Citrus Sinensis ID: 041864

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300
Protein Sequence
MMDQGVVVHEKNEARAFMAGVEGVTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANINRKKRMARQRRSSSFNLLAFSSPSSSSTSHVSPPLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIGQESFGSVENISLDDFY
Secondary Structure (PSIPRED)
cccccccccccccHHHHHcccccEEccccccccccccccccccccHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccEEEEEEEcccccccccccEEEcHHHHHHcccccccccccEEEEEEccccEEEEEEEEEcccccccEEEEccHHHHHHHcccccccEEEEEEccccccEEEEEEEcccccccccccccccccccccccccccccccEEcccccccccccEEEEccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccEEEEcccccccccHHHHHccccccHHcccccccccccccHHHHccccccccccccccccccHHcccccccccccccccccccccccccccHHHccccHHHHHHHHHHEccHccccccccEEEcHHHHHHHcccccccccEEEEEEcccccEEEEEEEEEcccccccEEEEccccHHHHHcccccccEEEEEEcccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccHHccccccccccccccccccccEEEccccc
Coil and Loop (DISEMBL)
MMDQGVVVHEKNEARAFMAGvegvtakgdkstrfgsdpirasgssLDLVAAVTSALGANINRKKRMARQRRSSSfnllafsspsssstshvspplalpareidpgRLRFLFQKelknsdvsslrrmilpkkaaeahlpvleskegifismedldglhvwtfkyrfwpnnnsrmYVLENTgdfvnahglqlGDFIIVykddqnqnyviqakkasdqdvytnltsdsvnDILLNdyevnrsgsfyvnhpmagedtgmsfiydtttfsndspldflggsltsysrigqesfgsvenislddfy
Flexible Loop (DISEMBL)
mmdqgvvvheknearafmagvegvtakgdkstrfgsdPIRASGSSLDLVAAVTSalganinrkkrmarqRRSSSFNLLafsspsssstshvspplalPAREIDPGRLRFLFQkelknsdvsslRRMILPKkaaeahlpvlESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQakkasdqdvyTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSysrigqesfgsvenislddfy
Low Complexity Region (SEG)
MMDQGVVVHEKNEARAFMAGVEGVTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANINRKKRMARQRRsssfnllafsspsssstshvspplALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIGQESFGSVENISLDDFY
Disordered region (IsUnstruct)
************************************************VAAV******************************************************LRFLFQK***********RMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSR******************
Disordered Region (DISOPRED)
***********NEARAFMAG**************************************************************************************LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQ*******************************GSFY**************IYDTTTFSND*********************GSVENISLDDFY
Disordered Region (DISEMBL)
MMDQGVVVHEKNEARAFMAGVEGVTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANI************SSFNLLA**************PLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIGQESFGSVENISLDDFY
Disordered Region (DISPRO)
************EARAFMA**E**********RFGSDPIRASGSSLDLVAAVTSALGAN****************************************REIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASD***************LLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIGQESFGSVENISLDDFY
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMDQGVVVHEKNEARAFMAGVEGVTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANINRKKRMARQRRSSSFNLLAFSSPSSSSTSHVSPPLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIGQESFGSVENISLDDFY
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	300	2.2.26 [Sep-21-2011]
Q9LW31	313	B3 domain-containing tran	yes	no	0.86	0.824	0.581	4e-79
A4LBC0	402	B3 domain-containing prot	yes	no	0.376	0.281	0.622	3e-37
Q01593	720	B3 domain-containing tran	no	no	0.386	0.161	0.528	3e-33
P26307	691	Regulatory protein vivipa	N/A	no	0.35	0.151	0.580	2e-32
P37398	727	B3 domain-containing prot	no	no	0.346	0.143	0.571	4e-31
Q7XKC5	433	B3 domain-containing prot	no	no	0.503	0.348	0.423	2e-30
Q7XKC4	438	Putative B3 domain-contai	no	no	0.35	0.239	0.523	2e-29
Q1PFR7	363	B3 domain-containing tran	no	no	0.346	0.286	0.548	7e-29
Q6Z1Z3	362	B3 domain-containing prot	no	no	0.376	0.312	0.442	2e-25
Q8W4L5	790	B3 domain-containing tran	no	no	0.346	0.131	0.4	3e-19

>sp|Q9LW31|FUS3_ARATH B3 domain-containing transcription factor FUS3 OS=Arabidopsis thaliana GN=FUS3 PE=2 SV=2

 Score =  294 bits (753), Expect = 4e-79,   Method: Compositional matrix adjust.
 Identities = 175/301 (58%), Positives = 201/301 (66%), Gaps = 43/301 (14%)

Query: 34  FGSDPIRASGSSLDLVAAVTSALGANINRKKRMARQRRSSSFNLLAFSSPSSSSTSHVSP 93
           FGS     SG     ++A    LG N  +K+RM RQRRSSS   L    P     SHV  
Sbjct: 22  FGS----GSGHDHHGLSASVPLLGVNW-KKRRMPRQRRSSSSFNLLSFPPPMPPISHV-- 74

Query: 94  PLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDL 153
           P  LPAR+IDP +LRFLFQKELKNSDVSSLRRMILPKKAAEAHLP LE KEGI I MEDL
Sbjct: 75  PTPLPARKIDPRKLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPALECKEGIPIRMEDL 134

Query: 154 DGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKAS 213
           DG HVWTFKYR+WPNNNSRMYVLENTGDFVNAHGLQLGDFI+VY+D  + NYVIQA+KAS
Sbjct: 135 DGFHVWTFKYRYWPNNNSRMYVLENTGDFVNAHGLQLGDFIMVYQDLYSNNYVIQARKAS 194

Query: 214 DQ-----------DVYTNLT---SDSVNDILLNDY------------EVNRSGSFYVNHP 247
           ++           DVYTNLT   +  VND+LL D+              +   S+Y  +P
Sbjct: 195 EEEEVDVINLEEDDVYTNLTRIENTVVNDLLLQDFNHHNNNNNNNSNSNSNKCSYY--YP 252

Query: 248 MAGEDT--GMSFIYDTTTF-SNDSPLDFLGGSLTS----YSRIGQ-ESFGSVENISLDDF 299
           +  + T    SF+YDTT   SND+PLDFLGG  T+    YS+ G  +  GSVENISLDDF
Sbjct: 253 VIDDVTTNTESFVYDTTALTSNDTPLDFLGGHTTTTNNYYSKFGTFDGLGSVENISLDDF 312

Query: 300 Y 300
           Y
Sbjct: 313 Y 313

Transcription regulator involved in gene regulation during late embryogenesis. Its expression to the epidermis is sufficient to control foliar organ identity by regulating positively the synthesis abscisic acid (ABA) and negatively gibberellin production. Negatively regulates TTG1 in the embryo. Positively regulates the abundance of the ABI3 protein in the seed.
Arabidopsis thaliana (taxid: 3702)

>sp|A4LBC0|LFL1_ORYSJ B3 domain-containing protein LFL1 OS=Oryza sativa subsp. japonica GN=LFL1 PE=2 SV=1

 Score =  155 bits (393), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 71/114 (62%), Positives = 86/114 (75%), Gaps = 1/114 (0%)

Query: 107 LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGI-FISMEDLDGLHVWTFKYRF 165
           LR + QKEL+ SDVS L R++LPKK AEA+LP+L SK+G   + M DL    +WTFKYR+
Sbjct: 177 LRVILQKELRYSDVSQLGRIVLPKKEAEAYLPILTSKDGKKSLCMHDLQNAQLWTFKYRY 236

Query: 166 WPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYT 219
           WPNN SRMYVLENTGD+V  H LQLGD I++YKDD+N  +VI AKKA DQ   T
Sbjct: 237 WPNNKSRMYVLENTGDYVRTHDLQLGDSIVIYKDDENNRFVIGAKKAGDQQAAT 290

Transcription repressor involved in flowering time regulation. Represses the flowering activator EHD1 by binding specifically to the DNA sequence 5'-CATGCATG-3 of its promoter.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q01593|ABI3_ARATH B3 domain-containing transcription factor ABI3 OS=Arabidopsis thaliana GN=ABI3 PE=1 SV=1

 Score =  142 bits (358), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 66/125 (52%), Positives = 87/125 (69%), Gaps = 9/125 (7%)

Query: 96  ALPAREIDPGR---------LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGI 146
           A+P +++ P R         LRFL QK LK SDV +L R++LPKK AE HLP LE+++GI
Sbjct: 548 AMPRQQVVPDRRQGWKPEKNLRFLLQKVLKQSDVGNLGRIVLPKKEAETHLPELEARDGI 607

Query: 147 FISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYV 206
            ++MED+    VW  +YRFWPNN SRMY+LENTGDFV  +GLQ GDFI++Y D +   Y+
Sbjct: 608 SLAMEDIGTSRVWNMRYRFWPNNKSRMYLLENTGDFVKTNGLQEGDFIVIYSDVKCGKYL 667

Query: 207 IQAKK 211
           I+  K
Sbjct: 668 IRGVK 672

Participates in abscisic acid-regulated gene expression during seed development.

Arabidopsis thaliana (taxid: 3702)

>sp|P26307|VIV1_MAIZE Regulatory protein viviparous-1 OS=Zea mays GN=VP1 PE=2 SV=1

 Score =  139 bits (351), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 61/105 (58%), Positives = 79/105 (75%)

Query: 107 LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFW 166
           LRFL QK LK SDV SL R++LPKK AE HLP L++++GI I MED+    VW  +YRFW
Sbjct: 513 LRFLLQKVLKQSDVGSLGRIVLPKKEAEVHLPELKTRDGISIPMEDIGTSRVWNMRYRFW 572

Query: 167 PNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKK 211
           PNN SRMY+LENTG+FV ++ LQ GDFI++Y D ++  Y+I+  K
Sbjct: 573 PNNKSRMYLLENTGEFVRSNELQEGDFIVIYSDVKSGKYLIRGVK 617

Transcriptional activator specifically required for expression of the maturation program in the seed development. Probably potentiates the response to the seed-specific hormone abscisic acid (ABA). May bind to DNA indirectly.

