVAAIVGLLVSLLQALTQ-------LQDQTLPFAIKLIAVFITLMLTAGWLGAEILNFANQI   76 (81)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            346788899999999999888888877776555431       1111122222222222333334445666788899999


Q ss_pred             hcccc
Q 029180          127 IKRMP  131 (197)
Q Consensus       127 l~rIP  131 (197)
                      +++||
T Consensus        77 f~~i~   81 (81)
T TIGR01403        77 FTMIP   81 (81)
T ss_pred             HhhCC
Confidence            98887

This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FliQ. This model may not identify all type III secretion system FliQ homologs.

>PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed

Probab=87.83  E-value=9.6  Score=28.52  Aligned_cols=80  Identities=14%  Similarity=0.211  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Q 029180           46 QSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEW  125 (197)
Q Consensus        46 ~~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~  125 (197)
                      ....++.+...+.+-.|+.+.-.+++-+++.+...-+       ..-.-+.++-=++.++++=++.-.|.++.+.++.++
T Consensus         7 i~~~~~al~~~l~ls~P~L~~alvVGlvIsi~QA~TQ-------IQEqTLsFvPKliav~~~l~~~~~wm~~~l~~ft~~   79 (88)
T PRK12781          7 LELVRAAIWTIIVASGPAVGAAMLVGIAIALLQALTQ-------IQEVTLTFVPKIVVILIVMAVTGSFVGAQIYAFTEM   79 (88)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3446788999999999999888888877776555431       111122333233333444444555677788889999


Q ss_pred             Hhcccch
Q 029180          126 FIKRMPF  132 (197)
Q Consensus       126 ll~rIPv  132 (197)
                      ++.+||-
T Consensus        80 if~~i~~   86 (88)
T PRK12781         80 VYGRIES   86 (88)
T ss_pred             HHHhhcc
Confidence            9999883

>PRK10573 type IV pilin biogenesis protein; Provisional

Probab=87.32  E-value=12  Score=34.21  Aligned_cols=18  Identities=22%  Similarity=0.383  Sum_probs=15.5

Q ss_pred             HHHHHHhcccchhhHHHH
Q 029180          121 WVGEWFIKRMPFVRHLYS  138 (197)
Q Consensus       121 ~~~e~ll~rIPvVksIYs  138 (197)
                      .+.|+++.|+|+++.+|.
T Consensus       244 ~~~~~~l~~iP~~g~~~~  261 (399)
T PRK10573        244 IREQRLLLRLPLVGSLIR  261 (399)
T ss_pred             HHHHHHHhcCCeeccccc
Confidence            467999999999998776

>PF01311 Bac_export_1: Bacterial export proteins, family 1; InterPro: IPR002010 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior []

Probab=86.44  E-value=17  Score=31.44  Aligned_cols=43  Identities=7%  Similarity=0.080  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh
Q 029180           39 QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF   81 (197)
Q Consensus        39 ~~~~~~l~~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l   81 (197)
                      +.......+.+.+.|..|+..-+|+++..+++.-.++.+.+..
T Consensus       163 ~~~~~~~~~~~~~~f~~al~lAaP~i~~lll~~l~lG~l~R~~  205 (249)
T PF01311_consen  163 EEALQFIIKLFGQMFSLALQLAAPVIAALLLVDLALGLLSRAA  205 (249)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            4566677778899999999999999999999999999888875

There have been four secretion systems described in animal enteropathogens such as Salmonella and Yersinia, with further sequence similarities in plant pathogens like Ralstonia and Erwinia []. The type III secretion system is of great interest, as it is used to transport virulence factors from the pathogen directly into the host cell [] and is only triggered when the bacterium comes into close contact with the host. The protein subunits of the system are very similar to those of bacterial flagellar biosynthesis []. However, while the latter forms a ring structure to allow secretion of flagellin and is an integral part of the flagellum itself [], type III subunits in the outer membrane translocate secreted proteins through a channel-like structure. It is believed that the family of type III inner membrane proteins are used as structural moieties in a complex with several other subunits []. One such set of inner membrane proteins, labeled "R" here for nomenclature purposes, includes the Salmonella and Shigella SpaR, the Yersinia YscT, Rhizobium Y4YN, and the Erwinia HrcT genes []. The flagellar protein FliR also shares similarity, probably due to evolution of the type III secretion system from the flagellar biosynthetic pathway. ; GO: 0006605 protein targeting, 0016020 membrane

