Citrus Sinensis ID: 039064

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220----
Protein Sequence
QLGAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAALTTTTAATTTTTTALAAADETPYSSSFTYPFGSYVSAGTQFFPKYPNS
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEccccccccccEEEEEEEEEccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccEEEEEEEEEEcccccccHHEEEEEEEEccccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccc
Coil and Loop (DISEMBL)
qlgaelgvtrcqdcgnqakkncaymrcrtcckrrgyecethikstwipayrrhqryhhqhlvpvheqhlqlqghspkrlrenpsspglqignfpaeitseatfrcvkvssiddaiDRTTLAYKtsisvgghIFKGILYYqgcesnsnnnvgessssepppppqhqqqpyypfTVAALTTTTAATTTTTTalaaadetpysssftypfgsyvsagtqffpkypns
Flexible Loop (DISEMBL)
qlgaelgvtrcqdcgnqakkncaymrCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYktsisvggHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAALTTTTAATTTTTTalaaadetpysSSFTYPFGSYVSAGTQFFPKYPNS
Low Complexity Region (SEG)
QLGAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAyrrhqryhhqhLVPVHEQHLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGCesnsnnnvgessssepppppqhqqqpYYPFTVaalttttaattttttalaaaDETPYSSSFTYPFGSYVSAGTQFFPKYPNS
Disordered region (IsUnstruct)
******GVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHE***********************IGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGC**********************************************************************************
Disordered Region (DISOPRED)
*************CGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWI***************************************************SEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGC****************************************************DETPYSSSFTYPFGSYVSAGTQ*F******
Disordered Region (DISEMBL)
QLGAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVH******************SSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGCESNS*******************QQPYYPFTVAALTTTTAATTTTTTALAAADETPYSSSFTYPFGSYVSAGTQFFPKYPNS
Disordered Region (DISPRO)
**********C*******KK*CAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQR**************************************P*EITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGCE**********************************************ALAAADETPYSSSFTYPFGSYVSAGTQFFP*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
QLGAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAALTTTTAATTTTTTALAAADETPYSSSFTYPFGSYVSAGTQFFPKYPNS
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	224
255543809	199	conserved hypothetical protein [Ricinus	0.834	0.939	0.511	3e-46
224103349	124	predicted protein [Populus trichocarpa]	0.549	0.991	0.669	6e-44
224080405	205	predicted protein [Populus trichocarpa]	0.861	0.941	0.490	4e-43
224134186	344	short internodes 2 [Populus trichocarpa]	0.611	0.398	0.532	2e-39
240255588	370	Lateral root primordium (LRP) protein-li	0.910	0.551	0.430	3e-39
297816366	369	hypothetical protein ARALYDRAFT_906453 [	0.910	0.552	0.434	3e-39
297735063	317	unnamed protein product [Vitis vinifera]	0.540	0.381	0.551	9e-39
119331576	367	DNA-binding protein [Catharanthus roseus	0.870	0.531	0.385	2e-38
449464562	331	PREDICTED: uncharacterized protein LOC10	0.879	0.595	0.429	5e-37
449520815	263	PREDICTED: uncharacterized LOC101216097	0.714	0.608	0.412	6e-37

>gi|255543809|ref|XP_002512967.1| conserved hypothetical protein [Ricinus communis] gi|223547978|gb|EEF49470.1| conserved hypothetical protein [Ricinus communis]

 Score =  191 bits (484), Expect = 3e-46,   Method: Compositional matrix adjust.
 Identities = 109/213 (51%), Positives = 145/213 (68%), Gaps = 26/213 (12%)

Query: 6   LGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVH 65
           LG +RCQDCGNQAKK+C YMRCRTCCK +G+ C+TH+KSTW+PAYRR QR  +   + + 
Sbjct: 8   LGGSRCQDCGNQAKKDCVYMRCRTCCKSKGFHCQTHVKSTWVPAYRRQQRLQNVSSIQLQ 67

Query: 66  EQHLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTS 125
           +QH Q Q H+PKRLRENP++      NFPAE+ S ATFRC++VSSID+  D+   AY+TS
Sbjct: 68  QQHPQDQLHNPKRLRENPATE-----NFPAEVNSLATFRCLRVSSIDEGDDQ--FAYQTS 120

Query: 126 ISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAALTTTTAATT 185
           +S+GGH+FKGILY QG        +GESS+++        Q+P      AALT+TT A T
Sbjct: 121 MSIGGHVFKGILYDQG----PTYTIGESSTTQI-------QEPNLA-NAAALTSTTLAPT 168

Query: 186 TTTTALAAADETPYSSSFTYPFGSYVSAGTQFF 218
           ++      AD  P   S+ +PF +++S GTQ F
Sbjct: 169 SSVD----ADSLP--PSYPFPFNAFMS-GTQLF 194

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103349|ref|XP_002313022.1| predicted protein [Populus trichocarpa] gi|222849430|gb|EEE86977.1| predicted protein [Populus trichocarpa]

 Score =  182 bits (463), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 89/133 (66%), Positives = 109/133 (81%), Gaps = 10/133 (7%)

Query: 9   TRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQH 68
           +RCQDCGNQAKK+C YMRCRTCCK +G+ C+TH+KSTW+PAYRR QR   Q L PV +QH
Sbjct: 2   SRCQDCGNQAKKDCFYMRCRTCCKSKGFHCQTHVKSTWVPAYRRRQRA--QDLSPV-QQH 58