Zea mays (taxid: 4577)

>sp|P37398|VIV_ORYSJ B3 domain-containing protein VP1 OS=Oryza sativa subsp. japonica GN=VP1 PE=1 SV=3

 Score =  135 bits (339), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 60/105 (57%), Positives = 79/105 (75%), Gaps = 1/105 (0%)

Query: 107 LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFW 166
           LRFL QK LK SDV SL R++LPK+A E HLP L++++G+ I MED+    VW  +YRFW
Sbjct: 533 LRFLLQKVLKQSDVGSLGRIVLPKEA-EVHLPELKTRDGVSIPMEDIGTSQVWNMRYRFW 591

Query: 167 PNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKK 211
           PNN SRMY+LENTGDFV ++ LQ GDFI++Y D ++  Y+I+  K
Sbjct: 592 PNNKSRMYLLENTGDFVRSNELQEGDFIVIYSDIKSGKYLIRGVK 636

Probable transcription factor that may participate in abscisic acid-regulated gene expression during seed development. May be required for seed maturation and dormancy induction.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q7XKC5|IDEFH_ORYSJ B3 domain-containing protein Os04g0676600 OS=Oryza sativa subsp. japonica GN=Os04g0676600 PE=2 SV=1

 Score =  133 bits (334), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 66/156 (42%), Positives = 92/156 (58%), Gaps = 5/156 (3%)

Query: 81  SSPSSSSTSHVSPPLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVL 140
           S PSS S +  +  +    RE      R + +KEL NSDV ++ R+++PK+ AEAHLP L
Sbjct: 272 SEPSSMSHNSANSTIRFNCRE-----YRVILRKELTNSDVGNIGRIVMPKRDAEAHLPAL 326

Query: 141 ESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDD 200
             +EG+ + M+D      W FKYRFWPNN SRMYVLE+TG FV  H LQ GD  I+YK  
Sbjct: 327 HQREGVMLKMDDFKLETTWNFKYRFWPNNKSRMYVLESTGGFVKQHVLQTGDIFIIYKSS 386

Query: 201 QNQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEV 236
           +++  V++ +KA   +V   +   S  + L N  E 
Sbjct: 387 ESEKLVVRGEKAIKPNVIMPIVDCSCKNDLNNSEEC 422

Probable transcription regulator that binds specifically to the DNA sequence 5'-CATGC-3' of the IDE1 element found in the promoter of the barley iron deficiency-inducible gene IDS2.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q7XKC4|Y4765_ORYSJ Putative B3 domain-containing protein Os04g0676650 OS=Oryza sativa subsp. japonica GN=Os04g0676650 PE=3 SV=2

 Score =  130 bits (326), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 55/105 (52%), Positives = 75/105 (71%)

Query: 108 RFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWP 167
           R + +KEL NSDV ++ R+++PK+ AEAHLP L  +EG+ + M+D      W FKYRFWP
Sbjct: 299 RVILRKELTNSDVGNIGRIVMPKRDAEAHLPALHQREGVTLKMDDFKFETTWNFKYRFWP 358

Query: 168 NNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKA 212
           NN SRMYVLE+TG FV  HGLQ GD  I+YK  ++  +V++ +KA
Sbjct: 359 NNKSRMYVLESTGGFVKHHGLQTGDIFIIYKSSESGKFVVRGEKA 403

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q1PFR7|LEC2_ARATH B3 domain-containing transcription factor LEC2 OS=Arabidopsis thaliana GN=LEC2 PE=2 SV=1

 Score =  127 bits (320), Expect = 7e-29,   Method: Compositional matrix adjust.
 Identities = 57/104 (54%), Positives = 76/104 (73%)

Query: 102 IDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTF 161
            D  +LR L +KELKNSDV SL R++LPK+ AEA+LP L  KEGI + M D+  +  W+F
Sbjct: 162 FDNKKLRVLCEKELKNSDVGSLGRIVLPKRDAEANLPKLSDKEGIVVQMRDVFSMQSWSF 221

Query: 162 KYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNY 205
           KY+FW NN SRMYVLENTG+FV  +G ++GDF+ +Y+D+    Y
Sbjct: 222 KYKFWSNNKSRMYVLENTGEFVKQNGAEIGDFLTIYEDESKNLY 265

Transcription regulator that plays a central role in embryo development. Required for the maintenance of suspensor morphology, specification of cotyledon identity, progression through the maturation phase and suppression of premature germination. Ectopic expression is sufficient to promote somatic embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6Z1Z3|IDEF1_ORYSJ B3 domain-containing protein IDEF1 OS=Oryza sativa subsp. japonica GN=IDEF1 PE=2 SV=1

 Score =  116 bits (290), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 50/113 (44%), Positives = 75/113 (66%)

Query: 105 GRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYR 164
           G  + + +KEL  SDV ++ R++LPKK AEA LP L  ++ + + M+D+     W FKYR
Sbjct: 247 GEYQVILRKELTKSDVGNVGRIVLPKKDAEASLPPLLQRDPLILHMDDMVLPVTWKFKYR 306

Query: 165 FWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDV 217
           +WPNN SRMY+L++ G+F+  HGLQ GD II+YK+     ++I+ +KA  Q  
Sbjct: 307 YWPNNKSRMYILDSAGEFLKTHGLQAGDVIIIYKNLAPGKFIIRGEKAIHQQT 359

Transcription regulator involved in iron deficiency response and tolerance. May regulate directly iron transporters or other transcription factors involved in iron-deficiency response. Binds specifically to the DNA sequence 5'-CATGC-3' of the IDE1 element found in the promoter of the barley iron deficiency-inducible gene IDS2.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8W4L5|VAL1_ARATH B3 domain-containing transcription repressor VAL1 OS=Arabidopsis thaliana GN=VAL1 PE=1 SV=1

 Score = 96.3 bits (238), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 42/105 (40%), Positives = 65/105 (61%), Gaps = 1/105 (0%)

Query: 110 LFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNN 169
           LF+K L  SD   + R++LPK  AEA+ P +   EGI + ++D+ G   WTF++R+WPNN
Sbjct: 294 LFEKTLSASDAGRIGRLVLPKACAEAYFPPISQSEGIPLKIQDVRGRE-WTFQFRYWPNN 352

Query: 170 NSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASD 214
           NSRMYVLE     + +  LQ GD +   + D     ++ ++KA++
Sbjct: 353 NSRMYVLEGVTPCIQSMMLQAGDTVTFSRVDPGGKLIMGSRKAAN 397

Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL2/HSL1.

Arabidopsis thaliana (taxid: 3702)

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	300
255543601	321	conserved hypothetical protein [Ricinus	0.966	0.903	0.628	1e-100
224055811	259	predicted protein [Populus trichocarpa]	0.813	0.942	0.722	1e-100
356571617	332	PREDICTED: B3 domain-containing transcri	0.986	0.891	0.620	7e-97
356561311	338	PREDICTED: B3 domain-containing transcri	0.99	0.878	0.602	2e-96
357508363	314	B3 domain-containing protein [Medicago t	0.963	0.920	0.611	2e-93
296082287	287	unnamed protein product [Vitis vinifera]	0.9	0.940	0.578	9e-81
224129216	269	predicted protein [Populus trichocarpa]	0.843	0.940	0.561	1e-80
225451577	286	PREDICTED: B3 domain-containing transcri	0.9	0.944	0.578	1e-80
297818218	314	hypothetical protein ARALYDRAFT_484455 [	0.86	0.821	0.585	1e-77
45935049	310	transcriptional regulator [Arabidopsis t	0.86	0.832	0.587	1e-77

>gi|255543601|ref|XP_002512863.1| conserved hypothetical protein [Ricinus communis] gi|223547874|gb|EEF49366.1| conserved hypothetical protein [Ricinus communis]

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 198/315 (62%), Positives = 241/315 (76%), Gaps = 25/315 (7%)

Query: 8   VHEKNEARAFMAGVEGVTAKGDK---STRFGSDPIRASGSSLDLVAA------VTSALGA 58
           VHEK EA  ++   + VT +GD    +T   +   + SG ++ +  +      V + LG 
Sbjct: 8   VHEKPEACTWITSGDSVTEEGDNKANNTFEEASSDQGSGRTVMMTRSSGDDDNVVAVLGF 67

Query: 59  NINRKKRMARQRR-SSSFNLLAFSSPSSSSTS------------HVSPPLALPAREIDPG 105
           ++ RKKRM RQRR SSS N L FS P +++ S            HV    + PAR ID  
Sbjct: 68  SVIRKKRMPRQRRPSSSINNL-FSFPIATNASSSSSSTTTTTTSHVPDLPSFPARVIDQR 126

Query: 106 RLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRF 165
           RL FLFQKELKNSDVSSL+RM+LPKKAAEAHLPVLESKEGIFISM+DLDGLHVW+FKYR+
Sbjct: 127 RLSFLFQKELKNSDVSSLKRMVLPKKAAEAHLPVLESKEGIFISMDDLDGLHVWSFKYRY 186

Query: 166 WPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDS 225
           WPNNNSRMYVLENTGDFVN HGLQLGDFI+VYKDDQNQNYVIQAKKASD+DVY N+   +
Sbjct: 187 WPNNNSRMYVLENTGDFVNTHGLQLGDFIMVYKDDQNQNYVIQAKKASDEDVYANIARTA 246

Query: 226 VNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIG- 284
           VNDI+L D E+N+S SFY+N+P+  ++TG+SFIYDTTTFS+DSPLDFLGGSLT+YSRIG 
Sbjct: 247 VNDIVLYDCEINKSSSFYMNYPIV-DNTGLSFIYDTTTFSDDSPLDFLGGSLTNYSRIGH 305

Query: 285 QESFGSVENISLDDF 299
           +E+FG VE++SLD+F
Sbjct: 306 RETFGPVESLSLDEF 320

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055811|ref|XP_002298665.1| predicted protein [Populus trichocarpa] gi|222845923|gb|EEE83470.1| predicted protein [Populus trichocarpa]

 Score =  370 bits (950), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 187/259 (72%), Positives = 221/259 (85%), Gaps = 15/259 (5%)

Query: 56  LGANINRKKRMARQRRSSSF--NLLAFSS-PSSSSTSHVSPPL---------ALPAREID 103
           +G  I RKKRM RQRRSSS   +LL+F++  S S+T+H+  P          +LPAR ID
Sbjct: 2   VGFEIKRKKRMPRQRRSSSTINHLLSFAANASCSATTHLHVPAFSLPLQDPSSLPARVID 61

Query: 104 PGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKY 163
           P RLRFLFQKEL+NSDVSSLRRMILPKKAAE HLP LESKEGIFISM+DLDGLHVW+FKY
Sbjct: 62  PRRLRFLFQKELQNSDVSSLRRMILPKKAAEVHLPFLESKEGIFISMDDLDGLHVWSFKY 121

Query: 164 -RFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLT 222
            R+WPNNNSRMYVLENTGDFVNAHGLQLGDFI+VY+D Q+QNYVIQAKKASDQ+VY+++ 
Sbjct: 122 SRYWPNNNSRMYVLENTGDFVNAHGLQLGDFIMVYQDSQSQNYVIQAKKASDQNVYSDIA 181

Query: 223 SDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSR 282
            ++VND +L+DYEVN+  SFYVN+P+  ++TG+SFIYDTTTFSN SPLDFLGGS+T++SR
Sbjct: 182 RNAVNDTVLHDYEVNKFSSFYVNYPVV-DNTGLSFIYDTTTFSNYSPLDFLGGSMTNFSR 240

Query: 283 IGQ-ESFGSVENISLDDFY 300
           IG  ESFGSVEN+SLDDFY
Sbjct: 241 IGHLESFGSVENMSLDDFY 259

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571617|ref|XP_003553973.1| PREDICTED: B3 domain-containing transcription factor FUS3-like [Glycine max]

 Score =  359 bits (922), Expect = 7e-97,   Method: Compositional matrix adjust.
 Identities = 208/335 (62%), Positives = 235/335 (70%), Gaps = 39/335 (11%)

Query: 1   MMDQ---GVVVHEKNEARAFMAGV----EGVTAKG-------------DKSTRFGSDPIR 40
           MMDQ     ++H K EA AF+AGV      VT  G               S   GS  I+
Sbjct: 2   MMDQRQREKLLH-KTEACAFVAGVVPELSLVTVPGNNTNNVNNNNNVVSHSQSNGSGRIQ 60

