Citrus Sinensis ID: 004490

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------75

MVMDQRLSGFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQALPPNPVADSPNSSSVVTQERDSSEDYDFSDVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLGEKYPPQPSYVNKKFVDHDHESPDGTHDSSNSYCNTSTISAESDNLVDHGWNSDLSECKFSNFSSQSTPQSSYGSSSSNSNVVDGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFLPNGNALFVDLKNNVSVVKELKEEPKSVLVRMGKKPENENSPEGSRGKKNPHPEEVSLERGRSNKQSAVSTESTVSEEMFDMILLNCGQSESVLREALQNETSKNVRQNKQSRGSKGGKARGRKQGGNRDVVDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPSF

cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccccccEEccccccccccccccccccHHHHcccccccccccccccccccccccccHHHHHccccccccccccccHHHHHHHHHHccccccHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHcccccccEEEEEEccccccccccHHHHHHHHHHHHHHHHHccccEEEEEEcccccccccccccccccccEEEEEEcccccccccccccccHHHHHHHHHHHHcccEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccEEEEcccEEEEEEcccEEEEEEEEcccc

cccccccccccccccccEcccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcHHcccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcHHHHHHHccccccEEEEccccccccccccccccEEEEEEEEcccccccccccccccccccccccHHccccccccEEEcccccHHHHHHHHHcccccccHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccccHHHHHcccccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHccccEEEEEEcccccccHHHHHHHHHHcccccccEEEEEcccccccccccHHHHHHHHHHHHHHHHHccccEEEHHHHcccccccHHHcccccccEEEEEHHHHHccccccccccccHHHHHHHHHHHccccEEEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHEccccHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHccccEEEccccEEEEcccccEEEEEEcccccc

mvmdqrlsgfygsvnqyklndetfsvlsdqnlvigfktndtlvsqsyldiqalppnpvadspnsssvvtqerdssedydfSDVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLgekyppqpsyvnkkfvdhdhespdgthdssnsycntstisaesdnlvdhgwnsdlseckfsnfssqstpqssygssssnsnvvdgfidspvsslkipeifrDSESALQFKRGFEEaskflpngnalfvdLKNNVSVVKELKEEPKSVLVRMgkkpenenspegsrgkknphpeevslergrsnkqsavstestVSEEMFDMILLNCGQSESVLREALQNEtsknvrqnkqsrgskggkargrkqggnrdvVDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAacpfrklsnffsNKTIMNLAEKATRLHIIDFgimygfqwpcliqrlssrpggapklritgidlpqpgfkpaeRVEETGRRLAKYAEtfkvpfefnAIAQKWDTIqiedlnidsgEVLVVNCLYRFRnlldetvvvdcprNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMletnvpreiperMLIEREIFGREAMNVIACEgaerierpetykQWQVRNmragftqlplNEEIMKMAKERVdtnyhkdfvidedSQWLLQGWKGRIVYALSTWKPSF

MVMDQRLSGFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQALppnpvadspnsssvvtqerdssedydfsdVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLGEKYPPQPSYVNKKFVDHDHESpdgthdssnSYCNTSTISAESDNLVDHGWNSDLSECKFSNFSSQSTPQSSYGSSSSNSNVVDGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFLPNGNALFVDLKNNVSvvkelkeepksvlvrmgkkpenenspegsrgkknphpeevslergrsnkqsavsTESTVSEEMFDMILLNCGQSESVLREALqnetsknvrqnkqsrgskggkargrkqggnrdvvDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRitgidlpqpgfkpAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFrnlldetvvvdCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLetnvpreipERMLIEREIFGREAMNVIACEgaerierpetykqwqvrnmragftqlplnEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPSF

MVMDQRLSGFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQALPPNPVADSPNSSSVVTQERDSSEDYDFSDVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLGEKYPPQPSYVNKKFVDHDHESPDGTHDSSNSYCNTSTISAESDNLVDHGWNSDLSECKFsnfssqstpqssygssssnsnVVDGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFLPNGNALFVDLKNNVSVVKELKEEPKSVLVRMGKKPENENSPEGSRGKKNPHPEEVSLERGRSNKQSAvstestvseeMFDMILLNCGQSESVLREALQNETSKNVRQNkqsrgskggkargrkqggnrDVVDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPSF

********GFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQ***************************DFSDVVLKYINEMLM****************************************************************************************************************************IPEIF******LQFKRGFEEASKFLPNGNALFVDLKNNVSVV*************************************************************FDMILLNCG*****************************************DVVDLRTLLTLCAQAVAANDRRNAYELLKQ***************AECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLS********LRITGID***************GRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTW****

********GFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYL*********************************DVVLKYINEMLMEEDMEEKTCMFQESSAALQAAE*********************************************************WNSDL***********************************V***K***********L***RGFEEASKFLPNGNA********************************************************************VSEEMFDMILLNCG***********************************************TLLTLCAQAVAANDRRNAYELLKQIRQH*******MQRMAECFADGLEARLAGSGTQ***********AADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSS*PGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPSF

MVMDQRLSGFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQALPPNP*******************DYDFSDVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLGEKYPPQPSYVNKKFVDHD************SYCNTSTISAESDNLVDHGWNSDLSECKFS******************SNVVDGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFLPNGNALFVDLKNNVSVVKELKEEPKSVLVRMG*****************************************VSEEMFDMILLNCGQSESVLREALQ****************************NRDVVDLRTLLTLCAQAVAANDRRNAYELLKQIR********GMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPSF

****QRLSGFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQALPP**********************YDFSDVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLGEKYPP*********************************************NSDLSECKFSNFSS**TP**S**SSSSNSNVVDGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFLPNGNALFVDLKNNVSVVKEL*EEPKSVLVRMGKKP********************S***GRSNKQSAVSTESTVSEEMFDMILLNCGQSESVLREALQ******************************DVVDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPSF

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no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Alignment graph	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query		749	2.2.26 [Sep-21-2011]
Q9XE58		769	Scarecrow-like protein 14	yes	no	0.867	0.845	0.522	0.0
O80933		718	Scarecrow-like protein 9	no	no	0.930	0.970	0.476	0.0
P0C883		694	Scarecrow-like protein 33	no	no	0.886	0.956	0.487	1e-177
P0C884		630	Scarecrow-like protein 34	no	no	0.781	0.928	0.445	1e-144
Q3EDH0		695	Scarecrow-like protein 31	no	no	0.827	0.892	0.428	1e-142
Q9LTI5		610	Scarecrow-like protein 11	no	no	0.611	0.750	0.507	1e-138
Q9SNB8		583	Scarecrow-like protein 30	no	no	0.580	0.746	0.52	1e-132
Q9LDL7		490	Scarecrow-like transcript	no	no	0.496	0.759	0.336	4e-61
Q8H125		597	Scarecrow-like protein 5	no	no	0.496	0.623	0.348	7e-61
Q8GVE1		544	Chitin-inducible gibberel	no	no	0.493	0.680	0.340	8e-60