Query: 69  LQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISV 128
            QLQGH+PKRLRENPSS      NFPAE+ S ATFRC +VSSID+A+D+  +AY+T +++
Sbjct: 59  -QLQGHNPKRLRENPSSG----TNFPAEVNSTATFRCFRVSSIDEAVDQ--VAYQTRVNI 111

Query: 129 GGHIFKGILYYQG 141
           GGH+FKGILY QG
Sbjct: 112 GGHVFKGILYDQG 124

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224080405|ref|XP_002306129.1| predicted protein [Populus trichocarpa] gi|222849093|gb|EEE86640.1| predicted protein [Populus trichocarpa]

 Score =  180 bits (456), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 106/216 (49%), Positives = 142/216 (65%), Gaps = 23/216 (10%)

Query: 3   GAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLV 62
           G+ LG +RCQ+CGNQAKK+C YMRCRTCC  +G++C+TH+KSTW+PA RR QR  +    
Sbjct: 8   GSNLGGSRCQECGNQAKKDCVYMRCRTCCNSKGFQCQTHVKSTWVPACRRRQRAQNL--- 64

Query: 63  PVHEQHLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAY 122
            +  Q  QLQGH+PKR RENPS+ GL+I NFPAE+ S  TFRC +VSSID+++D+   AY
Sbjct: 65  -LPCQQQQLQGHNPKRPRENPST-GLEIENFPAEVNSTVTFRCFRVSSIDESVDQ--FAY 120

Query: 123 KTSISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAALTTTTA 182
           +TS+++GG +FKGILY QG    S    GESSS       +  Q+P  P +  ALT    
Sbjct: 121 QTSVNIGGRVFKGILYDQG-PHESRYYFGESSS-------RQLQEPNLP-SADALTPGAL 171

Query: 183 ATTTTTTALAAADETPYSSSFTYPFGSYVSAGTQFF 218
           A+T+       A E+    S+ +P  + +S GTQ F
Sbjct: 172 ASTS------GAAESLAHPSYPFPLTASMS-GTQLF 200

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224134186|ref|XP_002327777.1| short internodes 2 [Populus trichocarpa] gi|222836862|gb|EEE75255.1| short internodes 2 [Populus trichocarpa]

 Score =  168 bits (425), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 81/152 (53%), Positives = 109/152 (71%), Gaps = 15/152 (9%)

Query: 7   GVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLV-PVH 65
           G   CQDCGNQAKK+C +MRCRTCCK RG+EC+TH+KSTW+PA +R +R H   +     
Sbjct: 119 GSISCQDCGNQAKKDCVHMRCRTCCKSRGFECQTHVKSTWVPASKRRERQHQLTIFQQQQ 178

Query: 66  EQHLQLQGHSPKRLRENPS------------SPGLQIGNFPAEITSEATFRCVKVSSIDD 113
           +Q LQ++G +PKR RENPS              GL++GNFPAE++S A FRCV+VS ID+
Sbjct: 179 QQQLQIRGENPKRQRENPSPSSLACTHLANNMSGLELGNFPAEVSSPALFRCVRVSGIDE 238

Query: 114 AIDRTTLAYKTSISVGGHIFKGILYYQGCESN 145
           +     LAY+T++++GGH+FKG+LY +G ESN
Sbjct: 239 S--EEMLAYQTAVNIGGHVFKGVLYDRGPESN 268

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|240255588|ref|NP_190675.4| Lateral root primordium (LRP) protein-like protein [Arabidopsis thaliana] gi|332645224|gb|AEE78745.1| Lateral root primordium (LRP) protein-like protein [Arabidopsis thaliana]

 Score =  167 bits (423), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 99/230 (43%), Positives = 138/230 (60%), Gaps = 26/230 (11%)

Query: 11  CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQ 70
           CQDCGNQAKK+C++MRCRTCCK RG+EC TH++STW+PA +R +R   Q L  V  Q   
Sbjct: 144 CQDCGNQAKKDCSHMRCRTCCKSRGFECSTHVRSTWVPAAKRRER--QQQLATVQPQTQL 201

Query: 71  LQGHS-PKRLREN-------------PSSPGLQIGNFPAEITSEATFRCVKVSSIDDAID 116
            +G S PKR REN             PS  GL++GNFPAE++S A FRCV+VSS++D  +
Sbjct: 202 PRGESVPKRHRENLPATSSSLVCTRIPSHSGLEVGNFPAEVSSSAVFRCVRVSSVEDGEE 261

Query: 117 RTTLAYKTSISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAA 176
               AY+T++S+GGHIFKGILY  G  S+        ++ E        QQ     T  +
Sbjct: 262 E--FAYQTAVSIGGHIFKGILYDLGPGSSGGGGYNVVAAGESSSGGGGAQQ-LNLITAGS 318

Query: 177 LTTTTAATTT------TTTALAAADETPYSSSFTYPFGSYVSAGTQFFPK 220
           +T  TA+++T       +++ AAA     ++ +  P  +++ AGTQFFP 
Sbjct: 319 VTVATASSSTPNLGGIGSSSAAAATYIDPAALYPTPINTFM-AGTQFFPN 367