Query: 41  ASGSSLDLVAAVTSALGANINRKKRMARQRRSSSFNLL--------------AFSSPSSS 86
            +   L LVAAVTSA G  + RKKRMARQRRS+    L                S  +SS
Sbjct: 61  ENNHHLGLVAAVTSAFGT-VQRKKRMARQRRSTKPTSLMNHLNNHKHNKPRSLPSPSASS 119

Query: 87  STSHVSPPLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGI 146
           S   +S     PAREID  RLRFLFQKELKNSDVSSLRRMILPKKAAEA LP LESKEGI
Sbjct: 120 SYVPLSSATLQPAREIDQRRLRFLFQKELKNSDVSSLRRMILPKKAAEAFLPALESKEGI 179

Query: 147 FISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYV 206
            ISM+D+DGLHVW+FKYRFWPNNNSRMYVLENTGDFVN HGL+ GD I+VY+D +N NYV
Sbjct: 180 VISMDDIDGLHVWSFKYRFWPNNNSRMYVLENTGDFVNTHGLRFGDSIMVYQDSENNNYV 239

Query: 207 IQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSN 266
           IQAKKASDQD +   TSD++NDI LNDYEVN+ G F V +P A  DTGMSFIY+ TTFSN
Sbjct: 240 IQAKKASDQDEFMEETSDTINDIFLNDYEVNKPGCFNVTNP-AVNDTGMSFIYE-TTFSN 297

Query: 267 DSPLDFLGGSLTSYSRIGQ-ESFGSVENISLDDFY 300
           DSPLDFLGGS+T++SRIG  E+FGSVEN+SLDDFY
Sbjct: 298 DSPLDFLGGSMTNFSRIGPVETFGSVENLSLDDFY 332

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356561311|ref|XP_003548926.1| PREDICTED: B3 domain-containing transcription factor FUS3-like [Glycine max]

 Score =  358 bits (919), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 205/340 (60%), Positives = 235/340 (69%), Gaps = 43/340 (12%)

Query: 1   MMD--QGVVVHEKNEARAFMAGV----EGVTAKG-----------------DKSTRFGSD 37
           MMD  Q   +  K EA AF+AGV      VT  G                  +S R G  
Sbjct: 2   MMDPRQREKLLHKTEACAFVAGVVPELSLVTVPGNNNNTNNVNNNNNNVSHSQSHRSGRI 61

Query: 38  PIRASGSSLDLVAAVTSALGANINRKKRMARQRRSSS----FNLLAFSSPSSSSTSHVSP 93
                   L LVAAVT+  G  ++RKKRMARQRRS++     N L  ++ + S +S  SP
Sbjct: 62  HENHHHHHLGLVAAVTTTFGT-VHRKKRMARQRRSTNPTLLMNPLINNNNNKSGSSLPSP 120

Query: 94  PLAL------------PAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLE 141
             A             PAREID  RLRFLFQKELKNSDVSSLRRMILPKKAAEA LP LE
Sbjct: 121 STASSSHVPLSSSTLPPAREIDQRRLRFLFQKELKNSDVSSLRRMILPKKAAEAFLPALE 180

Query: 142 SKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQ 201
           SKEGI ISM+D+DGLHVW+FKYRFWPNNNSRMYVLENTGDFVN HGL+ GD I+VY+D +
Sbjct: 181 SKEGIVISMDDIDGLHVWSFKYRFWPNNNSRMYVLENTGDFVNTHGLRFGDSILVYQDSE 240

Query: 202 NQNYVIQAKKASDQDVYTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDT 261
           N NYVIQAKKASDQD +   TSD++NDI LNDYEVN+ G F V +P A  DTGMSFIY+ 
Sbjct: 241 NNNYVIQAKKASDQDEFMEETSDTINDIFLNDYEVNKPGCFNVTYP-AVNDTGMSFIYE- 298

Query: 262 TTFSNDSPLDFLGGSLTSYSRIGQ-ESFGSVENISLDDFY 300
           TTFSNDSPLDFLGGS+T++SRIG  E+FGSVEN+SLDDFY
Sbjct: 299 TTFSNDSPLDFLGGSMTNFSRIGPVETFGSVENLSLDDFY 338

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357508363|ref|XP_003624470.1| B3 domain-containing protein [Medicago truncatula] gi|87240713|gb|ABD32571.1| Transcriptional factor B3 [Medicago truncatula] gi|355499485|gb|AES80688.1| B3 domain-containing protein [Medicago truncatula]

 Score =  348 bits (892), Expect = 2e-93,   Method: Compositional matrix adjust.
 Identities = 198/324 (61%), Positives = 232/324 (71%), Gaps = 35/324 (10%)

Query: 1   MMDQG----VVVHEKNEARAFMAGVEG----VTAKGDKSTRFGSDPIRASGSSLDLVAAV 52
           MMD+G     VV +K EA  FMAGVE     V  KGD +          SG  +      
Sbjct: 2   MMDEGEGKKKVVVQKTEACGFMAGVEDELGFVNVKGDNNN--------GSGQRIHHDHGF 53

Query: 53  TSALGANINRKKRMARQRRSSSFNLLAF--------SSPSSSSTSHVS----PPL---AL 97
            +A    ++RKKRMARQRRSSS  +           ++ ++++TSHV     PPL     
Sbjct: 54  VAAAFGTVHRKKRMARQRRSSSSTITIHLKNLPSSTTTTTTTTTSHVPISPIPPLFHSLP 113

Query: 98  PAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLH 157
           PAREID  RLRFLFQKELKNSDVSSLRRM+LPKKAAEA LPVLESKEGI +SM+DLDGLH
Sbjct: 114 PAREIDHRRLRFLFQKELKNSDVSSLRRMVLPKKAAEAFLPVLESKEGILLSMDDLDGLH 173

Query: 158 VWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDV 217
           VW+FKYRFWPNNNSRMYVLENTGDFV+ HGL+ GD I+VY+D+QN NYVIQAKKA DQD 
Sbjct: 174 VWSFKYRFWPNNNSRMYVLENTGDFVSTHGLRFGDSIMVYQDNQNHNYVIQAKKACDQDE 233

Query: 218 YTNLTSDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSL 277
           Y    +D++N I ++DYEVN+S  F V +P A  DT MSFIYD TT SNDSPLDFLGGS+
Sbjct: 234 YMEEANDTINHIFVDDYEVNKS-CFDVAYP-AMNDTSMSFIYD-TTISNDSPLDFLGGSM 290

Query: 278 TSYSRIGQ-ESFGSVENISLDDFY 300
           T+YSRIG  E+FGSVEN+SLDDFY
Sbjct: 291 TNYSRIGSVETFGSVENLSLDDFY 314

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296082287|emb|CBI21292.3| unnamed protein product [Vitis vinifera]

 Score =  306 bits (783), Expect = 9e-81,   Method: Compositional matrix adjust.
 Identities = 176/304 (57%), Positives = 215/304 (70%), Gaps = 34/304 (11%)

Query: 10  EKNEARAFMAGVEG----VTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANINRKKR 65
           E+NEA A MAGV G    VT +GDK T  GSD    S  + DLVAA  S+ G  +  +KR
Sbjct: 3   EQNEAYALMAGVGGELSFVTVRGDK-THEGSD---RSPPTRDLVAA--SSFG--VQGRKR 54

Query: 66  MARQRRSSSFNLLAFSSPSSSSTSHVSPPLALPAREIDPGRLRFLFQKELKNSDVSSLRR 125
           M RQRRSS+ NLL F+  +S       P     AR ID   LRFLF+KELKNSDV SLRR
Sbjct: 55  MPRQRRSSAINLLTFAPSTSPHVPPPPP-----ARAIDRKWLRFLFEKELKNSDVGSLRR 109

Query: 126 MILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNA 185
           M+LPKK+AE HLP+LE+KEGI I+M DLDG HVW FKYRFWPNNNSRMYVLENTG+FVN 
Sbjct: 110 MVLPKKSAETHLPLLEAKEGILITMYDLDGQHVWNFKYRFWPNNNSRMYVLENTGEFVNV 169

Query: 186 HGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSD-SVNDILLNDYEVNRSGSFYV 244
           HGLQLGD+I++Y D Q Q+ VI+A+KAS+++++ +L+ + +V+D+ L D E NRS  F  
Sbjct: 170 HGLQLGDYIMLYHDGQTQSLVIEARKASEKNLHADLSKNIAVSDLFLQDLEANRSNYFLA 229

Query: 245 NHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLT--------SYSRIGQ-ESFGSVENIS 295
                  DTG SF+Y+ TTFSNDSPLDFLGGS+T        +YSR G  E FGSVE++S
Sbjct: 230 ------MDTGTSFVYE-TTFSNDSPLDFLGGSMTNYPGGSVSNYSRFGALEGFGSVESLS 282

Query: 296 LDDF 299
           LDDF
Sbjct: 283 LDDF 286

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129216|ref|XP_002328919.1| predicted protein [Populus trichocarpa] gi|222839349|gb|EEE77686.1| predicted protein [Populus trichocarpa]

 Score =  306 bits (783), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 177/315 (56%), Positives = 211/315 (66%), Gaps = 62/315 (19%)

Query: 1   MMDQGVVVHEKNEARAFMAGVEGVTAKGDK----STRFGSDPIRASGSSLDLVAAVTSAL 56
           MM QG+V HEK EA A+MAG EGVT +GD     +   GSD +   GS+ D +A   S +
Sbjct: 2   MMHQGMV-HEKPEACAWMAGGEGVTEEGDNKQTPNIEGGSDLV-IDGSNRDHLAG--SMV 57

Query: 57  GANINRKKRMARQRRSSSF--NLLAFSSPSSSSTS--------HVSPPLALPAREIDPGR 106
           G  I RKKRM RQRRSSS   +LL+FS+  S ST+         +  P +LPAR IDP R
Sbjct: 58  GLEIKRKKRMPRQRRSSSTINHLLSFSANVSCSTTTTLDVPTFSLQDPSSLPARAIDPRR 117

Query: 107 LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFW 166
           LRFLFQKELKNSDVSSLRR+ILPKKAAEAHLP LESKEGIFI M+DLDGLH W+FKYR+W
Sbjct: 118 LRFLFQKELKNSDVSSLRRIILPKKAAEAHLPALESKEGIFIRMDDLDGLHAWSFKYRYW 177

Query: 167 PNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSV 226
           PNNNSRMYVLENT                                            ++V
Sbjct: 178 PNNNSRMYVLENTA------------------------------------------RNAV 195

Query: 227 NDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLTSYSRIGQ- 285
           ND +++DYEV++  SFYVN+P+  ++TG+SFIYDTT FSNDSPLDFLGGS+T++SRIG  
Sbjct: 196 NDFVVHDYEVSKLSSFYVNYPVV-DNTGLSFIYDTTAFSNDSPLDFLGGSMTNFSRIGNL 254

Query: 286 ESFGSVENISLDDFY 300
           ESFGSVEN+ LDDFY
Sbjct: 255 ESFGSVENLFLDDFY 269

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225451577|ref|XP_002275489.1| PREDICTED: B3 domain-containing transcription factor FUS3 [Vitis vinifera]