>sp\|Q9XE58\|SCL14_ARATH Scarecrow-like protein 14 OS=Arabidopsis thaliana GN=SCL14 PE=2 SV=2	Back alignment and function desciption

 Score =  649 bits (1674), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 364/697 (52%), Positives = 470/697 (67%), Gaps = 47/697 (6%)

Query: 84  VLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELLGEKYPPQPSYVNKKFVDHDH- 142
           VLKYI+++LMEEDMEEK CMF ++  ALQAAEKSLYE LGEKYP   S  +   VDH   
Sbjct: 86  VLKYISQVLMEEDMEEKPCMFHDA-LALQAAEKSLYEALGEKYP---SSSSASSVDHPER 141

Query: 143 ---ESPDGTHDS---SNSYCNTSTISAESDNLVDHGWN--SDLSECKFSNFSSQSTPQS- 193
              +SPDG+      S+    T+T S++S   VD   N  S L     SNF  QST +S 
Sbjct: 142 LASDSPDGSCSGGAFSDYASTTTTTSSDSHWSVDGLENRPSWLHTPMPSNFVFQSTSRSN 201

Query: 194 --SYGSSSSNSNVV-DGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFLPNGNALFV 250
             + G    NS V   GF D  VS++     F+D E A+QFK+G EEASKFLP  + LF+
Sbjct: 202 SVTGGGGGGNSAVYGSGFGDDLVSNM-----FKDDELAMQFKKGVEEASKFLPKSSQLFI 256

Query: 251 DLKNNVSVVKELKEEPKSVLVRMGKKPENEN------SPEGSR--GKKNP-HPEEVSLER 301
           D+ + + +    KE    V V+  KK E E+      +P  +R  GKK+    E+     
Sbjct: 257 DVDSYIPMNSGSKENGSEVFVKTEKKDETEHHHHHSYAPPPNRLTGKKSHWRDEDEDFVE 316

Query: 302 GRSNKQSAVSTESTVSEEMFDMILLNCGQSESV--LREALQNETSKNVRQNKQSRGSKGG 359
            RSNKQSAV  E +   EMFD IL+ CG  + V  L +    E++K V     +  S G 
Sbjct: 317 ERSNKQSAVYVEESELSEMFDKILV-CGPGKPVCILNQNFPTESAKVV-----TAQSNGA 370

Query: 360 KARGRKQGGN-------RDVVDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGM 412
           K RG+K           ++  DLRTLL LCAQAV+ +DRR A E+L+QIR+HSS  G+G 
Sbjct: 371 KIRGKKSTSTSHSNDSKKETADLRTLLVLCAQAVSVDDRRTANEMLRQIREHSSPLGNGS 430

Query: 413 QRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKT 472
           +R+A  FA+ LEARLAG+GTQIYTAL SK TSAAD+LKAY  +++ CPF+K +  F+N +
Sbjct: 431 ERLAHYFANSLEARLAGTGTQIYTALSSKKTSAADMLKAYQTYMSVCPFKKAAIIFANHS 490

Query: 473 IMNLAEKATRLHIIDFGIMYGFQWPCLIQRLS-SRPGGAPKLRITGIDLPQPGFKPAERV 531
           +M     A  +HIIDFGI YGFQWP LI RLS SRPGG+PKLRITGI+LPQ GF+PAE V
Sbjct: 491 MMRFTANANTIHIIDFGISYGFQWPALIHRLSLSRPGGSPKLRITGIELPQRGFRPAEGV 550

Query: 532 EETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVV 591
           +ETG RLA+Y +   VPFE+NAIAQKW+TIQ+EDL +  GE +VVN L+RFRNLLDETV+
Sbjct: 551 QETGHRLARYCQRHNVPFEYNAIAQKWETIQVEDLKLRQGEYVVVNSLFRFRNLLDETVL 610

Query: 592 VDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREI 651
           V+ PR+ VL LIRK+NP+VF+  I++G ++APFF+TRFREALF YS +FDM ++ + RE 
Sbjct: 611 VNSPRDAVLKLIRKINPNVFIPAILSGNYNAPFFVTRFREALFHYSAVFDMCDSKLARED 670

Query: 652 PERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKE 711
             R++ E+E +GRE +NV+ACEG ER+ERPETYKQWQ R +RAGF QLPL +E+M+  K 
Sbjct: 671 EMRLMYEKEFYGREIVNVVACEGTERVERPETYKQWQARLIRAGFRQLPLEKELMQNLKL 730

Query: 712 RVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKPS 748
           +++  Y K+F +D++  WLLQGWKGRIVYA S W PS
Sbjct: 731 KIENGYDKNFDVDQNGNWLLQGWKGRIVYASSLWVPS 767

Probable transcription factor involved in plant development.
Arabidopsis thaliana (taxid: 3702)

>sp\|O80933\|SCL9_ARATH Scarecrow-like protein 9 OS=Arabidopsis thaliana GN=SCL9 PE=2 SV=1	Back alignment and function description

>sp\|P0C883\|SCL33_ARATH Scarecrow-like protein 33 OS=Arabidopsis thaliana GN=SCL33 PE=3 SV=1	Back alignment and function description

>sp\|P0C884\|SCL34_ARATH Scarecrow-like protein 34 OS=Arabidopsis thaliana GN=SCL34 PE=3 SV=1	Back alignment and function description

>sp\|Q3EDH0\|SCL31_ARATH Scarecrow-like protein 31 OS=Arabidopsis thaliana GN=SCL31 PE=2 SV=3	Back alignment and function description

>sp\|Q9LTI5\|SCL11_ARATH Scarecrow-like protein 11 OS=Arabidopsis thaliana GN=SCL11 PE=2 SV=1	Back alignment and function description

>sp\|Q9SNB8\|SCL30_ARATH Scarecrow-like protein 30 OS=Arabidopsis thaliana GN=SCL30 PE=2 SV=1	Back alignment and function description

>sp\|Q9LDL7\|PAT1_ARATH Scarecrow-like transcription factor PAT1 OS=Arabidopsis thaliana GN=PAT1 PE=2 SV=1	Back alignment and function description