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297816366|ref|XP_002876066.1| hypothetical protein ARALYDRAFT_906453 [Arabidopsis lyrata subsp. lyrata] gi|297321904|gb|EFH52325.1| hypothetical protein ARALYDRAFT_906453 [Arabidopsis lyrata subsp. lyrata]

 Score =  167 bits (422), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 100/230 (43%), Positives = 136/230 (59%), Gaps = 26/230 (11%)

Query: 11  CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQ-HL 69
           CQDCGNQAKK+CA+MRCRTCCK RG+EC TH++STW+PA +R +R   Q L  V  Q HL
Sbjct: 143 CQDCGNQAKKDCAHMRCRTCCKSRGFECPTHVRSTWVPAAKRRER--QQQLATVQPQTHL 200

Query: 70  QLQGHSPKRLREN-------------PSSPGLQIGNFPAEITSEATFRCVKVSSIDDAID 116
                 PKR REN             PS  GL++GNFPAE++S A FRCV+VSS++D  +
Sbjct: 201 PRGESVPKRHRENLPATSSSLVCTRIPSHSGLEVGNFPAEVSSSAVFRCVRVSSVEDGEE 260

Query: 117 RTTLAYKTSISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAA 176
               AY+T++S+GGHIFKGILY  G  S+        +  E        QQ     T  +
Sbjct: 261 E--FAYQTAVSIGGHIFKGILYDLGPGSSGGGGYNVVAPGESSSGGGGAQQ-LNLITAGS 317

Query: 177 LTTTTAATTT------TTTALAAADETPYSSSFTYPFGSYVSAGTQFFPK 220
           +T  TA+++T       +++ AAA     ++ +  P  +++ AGTQFFP 
Sbjct: 318 VTVATASSSTPNLGGIGSSSAAAATYIDPAALYPTPINTFM-AGTQFFPN 366

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735063|emb|CBI17425.3| unnamed protein product [Vitis vinifera]

 Score =  166 bits (419), Expect = 9e-39,   Method: Compositional matrix adjust.
 Identities = 80/145 (55%), Positives = 102/145 (70%), Gaps = 24/145 (16%)

Query: 11  CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQ 70
           CQDCGNQAKK+C +MRCRTCCK RG++C THIKSTW+PA +R +R          +QHL 
Sbjct: 90  CQDCGNQAKKDCIHMRCRTCCKSRGFQCPTHIKSTWVPAAKRRER----------QQHLT 139

Query: 71  LQGHSPKRLRENPSS------------PGLQIGNFPAEITSEATFRCVKVSSIDDAIDRT 118
           L+G +PKR RENPSS             GL+I NFP+E+ S A FRCV+VSSID+  D+ 
Sbjct: 140 LRGENPKRQRENPSSSALACTRLPTHTSGLEIANFPSEVNSPAVFRCVRVSSIDETDDQ- 198

Query: 119 TLAYKTSISVGGHIFKGILYYQGCE 143
             AY+T++++GGH+FKGILY  G E
Sbjct: 199 -YAYQTAVNIGGHVFKGILYDHGPE 222

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|119331576|gb|ABL63114.1| DNA-binding protein [Catharanthus roseus]

 Score =  164 bits (416), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 93/241 (38%), Positives = 136/241 (56%), Gaps = 46/241 (19%)

Query: 11  CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQ 70
           CQDCGNQAKK+C ++RCRTCCK RG++C+TH+KSTW+PA +R +R   Q      +Q+ Q
Sbjct: 137 CQDCGNQAKKDCTHLRCRTCCKSRGFQCQTHVKSTWVPAAKRRERQQQQLASSSLQQNQQ 196

Query: 71  -LQGHSPKRLRENP----------SSPGLQI--GNFPAEITSEATFRCVKVSSIDDAIDR 117
            L+G + KR RENP          SS GL++  G FPAE++S A FRCV+VS++D+A + 
Sbjct: 197 HLRGENSKRPRENPSSLACTRLPTSSSGLEMVGGQFPAEVSSAAVFRCVRVSAMDEA-EE 255

Query: 118 TTLAYKTSISVGGHIFKGILYYQGCESNSNNNVGESSSS-------------------EP 158
              AY+T++++GGH+FKGILY QG +  +      S+++                    P
Sbjct: 256 QQYAYQTAVNIGGHVFKGILYDQGLDHQTTTAGRYSTATTGVGGNTSSGGGTDGGGGVHP 315

Query: 159 PPPPQHQQQPYYPFTVAALTTTTAATTTTTTALAAADETPYSSSFTYPFGSYVSAGTQFF 218
           P PP        P  +   T++     T    +   D + Y +    P  +++ AGTQFF
Sbjct: 316 PQPP--------PLNLIGTTSSAPTAATAGITMHMLDHSIYPT----PLSAFM-AGTQFF 362

Query: 219 P 219
           P
Sbjct: 363 P 363

Source: Catharanthus roseus

Species: Catharanthus roseus

Genus: Catharanthus

Family: Apocynaceae

Order: Gentianales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464562|ref|XP_004149998.1| PREDICTED: uncharacterized protein LOC101207689 [Cucumis sativus] gi|449531384|ref|XP_004172666.1| PREDICTED: uncharacterized LOC101207689 [Cucumis sativus]

 Score =  160 bits (404), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 98/228 (42%), Positives = 131/228 (57%), Gaps = 31/228 (13%)