>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional

Probab=85.38  E-value=12  Score=36.75  Aligned_cols=40  Identities=13%  Similarity=0.194  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh
Q 029180           42 CYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF   81 (197)
Q Consensus        42 ~~~l~~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l   81 (197)
                      ...+.+.+.+.|..|+..-+|+++..+++...++++....
T Consensus       165 ~~~~~~~~~~~F~~al~lAaP~i~~lll~~~~lGllsR~a  204 (609)
T PRK12772        165 IMHVINVFIQYFYIGIKIAIPIVLIILITDLTLGLISRTV  204 (609)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            4556677889999999999999999999999999988875

>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised

Probab=85.38  E-value=9.8  Score=31.26  Aligned_cols=70  Identities=13%  Similarity=0.088  Sum_probs=37.0

Q ss_pred             CCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHH
Q 029180           30 PTSSASSTRQACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGV  109 (197)
Q Consensus        30 ~~~~~~~~~~~~~~~l~~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~  109 (197)
                      .....+.-++.-..||++++      ++.+-+|.++-+-++...+-.+++-        ..++|--..+++-+++|.+|+
T Consensus        46 ~~~~~~~IP~~Vs~RM~rRm------~~~~GiP~~lG~~~f~~~y~l~~~~--------~~dvP~~~~~~~S~~~Fg~gl  111 (153)
T PF11947_consen   46 RDEDDSAIPEVVSNRMLRRM------AVFVGIPTALGVAVFVVFYYLKSRQ--------IVDVPPWAVLLVSLVFFGLGL  111 (153)
T ss_pred             ccccccccCHHHHHHHHHHH------HHHhchHHHHHHHHHHHHHHHHhcc--------ccccCchHHHHHHHHHHHHHH
Confidence            44455556677777776663      3445567766655555544444432        133443333334455666666


Q ss_pred             HHHh
Q 029180          110 FVSS  113 (197)
Q Consensus       110 la~~  113 (197)
                      +.-+
T Consensus       112 lGis  115 (153)
T PF11947_consen  112 LGIS  115 (153)
T ss_pred             Hhhh
Confidence            6543

This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.

>PRK15333 type III secretion system protein SpaQ; Provisional

Probab=84.22  E-value=15  Score=27.40  Aligned_cols=78  Identities=17%  Similarity=0.056  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHh
Q 029180           48 WISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFI  127 (197)
Q Consensus        48 ~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~ll  127 (197)
                      ..++.+...+.+..|+.+.-.+++-+++.+...-+       ..-.-+.++-=++.+++.=++.-.|.++.+.++.++++
T Consensus         7 ~~~~al~~~l~ls~P~L~valvVGlvIsi~QA~TQ-------IQEqTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~if   79 (86)
T PRK15333          7 AGNKALYLVLILSGWPTIVATIIGLLVGLFQTVTQ-------LQEQTLPFGIKLLGVCLCLFLLSGWYGEVLLSYGRQVI   79 (86)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35778899999999998888888877776555431       11112233322333333334445567778888999999


Q ss_pred             cccch
Q 029180          128 KRMPF  132 (197)
Q Consensus       128 ~rIPv  132 (197)
                      ..+|-
T Consensus        80 ~~~~~   84 (86)
T PRK15333         80 FLALA   84 (86)
T ss_pred             Hhhhc
Confidence            88874