 Score =  305 bits (782), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 176/304 (57%), Positives = 215/304 (70%), Gaps = 34/304 (11%)

Query: 10  EKNEARAFMAGVEG----VTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANINRKKR 65
           E+NEA A MAGV G    VT +GDK T  GSD    S  + DLVAA  S+ G  +  +KR
Sbjct: 2   EQNEAYALMAGVGGELSFVTVRGDK-THEGSD---RSPPTRDLVAA--SSFG--VQGRKR 53

Query: 66  MARQRRSSSFNLLAFSSPSSSSTSHVSPPLALPAREIDPGRLRFLFQKELKNSDVSSLRR 125
           M RQRRSS+ NLL F+  +S       P     AR ID   LRFLF+KELKNSDV SLRR
Sbjct: 54  MPRQRRSSAINLLTFAPSTSPHVPPPPP-----ARAIDRKWLRFLFEKELKNSDVGSLRR 108

Query: 126 MILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNA 185
           M+LPKK+AE HLP+LE+KEGI I+M DLDG HVW FKYRFWPNNNSRMYVLENTG+FVN 
Sbjct: 109 MVLPKKSAETHLPLLEAKEGILITMYDLDGQHVWNFKYRFWPNNNSRMYVLENTGEFVNV 168

Query: 186 HGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSD-SVNDILLNDYEVNRSGSFYV 244
           HGLQLGD+I++Y D Q Q+ VI+A+KAS+++++ +L+ + +V+D+ L D E NRS  F  
Sbjct: 169 HGLQLGDYIMLYHDGQTQSLVIEARKASEKNLHADLSKNIAVSDLFLQDLEANRSNYFLA 228

Query: 245 NHPMAGEDTGMSFIYDTTTFSNDSPLDFLGGSLT--------SYSRIGQ-ESFGSVENIS 295
                  DTG SF+Y+ TTFSNDSPLDFLGGS+T        +YSR G  E FGSVE++S
Sbjct: 229 ------MDTGTSFVYE-TTFSNDSPLDFLGGSMTNYPGGSVSNYSRFGALEGFGSVESLS 281

Query: 296 LDDF 299
           LDDF
Sbjct: 282 LDDF 285

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297818218|ref|XP_002876992.1| hypothetical protein ARALYDRAFT_484455 [Arabidopsis lyrata subsp. lyrata] gi|297322830|gb|EFH53251.1| hypothetical protein ARALYDRAFT_484455 [Arabidopsis lyrata subsp. lyrata]

 Score =  295 bits (756), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 175/299 (58%), Positives = 202/299 (67%), Gaps = 41/299 (13%)

Query: 34  FGSDPIRASGSSLDLVAAVTSALGANINRKKRMARQRRSSSFNLLAFSSPSSSSTSHVSP 93
           FGS     SG     ++A    LG N  +K+RM RQRRSSS   L    P     SHV  
Sbjct: 25  FGS----GSGHDHHGLSASVPLLGVNW-KKRRMPRQRRSSSSFNLLSFPPPMPPISHVQT 79

Query: 94  PLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDL 153
           PL  PAR+IDP +LRFLFQKELKNSDVSSLRRMILPKKAAEAHLP LE KEGI I MEDL
Sbjct: 80  PL--PARKIDPTKLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPALECKEGIPIRMEDL 137

Query: 154 DGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKAS 213
           +GLHVWTFKYR+WPNNNSRMYVLENTGDFVNAHGLQLGDFI+VY+D  + NYVIQA+KAS
Sbjct: 138 NGLHVWTFKYRYWPNNNSRMYVLENTGDFVNAHGLQLGDFIMVYQDLYSNNYVIQARKAS 197

Query: 214 DQ----------DVYTNLT---SDSVNDILLNDY-----------EVNRSGSFYVNHPMA 249
           ++          DVYTNLT   +  VND+LL D+             +   S+Y  +P+ 
Sbjct: 198 EEEGDVTNVEEDDVYTNLTRIENTVVNDLLLQDFNHHNTNNNNNNNNSNKCSYY--YPII 255

Query: 250 GEDTGM--SFIYDTTTF-SNDSPLDFLGGSLTS----YSRIGQ-ESFGSVENISLDDFY 300
            + T    SF+YDTT   SND+PLDFLGG  T+    YS+ G  +  GSVENISLDDFY
Sbjct: 256 DDVTTTTGSFVYDTTALTSNDTPLDFLGGHTTTTNNYYSKFGTFDGLGSVENISLDDFY 314

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|45935049|gb|AAS79559.1| transcriptional regulator [Arabidopsis thaliana] gi|46367488|emb|CAG25870.1| hypothetical protein [Arabidopsis thaliana]

 Score =  295 bits (756), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 175/298 (58%), Positives = 201/298 (67%), Gaps = 40/298 (13%)

Query: 34  FGSDPIRASGSSLDLVAAVTSALGANINRKKRMARQRRSSSFNLLAFSSPSSSSTSHVSP 93
           FGS     SG     ++A    LG N  +K+RM RQRRSSS   L    P     SHV  
Sbjct: 22  FGS----GSGHDHHGLSASVPLLGVNW-KKRRMPRQRRSSSSFNLLSFPPPMPPISHV-- 74

Query: 94  PLALPAREIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDL 153
           P  LPAR+IDP +LRFLFQKELKNSDVSSLRRMILPKKAAEAHLP LE KEGI I MEDL
Sbjct: 75  PTPLPARKIDPRKLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPALECKEGIPIRMEDL 134

Query: 154 DGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKAS 213
           DG HVWTFKYR+WPNNNSRMYVLENTGDFVNAHGLQLGDFI+VY+D  + NYVIQA+KAS
Sbjct: 135 DGFHVWTFKYRYWPNNNSRMYVLENTGDFVNAHGLQLGDFIMVYQDLYSNNYVIQARKAS 194

Query: 214 DQ-----------DVYTNLT---SDSVNDILLNDY---------EVNRSGSFYVNHPMAG 250
           ++           DVYTNLT   +  VND+LL D+           +   S+Y  +P+  
Sbjct: 195 EEEEVDVINLEEDDVYTNLTRIENTVVNDLLLQDFNHHNNNNNNSNSNKCSYY--YPVID 252

Query: 251 EDT--GMSFIYDTTTF-SNDSPLDFLGGSLTS----YSRIGQ-ESFGSVENISLDDFY 300
           + T    SF+YDTT   SND+PLDFLGG  T+    YS+ G  +  GSVENISLDDFY
Sbjct: 253 DVTTNTESFVYDTTALTSNDTPLDFLGGHTTTTNNYYSKFGTFDGLGSVENISLDDFY 310

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	300
TAIR|locus:2088439	313	FUS3 "FUSCA 3" [Arabidopsis th	0.736	0.706	0.548	2e-69
UNIPROTKB|A4LBC0	402	LFL1 "B3 domain-containing pro	0.376	0.281	0.622	6.5e-35
TAIR|locus:2093166	720	ABI3 "AT3G24650" [Arabidopsis	0.386	0.161	0.528	1.6e-32
TAIR|locus:2032170	363	LEC2 "LEAFY COTYLEDON 2" [Arab	0.343	0.283	0.553	7.7e-31
UNIPROTKB|P37398	727	VP1 "B3 domain-containing prot	0.346	0.143	0.571	1.5e-30
UNIPROTKB|Q7XKC5	433	LOC_Os04g58000 "B3 domain-cont	0.426	0.295	0.460	1.5e-28
UNIPROTKB|Q6Z1Z3	362	IDEF1 "B3 domain-containing pr	0.393	0.325	0.436	2e-24
TAIR|locus:2064417	790	HSI2 "high-level expression of	0.346	0.131	0.4	3.2e-17
TAIR|locus:2116592	780	HSL1 "HSI2-like 1" [Arabidopsi	0.346	0.133	0.390	2.9e-16
TAIR|locus:2205319	344	RAV1 "related to ABI3/VP1 1" [	0.35	0.305	0.353	1.4e-10

TAIR|locus:2088439 FUS3 "FUSCA 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 577 (208.2 bits), Expect = 2.0e-69, Sum P(2) = 2.0e-69
 Identities = 135/246 (54%), Positives = 158/246 (64%)

Query:    42 SGSSLDL--VAAVTSALGANINRKKRMARQRRXXXXXXXXXXXXXXXXXXXXXXXXALPA 99
             SGS  D   ++A    LG N  +K+RM RQRR                         LPA
Sbjct:    24 SGSGHDHHGLSASVPLLGVNW-KKRRMPRQRRSSSSFNLLSFPPPMPPISHVPT--PLPA 80

Query:   100 REIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVW 159
             R+IDP +LRFLFQKELKNSDVSSLRRMILPKKAAEAHLP LE KEGI I MEDLDG HVW
Sbjct:    81 RKIDPRKLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPALECKEGIPIRMEDLDGFHVW 140

Query:   160 TFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQ---- 215
             TFKYR+WPNNNSRMYVLENTGDFVNAHGLQLGDFI+VY+D  + NYVIQA+KAS++    
Sbjct:   141 TFKYRYWPNNNSRMYVLENTGDFVNAHGLQLGDFIMVYQDLYSNNYVIQARKASEEEEVD 200

Query:   216 -------DVYTNLT---SDSVNDILLNDYEVNRSGSFYVNHPMAGEDTGMSFIY---DTT 262
                    DVYTNLT   +  VND+LL D+  + + +   N+         S+ Y   D  
Sbjct:   201 VINLEEDDVYTNLTRIENTVVNDLLLQDFNHHNNNN---NNNSNSNSNKCSYYYPVIDDV 257

Query:   263 TFSNDS 268
             T + +S
Sbjct:   258 TTNTES 263

GO:0003677 "DNA binding" evidence=IEA;ISS;IDA

GO:0005634 "nucleus" evidence=ISM

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

GO:0009793 "embryo development ending in seed dormancy" evidence=IGI;IMP

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

GO:0008284 "positive regulation of cell proliferation" evidence=IDA

GO:0009733 "response to auxin stimulus" evidence=IEP

GO:0010116 "positive regulation of abscisic acid biosynthetic process" evidence=IMP

GO:0010373 "negative regulation of gibberellin biosynthetic process" evidence=IMP

GO:0010262 "somatic embryogenesis" evidence=IMP

UNIPROTKB|A4LBC0 LFL1 "B3 domain-containing protein LFL1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 71/114 (62%), Positives = 86/114 (75%)

Query:   107 LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGI-FISMEDLDGLHVWTFKYRF 165
             LR + QKEL+ SDVS L R++LPKK AEA+LP+L SK+G   + M DL    +WTFKYR+
Sbjct:   177 LRVILQKELRYSDVSQLGRIVLPKKEAEAYLPILTSKDGKKSLCMHDLQNAQLWTFKYRY 236

Query:   166 WPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYT 219
             WPNN SRMYVLENTGD+V  H LQLGD I++YKDD+N  +VI AKKA DQ   T
Sbjct:   237 WPNNKSRMYVLENTGDYVRTHDLQLGDSIVIYKDDENNRFVIGAKKAGDQQAAT 290

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

GO:0005634 "nucleus" evidence=IDA

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

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

GO:0048573 "photoperiodism, flowering" evidence=IMP

TAIR|locus:2093166 ABI3 "AT3G24650" [Arabidopsis thaliana (taxid:3702)]