Query: 11  CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQHLQ 70
           CQDCGNQAKK+C++MRCRTCCK RG+ CETH+KSTW+PA +R +R      +  H  H  
Sbjct: 110 CQDCGNQAKKDCSHMRCRTCCKSRGFHCETHVKSTWVPAAKRRERQDKLAALQTHHHHHH 169

Query: 71  LQ-------GHSPKRLRE-------------NPSSPGLQIGNFPAEITSEATFRCVKVSS 110
            Q        ++PKR R+             N ++ GL+IGNFPAE+ S A FRCV+VSS
Sbjct: 170 QQQLQLHGGDNNPKRHRDYNSSSLACTLIPTNNNTSGLEIGNFPAELNSPAVFRCVRVSS 229

Query: 111 IDDAIDRTTLAYKTSISVGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYY 170
            DD  D+   AY+T++++GGH+FKGILY QG E   NN +    +S          QP  
Sbjct: 230 ADDTDDQ--YAYQTAVNIGGHVFKGILYDQGPE---NNYIPPGETSSGGGGSSSGVQPLN 284

Query: 171 PFTVAALTTTTAATTTTTTALAAADETPYSSSFTYPFGSYVSAGTQFF 218
              +A     T  +  +T AL   D    SS ++ P  S++ AGTQFF
Sbjct: 285 --FIAGAADATTGSGGSTAALPLLDP---SSLYSTPLNSFM-AGTQFF 326

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449520815|ref|XP_004167428.1| PREDICTED: uncharacterized LOC101216097 [Cucumis sativus]

 Score =  159 bits (403), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 87/211 (41%), Positives = 115/211 (54%), Gaps = 51/211 (24%)

Query: 8   VTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQ 67
           VT CQDCGNQAKK+C +MRCRTCCK RG+ECETH+KSTW+PA +R  R         H +
Sbjct: 99  VTSCQDCGNQAKKDCVHMRCRTCCKSRGFECETHVKSTWVPASKRRDR---------HLR 149

Query: 68  HLQLQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSIS 127
              L    PK    +P+S GL +GNFP E+T+ A FRCV+++S+D+  D+   AY+T+++
Sbjct: 150 SDGLNSKRPKDTHYHPTSSGLDMGNFPTEVTTPAVFRCVRMTSLDETDDQ--YAYQTAVN 207

Query: 128 VGGHIFKGILYYQGCESNSNNNVGESSSSEPPPPPQHQQQPYYPFTVAALTTTTAATTTT 187
           +GGHIFKGILY  G E         S++   P PP       YP                
Sbjct: 208 IGGHIFKGILYDHGPEQPPPPPSSSSAALLDPTPP-------YP---------------- 244

Query: 188 TTALAAADETPYSSSFTYPFGSYVSAGTQFF 218
                             P  +Y++AGTQFF
Sbjct: 245 -----------------TPLSTYITAGTQFF 258

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	224
TAIR|locus:2080818	370	STY1 "AT3G51060" [Arabidopsis	0.598	0.362	0.516	2.8e-38
TAIR|locus:2013109	345	SRS7 "AT1G19790" [Arabidopsis	0.254	0.165	0.543	1.9e-35
TAIR|locus:2155021	331	SHI "SHORT INTERNODES" [Arabid	0.598	0.404	0.487	2.2e-34
TAIR|locus:2005659	346	SRS5 "AT1G75520" [Arabidopsis	0.330	0.213	0.493	2.4e-32
TAIR|locus:2050074	174	SRS3 "SHI-related sequence3" [	0.513	0.660	0.488	2.1e-29
TAIR|locus:2053134	222	SRS4 "AT2G18120" [Arabidopsis	0.575	0.581	0.407	2e-24
TAIR|locus:2096169	183	SRS6 "AT3G54430" [Arabidopsis	0.584	0.715	0.357	1.6e-22
TAIR|locus:2122234	322	STY2 "AT4G36260" [Arabidopsis	0.169	0.118	0.736	1.4e-17
TAIR|locus:2183078	173	SRS8 "AT5G33210" [Arabidopsis	0.343	0.445	0.530	2.5e-17

TAIR|locus:2080818 STY1 "AT3G51060" [Arabidopsis thaliana (taxid:3702)]

 Score = 382 (139.5 bits), Expect = 2.8e-38, Sum P(2) = 2.8e-38
 Identities = 79/153 (51%), Positives = 100/153 (65%)

Query:     3 GAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLV 62
             G   GV+ CQDCGNQAKK+C++MRCRTCCK RG+EC TH++STW+PA           L 
Sbjct:   137 GGSGGVS-CQDCGNQAKKDCSHMRCRTCCKSRGFECSTHVRSTWVPAAKRRERQQQ--LA 193

Query:    63 PVHEQHLQLQGHS-PKRLREN-------------PSSPGLQIGNFPAEITSEATFRCVKV 108
              V  Q    +G S PKR REN             PS  GL++GNFPAE++S A FRCV+V
Sbjct:   194 TVQPQTQLPRGESVPKRHRENLPATSSSLVCTRIPSHSGLEVGNFPAEVSSSAVFRCVRV 253

Query:   109 SSIDDAIDRTTLAYKTSISVGGHIFKGILYYQG 141
             SS++D  +    AY+T++S+GGHIFKGILY  G
Sbjct:   254 SSVEDGEEE--FAYQTAVSIGGHIFKGILYDLG 284