>sp\|Q8H125\|SCL5_ARATH Scarecrow-like protein 5 OS=Arabidopsis thaliana GN=SCL5 PE=2 SV=1	Back alignment and function description

>sp\|Q8GVE1\|CIGR2_ORYSJ Chitin-inducible gibberellin-responsive protein 2 OS=Oryza sativa subsp. japonica GN=CIGR2 PE=2 SV=1	Back alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Alignment Graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		749
224098441		740	GRAS family transcription factor [Populu	0.985	0.997	0.704	0.0
255581525		741	conserved hypothetical protein [Ricinus	0.986	0.997	0.702	0.0
225440386		743	PREDICTED: scarecrow-like protein 9 [Vit	0.982	0.990	0.622	0.0
359486620		746	PREDICTED: scarecrow-like protein 14-lik	0.983	0.987	0.628	0.0
147840506		746	hypothetical protein VITISV_042227 [Viti	0.983	0.987	0.624	0.0
224112737		640	GRAS family transcription factor [Populu	0.851	0.996	0.672	0.0
359486622		737	PREDICTED: scarecrow-like protein 14-lik	0.978	0.994	0.598	0.0
225449473		738	PREDICTED: scarecrow-like protein 14-lik	0.979	0.994	0.586	0.0
224087429		749	GRAS family transcription factor [Populu	0.981	0.981	0.574	0.0
147784278		718	hypothetical protein VITISV_021863 [Viti	0.929	0.969	0.555	0.0

>gi\|224098441\|ref\|XP_002311175.1\| GRAS family transcription factor [Populus trichocarpa] gi\|222850995\|gb\|EEE88542.1\| GRAS family transcription factor [Populus trichocarpa]	Back alignment and taxonomy information

 Score = 1036 bits (2680), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 525/745 (70%), Positives = 610/745 (81%), Gaps = 7/745 (0%)

Query: 3   MDQRLSGFYGSVNQYKLNDETFSVLSDQNLVIGFKTNDTLVSQSYLDIQALPPNPVADSP 62
           MDQ L G YGSVN  KL++ET S  S Q+LV  FK ++  V+Q+Y++   +PP+    + 
Sbjct: 1   MDQSLRGLYGSVNGLKLSNETQSASSVQDLVNAFKLDNNCVNQNYVNSTRVPPDSTLSNS 60

Query: 63  NSSSVVTQERDSSEDYDFSDVVLKYINEMLMEEDMEEKTCMFQESSAALQAAEKSLYELL 122
             S+ ++QE DS ED+DFSDVVLKYI++MLMEE+MEEKTCMFQESSAAL AAEKSLYEL+
Sbjct: 61  VLSASMSQEGDSHEDFDFSDVVLKYISKMLMEEEMEEKTCMFQESSAALLAAEKSLYELI 120

Query: 123 GEKYPPQPSYVNKKFVDHDHESPDGTHDSSNSYCNTSTISAESDNLVDHGWNSDLSECKF 182
           GEK+P  P     +F+D +HE PD  HD + S C +ST S+   +L+DHG   DL E K 
Sbjct: 121 GEKHPSAPDDP-VQFLDQNHERPDENHDLNCSNCTSSTSSSSGSSLLDHGSTCDLGEYK- 178

Query: 183 SNFSSQSTPQSSYGSSSSNSNVVDGFIDSPVSSLKIPEIFRDSESALQFKRGFEEASKFL 242
              SS+   QSSY S  ++S  VDGF+DSPV    + EIF +SES +QFK+GFEEASKF+
Sbjct: 179 ---SSRHASQSSY-SPGNSSVTVDGFVDSPVGPNMVAEIFGESESVMQFKKGFEEASKFI 234

Query: 243 PNGNALFVDLKNNVSVVKELKEEPKSVLVRMGKKPENENSPEGSRGKKNPHPEEVSLERG 302
           PNGN L +DL++    +K+LKE+ K VL   G+K EN+N  +GSRGKKNPHPEE +LE G
Sbjct: 235 PNGN-LLIDLESKGLFLKDLKEDVKDVLATAGEKRENDNYADGSRGKKNPHPEESALEGG 293

Query: 303 RSNKQSAVSTESTVSEEMFDMILLNCGQSESVLREALQNETSKNVRQNKQSRGSKGGKAR 362
           RSNKQSAV +EST S   FDM+LLNCG+ +S L+ AL N  SK+V+QN Q+RGS GGKAR
Sbjct: 294 RSNKQSAVYSESTASPADFDMVLLNCGKDDSALQAALHNGESKSVQQNGQARGSSGGKAR 353

Query: 363 GRKQGGNRDVVDLRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADG 422
           G++QGG RDVVDLRTLLTLCAQAVAA+DRR+A +LLKQIRQ++ STGD MQR+A  FADG
Sbjct: 354 GKRQGGKRDVVDLRTLLTLCAQAVAADDRRSANDLLKQIRQNAPSTGDAMQRLANIFADG 413

Query: 423 LEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATR 482
           LEARLAGSGTQIY ALISK TSAADVLKAYH+FLAACPFRKLSNFFSNKTIMN+AE A+R
Sbjct: 414 LEARLAGSGTQIYRALISKPTSAADVLKAYHMFLAACPFRKLSNFFSNKTIMNIAENASR 473

Query: 483 LHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYA 542
           +HI+DFGIMYGFQWPCLIQRLSSRPGG P LRITGIDLP PGF+PAERVEETGRRLA YA
Sbjct: 474 VHIVDFGIMYGFQWPCLIQRLSSRPGGPPHLRITGIDLPNPGFRPAERVEETGRRLANYA 533

Query: 543 ETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNL 602
            TFKVPF+FNAIAQKW+TI+IEDL ID  EVLVVN  YR RNLLDETVVV+ PRNIVLNL
Sbjct: 534 NTFKVPFKFNAIAQKWETIKIEDLKIDRNEVLVVNSGYRLRNLLDETVVVESPRNIVLNL 593

Query: 603 IRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIF 662
           IR MNPDVF+ G+VNGA++APFFITRFREALF +STLFD+LE NV RE+PERMLIEREIF
Sbjct: 594 IRNMNPDVFIQGVVNGAYNAPFFITRFREALFHFSTLFDVLEANVSREVPERMLIEREIF 653

Query: 663 GREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFV 722
           G EAMNVIACEGAERIERPETYKQWQ+R +RAGF QLPLN EI   AKERV+  YHKDFV
Sbjct: 654 GWEAMNVIACEGAERIERPETYKQWQMRVLRAGFRQLPLNREIFTTAKERVEALYHKDFV 713