 Score = 339 (124.4 bits), Expect = 1.6e-32, Sum P(2) = 1.6e-32
 Identities = 66/125 (52%), Positives = 87/125 (69%)

Query:    96 ALPAREIDPGR---------LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGI 146
             A+P +++ P R         LRFL QK LK SDV +L R++LPKK AE HLP LE+++GI
Sbjct:   548 AMPRQQVVPDRRQGWKPEKNLRFLLQKVLKQSDVGNLGRIVLPKKEAETHLPELEARDGI 607

Query:   147 FISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYV 206
              ++MED+    VW  +YRFWPNN SRMY+LENTGDFV  +GLQ GDFI++Y D +   Y+
Sbjct:   608 SLAMEDIGTSRVWNMRYRFWPNNKSRMYLLENTGDFVKTNGLQEGDFIVIYSDVKCGKYL 667

Query:   207 IQAKK 211
             I+  K
Sbjct:   668 IRGVK 672

GO:0003677 "DNA binding" evidence=ISS;IDA

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:0009657 "plastid organization" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0009790 "embryo development" evidence=IEP

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

GO:0009733 "response to auxin stimulus" evidence=IMP

GO:0005829 "cytosol" evidence=IDA

GO:0031930 "mitochondria-nucleus signaling pathway" evidence=IDA

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

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

GO:0016114 "terpenoid biosynthetic process" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0051301 "cell division" evidence=RCA

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

TAIR|locus:2032170 LEC2 "LEAFY COTYLEDON 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 318 (117.0 bits), Expect = 7.7e-31, Sum P(2) = 7.7e-31
 Identities = 57/103 (55%), Positives = 76/103 (73%)

Query:   103 DPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFK 162
             D  +LR L +KELKNSDV SL R++LPK+ AEA+LP L  KEGI + M D+  +  W+FK
Sbjct:   163 DNKKLRVLCEKELKNSDVGSLGRIVLPKRDAEANLPKLSDKEGIVVQMRDVFSMQSWSFK 222

Query:   163 YRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNY 205
             Y+FW NN SRMYVLENTG+FV  +G ++GDF+ +Y+D+    Y
Sbjct:   223 YKFWSNNKSRMYVLENTGEFVKQNGAEIGDFLTIYEDESKNLY 265

GO:0003677 "DNA binding" evidence=IEA;IDA

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0010262 "somatic embryogenesis" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

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

GO:0010344 "seed oilbody biogenesis" evidence=IMP

GO:0010431 "seed maturation" evidence=IMP

GO:0010601 "positive regulation of auxin biosynthetic process" evidence=IMP

UNIPROTKB|P37398 VP1 "B3 domain-containing protein VP1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 321 (118.1 bits), Expect = 1.5e-30, Sum P(2) = 1.5e-30
 Identities = 60/105 (57%), Positives = 79/105 (75%)

Query:   107 LRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFW 166
             LRFL QK LK SDV SL R++LPK+A E HLP L++++G+ I MED+    VW  +YRFW
Sbjct:   533 LRFLLQKVLKQSDVGSLGRIVLPKEA-EVHLPELKTRDGVSIPMEDIGTSQVWNMRYRFW 591

Query:   167 PNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKK 211
             PNN SRMY+LENTGDFV ++ LQ GDFI++Y D ++  Y+I+  K
Sbjct:   592 PNNKSRMYLLENTGDFVRSNELQEGDFIVIYSDIKSGKYLIRGVK 636

GO:0009737 "response to abscisic acid stimulus" evidence=IEP

GO:0009790 "embryo development" evidence=IEP

UNIPROTKB|Q7XKC5 LOC_Os04g58000 "B3 domain-containing protein Os04g0676600" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 318 (117.0 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 59/128 (46%), Positives = 82/128 (64%)

Query:   108 RFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWP 167
             R + +KEL NSDV ++ R+++PK+ AEAHLP L  +EG+ + M+D      W FKYRFWP
Sbjct:   294 RVILRKELTNSDVGNIGRIVMPKRDAEAHLPALHQREGVMLKMDDFKLETTWNFKYRFWP 353

Query:   168 NNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTNLTSDSVN 227
             NN SRMYVLE+TG FV  H LQ GD  I+YK  +++  V++ +KA   +V   +   S  
Sbjct:   354 NNKSRMYVLESTGGFVKQHVLQTGDIFIIYKSSESEKLVVRGEKAIKPNVIMPIVDCSCK 413

Query:   228 DILLNDYE 235
             + L N  E
Sbjct:   414 NDLNNSEE 421

GO:0003677 "DNA binding" evidence=IDA

UNIPROTKB|Q6Z1Z3 IDEF1 "B3 domain-containing protein IDEF1" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 52/119 (43%), Positives = 79/119 (66%)

Query:   102 IDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTF 161
             ++ G  + + +KEL  SDV ++ R++LPKK AEA LP L  ++ + + M+D+     W F
Sbjct:   244 LNSGEYQVILRKELTKSDVGNVGRIVLPKKDAEASLPPLLQRDPLILHMDDMVLPVTWKF 303

Query:   162 KYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASDQDVYTN 220
             KYR+WPNN SRMY+L++ G+F+  HGLQ GD II+YK+     ++I+ +KA  Q   TN
Sbjct:   304 KYRYWPNNKSRMYILDSAGEFLKTHGLQAGDVIIIYKNLAPGKFIIRGEKAIHQQT-TN 361

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

GO:0005634 "nucleus" evidence=IDA

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

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

TAIR|locus:2064417 HSI2 "high-level expression of sugar-inducible gene 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 222 (83.2 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 42/105 (40%), Positives = 65/105 (61%)

Query:   110 LFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNN 169
             LF+K L  SD   + R++LPK  AEA+ P +   EGI + ++D+ G   WTF++R+WPNN
Sbjct:   294 LFEKTLSASDAGRIGRLVLPKACAEAYFPPISQSEGIPLKIQDVRGRE-WTFQFRYWPNN 352

Query:   170 NSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASD 214
             NSRMYVLE     + +  LQ GD +   + D     ++ ++KA++
Sbjct:   353 NSRMYVLEGVTPCIQSMMLQAGDTVTFSRVDPGGKLIMGSRKAAN 397

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005739 "mitochondrion" evidence=IDA

GO:0009737 "response to abscisic acid stimulus" evidence=TAS

GO:0009744 "response to sucrose stimulus" evidence=TAS

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0010030 "positive regulation of seed germination" evidence=IGI

GO:2000034 "regulation of seed maturation" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2116592 HSL1 "HSI2-like 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 213 (80.0 bits), Expect = 2.9e-16, P = 2.9e-16
 Identities = 41/105 (39%), Positives = 63/105 (60%)

Query:   110 LFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNN 169
             LF+K L  SD   + R++LPK  AEA+ P +   EG+ + ++D+ G   W F++RFWPNN
Sbjct:   285 LFEKVLSASDAGRIGRLVLPKACAEAYFPPISLPEGLPLKIQDIKGKE-WVFQFRFWPNN 343

Query:   170 NSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKASD 214
             NSRMYVLE     + +  LQ GD +   + +     V+  +KA++
Sbjct:   344 NSRMYVLEGVTPCIQSMQLQAGDTVTFSRTEPEGKLVMGYRKATN 388

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0010030 "positive regulation of seed germination" evidence=IGI

GO:2000034 "regulation of seed maturation" evidence=IGI

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0009790 "embryo development" evidence=RCA

GO:0009880 "embryonic pattern specification" evidence=RCA

GO:0010072 "primary shoot apical meristem specification" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010431 "seed maturation" evidence=RCA

GO:0010564 "regulation of cell cycle process" evidence=RCA

GO:0043687 "post-translational protein modification" evidence=RCA

GO:0045595 "regulation of cell differentiation" evidence=RCA

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

GO:0048316 "seed development" evidence=RCA

GO:0048366 "leaf development" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0051301 "cell division" evidence=RCA

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2205319 RAV1 "related to ABI3/VP1 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 169 (64.5 bits), Expect = 1.4e-10, P = 1.4e-10
 Identities = 40/113 (35%), Positives = 63/113 (55%)

Query:   110 LFQKELKNSDVSSLRRMILPKKAAEAHLPVLESK---EGIFISMEDLDGLHVWTFKYRFW 166
             LF+K +  SDV  L R+++PK  AE H P+  S    +G+ ++ ED++G  VW F+Y +W
Sbjct:   187 LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG-KVWRFRYSYW 245

Query:   167 PNNNSRMYVL-ENTGDFVNAHGLQLGDFIIVYKDD-QNQNYVIQAKKASDQDV 217
               N+S+ YVL +    FV    L+ GD +   + + Q+Q   I  K  S  D+
Sbjct:   246 --NSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDL 296

GO:0003677 "DNA binding" evidence=IEA;IDA

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

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

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA;ISS

GO:0009741 "response to brassinosteroid stimulus" evidence=IEP

GO:0009910 "negative regulation of flower development" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

GO:0048527 "lateral root development" evidence=IMP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

---

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)
Q9LW31	FUS3_ARATH	No assigned EC number	0.5813	0.86	0.8242	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: gw1.I.3288.1 hypothetical protein (252 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	300
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	1e-26
pfam02362	97	pfam02362, B3, B3 DNA binding domain	1e-20
cd10015	109	cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o	9e-18
smart01019	96	smart01019, B3, B3 DNA binding domain	3e-16

>gnl|CDD|197383 cd10017, B3_DNA, Plant-specific B3-DNA binding domain

 Score =  100 bits (250), Expect = 1e-26
 Identities = 43/103 (41%), Positives = 63/103 (61%), Gaps = 5/103 (4%)

Query: 109 FLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPN 168
            LF K L  SDVSSL R++LPKK A+AHLP    KEG+ +++ED DG   WT K +   N
Sbjct: 1   PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPP---KEGVEVTLEDPDG-KKWTVKLKKRKN 56

Query: 169 NNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKK 211
           +  RM +     +FV A+GL+ GDF++   D +N  + ++  +
Sbjct: 57  SG-RMVLSGGWKEFVRANGLKEGDFLVFELDGRNSKFKVRIFR 98

The plant-specific B3 DNA binding domain superfamily includes the well-characterized auxin response factor (ARF) and the LAV (Leafy cotyledon2 [LEC2]-Abscisic acid insensitive3 [ABI3]-VAL) families, as well as the RAV (Related to ABI3 and VP1) and REM (REproductive Meristem) families. LEC2 and ABI3 have been shown to be involved in seed development, while other members of the LAV family seem to have a more general role, being expressed in many organs during plant development. Members of the ARF family bind to the auxin response element and depending on presence of an activation or repression domain, they activate or repress transcription. RAV and REM families are less studied B3 protein famillies. Length = 98

>gnl|CDD|216995 pfam02362, B3, B3 DNA binding domain

 Score = 84.3 bits (209), Expect = 1e-20
 Identities = 33/86 (38%), Positives = 49/86 (56%), Gaps = 7/86 (8%)

Query: 111 FQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNN 170
           F K L  SDVS   R++LPKK AE +    + +E   I++ D DG   WT K R+    +
Sbjct: 1   FVKVLTPSDVSKDGRLVLPKKFAEENGLNKKGQE---ITLLDPDG-KSWTVKLRYR--KS 54