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=NAS

GO:0005634 "nucleus" evidence=ISM;ISS;IDA

GO:0009938 "negative regulation of gibberellic acid mediated signaling pathway" evidence=NAS

GO:0010051 "xylem and phloem pattern formation" evidence=IGI

GO:0048479 "style development" evidence=IGI

GO:0048480 "stigma development" evidence=IGI

GO:0010252 "auxin homeostasis" evidence=IGI

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0003677 "DNA binding" evidence=IDA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IDA

TAIR|locus:2013109 SRS7 "AT1G19790" [Arabidopsis thaliana (taxid:3702)]

 Score = 199 (75.1 bits), Expect = 1.9e-35, Sum P(3) = 1.9e-35
 Identities = 31/57 (54%), Positives = 40/57 (70%)

Query:     7 GVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLVP 63
             G   CQDCGNQAKK+C +MRCRTCCK RG++C+TH+KSTW+ A           ++P
Sbjct:   115 GNMNCQDCGNQAKKDCPHMRCRTCCKSRGFDCQTHVKSTWVSAAKRRERQAQLAVLP 171

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2155021 SHI "SHORT INTERNODES" [Arabidopsis thaliana (taxid:3702)]

 Score = 373 (136.4 bits), Expect = 2.2e-34, P = 2.2e-34
 Identities = 75/154 (48%), Positives = 98/154 (63%)

Query:     3 GAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLV 62
             G+  G   CQDCGNQ+KK+C++MRCRTCCK RG +C TH+KSTW+PA            +
Sbjct:   112 GSGSGGPSCQDCGNQSKKDCSHMRCRTCCKSRGLDCPTHVKSTWVPAAKRRERQQQ---L 168

Query:    63 PVHEQHLQLQGHSPKRLREN-------------PSS--PGLQIGNFPAEITSEATFRCVK 107
                +Q  QL G  PKR RE              PS+   GL++GNFP E++S A FRCV+
Sbjct:   169 STGQQPQQLGGSVPKRQRERIPARSTSMAYTRIPSNNTSGLEVGNFPPEVSSSAVFRCVR 228

Query:   108 VSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQG 141
             VSS+DD  +    AYKT++S+GGH+FKG+LY QG
Sbjct:   229 VSSVDD--EEEEYAYKTAVSIGGHVFKGVLYDQG 260

GO:0005634 "nucleus" evidence=ISM;TAS

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=TAS

GO:0009739 "response to gibberellin stimulus" evidence=IMP

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=TAS

GO:0046982 "protein heterodimerization activity" evidence=IPI

TAIR|locus:2005659 SRS5 "AT1G75520" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 2.4e-32, Sum P(2) = 2.4e-32
 Identities = 37/75 (49%), Positives = 47/75 (62%)

Query:     7 GVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLVPVHE 66
             G   CQDCGNQAKK+C +MRCRTCCK RG+ C+TH+KSTW+PA            +  H 
Sbjct:   121 GGMNCQDCGNQAKKDCPHMRCRTCCKSRGFHCQTHVKSTWVPAAKRRERLAQLASLQHHS 180

Query:    67 QHLQLQGHSPKRLRE 81
                + +  + KRLRE
Sbjct:   181 ASSR-ETQNAKRLRE 194

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0048467 "gynoecium development" evidence=IGI

GO:0007389 "pattern specification process" evidence=RCA

GO:0048438 "floral whorl development" evidence=RCA

GO:0048439 "flower morphogenesis" evidence=RCA

TAIR|locus:2050074 SRS3 "SHI-related sequence3" [Arabidopsis thaliana (taxid:3702)]

 Score = 326 (119.8 bits), Expect = 2.1e-29, P = 2.1e-29
 Identities = 65/133 (48%), Positives = 91/133 (68%)

Query:    10 RCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLVPVHEQHL 69
             +C+DCGNQAKK+C YMRCRTCCK + + C+THIKSTW+PA               H+   
Sbjct:     8 KCEDCGNQAKKDCVYMRCRTCCKSKAFHCQTHIKSTWVPAYRRSH----------HKHQS 57

Query:    70 Q-LQGHSPKRLRENPSSPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISV 128
             Q L    PK ++ + ++PG    +FPAE++S A FRCVKVSSIDD  ++   AY+T++++
Sbjct:    58 QPLSTSIPKGVQIH-TTPG----HFPAELSSLADFRCVKVSSIDDGKEQ--YAYQTTVNI 110

Query:   129 GGHIFKGILYYQG 141
             GGH+F+GIL+ QG
Sbjct:   111 GGHVFRGILHDQG 123

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2053134 SRS4 "AT2G18120" [Arabidopsis thaliana (taxid:3702)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 55/135 (40%), Positives = 79/135 (58%)

Query:    11 CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLVPVHEQHLQ 70
             CQ+CGNQAKK C + RCRTCCK  G  C TH++STWIP                +     
Sbjct:    72 CQECGNQAKKGCTHGRCRTCCKSNGLHCPTHVRSTWIPIAKRRERQQQLQTPTSNPTGGS 131

Query:    71 LQGHSPKRLRENPS--SPGLQIGN--FPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSI 126
              +    + + ++ +  S GL++G   FP E++S+A FRCV++S  DD   +   AY+T++
Sbjct:   132 GRVGKYRDINQHATLDSSGLEMGETRFPDEVSSDALFRCVRMSGTDDGEGQ--YAYQTTV 189