Query: 723 IDEDSQWLLQGWKGRIVYALSTWKP 747
           IDEDSQWLLQGWKGRIVYALS+WKP
Sbjct: 714 IDEDSQWLLQGWKGRIVYALSSWKP 738

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255581525\|ref\|XP_002531568.1\| conserved hypothetical protein [Ricinus communis] gi\|223528798\|gb\|EEF30804.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi\|225440386\|ref\|XP_002267055.1\| PREDICTED: scarecrow-like protein 9 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|359486620\|ref\|XP_002278317.2\| PREDICTED: scarecrow-like protein 14-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|147840506\|emb\|CAN68327.1\| hypothetical protein VITISV_042227 [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224112737\|ref\|XP_002316278.1\| GRAS family transcription factor [Populus trichocarpa] gi\|222865318\|gb\|EEF02449.1\| GRAS family transcription factor [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|359486622\|ref\|XP_002278420.2\| PREDICTED: scarecrow-like protein 14-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|225449473\|ref\|XP_002278402.1\| PREDICTED: scarecrow-like protein 14-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|224087429\|ref\|XP_002308163.1\| GRAS family transcription factor [Populus trichocarpa] gi\|222854139\|gb\|EEE91686.1\| GRAS family transcription factor [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|147784278\|emb\|CAN72737.1\| hypothetical protein VITISV_021863 [Vitis vinifera]	Back alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Alignment graph	Length	Definition	Q cover	H cover	Identity	E-value
Query		749
TAIR\|locus:2040701		718	AT2G37650 [Arabidopsis thalian	0.674	0.703	0.533	5.9e-161
TAIR\|locus:2025022		769	SCL14 "SCARECROW-like 14" [Ara	0.715	0.697	0.526	7.9e-149
TAIR\|locus:2148293		610	AT5G59450 [Arabidopsis thalian	0.618	0.759	0.495	1.4e-129
TAIR\|locus:2075155		583	AT3G46600 [Arabidopsis thalian	0.606	0.778	0.493	2.4e-125
TAIR\|locus:2025032		695	AT1G07520 "AT1G07520" [Arabido	0.600	0.647	0.5	4e-123
TAIR\|locus:2164783		490	PAT1 "AT5G48150" [Arabidopsis	0.495	0.757	0.346	1.9e-58
TAIR\|locus:2008076		597	SCL5 "AT1G50600" [Arabidopsis	0.495	0.621	0.352	6.1e-58
TAIR\|locus:2044973		413	SCL21 "AT2G04890" [Arabidopsis	0.485	0.881	0.344	1.8e-55
TAIR\|locus:2026982		593	SCL1 "AT1G21450" [Arabidopsis	0.493	0.623	0.325	3.1e-51
TAIR\|locus:2174974		584	AT5G66770 "AT5G66770" [Arabido	0.473	0.607	0.334	1.2e-47

TAIR\|locus:2040701 AT2G37650 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1355 (482.0 bits), Expect = 5.9e-161, Sum P(2) = 5.9e-161
 Identities = 281/527 (53%), Positives = 358/527 (67%)

Query:   234 GFEEASKF-LPNGNALFVDLKNNVSVVKELKEEPKSVLVRMGKKPENENSPEGSRGKKNP 292
             G +E+SK    N  ++++  +  +        E   ++V        EN    S+ +KN 
Sbjct:   197 GIDESSKNNRENHQSVWL-FRREIEEANRFNPEENELIVNF----REENCV--SKARKNS 249

Query:   293 HPEEVSLERGRSNKQSAXXXXXXXXXXMFDMILLNCGQSESV-----LREALQNETSKNV 347
               +E+ +E  RS+K  A          + D IL++    ES+     LR+ L+    K  
Sbjct:   250 SRDEICVEEERSSKLPAVFGEDILRSDVVDKILVHVPGGESMKEFNALRDVLKKGVEKKK 309

Query:   348 -------RQNXXXXXXXXXXXXXXXXXXXXDVVDLRTLLTLCAQAVAANDRRNAYELLKQ 400
                    ++                     +VVDLR+LL  CAQAVAA+DRR A +LLKQ
Sbjct:   310 ASDAQGGKRRARGRGRGRGRGGGGGQNGKKEVVDLRSLLIHCAQAVAADDRRCAGQLLKQ 369

Query:   401 IRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACP 460
             IR HS+  GDG QR+A CFA+GLEARLAG+G+QIY  ++SK  SAA VLKA+ LFLA CP
Sbjct:   370 IRLHSTPFGDGNQRLAHCFANGLEARLAGTGSQIYKGIVSKPRSAAAVLKAHQLFLACCP 429

Query:   461 FRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDL 520
             FRKLS F +NKTI +L   + R+H+IDFGI+YGFQWP LI R S    G+PK+RITGI+ 
Sbjct:   430 FRKLSYFITNKTIRDLVGNSQRVHVIDFGILYGFQWPTLIHRFSMY--GSPKVRITGIEF 487

Query:   521 PQPGFKPAERVEETGRRLAKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVLVVNCLY 580
             PQPGF+PA+RVEETG+RLA YA+ F VPFE+ AIA+KWD IQ+EDL+ID  E+ VVNCLY
Sbjct:   488 PQPGFRPAQRVEETGQRLAAYAKLFGVPFEYKAIAKKWDAIQLEDLDIDRDEITVVNCLY 547

Query:   581 RFRNLLDETVVVDCPRNIVLNLIRKMNPDVFVLGIVNGAHSAPFFITRFREALFFYSTLF 640
             R  NL DE+V V+  R+ VLNLI K+NPD+FV GIVNGA++APFF+TRFREALF +S++F
Sbjct:   548 RAENLHDESVKVESCRDTVLNLIGKINPDLFVFGIVNGAYNAPFFVTRFREALFHFSSIF 607

Query:   641 DMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLP 700
             DMLET VPRE  ERM +E E+FGREA+NVIACEG ER+ERPETYKQW VR MR+G  Q+P
Sbjct:   608 DMLETIVPREDEERMFLEMEVFGREALNVIACEGWERVERPETYKQWHVRAMRSGLVQVP 667

Query:   701 LNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWKP 747
              +  IMK +  +V T YHKDFVID+D++WLLQGWKGR V ALS WKP
Sbjct:   668 FDPSIMKTSLHKVHTFYHKDFVIDQDNRWLLQGWKGRTVMALSVWKP 714