Query: 171 SRMYVLEN-TGDFVNAHGLQLGDFII 195
            R Y+L +   +FV A+GL+ GD ++
Sbjct: 55  GRRYLLTSGWKEFVKANGLKAGDSLV 80

This is a family of plant transcription factors with various roles in development, the aligned region corresponds the B3 DNA binding domain as described in this domain is found in VP1/AB13 transcription factors. Some proteins also have a second AP2 DNA binding domain pfam00847 such as RAV1. DNA binding activity was demonstrated by. Length = 97

>gnl|CDD|197381 cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains of BfiI, EcoRII and plant B3 proteins

 Score = 76.9 bits (189), Expect = 9e-18
 Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 8/99 (8%)

Query: 109 FLFQKELKNSDVS----SLRRMILPKKAAEAHLPVL----ESKEGIFISMEDLDGLHVWT 160
            +  K L  +D          + +PK   E   P +    E+   IF++M D+     W 
Sbjct: 1   VVLIKRLSANDTGATGGHQVGLYIPKGIVEKFPPSINHTREANPSIFLTMHDISDCRDWE 60

Query: 161 FKYRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKD 199
            +  F+ +N +   +      FV  + L  GD  ++  D
Sbjct: 61  ARAIFYNSNRNEKRLTRGGRGFVKQNPLNTGDLTLIAFD 99

This family contains the N-terminal DNA binding domain of type IIE restriction endonuclease EcoRII-like proteins, the C-terminal DNA binding domain of type IIS restriction endonuclease BfiI-like proteins and plant-specific B3 proteins. Type II restriction endonucleases are components of restriction modification (RM) systems that protect bacteria and archaea against invading foreign DNA. They usually function as homodimers or homotetramers that cleave DNA at defined sites of 4 to 8 bp in length, and they require Mg2+, not ATP or GTP, for catalysis. EcoRII is specific for the 5'-CCWGG sequence (W stands for A or T). EcoRII consists of 2 domains, the C-terminal catalytic/dimerization domain (EcoRII-C), and the N-terminal effector DNA binding domain (EcoRII-N). BfiI is unique in cleaving DNA at fixed positions downstream of an asymmetric sequence in the absence of Mg2+. BfiI consists of two discrete domains with distinct functions: an N-terminal catalytic domain with non-specific nuclease activity and dimerization function that is more closely related to Nuc, an EDTA-resistant nuclease from the phospholipase D (PLD) superfamily; and a C-terminal domain that specifically recognizes its target sequences, 5'-ACTGGG-3'. B3 proteins are a family of plant-specific transcription factors, involved in a great variety of processes, including seed development and auxin response. Length = 109

>gnl|CDD|214977 smart01019, B3, B3 DNA binding domain

 Score = 72.3 bits (178), Expect = 3e-16
 Identities = 36/103 (34%), Positives = 58/103 (56%), Gaps = 8/103 (7%)

Query: 111 FQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNN 170
           F K L  SDVS   R++LPK+ AE++ P L+ KE   I++ D DG   W  K ++    +
Sbjct: 1   FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKE---ITLLDPDG-KSWKVKLKYR--GS 54

Query: 171 SRMYVLEN-TGDFVNAHGLQLGDFIIVYKDDQNQNYVIQAKKA 212
           S M++L     +FV A+GL+ GD  + ++ D N  +V+   + 
Sbjct: 55  SGMFLLTGGWKEFVKANGLKAGDS-LTFELDGNGEFVVSIFRK 96

Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see ) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations. Length = 96

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	300
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.75
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	98.48
PF09217	156	EcoRII-N: Restriction endonuclease EcoRII, N-termi	97.98

>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species

Probab=99.75  E-value=2e-17  Score=128.43  Aligned_cols=97  Identities=32%  Similarity=0.447  Sum_probs=69.5

Q ss_pred             EEEecccCCCCCCCceEeehhhhhhcCCCCCCCCceEEEEEeCCCCeEEEEEEEEcCCCCCcceeec-ChhhHHhhcCCC
Q 041864          111 FQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLE-NTGDFVNAHGLQ  189 (300)
Q Consensus       111 F~KvLT~SDVgslgRLVIPK~~AE~~LP~Ld~~eGi~L~V~D~~G~k~W~FRf~yw~NnkSR~YVLt-GW~~FVr~K~Lk  189 (300)
                      |.|+|+++|+....+|.||++.++++.  +....++.+.+.|..| ++|.++++++.  .+..|+|+ ||.+||++++|+
T Consensus         1 F~K~l~~s~~~~~~~l~iP~~f~~~~~--~~~~~~~~v~l~~~~g-~~W~v~~~~~~--~~~~~~l~~GW~~Fv~~n~L~   75 (100)
T PF02362_consen    1 FFKVLKPSDVSSSCRLIIPKEFAKKHG--GNKRKSREVTLKDPDG-RSWPVKLKYRK--NSGRYYLTGGWKKFVRDNGLK   75 (100)
T ss_dssp             EEEE--TTCCCCTT-EEE-HHHHTTTS----SS--CEEEEEETTT-EEEEEEEEEEC--CTTEEEEETTHHHHHHHCT--
T ss_pred             CEEEEEccCcCCCCEEEeCHHHHHHhC--CCcCCCeEEEEEeCCC-CEEEEEEEEEc--cCCeEEECCCHHHHHHHcCCC
Confidence            899999999999899999999999982  1223467888899999 59999999883  44447776 899999999999


Q ss_pred             CCCEEEEEEcC-CCCeEEEEEEEc
Q 041864          190 LGDFIIVYKDD-QNQNYVIQAKKA  212 (300)
Q Consensus       190 aGD~IvF~rd~-~~G~L~IgiRRa  212 (300)
                      +||.|+|+..+ ...++.|.+.|+
T Consensus        76 ~GD~~~F~~~~~~~~~~~v~i~~~   99 (100)
T PF02362_consen   76 EGDVCVFELIGNSNFTLKVHIFRK   99 (100)
T ss_dssp             TT-EEEEEE-SSSCE-EEEEEE--
T ss_pred             CCCEEEEEEecCCCceEEEEEEEC
Confidence            99999999875 345678988775

The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.

>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function

Probab=98.48  E-value=6e-07  Score=75.32  Aligned_cols=80  Identities=23%  Similarity=0.406  Sum_probs=64.0

Q ss_pred             CCceEeEEEecccCCCCC-CCceEeehhhhhh--cCCC-----C-------CCCCceEEEEEeCCCCeEEEEEEEEcCC-
Q 041864          105 GRLRFLFQKELKNSDVSS-LRRMILPKKAAEA--HLPV-----L-------ESKEGIFISMEDLDGLHVWTFKYRFWPN-  168 (300)
Q Consensus       105 ~~~~~LF~KvLT~SDVgs-lgRLVIPK~~AE~--~LP~-----L-------d~~eGi~L~V~D~~G~k~W~FRf~yw~N-  168 (300)
                      .+...+++|.|++|||.. ++||.||......  +|-.     +       +...|+.+.+.|..+. .|..+++.|.. 
T Consensus        18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~-~~~m~lkkW~mg   96 (114)
T PF03754_consen   18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLR-KWTMRLKKWNMG   96 (114)
T ss_pred             CCCeEEEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCc-EEEEEEEEeccc
Confidence            566899999999999995 8999999987743  2321     1       1246899999999995 99999999977 


Q ss_pred             CCCcceeec-ChhhHHhh
Q 041864          169 NNSRMYVLE-NTGDFVNA  185 (300)
Q Consensus       169 nkSR~YVLt-GW~~FVr~  185 (300)
                      +.+-.|+|. ||.++|++
T Consensus        97 ~~~~~YvL~~gWn~VV~~  114 (114)
T PF03754_consen   97 NGTSNYVLNSGWNKVVED  114 (114)
T ss_pred             CCceEEEEEcChHhhccC
Confidence            446679997 79998863

>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV

Probab=97.98  E-value=2.5e-05  Score=68.96  Aligned_cols=90  Identities=16%  Similarity=0.292  Sum_probs=56.7

Q ss_pred             eEeEEEecccCCCCC----CCceEeehhhhhhcCCCCCC----CCceEEEEEeCCCC-eEEEEEEEEcCC----CCCcce
Q 041864          108 RFLFQKELKNSDVSS----LRRMILPKKAAEAHLPVLES----KEGIFISMEDLDGL-HVWTFKYRFWPN----NNSRMY  174 (300)
Q Consensus       108 ~~LF~KvLT~SDVgs----lgRLVIPK~~AE~~LP~Ld~----~eGi~L~V~D~~G~-k~W~FRf~yw~N----nkSR~Y  174 (300)
                      ...|.|.|++.|++.    ..++.|||..++.+||.+..    .+.+.|.+.+..+. ..|++|++|+.|    +.+..|
T Consensus         7 ~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~   86 (156)
T PF09217_consen    7 WAIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEY   86 (156)
T ss_dssp             EEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EE
T ss_pred             eEEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCce
Confidence            568999999999994    57999999999999988754    35588888887763 368899999944    346789


Q ss_pred             eecChhhHHhhcC-CCCCCEEEEE
Q 041864          175 VLENTGDFVNAHG-LQLGDFIIVY  197 (300)
Q Consensus       175 VLtGW~~FVr~K~-LkaGD~IvF~  197 (300)
                      .||.|.....--+ =.+||.++|-
T Consensus        87 RIT~~G~~~~~~~~~~tGaL~vla  110 (156)
T PF09217_consen   87 RITRFGRGFPLQNPENTGALLVLA  110 (156)
T ss_dssp             EEE---TTSGGG-GGGTT-EEEEE
T ss_pred             EEeeecCCCccCCccccccEEEEE
Confidence            9999966555333 3568888775

All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the N-terminal effector-binding domain of the type II restriction endonuclease EcoRII, which has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not []. The domain represented by this entry is only found in bacterial proteins.; PDB: 3HQF_A 1NA6_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	300
1wid_A	130	Solution Structure Of The B3 Dna-Binding Domain Of		2e-11

>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1 Length = 130

Iteration: 1
 Score = 66.2 bits (160), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 40/113 (35%), Positives = 63/113 (55%), Gaps = 8/113 (7%)
Query: 110 LFQKELKNSDVSSLRRMILPKKAAEAHLPVLESK---EGIFISMEDLDGLHVWTFKYRFW 166
           LF+K +  SDV  L R+++PK  AE H P+  S    +G+ ++ ED++G  VW F+Y +W
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG-KVWRFRYSYW 71
Query: 167 PNNNSRMYVL-ENTGDFVNAHGLQLGDFIIVYKDD-QNQNYVIQAKKASDQDV 217
             N+S+ YVL +    FV    L+ GD +   + + Q+Q   I  K  S  D+
Sbjct: 72  --NSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDL 122

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	300
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	1e-22
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07

>1wid_A DNA-binding protein RAV1; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Length = 130

 Score = 90.2 bits (223), Expect = 1e-22
 Identities = 41/127 (32%), Positives = 65/127 (51%), Gaps = 8/127 (6%)