Query:   127 SVGGHIFKGILYYQG 141
              + GH+FKGILY QG
Sbjct:   190 GIAGHLFKGILYNQG 204

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2096169 SRS6 "AT3G54430" [Arabidopsis thaliana (taxid:3702)]

 Score = 261 (96.9 bits), Expect = 1.6e-22, P = 1.6e-22
 Identities = 50/140 (35%), Positives = 79/140 (56%)

Query:     6 LGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLVPVH 65
             +G   C+DCGN+AKK C + RCRTCCK RGY C TH+KSTWIP+                
Sbjct:    36 VGEKVCRDCGNRAKKECLFERCRTCCKSRGYNCVTHVKSTWIPSSATRSSSSPSE----R 91

Query:    66 EQHLQLQGHSPKRLRENPSSPGLQIGNF----PAEITSEATFRCVKVSSIDDAIDRTTLA 121
             ++ L++   S   +   P++   Q   F    P +I + A F+  +V++I +  ++  + 
Sbjct:    92 KKKLKIDKQSSPNVSLLPTTTSRQERGFREGLPGKIEAPAVFKRTRVTAISNN-EQAEIG 150

Query:   122 YKTSISVGGHIFKGILYYQG 141
             Y+ ++++ GHIFKG L+Y G
Sbjct:   151 YQATVTISGHIFKGFLHYYG 170

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0010073 "meristem maintenance" evidence=RCA

TAIR|locus:2122234 STY2 "AT4G36260" [Arabidopsis thaliana (taxid:3702)]

 Score = 193 (73.0 bits), Expect = 1.4e-17, Sum P(2) = 1.4e-17
 Identities = 28/38 (73%), Positives = 35/38 (92%)

Query:    11 CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIP 48
             C+DCGNQAKK+C +MRCRTCCK RG++C TH++STWIP
Sbjct:    94 CRDCGNQAKKDCTHMRCRTCCKSRGFDCSTHVRSTWIP 131

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=NAS

GO:0005634 "nucleus" evidence=ISM;ISS

GO:0009938 "negative regulation of gibberellic acid mediated signaling pathway" evidence=NAS

GO:0010051 "xylem and phloem pattern formation" evidence=IGI;RCA

GO:0048479 "style development" evidence=IGI

GO:0048480 "stigma development" evidence=IGI

GO:0010252 "auxin homeostasis" evidence=IGI

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009944 "polarity specification of adaxial/abaxial axis" evidence=RCA

GO:0010014 "meristem initiation" evidence=RCA

GO:0048439 "flower morphogenesis" evidence=RCA

GO:0048519 "negative regulation of biological process" evidence=RCA

TAIR|locus:2183078 SRS8 "AT5G33210" [Arabidopsis thaliana (taxid:3702)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 43/81 (53%), Positives = 52/81 (64%)

Query:     3 GAELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAXXXXXXXXXXXLV 62
             G   GV+ CQD GNQAKK+C++MRCRTCCK RG+EC TH++STW+PA           L 
Sbjct:    45 GGSGGVS-CQDFGNQAKKDCSHMRCRTCCKSRGFECSTHVRSTWVPATKRRERQQQ--LA 101

Query:    63 PVHEQHLQLQGHS-PKRLREN 82
              V  Q    +G S PKR REN
Sbjct:   102 TVQPQTQLPRGESVPKRHREN 122


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.136   0.434    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      224       167   0.00075  108 3  11 22  0.38    32
                                                     30  0.46    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  9
  No. of states in DFA:  605 (64 KB)
  Total size of DFA:  169 KB (2098 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.93u 0.13s 13.06t   Elapsed:  00:00:01
  Total cpu time:  12.94u 0.13s 13.07t   Elapsed:  00:00:01
  Start:  Fri May 10 07:25:14 2013   End:  Fri May 10 07:25:15 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

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

Your Input: gw1.IX.1613.1 hypothetical protein (124 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	224
pfam05142	155	pfam05142, DUF702, Domain of unknown function (DUF	3e-54
TIGR01623	43	TIGR01623, put_zinc_LRP1, putative zinc finger dom	8e-22
TIGR01624	50	TIGR01624, LRP1_Cterm, LRP1 C-terminal domain	9e-16

>gnl|CDD|218464 pfam05142, DUF702, Domain of unknown function (DUF702)

 Score =  170 bits (433), Expect = 3e-54
 Identities = 67/155 (43%), Positives = 89/155 (57%), Gaps = 19/155 (12%)

Query: 7   GVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHE 66
           G   CQDCGNQAKK+C +MRCRTCCK RG++C+TH+KSTW+PA +R +R           
Sbjct: 4   GGISCQDCGNQAKKDCTHMRCRTCCKSRGFDCQTHVKSTWVPAAKRRERQQQLA-AATSN 62

Query: 67  QHLQLQGHSPKRLRENPSSP----------------GLQIGNFPAEITSEATFRCVKVSS 110
                     KR R+  S+                 G    +FP E++S A FRCV+VSS
Sbjct: 63  AASSAASAPSKRPRDLLSNAQSSLSSTRTPSGTSPQGTGTSSFPPEVSSPAVFRCVRVSS 122