GO:0005634 "nucleus" evidence=ISM

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=TAS

TAIR\|locus:2025022 SCL14 "SCARECROW-like 14" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2148293 AT5G59450 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2075155 AT3G46600 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2025032 AT1G07520 "AT1G07520" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2164783 PAT1 "AT5G48150" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2008076 SCL5 "AT1G50600" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2044973 SCL21 "AT2G04890" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2026982 SCL1 "AT1G21450" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2174974 AT5G66770 "AT5G66770" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9XE58	SCL14_ARATH	No assigned EC number	0.5222	0.8678	0.8452	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

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:
	GSVIVG00021332001	SubName- Full=Chromosome chr8 scaffold_23, whole genome shotgun sequence; (743 aa)
		(Vitis vinifera)
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	Alignment Graph	Length	Definition	E-value
Query		749
pfam03514		372	pfam03514, GRAS, GRAS family transcription factor	1e-154

>gnl\|CDD\|217595 pfam03514, GRAS, GRAS family transcription factor	Back alignment and domain information

 Score =  453 bits (1167), Expect = e-154
 Identities = 170/376 (45%), Positives = 238/376 (63%), Gaps = 8/376 (2%)

Query: 375 LRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQI 434
           L  LL  CA+AV++ D   A  +L ++ Q +S  GD MQR+A  F + L ARLA SG+ I
Sbjct: 1   LVHLLLACAEAVSSGDLSLAQAILARLNQLASPAGDPMQRLAAYFTEALAARLARSGSSI 60

Query: 435 YTALISKHTS---AADVLKAYHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIM 491
           Y+AL    ++   + +VL AY LF    P+ K  +F +N+ I+   E   R+HIIDF I 
Sbjct: 61  YSALPPSPSTPSDSVEVLAAYKLFYEVSPYLKFGHFTANQAILEAFEGEERVHIIDFDIG 120

Query: 492 YGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPFEF 551
            G QWP LIQ L+SRPGG P LRITGI  PQ  F  AE +EETG RLA++A++  VPFEF
Sbjct: 121 QGLQWPSLIQALASRPGGPPHLRITGIGSPQ--FSSAEELEETGDRLAQFADSLGVPFEF 178

Query: 552 NA-IAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDV 610
           N  +A++ + + +E L++  GE L VNC++    LLDE+V ++ P    L L++ +NP V
Sbjct: 179 NPLVAKRLEDLDLEMLDVRPGEALAVNCVFALHRLLDESVSLESPT--FLRLVKSLNPKV 236

Query: 611 FVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVI 670
             L      H++  F+ RF EAL +YS LFD LE  +PR+  ER  +ERE+ GRE +NV+
Sbjct: 237 VTLVEQEANHNSAPFLARFVEALHYYSALFDSLEATLPRDSEERRKVERELLGREIVNVV 296

Query: 671 ACEGAERIERPETYKQWQVRNMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWL 730
           ACEGAER+ER ET+ +W+ R  RAGF  +PL+E  +K AK  +   Y   + ++ED+  L
Sbjct: 297 ACEGAERVERHETFGKWRERMRRAGFRPVPLSEFAVKQAKLLLRLYYVDGYRVEEDNGSL 356

Query: 731 LQGWKGRIVYALSTWK 746
           + GWKGR + A S W+
Sbjct: 357 VLGWKGRPLVAASAWR 372

Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable amino-terminus and a highly conserved carboxyl-terminus that contains five recognisable motifs. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction. Length = 372

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		749
PF03514		374	GRAS: GRAS domain family; InterPro: IPR005202 Sequ	100.0
PRK15451		247	tRNA cmo(5)U34 methyltransferase; Provisional	97.01
TIGR02752		231	MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone me	96.09
TIGR00740		239	methyltransferase, putative. A simple BLAST search	95.57
PLN02233		261	ubiquinone biosynthesis methyltransferase	94.82
PRK14103		255	trans-aconitate 2-methyltransferase; Provisional	94.38
TIGR02716		306	C20_methyl_CrtF C-20 methyltransferase BchU. Membe	93.48
PF13489		161	Methyltransf_23: Methyltransferase domain; PDB: 3J	93.43
PRK06202		232	hypothetical protein; Provisional	92.49
TIGR01934		223	MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis	92.11
PF13847		152	Methyltransf_31: Methyltransferase domain; PDB: 3T	91.45
COG2226		238	UbiE Methylase involved in ubiquinone/menaquinone	90.32
PRK08317		241	hypothetical protein; Provisional	89.13
PF01209		233	Ubie_methyltran: ubiE/COQ5 methyltransferase famil	89.07
PRK00216		239	ubiE ubiquinone/menaquinone biosynthesis methyltra	88.64
PF13649		101	Methyltransf_25: Methyltransferase domain; PDB: 3B	88.51
PLN02396		322	hexaprenyldihydroxybenzoate methyltransferase	88.0
PRK01683		258	trans-aconitate 2-methyltransferase; Provisional	86.03
PLN02585		315	magnesium protoporphyrin IX methyltransferase	86.02
PTZ00098		263	phosphoethanolamine N-methyltransferase; Provision	85.58
TIGR00477		195	tehB tellurite resistance protein TehB. Part of a	84.64
PF09243		274	Rsm22: Mitochondrial small ribosomal subunit Rsm22	84.06
PRK05785		226	hypothetical protein; Provisional	82.76
PRK12335		287	tellurite resistance protein TehB; Provisional	81.7
PF12847		112	Methyltransf_18: Methyltransferase domain; PDB: 3G	81.54
smart00138		264	MeTrc Methyltransferase, chemotaxis proteins. Meth	81.32
PLN02336		475	phosphoethanolamine N-methyltransferase	81.2
PF08241		95	Methyltransf_11: Methyltransferase domain; InterPr	80.92
TIGR03438		301	probable methyltransferase. This model represents	80.18

>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []	Back alignment and domain information

Probab=100.00  E-value=5.7e-111  Score=916.32  Aligned_cols=370  Identities=47%  Similarity=0.823  Sum_probs=357.8