Query: 102 IDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESK---EGIFISMEDLDGLHV 158
                   LF+K +  SDV  L R+++PK  AE H P+  S    +G+ ++ ED++G  V
Sbjct: 5   SSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG-KV 63

Query: 159 WTFKYRFWPNNNSRMYVL-ENTGDFVNAHGLQLGDFIIVYKDD-QNQNYVIQAKKASDQD 216
           W F+Y +W  N+S+ YVL +    FV    L+ GD +   + + Q+Q   I  K  S  D
Sbjct: 64  WRFRYSYW--NSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD 121

Query: 217 VYTNLTS 223
           +  +  S
Sbjct: 122 LDASGPS 128

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

 Score = 50.2 bits (119), Expect = 4e-07
 Identities = 53/431 (12%), Positives = 100/431 (23%), Gaps = 185/431 (42%)

Query: 4   QGVVVHEKNEARAFMAGVEGVTAKGDKSTRFGSDPIRASGSSLDLVAAVTSALGANINRK 63
           + V++         + G       G K+                +   V  +        
Sbjct: 151 KNVLIDG-------VLGS------G-KTW---------------VALDVCLSYKVQCKMD 181

Query: 64  KR-----MARQRRSSSF-----NLLAFSSPSSSSTSHVSPPLALPAREIDPGRLRFLFQK 113
            +     +       +       LL    P+ +S S  S  + L    I     R L  K
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 114 ELKNS-----DVSSLR---------RMIL----------------PKKAAEAHLPVLESK 143
             +N      +V + +         +++L                   + + H   L   
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 144 E--GIF-----ISMEDL--------------------DGLHVWTF--KYRFW-------- 166
           E   +         +DL                    DGL  W                 
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361

Query: 167 ------PNNNSRMY---------------VL---------ENTGDFVNAHGLQLGDFIIV 196
                 P    +M+               +L          +    VN    +L  + +V
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN----KLHKYSLV 417

Query: 197 YKDDQNQNYVIQAKKASDQDVYTNLTSDSVND-----ILLNDYEVNRS------------ 239
            K  +     I         +Y  L     N+      +++ Y + ++            
Sbjct: 418 EKQPKESTISI-------PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470

Query: 240 GSFYVNH--------PMAGEDTGMSFIY-DTTTFSNDSPLDFLGGSLTSYSRIGQESFGS 290
             FY +H              T    ++ D           FL   +  +      + GS
Sbjct: 471 QYFY-SHIGHHLKNIEHPERMTLFRMVFLD---------FRFLEQKI-RHDSTAWNASGS 519

Query: 291 VENISLD-DFY 300
           + N      FY
Sbjct: 520 ILNTLQQLKFY 530

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	300
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.96
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.63
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.45
1na6_A	404	Ecorii, restriction endonuclease ecorii; site-spec	94.1

>1wid_A DNA-binding protein RAV1; DNA-binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: b.142.1.2

Probab=99.96  E-value=6.4e-29  Score=206.35  Aligned_cols=109  Identities=36%  Similarity=0.702  Sum_probs=98.3

Q ss_pred             CCceEeEEEecccCCCCCCCceEeehhhhhhcCCCCCC---CCceEEEEEeCCCCeEEEEEEEEcCCCCCcceeec-Chh
Q 041864          105 GRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLES---KEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLE-NTG  180 (300)
Q Consensus       105 ~~~~~LF~KvLT~SDVgslgRLVIPK~~AE~~LP~Ld~---~eGi~L~V~D~~G~k~W~FRf~yw~NnkSR~YVLt-GW~  180 (300)
                      +...++|+|+||+|||++++||+||+++||+|||.++.   .+++.|.++|.+| ++|+|+|+||  +++++|+|+ ||.
T Consensus         8 ~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~G-k~W~fr~~~~--~~~~~~~Lt~GW~   84 (130)
T 1wid_A            8 RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG-KVWRFRYSYW--NSSQSYVLTKGWS   84 (130)
T ss_dssp             CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTT-EEEEEEEEEE--TTTTEEEEESSHH
T ss_pred             CCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCC-CEEEEEEEEE--CCCCceEEcCChH
Confidence            44588999999999999889999999999999999874   4789999999999 5999999999  667899998 699


Q ss_pred             hHHhhcCCCCCCEEEEEEcCC-CCeEEEEEEEcCCCC
Q 041864          181 DFVNAHGLQLGDFIIVYKDDQ-NQNYVIQAKKASDQD  216 (300)
Q Consensus       181 ~FVr~K~LkaGD~IvF~rd~~-~G~L~IgiRRa~~q~  216 (300)
                      +||++|+|++||+|+|++++. +++|+|++||+..+.
T Consensus        85 ~FV~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~~~  121 (130)
T 1wid_A           85 RFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSD  121 (130)
T ss_dssp             HHHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCSCS
T ss_pred             HHHHHcCCCCCCEEEEEEecCCCcEEEEEEEECCCCC
Confidence            999999999999999999864 468999999999654

>4i1k_A B3 domain-containing transcription factor VRN1; B3 domain beta-barrel, DNA binding protein; 1.60A {Arabidopsis thaliana}

Probab=99.63  E-value=2.2e-15  Score=127.73  Aligned_cols=101  Identities=19%  Similarity=0.200  Sum_probs=80.6

Q ss_pred             ccCCCCceEeEEEecccCCCCCCCceEeehhhhhhcCCCCCCCCceEEEEEeCCCCeEEEEEEEEcCCCCCcceeec-Ch
Q 041864          101 EIDPGRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLE-NT  179 (300)
Q Consensus       101 ~~d~~~~~~LF~KvLT~SDVgslgRLVIPK~~AE~~LP~Ld~~eGi~L~V~D~~G~k~W~FRf~yw~NnkSR~YVLt-GW  179 (300)
                      .+.+.  .+.|.|+||+|||....+|.||++.|++|||..+    ..+.++|. | +.|.++|.|+  +. + +.|+ ||
T Consensus        41 ~~~s~--~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~~----~~i~L~~~-g-k~W~v~~~~~--~~-~-~~ls~GW  108 (146)
T 4i1k_A           41 TFEPT--NPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGIS----GFIKVQLA-E-KQWPVRCLYK--AG-R-AKFSQGW  108 (146)
T ss_dssp             HCCCS--SCEEEEECCGGGSSTTCCEECCHHHHHHHCTTCC----SEEEEEET-T-EEEEEEEEEE--TT-E-EEECTTH
T ss_pred             HcCCC--CCEEEEEECchhcCCCcEEEeCHHHHHHhCCCCC----eEEEEEEC-C-cEEEEEEEEe--CC-c-EEECCch
Confidence            34444  5699999999999977789999999999999753    34555787 5 6999999998  32 3 5565 79


Q ss_pred             hhHHhhcCCCCCCEEEEEEcCCCC-eEEEEEEEcC
Q 041864          180 GDFVNAHGLQLGDFIIVYKDDQNQ-NYVIQAKKAS  213 (300)
Q Consensus       180 ~~FVr~K~LkaGD~IvF~rd~~~G-~L~IgiRRa~  213 (300)
                      ..||++|+|++||.|+|...+... .|.|.|-|+.
T Consensus       109 ~~Fv~dn~L~~GD~cvFeli~~~~~~f~V~IfR~~  143 (146)
T 4i1k_A          109 YEFTLENNLGEGDVCVFELLRTRDFVLKVTAFRVN  143 (146)
T ss_dssp             HHHHHHTTCCTTCEEEEEECSSSSCEEEEEEECCC
T ss_pred             HHHHHHcCCCCCCEEEEEEecCCceEEEEEEEecc
Confidence            999999999999999999876533 5778887764

>1yel_A AT1G16640; CESG, protein structure initiative, structural genomics, center for eukaryotic structural genomics, unknown function; NMR {Arabidopsis thaliana} SCOP: b.142.1.2

Probab=99.45  E-value=5.1e-13  Score=105.93  Aligned_cols=90  Identities=17%  Similarity=0.296  Sum_probs=71.6

Q ss_pred             eEeEEEecccCCCCCCCceEeehhhhhhcCCCCCCCCceEEEEEeCCCCeEEEEEEEEcCCCCCcceeec-ChhhHHhhc
Q 041864          108 RFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLE-NTGDFVNAH  186 (300)
Q Consensus       108 ~~LF~KvLT~SDVgslgRLVIPK~~AE~~LP~Ld~~eGi~L~V~D~~G~k~W~FRf~yw~NnkSR~YVLt-GW~~FVr~K  186 (300)
                      .+.|.|+|+++|.  ..+|.||++.++.+.|.+    +..+.++|..|+ +|.+++.++  ++  .+.|+ ||.+||++|
T Consensus         8 ~p~F~K~l~~~~~--~~~L~IP~~F~~~~~~~~----~~~v~L~~~~G~-~W~v~~~~~--~~--~~~l~~GW~~Fv~~~   76 (104)
T 1yel_A            8 EVQFMKPFISEKS--SKSLEIPLGFNEYFPAPF----PITVDLLDYSGR-SWTVRMKKR--GE--KVFLTVGWENFVKDN   76 (104)
T ss_dssp             CEEEEEECCHHHH--TTCEECCHHHHTTCCCCC----CSEEEEEETTSC-EEEEEEEEE--TT--EEEECTTHHHHHHHH
T ss_pred             CCCEEEEECCCCc--cceEECCHHHHHhcCccC----CCEEEEECCCCC-EEEEEEEEE--CC--cEEEccChHHHHHHc
Confidence            5689999999984  479999999997776543    235666999995 999999987  22  35555 799999999


Q ss_pred             CCCCCCEEEEEEcCCCCeEEEEE
Q 041864          187 GLQLGDFIIVYKDDQNQNYVIQA  209 (300)
Q Consensus       187 ~LkaGD~IvF~rd~~~G~L~Igi  209 (300)
                      +|++||.|+|...+. ..+.|.|
T Consensus        77 ~L~~GD~lvF~~~~~-~~f~V~I   98 (104)
T 1yel_A           77 NLEDGKYLQFIYDRD-RTFYVII   98 (104)
T ss_dssp             TCCTTCEEEEEECSS-SEEEEEE
T ss_pred             CCCCCCEEEEEEcCC-CeEEEEE
Confidence            999999999988653 5666665

>1na6_A Ecorii, restriction endonuclease ecorii; site-specific restriction, mutation, replication, hydrolase; 2.10A {Escherichia coli} SCOP: b.142.1.1 c.52.1.22 PDB: 3hqg_A 3hqf_A

Probab=94.10  E-value=0.052  Score=53.19  Aligned_cols=91  Identities=11%  Similarity=0.177  Sum_probs=64.6