Query: 111 IDDAIDRTTLAYKTSISVGGHIFKGILYYQGCESN 145
           +DD       AY+T++++GGH+FKGILY QG E  
Sbjct: 123 VDDGDAE--YAYQTTVNIGGHVFKGILYDQGPEHQ 155

Members of this family are found in various putative zinc finger proteins. Length = 155

>gnl|CDD|130684 TIGR01623, put_zinc_LRP1, putative zinc finger domain, LRP1 type

 Score = 84.2 bits (208), Expect = 8e-22
 Identities = 32/42 (76%), Positives = 35/42 (83%)

Query: 11 CQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRR 52
          CQDCGNQAKK C + RCRTCCK RG+ C TH+KSTWIPA RR
Sbjct: 2  CQDCGNQAKKECLFERCRTCCKSRGFHCVTHVKSTWIPAARR 43

This model represents a putative zinc finger domain found in plants. Arabidopsis thaliana has at least 10 distinct members. Proteins containing this domain, including LRP1, generally share the same size, about 300 amino acids, and architecture. This 43-residue domain, and a more C-terminal companion domain of similar size, appear as tightly conserved islands of sequence similarity. The remainder consists largely of low-complexity sequence. Several animal proteins have regions with matching patterns of Cys, Gly, and His residues. These are not included in the model but score between trusted and noise cutoffs. Length = 43

>gnl|CDD|233497 TIGR01624, LRP1_Cterm, LRP1 C-terminal domain

 Score = 68.3 bits (167), Expect = 9e-16
 Identities = 22/49 (44%), Positives = 38/49 (77%), Gaps = 1/49 (2%)

Query: 93  FPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQG 141
           FP E+++ A F+CV+V++IDD  ++   AY+ ++++GGH+FKG L+ QG
Sbjct: 2   FPGEVSAPAVFKCVRVTAIDDG-EQAEYAYQATVTIGGHVFKGFLHDQG 49

This model represents a tightly conserved small domain found in LRP1 and related plant proteins. This family also contains a well-conserved putative zinc finger domain (TIGR01623). The rest of the sequence of most members consists of highly divergent, low-complexity sequence. Length = 50

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	224
PF05142	154	DUF702: Domain of unknown function (DUF702) ; Inte	100.0
TIGR01624	50	LRP1_Cterm LRP1 C-terminal domain. This model repr	100.0
TIGR01623	43	put_zinc_LRP1 putative zinc finger domain, LRP1 ty	99.97
PF02150	35	RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; I	80.04

>PF05142 DUF702: Domain of unknown function (DUF702) ; InterPro: IPR007818 This is a family of plant proteins of unknown function

Probab=100.00  E-value=1.9e-81  Score=521.17  Aligned_cols=136  Identities=57%  Similarity=1.014  Sum_probs=120.2

Q ss_pred             CCCCcccccccchhhhcCCCcccccccccCCcccccccccceeccchhchhhhccccccccccc-ccccCCCCCCCccC-
Q 039064            5 ELGVTRCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRRHQRYHHQHLVPVHEQH-LQLQGHSPKRLREN-   82 (224)
Q Consensus         5 ~~gg~~CQDCGNQAKKdC~h~RCRTCCKsRGf~C~THVKSTWVPAarRRERq~~q~~~~~~~~~-~~~~~~~~kr~r~~-   82 (224)
                      |+|+++||||||||||||+|||||||||||||||+||||||||||+||||||  |++.++++++ .......+||+|++ 
T Consensus         1 ~~gg~~CqdCGNqAkk~C~~~rCRtCCk~rg~~C~tHvksTWVPA~~rRer~--~~~~~~~~~~~~~~~~~~~kr~r~~~   78 (154)
T PF05142_consen    1 GSGGISCQDCGNQAKKDCSHRRCRTCCKSRGFDCPTHVKSTWVPAARRRERQ--QQLAAAQQQQQGSQGSSGPKRPRELS   78 (154)
T ss_pred             CCCCcchhhhcchhhcCCCcchhhhhhccCCCCCccceeccccchhhhchhh--hcccccccccccCcccCCcCCccccc
Confidence            5899999999999999999999999999999999999999999999999999  6666654432 22356789999984 


Q ss_pred             ---CC------------CCCccccCCCccccCcceeeEEEeeccccccccceeEEEEEEEecceeeeeeeeccCCCC
Q 039064           83 ---PS------------SPGLQIGNFPAEITSEATFRCVKVSSIDDAIDRTTLAYKTSISVGGHIFKGILYYQGCES  144 (224)
Q Consensus        83 ---~s------------ssg~~~~~fP~eV~s~AvFRCVRVssidd~e~e~~~AYQt~V~IgGHVFKGiLYDqG~e~  144 (224)
                         .+            ..+++.++||+|||||||||||||++|||+|||  |||||+|+||||||||||||||||+
T Consensus        79 ~~~~~~~~~t~~~~~~~~~~~~~~~fP~eV~spAvFRCVRVssiDdgedE--~AYQTaV~IGGHVFKGiLYDqG~~~  153 (154)
T PF05142_consen   79 NSTQSSTSCTSTSNGTSPSSLETGSFPAEVSSPAVFRCVRVSSIDDGEDE--YAYQTAVNIGGHVFKGILYDQGPES  153 (154)
T ss_pred             ccCCCCccccccCCCcccccchhccCChhhcccceEEEEEEecccCcccc--eeeEEeEEECCEEeeeeeeccCCCC
Confidence               00            025677899999999999999999999999999  9999999999999999999999995