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhhccCCCCChhhHHHHHHHHHHHHHhcCCCCCcccccccCCCC---HHHHHHH
Q 004490          375 LRTLLTLCAQAVAANDRRNAYELLKQIRQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTS---AADVLKA  451 (749)
Q Consensus       375 L~~LLl~CAqAVa~gd~~~A~~lL~~Irq~sSp~GD~~QRLA~yFaeAL~aRL~gtg~~~y~~l~s~~~s---~~e~lkA  451 (749)
                      |++||++||+||+.||...|+.+|++|++++||+||++||||+||++||.+||.+++++.|..+.....+   ..+++.|
T Consensus         1 L~~lLl~cA~Av~~~~~~~A~~lL~~l~~~as~~g~~~qRla~yF~eAL~~Rl~~~~~~~~~~~~~~~~~~~~~~~~~~a   80 (374)
T PF03514_consen    1 LVQLLLACAEAVAAGDFARAQELLARLRQLASPTGDPMQRLAAYFAEALAARLSGSGPGLYSALPPSSPSPSESSEQLAA   80 (374)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHhhHHHHHhccCcccccCCCCccccccchHHHHHH
Confidence            6899999999999999999999999999999999999999999999999999999999999887554443   6789999


Q ss_pred             HHHHhhhCCccchhhHhHhHHHHHhhhcCCeeEEEEeccccccchHHHHHHHhcCCCCCCeEEEeeecCCCCCCCChHHH
Q 004490          452 YHLFLAACPFRKLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERV  531 (749)
Q Consensus       452 y~~f~~~~Pf~kfa~ftANqaILeA~~g~~~VHIIDfgI~~G~QWP~Liq~LA~R~gGPP~LRITgI~~p~~gfrpae~l  531 (749)
                      |++|+++|||.||||||||||||||++|+++||||||||++|+|||+|||+||.|++|||+||||||+.|.++  +...+
T Consensus        81 ~~~~~~~~P~~~fa~~taNqaIleA~~g~~~vHIID~~i~~G~QW~~LiqaLa~R~~gpp~LrIT~i~~~~~~--~~~~l  158 (374)
T PF03514_consen   81 YQLFYELSPFLKFAHFTANQAILEAFEGERRVHIIDFGIGFGVQWPSLIQALASRPGGPPSLRITGIGPPNSG--SADEL  158 (374)
T ss_pred             HHHHHHHhhHHhhhhhchhHHHHHHhccCcceEEEeccCCcchHHHHHHHHHhcCCCCCCeEEEEeccCCCCC--cHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999887  68899


Q ss_pred             HHHHHHHHHHHHhCCCcEEEEEc-ccCccccCcccccccCCceEEEEeccccccccccccccCCcHHHHHHHHHhcCCCE
Q 004490          532 EETGRRLAKYAETFKVPFEFNAI-AQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLIRKMNPDV  610 (749)
Q Consensus       532 eeTGrRL~~~A~~~gVpFeF~~I-a~~~E~l~~edL~i~~dE~LaVN~~~~Lh~L~desv~~~spRd~vL~~IR~L~P~V  610 (749)
                      ++||+||.+||+++||||||++| ..+||++++++|++++||+|||||+|+||||++++....+||+.||+.||+|+|+|
T Consensus       159 ~~~g~rL~~fA~~lgv~fef~~v~~~~~e~l~~~~l~~~~~E~laVn~~~~Lh~l~~~~~~~~~~~~~~L~~ir~L~P~v  238 (374)
T PF03514_consen  159 QETGRRLAEFARSLGVPFEFHPVVVESLEDLDPSMLRLRPGEALAVNCMFQLHHLLDESGALENPRDAFLRVIRSLNPKV  238 (374)
T ss_pred             HHHHHHHHHHHHHcCccEEEEecccCchhhCCHHHhCccCCcEEEEEeehhhhhhccccccccchHHHHHHHHHhcCCCE
Confidence            99999999999999999999996 57999999999999999999999999999999998888889999999999999999


Q ss_pred             EEEEEecCCCCcCchHHHHHHHHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHHHHhHhhhccCCcccccccchhhHHHH
Q 004490          611 FVLGIVNGAHSAPFFITRFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVR  690 (749)
Q Consensus       611 fv~~e~ng~~nsp~F~~RF~EAL~~YSAlFDsLda~~pr~~~eR~~iEr~~fgreI~NvVAcEG~eRvER~Et~~qWq~R  690 (749)
                      ||++|+|++||+|+|++||.|||+||+|+|||||+++|+++++|+.+|+.+||++|+|||||||.+|+||||++++|+.|
T Consensus       239 vv~~E~ea~~n~~~F~~RF~eal~yYsalfdsle~~~~~~~~~r~~~E~~~~~~eI~niVa~eg~~R~eR~e~~~~W~~r  318 (374)
T PF03514_consen  239 VVLVEQEADHNSPSFLERFREALHYYSALFDSLEACLPRDSEERLAVERLFFGREIMNIVACEGEERVERHERLEQWRRR  318 (374)
T ss_pred             EEEEeecCCCCCCchHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHhhhHHHHhhhcccccccccccchhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCccccCCHHHHHHHHHHHhhcCCCCcEEEeCCCEEEEeECCceeEEEeeee
Q 004490          691 NMRAGFTQLPLNEEIMKMAKERVDTNYHKDFVIDEDSQWLLQGWKGRIVYALSTWK  746 (749)
Q Consensus       691 ~~rAGF~~lpLs~~~v~qak~ll~~~y~~~f~v~ed~~~LlLgWKgr~L~a~SaW~  746 (749)
                      |.+|||+++||+..++.|||.+|+.++++||.|+++++||+|||||+||+++|+||
T Consensus       319 ~~~aGF~~~~ls~~~~~qa~~ll~~~~~~g~~v~~~~~~l~L~Wk~~pL~~~SaWr  374 (374)
T PF03514_consen  319 MRRAGFRPVPLSEFAVSQAKLLLRKFPGDGYTVEEDGGCLLLGWKGRPLVAASAWR  374 (374)
T ss_pred             HHhcCCeecCCCHHHHHHHHHHHhccCCCCeEEEEcCCEEEEEeCCcEEEEEeCcC
Confidence            99999999999999999999999986668999999999999999999999999997

Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.