Q ss_pred             eEeEEEecccCCCCC----CCceEeehhhhhhcCCCCCC----CCceEEE--EEeCCCCeEEEEEEEEcCC----CCCcc
Q 041864          108 RFLFQKELKNSDVSS----LRRMILPKKAAEAHLPVLES----KEGIFIS--MEDLDGLHVWTFKYRFWPN----NNSRM  173 (300)
Q Consensus       108 ~~LF~KvLT~SDVgs----lgRLVIPK~~AE~~LP~Ld~----~eGi~L~--V~D~~G~k~W~FRf~yw~N----nkSR~  173 (300)
                      ...|.|.|++.|++.    ...+.+||..+..+||.|..    ++-+.+.  +.|.+.. .+.++++|+-|    +....
T Consensus        18 ~~v~~K~LSAnDtgatgshQ~gi~ipk~~l~~lfp~lg~~~e~~~~~~~~~~l~d~d~p-~td~~~twYn~R~~~~tRnE   96 (404)
T 1na6_A           18 YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCP-DSEARAIYYNSAHFGKTRNE   96 (404)
T ss_dssp             EEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCC-CEEEEEEEECGGGTTSCCCE
T ss_pred             chheeEEcccccCCCCCCcccccCCchHHHHHhcccCCCccccCCcceeEEEeccCCCc-eEEEEEEEecccccCCCCCc
Confidence            578999999999993    57899999878899988872    1223333  3444443 55999998721    24457


Q ss_pred             eeecCh-hhHHhhcCCCCCCEEEEEEc
Q 041864          174 YVLENT-GDFVNAHGLQLGDFIIVYKD  199 (300)
Q Consensus       174 YVLtGW-~~FVr~K~LkaGD~IvF~rd  199 (300)
                      |-|+.| ..+-=.+...+||.++|-+.
T Consensus        97 yRLt~~~~~~~~~~~a~~GDLlvia~~  123 (404)
T 1na6_A           97 KRITRWGRGSPLQDPENTGALTLLAFK  123 (404)
T ss_dssp             EEEECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             eEEeecCCCCcccccCCCCCEEEEEEe
Confidence            999987 44555577888998888654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	300
d1wida_	117	b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre	3e-29
d1na6a1	175	b.142.1.1 (A:4-178) Restriction endonuclease EcoRI	8e-12
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	9e-09

>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 117

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score =  105 bits (264), Expect = 3e-29
 Identities = 36/118 (30%), Positives = 60/118 (50%), Gaps = 6/118 (5%)

Query: 106 RLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLES---KEGIFISMEDLDGLHVWTFK 162
               LF+K +  SDV  L R+++PK  AE H P+  S    +G+ ++ ED++G  VW F+
Sbjct: 2   SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG-KVWRFR 60

Query: 163 YRFWPNNNSRMYVLENTGDFVNAHGLQLGDFIIVYKDD-QNQNYVIQAKKASDQDVYT 219
           Y +W ++ S +   +    FV    L+ GD +   + + Q+Q   I  K  S  D+  
Sbjct: 61  YSYWNSSQSYVL-TKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDLDA 117

>d1na6a1 b.142.1.1 (A:4-178) Restriction endonuclease EcoRII, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 175

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: Type II restriction endonuclease effector domain
domain: Restriction endonuclease EcoRII, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 60.4 bits (146), Expect = 8e-12
 Identities = 12/114 (10%), Positives = 28/114 (24%), Gaps = 20/114 (17%)

Query: 108 RFLFQKELKNSDVSSLRR----MILPKKAAEAHLPVLESKE------GIFISMEDLDGLH 157
            F++ K L  +D  +       + +P    E   P +           +   +   D   
Sbjct: 15  YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDC-P 73

Query: 158 VWTFKYRFWPN-------NNSRMYVLENTGDFVNAHGLQLGDFIIVYKDDQNQN 204
               +  ++ +       N  R+                 G   ++      Q 
Sbjct: 74  DSEARAIYYNSAHFGKTRNEKRITRWG--RGSPLQDPENTGALTLLAFKLDEQG 125

>d1yela1 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 102

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: At1g16640
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 49.9 bits (119), Expect = 9e-09
 Identities = 13/85 (15%), Positives = 30/85 (35%), Gaps = 10/85 (11%)

Query: 111 FQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNN 170
           F K   +   S  + + +P    E             + + D  G   WT + +      
Sbjct: 9   FMKPFISEKSS--KSLEIPLGFNEYFPAPFPIT----VDLLDYSG-RSWTVRMK---KRG 58

Query: 171 SRMYVLENTGDFVNAHGLQLGDFII 195
            ++++     +FV  + L+ G ++ 
Sbjct: 59  EKVFLTVGWENFVKDNNLEDGKYLQ 83

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	300
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.95
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	99.69
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.35

>d1wida_ b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: DNA-binding protein RAV1
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.95  E-value=1.9e-27  Score=190.15  Aligned_cols=110  Identities=35%  Similarity=0.698  Sum_probs=96.5

Q ss_pred             CCceEeEEEecccCCCCCCCceEeehhhhhhcCCCCCC---CCceEEEEEeCCCCeEEEEEEEEcCCCCCcceeec-Chh
Q 041864          105 GRLRFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLES---KEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLE-NTG  180 (300)
Q Consensus       105 ~~~~~LF~KvLT~SDVgslgRLVIPK~~AE~~LP~Ld~---~eGi~L~V~D~~G~k~W~FRf~yw~NnkSR~YVLt-GW~  180 (300)
                      |....+|+|+||+|||+..+||+||+++|++|||.++.   .+++.|.+.|.+| ++|.|+|++|.+  .+.|+|. ||.
T Consensus         1 ~~~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g-~~W~~~~~~~~~--~~~~~l~~GW~   77 (117)
T d1wida_           1 RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNG-KVWRFRYSYWNS--SQSYVLTKGWS   77 (117)
T ss_dssp             CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTT-EEEEEEEEEETT--TTEEEEESSHH
T ss_pred             CCCceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCC-CEEEEEEEEECC--CCceEEecCHH
Confidence            45689999999999999889999999999999999875   3689999999999 599999999944  4456665 799


Q ss_pred             hHHhhcCCCCCCEEEEEEcC-CCCeEEEEEEEcCCCCc
Q 041864          181 DFVNAHGLQLGDFIIVYKDD-QNQNYVIQAKKASDQDV  217 (300)
Q Consensus       181 ~FVr~K~LkaGD~IvF~rd~-~~G~L~IgiRRa~~q~~  217 (300)
                      +||++|+|++||+|+|+++. .+++|+|++||+.....
T Consensus        78 ~Fv~~~~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~~~~  115 (117)
T d1wida_          78 RFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSGSDL  115 (117)
T ss_dssp             HHHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCSCSS
T ss_pred             HHHHHcCCCCCCEEEEEEEeCCCCEEEEEEEECCCCCC
Confidence            99999999999999999986 45789999999987654

>d1na6a1 b.142.1.1 (A:4-178) Restriction endonuclease EcoRII, N-terminal domain {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: Type II restriction endonuclease effector domain
domain: Restriction endonuclease EcoRII, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.69  E-value=5.4e-18  Score=146.86  Aligned_cols=93  Identities=11%  Similarity=0.155  Sum_probs=77.5

Q ss_pred             CceEeEEEecccCCCCCCCc----eEeehhhhhhcCCCCCCC----CceE--EEEEeCCCCeEEEEEEEEcCC----CCC
Q 041864          106 RLRFLFQKELKNSDVSSLRR----MILPKKAAEAHLPVLESK----EGIF--ISMEDLDGLHVWTFKYRFWPN----NNS  171 (300)
Q Consensus       106 ~~~~LF~KvLT~SDVgslgR----LVIPK~~AE~~LP~Ld~~----eGi~--L~V~D~~G~k~W~FRf~yw~N----nkS  171 (300)
                      ...++|+|.||+||+++++|    |+|||++||++||.|+..    +.+.  +.++|.+|. +|+|||+||.+    +..
T Consensus        13 ~~~~~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i~d~~g~-~w~fR~iYyn~~~~ggTR   91 (175)
T d1na6a1          13 ENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCP-DSEARAIYYNSAHFGKTR   91 (175)
T ss_dssp             SSEEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCC-CEEEEEEEECGGGTTSCC
T ss_pred             CceEEEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccccCCCceEEEEEecCCCC-eeEEEEEEECCccCCCcc
Confidence            35899999999999999887    999999999999999852    3344  456799995 99999999943    224


Q ss_pred             cceeecC-hhhHHhhcCCCCCCEEEEEEc
Q 041864          172 RMYVLEN-TGDFVNAHGLQLGDFIIVYKD  199 (300)
Q Consensus       172 R~YVLtG-W~~FVr~K~LkaGD~IvF~rd  199 (300)
                      ..|.||. |..|+..+.+.+||.++|.+.
T Consensus        92 neyRiT~~g~~~~~~~~~n~G~l~i~af~  120 (175)
T d1na6a1          92 NEKRITRWGRGSPLQDPENTGALTLLAFK  120 (175)
T ss_dssp             CEEEEECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             ccEEEEeccccccccCccccccEEEEEee
Confidence            7799996 799999999999999999885

>d1yela1 b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All beta proteins
fold: DNA-binding pseudobarrel domain
superfamily: DNA-binding pseudobarrel domain
family: B3 DNA binding domain
domain: At1g16640
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.35  E-value=2.5e-12  Score=100.72  Aligned_cols=91  Identities=16%  Similarity=0.335  Sum_probs=71.5

Q ss_pred             eEeEEEecccCCCCCCCceEeehhhhhhcCCCCCCCCceEEEEEeCCCCeEEEEEEEEcCCCCCcceeecChhhHHhhcC
Q 041864          108 RFLFQKELKNSDVSSLRRMILPKKAAEAHLPVLESKEGIFISMEDLDGLHVWTFKYRFWPNNNSRMYVLENTGDFVNAHG  187 (300)
Q Consensus       108 ~~LF~KvLT~SDVgslgRLVIPK~~AE~~LP~Ld~~eGi~L~V~D~~G~k~W~FRf~yw~NnkSR~YVLtGW~~FVr~K~  187 (300)
                      ..-|-|+|.+++..  .+|.||+..+..+.+.+    ...+.++|.+|+ .|.+++...   ....|+..||.+||++|+
T Consensus         6 ~~~Ffkv~~~~~~~--~~L~IP~~F~~~~~~~~----~~~i~L~d~~G~-~W~v~~~~~---~~~~~~~~GW~~Fv~~n~   75 (102)
T d1yela1           6 EVQFMKPFISEKSS--KSLEIPLGFNEYFPAPF----PITVDLLDYSGR-SWTVRMKKR---GEKVFLTVGWENFVKDNN   75 (102)
T ss_dssp             CEEEEEECCHHHHT--TCEECCHHHHTTCCCCC----CSEEEEEETTSC-EEEEEEEEE---TTEEEECTTHHHHHHHHT
T ss_pred             CCeEEEEEcCcccC--CCEECCHHHHHhCCCCC----CCEEEEEcCCCC-EEEEEEEEe---CCeEEEccCHHHHHHHcC
Confidence            45588999999876  68999999998776654    235666999995 999998865   234555558999999999


Q ss_pred             CCCCCEEEEEEcCCCCeEEEEE
Q 041864          188 LQLGDFIIVYKDDQNQNYVIQA  209 (300)
Q Consensus       188 LkaGD~IvF~rd~~~G~L~Igi  209 (300)
                      |++||.|+|.-++ +..+.|.+
T Consensus        76 L~~GD~~vF~~~~-~~~f~V~I   96 (102)
T d1yela1          76 LEDGKYLQFIYDR-DRTFYVII   96 (102)
T ss_dssp             CCTTCEEEEEECS-SSEEEEEE
T ss_pred             CCcCCEEEEEEcC-CcEEEEEE
Confidence            9999999998765 35666654