>PRK09824 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional

Probab=83.35  E-value=9.6  Score=37.74  Aligned_cols=84  Identities=12%  Similarity=0.259  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHH-HHHHHHHHHHHhhhhhHHHHHHHHHhcccchh-hHHH
Q 029180           60 LFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSL-VFVFLVGVFVSSWLGSTVFWVGEWFIKRMPFV-RHLY  137 (197)
Q Consensus        60 llPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l-~li~~iG~la~~~~g~~l~~~~e~ll~rIPvV-ksIY  137 (197)
                      ++|++++.|+..|+-+++++.+-..++.+  -.|.+.+++++ +.++++|=+.. ++|..+-..++++.+.-|.+ +.|+
T Consensus       219 ViPiil~v~~~s~iEk~l~K~iP~~l~~i--~~P~ltlli~~pl~l~viGPig~-~i~~~l~~~i~~l~~~~~~i~g~i~  295 (627)
T PRK09824        219 VIPIIFSAWLCSILERRLNAWLPSAIKNF--FTPLLCLMVIVPLTFLLIGPLAT-WLSELLAAGYQWLYQAVPAFAGAVM  295 (627)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHhHHHHHH-HHHHHHHHHHHHHHhhchHHHHHHH
Confidence            79999999999999999999875544332  23444444433 33555555543 46666666667777666643 3467


Q ss_pred             HHHHHHHHH
Q 029180          138 SASKQISAA  146 (197)
Q Consensus       138 ssiKql~~~  146 (197)
                      .++-+++=.
T Consensus       296 g~~~~~lV~  304 (627)
T PRK09824        296 GAFWQVFVI  304 (627)
T ss_pred             HHHHHHHHH
Confidence            777665543

>COG1459 PulF Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=83.26  E-value=7  Score=36.52  Aligned_cols=24  Identities=13%  Similarity=0.106  Sum_probs=19.3

Q ss_pred             hHHHHHHHHHhcccchhhHHHHHH
Q 029180          117 STVFWVGEWFIKRMPFVRHLYSAS  140 (197)
Q Consensus       117 ~~l~~~~e~ll~rIPvVksIYssi  140 (197)
                      .+.-.+.|+++.|+|+++.+....
T Consensus       238 ~~~r~~~~~~llrlP~~g~l~~~~  261 (397)
T COG1459         238 PAGRRRLDRLLLRLPLFGKLVRKY  261 (397)
T ss_pred             hHHHHHHHhHHhcCCcHHHHHHHH
Confidence            345578999999999999987743

>COG1684 FliR Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=83.14  E-value=19  Score=31.87  Aligned_cols=43  Identities=12%  Similarity=0.267  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh
Q 029180           39 QACCYVLQSWISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFF   81 (197)
Q Consensus        39 ~~~~~~l~~~l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l   81 (197)
                      +..+..+-+++...|..|+..-+|++....++.-+++.+++..
T Consensus       165 ~~~~~~l~~~l~~~F~~~l~iAlPii~~lLlvnlalGlv~R~~  207 (258)
T COG1684         165 DNAFLLLAKALSAIFLIGLRLALPIIALLLLVNLALGLLNRLA  207 (258)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3456677788899999999999999999999999999988875

>COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=81.64  E-value=20  Score=26.99  Aligned_cols=77  Identities=14%  Similarity=0.227  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhhhhccccchhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhc
Q 029180           49 ISKKFMTGCVVLFPVAVTFFITWWFVQFVDGFFSPLYEHLGFDIFGLGFITSLVFVFLVGVFVSSWLGSTVFWVGEWFIK  128 (197)
Q Consensus        49 l~~~Fl~GLlvllPl~lTi~Il~~l~~~i~~~l~pl~~~~g~~~pglgll~~l~li~~iG~la~~~~g~~l~~~~e~ll~  128 (197)
                      .++.+-.+|....|..+.-.+++-++..+...-+       ..-.-+.++==++.++++-.+.-.|.++.+.++...+++
T Consensus        10 ~~~ai~~~L~l~~P~ll~alvvGLvIsifQA~TQ-------IqEqTLsFiPKIiai~~~l~~~gpWm~~~l~dft~~if~   82 (89)
T COG1987          10 GQEAIWLVLMLSAPVLLVALVVGLVISIFQAATQ-------IQEQTLSFIPKIIAVFLVLILLGPWMLNQLLDFTVTIFS   82 (89)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            5677888999999998888777766665444321       111122333233445555556666788889999999999


Q ss_pred             ccch
Q 029180          129 RMPF  132 (197)
Q Consensus       129 rIPv  132 (197)
                      |||.
T Consensus        83 ~i~~   86 (89)
T COG1987          83 NIPQ   86 (89)
T ss_pred             HHHh
Confidence            9996

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00