>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional	Back alignment and domain information

>TIGR02752 MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone methyltransferase	Back alignment and domain information

>TIGR00740 methyltransferase, putative	Back alignment and domain information

>PLN02233 ubiquinone biosynthesis methyltransferase	Back alignment and domain information

>PRK14103 trans-aconitate 2-methyltransferase; Provisional	Back alignment and domain information

>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU	Back alignment and domain information

>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C	Back alignment and domain information

>PRK06202 hypothetical protein; Provisional	Back alignment and domain information

>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases	Back alignment and domain information

>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A	Back alignment and domain information

>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]	Back alignment and domain information

>PRK08317 hypothetical protein; Provisional	Back alignment and domain information

>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []	Back alignment and domain information

>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed	Back alignment and domain information

>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A	Back alignment and domain information

>PLN02396 hexaprenyldihydroxybenzoate methyltransferase	Back alignment and domain information

>PRK01683 trans-aconitate 2-methyltransferase; Provisional	Back alignment and domain information

>PLN02585 magnesium protoporphyrin IX methyltransferase	Back alignment and domain information

>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional	Back alignment and domain information

>TIGR00477 tehB tellurite resistance protein TehB	Back alignment and domain information

>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms	Back alignment and domain information

>PRK05785 hypothetical protein; Provisional	Back alignment and domain information

>PRK12335 tellurite resistance protein TehB; Provisional	Back alignment and domain information

>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A	Back alignment and domain information

>smart00138 MeTrc Methyltransferase, chemotaxis proteins	Back alignment and domain information

>PLN02336 phosphoethanolamine N-methyltransferase	Back alignment and domain information

>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals	Back alignment and domain information

>TIGR03438 probable methyltransferase	Back alignment and domain information

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

ID	Alignment Graph	Length	Definition	E-value
Query		749
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-07
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05

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

 Score = 66.0 bits (160), Expect = 3e-11
 Identities = 76/519 (14%), Positives = 144/519 (27%), Gaps = 168/519 (32%)

Query: 235 FEEASKFLPNGNALFVDLKNNVS--VVKELKEEPKSVLVRMGKKPENENSPEGSRGKKNP 292
           FE         + L V     V     K++++ PKS+L     K E ++         + 
Sbjct: 9   FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSIL----SKEEIDHI------IMSK 58

Query: 293 HPEEVS------LERGRSNKQSAVSTESTVSEEMFDMILLNCGQSESVLREALQNETSKN 346
                +      L      KQ     E  V + + +++ +N       L   ++ E    
Sbjct: 59  DAVSGTLRLFWTLLS----KQ-----EEMVQKFVEEVLRINYK----FLMSPIKTEQ--- 102

Query: 347 VRQNKQSRGSKGGKARGRKQGGN-----RDVVDLRTLLTLCAQAVAANDRRNAYELLKQI 401
             +          + R R    N      +V  L+  L L          R A   L ++
Sbjct: 103 --RQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL----------RQA---LLEL 147

Query: 402 RQHSSSTGDGMQRMAECFADGLEARLAGSGTQIYTALISKHTSAADVLKAYHLFLAACPF 461
           R   +   DG+                GSG         K   A DV  +Y        F
Sbjct: 148 RPAKNVLIDGV---------------LGSG---------KTWVALDVCLSYK-VQCKMDF 182

Query: 462 R----KLSNFFSNKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITG 517
           +     L N  S +T++ + +    L+ ID                +SR           
Sbjct: 183 KIFWLNLKNCNSPETVLEMLQ--KLLYQID-------------PNWTSRS---------- 217

Query: 518 IDLPQPGFKPAERVEETGRRL---AKYAETFKVPFEFNAIAQKWDTIQIEDLNIDSGEVL 574
            D           ++   RRL     Y     V      +    +       N+   ++L
Sbjct: 218 -DHSSNIKLRIHSIQAELRRLLKSKPYENCLLV------LLNVQNAKAWNAFNLSC-KIL 269

Query: 575 VVNCLYRFRNLLDETVVVDCPRNIVLNLIRK-MNPDVFVLGIVNGAHSAPFFITRFREAL 633
           +     RF+ + D  +      +I L+     + PD                     E  
Sbjct: 270 LTT---RFKQVTD-FLSAATTTHISLDHHSMTLTPD---------------------EVK 304

Query: 634 FFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMR 693
                  D    ++PRE+               +++I        +   T+  W+     
Sbjct: 305 SLLLKYLDCRPQDLPREVLTTNPR--------RLSII---AESIRDGLATWDNWK----H 349

Query: 694 AGFTQLPLNEEIMKMAKERVDTNYHK----DFVI-DEDS 727
               +L     I++ +   ++   ++       +    +
Sbjct: 350 VNCDKL---TTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385

PyMOL of 1vt4

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

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

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

ID	Alignment Graph	Length	Definition	Probability
Query		749
d1qzza2		256	Aclacinomycin-10-hydroxylase RdmB {Streptomyces pu	97.21
d1im8a_		225	Hypothetical protein HI0319 (YecO) {Haemophilus in	96.97
d1jqea_		280	Histamine methyltransferase {Human (Homo sapiens)	96.87
d1tw3a2		253	Carminomycin 4-O-methyltransferase {Streptomyces p	96.29
d1fp1d2		244	Chalcone O-methyltransferase {Alfalfa (Medicago sa	94.71
d1xxla_		234	Hypothetical protein YcgJ {Bacillus subtilis [TaxI	94.22
d1vl5a_		231	Hypothetical protein BH2331 {Bacillus halodurans [	91.42
d2fk8a1		280	Methoxy mycolic acid synthase 4, Mma4 {Mycobacteri	91.35
d1fp2a2		244	Isoflavone O-methyltransferase {Alfalfa (Medicago	90.85
d1ri5a_		252	mRNA cap (Guanine N-7) methyltransferase {Fungus (	90.6
d1nkva_		245	Hypothetical Protein YjhP {Escherichia coli [TaxId	88.74
d2o57a1		282	Putative sarcosine dimethylglycine methyltransfera	86.23
d1ve3a1		226	Hypothetical protein PH0226 {Archaeon Pyrococcus h	84.77
d2gh1a1		281	Methyltransferase BC2162 {Bacillus cereus [TaxId:	84.7
d1xvaa_		292	Glycine N-methyltransferase {Rat (Rattus norvegicu	81.71

>d1qzza2 c.66.1.12 (A:102-357) Aclacinomycin-10-hydroxylase RdmB {Streptomyces purpurascens [TaxId: 1924]}	Back information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Plant O-methyltransferase, C-terminal domain
domain: Aclacinomycin-10-hydroxylase RdmB
species: Streptomyces purpurascens [TaxId: 1924]

Probab=97.21  E-value=0.0067  Score=35.09  Aligned_cols=164  Identities=20%  Similarity=0.137  Sum_probs=83.6