>TIGR01624 LRP1_Cterm LRP1 C-terminal domain

Probab=100.00  E-value=4.1e-35  Score=206.31  Aligned_cols=49  Identities=45%  Similarity=0.958  Sum_probs=47.5

Q ss_pred             CCCccccCcceeeEEEeeccccccc-cceeEEEEEEEecceeeeeeeeccCC
Q 039064           92 NFPAEITSEATFRCVKVSSIDDAID-RTTLAYKTSISVGGHIFKGILYYQGC  142 (224)
Q Consensus        92 ~fP~eV~s~AvFRCVRVssidd~e~-e~~~AYQt~V~IgGHVFKGiLYDqG~  142 (224)
                      +||+|||||||||||||++|||+|+ |  |||||+|+|||||||||||||||
T Consensus         1 ~fP~ev~s~AvFrcvRvs~idd~~~~e--~aYQt~V~IgGHvFkGiLyDqG~   50 (50)
T TIGR01624         1 GFPGEVSAPAVFKCVRVTAIDDGEQAE--YAYQATVTIGGHVFKGFLHDQGL   50 (50)
T ss_pred             CCccccccceEEEEEEEeccCCCCCce--EEEEEEEEECceEEeeEEeccCC
Confidence            5999999999999999999999998 7  99999999999999999999997

This model represents a tightly conserved small domain found in LRP1 and related plant proteins. This family also contains a well-conserved putative zinc finger domain (TIGR01623). The rest of the sequence of most members consists of highly divergent, low-complexity sequence.

>TIGR01623 put_zinc_LRP1 putative zinc finger domain, LRP1 type

Probab=99.97  E-value=3e-32  Score=187.02  Aligned_cols=43  Identities=74%  Similarity=1.511  Sum_probs=42.1

Q ss_pred             ccccccchhhhcCCCcccccccccCCcccccccccceeccchh
Q 039064           10 RCQDCGNQAKKNCAYMRCRTCCKRRGYECETHIKSTWIPAYRR   52 (224)
Q Consensus        10 ~CQDCGNQAKKdC~h~RCRTCCKsRGf~C~THVKSTWVPAarR   52 (224)
                      +||||||||||+|.|+|||||||+|||||+||||||||||+||
T Consensus         1 ~C~~CgNpa~k~C~~~~CRtCCK~r~~DC~tHv~stw~p~~~r   43 (43)
T TIGR01623         1 VCQDCGNQAKKECLFERCRTCCKSRGFHCVTHVKSTWIPAARR   43 (43)
T ss_pred             ChhhccchhhCCCchhhhhHHhcccCcCCcchhcccccccccC
Confidence            5999999999999999999999999999999999999999987

This model represents a putative zinc finger domain found in plants. Arabidopsis thaliana has at least 10 distinct members. Proteins containing this domain, including LRP1, generally share the same size, about 300 amino acids, and architecture. This 43-residue domain, and a more C-terminal companion domain of similar size, appear as tightly conserved islands of sequence similarity. The remainder consists largely of low-complexity sequence. Several animal proteins have regions with matching patterns of Cys, Gly, and His residues. These are not included in the model but score between trusted and noise cutoffs.

>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2

Probab=80.04  E-value=0.54  Score=30.72  Aligned_cols=20  Identities=45%  Similarity=1.064  Sum_probs=14.0

Q ss_pred             ccccccc----hhhhcCCCcccccc
Q 039064           10 RCQDCGN----QAKKNCAYMRCRTC   30 (224)
Q Consensus        10 ~CQDCGN----QAKKdC~h~RCRTC   30 (224)
                      -|.+|||    +..++-.. +||+|
T Consensus         3 FCp~C~nlL~p~~~~~~~~-~C~~C   26 (35)
T PF02150_consen    3 FCPECGNLLYPKEDKEKRV-ACRTC   26 (35)
T ss_dssp             BETTTTSBEEEEEETTTTE-EESSS
T ss_pred             eCCCCCccceEcCCCccCc-CCCCC
Confidence            5999999    33444444 69999

7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....

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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

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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

ID	Length	Definition	Probability
Query	224
d1sisa_	35	Toxin I5a {Scorpion (Buthus eupeus) [TaxId: 34648]	82.98

>d1sisa_ g.3.7.2 (A:) Toxin I5a {Scorpion (Buthus eupeus) [TaxId: 34648]}

class: Small proteins
fold: Knottins (small inhibitors, toxins, lectins)
superfamily: Scorpion toxin-like
family: Short-chain scorpion toxins
domain: Toxin I5a
species: Scorpion (Buthus eupeus) [TaxId: 34648]

Probab=82.98  E-value=0.076  Score=33.24  Aligned_cols=13  Identities=46%  Similarity=1.485  Sum_probs=10.6

Q ss_pred             cccccccccCCccc
Q 039064           25 MRCRTCCKRRGYEC   38 (224)
Q Consensus        25 ~RCRTCCKsRGf~C   38 (224)
                      ++||+||+.+| .|
T Consensus        14 ~kcr~ccgg~g-kc   26 (35)
T d1sisa_          14 KKCRDCCGGNG-KC   26 (35)
T ss_dssp             HHHHHHTTTCE-EE
T ss_pred             HHHHHHhCCCc-cc
Confidence            35999999998 44