Q ss_pred             HHHHHHHHHCCCEEEEEEECCCCCCCHHHHHHHHHCCCCCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCCCCE
Q ss_conf             69999754207712997700356665089999974499999908995624999999984899999999999988579768
Q 004490          470 NKTIMNLAEKATRLHIIDFGIMYGFQWPCLIQRLSSRPGGAPKLRITGIDLPQPGFKPAERVEETGRRLAKYAETFKVPF  549 (749)
Q Consensus       470 NqaILeA~~g~~~VHIIDfgI~~G~QWpsLiq~LA~R~gGPP~LRITgI~~p~~gf~pae~leetG~RL~~~A~~lgVpF  549 (749)
                      ...|+++..=...=+|+|+|-+.|.    ++..|+.+.   |.++.|++|+|       +.++.+.+++.+.  ...-.+
T Consensus        70 ~~~~~~~~d~~~~~~vlDvG~G~G~----~~~~l~~~~---P~~~~~~~Dlp-------~~~~~a~~~~~~~--~~~~ri  133 (256)
T d1qzza2          70 YEAPADAYDWSAVRHVLDVGGGNGG----MLAAIALRA---PHLRGTLVELA-------GPAERARRRFADA--GLADRV  133 (256)
T ss_dssp             THHHHHTSCCTTCCEEEEETCTTSH----HHHHHHHHC---TTCEEEEEECH-------HHHHHHHHHHHHT--TCTTTE
T ss_pred             HHHHHHCCCCCCCCEEEEECCCCCH----HHHHHHHHH---CCCEEEEECCH-------HHHHHHHHHHHHC--CCCCEE
T ss_conf             9998752797668879997898978----999999862---58579993482-------8889999987641--776504


Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHH-HHCCCCEEEE-EEECCCCCCCCHHH
Q ss_conf             998715673334732455568966999733322322224445678089999999-9509978999-87428889571699
Q 004490          550 EFNAIAQKWDTIQIEDLNIDSGEVLVVNCLYRFRNLLDETVVVDCPRNIVLNLI-RKMNPDVFVL-GIVNGAHSAPFFIT  627 (749)
Q Consensus       550 eF~~Ia~~~E~i~~edL~i~~dEvLaVN~~~~L~~L~desv~~~spRd~vL~~I-R~L~P~Vfv~-~e~ng~~nsp~F~t  627 (749)
                      +|..-. .++.        .+...=+|-+..-||++.|+.      ...+|+.| +.|+|.-.++ .+. ......... 
T Consensus       134 ~~~~~d-~~~~--------~p~~~D~v~~~~vLh~~~d~~------~~~lL~~i~~~LkpgG~llI~d~-~~~~~~~~~-  196 (256)
T d1qzza2         134 TVAEGD-FFKP--------LPVTADVVLLSFVLLNWSDED------ALTILRGCVRALEPGGRLLVLDR-ADVEGDGAD-  196 (256)
T ss_dssp             EEEECC-TTSC--------CSCCEEEEEEESCGGGSCHHH------HHHHHHHHHHHEEEEEEEEEEEC-CH--------
T ss_pred             EEEEEE-CCCC--------CCCCCHHHHCCCCCCCCCCHH------HHHHHHHHHHHCCCCCEEEEEEE-CCCCCCCCC-
T ss_conf             664200-1234--------666430121144201257377------77999999863588660489873-067988521-


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf             99999977999999765119999988999999999999967564038865446535435999998489820369
Q 004490          628 RFREALFFYSTLFDMLETNVPREIPERMLIEREIFGREAMNVIACEGAERIERPETYKQWQVRNMRAGFTQLPL  701 (749)
Q Consensus       628 RF~EAL~~YSAlFDsLda~~pr~~~eR~~iEr~~lGreI~NvVAcEG~eRvER~Ety~qWq~R~~rAGF~~~pL  701 (749)
                            ..+.++||.                      ..  .+.+.|.+|     |.++|+..+..|||+.+..
T Consensus       197 ------~~~~~~~d~----------------------~m--l~~~~g~~r-----t~~e~~~ll~~AGf~~~~~  235 (256)
T d1qzza2         197 ------RFFSTLLDL----------------------RM--LTFMGGRVR-----TRDEVVDLAGSAGLALASE  235 (256)
T ss_dssp             ------HHHHHHHHH----------------------HH--HHHHSCCCC-----CHHHHHHHHHTTTEEEEEE
T ss_pred             ------HHHHHHHHH----------------------HH--HHHCCCCCC-----CHHHHHHHHHHCCCCEEEE
T ss_conf             ------789999889----------------------99--861798268-----9999999999879916699

PyMOL of d1qzza2

>d1im8a_ c.66.1.14 (A:) Hypothetical protein HI0319 (YecO) {Haemophilus influenzae [TaxId: 727]}	Back information, alignment and structure

>d1jqea_ c.66.1.19 (A:) Histamine methyltransferase {Human (Homo sapiens) [TaxId: 9606]}	Back information, alignment and structure

>d1tw3a2 c.66.1.12 (A:99-351) Carminomycin 4-O-methyltransferase {Streptomyces peucetius [TaxId: 1950]}	Back information, alignment and structure

>d1fp1d2 c.66.1.12 (D:129-372) Chalcone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}	Back information, alignment and structure

>d1xxla_ c.66.1.41 (A:) Hypothetical protein YcgJ {Bacillus subtilis [TaxId: 1423]}	Back information, alignment and structure

>d1vl5a_ c.66.1.41 (A:) Hypothetical protein BH2331 {Bacillus halodurans [TaxId: 86665]}	Back information, alignment and structure

>d2fk8a1 c.66.1.18 (A:22-301) Methoxy mycolic acid synthase 4, Mma4 {Mycobacterium tuberculosis [TaxId: 1773]}	Back information, alignment and structure

>d1fp2a2 c.66.1.12 (A:109-352) Isoflavone O-methyltransferase {Alfalfa (Medicago sativa) [TaxId: 3879]}	Back information, alignment and structure

>d1ri5a_ c.66.1.34 (A:) mRNA cap (Guanine N-7) methyltransferase {Fungus (Encephalitozoon cuniculi) [TaxId: 6035]}	Back information, alignment and structure

>d1nkva_ c.66.1.21 (A:) Hypothetical Protein YjhP {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

>d2o57a1 c.66.1.18 (A:16-297) Putative sarcosine dimethylglycine methyltransferase {Red algae (Galdieria sulphuraria) [TaxId: 130081]}	Back information, alignment and structure

>d1ve3a1 c.66.1.43 (A:2-227) Hypothetical protein PH0226 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}	Back information, alignment and structure

>d2gh1a1 c.66.1.49 (A:13-293) Methyltransferase BC2162 {Bacillus cereus [TaxId: 1396]}	Back information, alignment and structure

>d1xvaa_ c.66.1.5 (A:) Glycine N-methyltransferase {Rat (Rattus norvegicus) [TaxId: 10116]}	Back information, alignment and structure