Citrus Sinensis ID: 016655

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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-------310-------320-------330-------340-------350-------360-------370-------380-----
Protein Sequence
MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQDGETPKLKKPGRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSESAGFMSRH
Secondary Structure (PSIPRED)
cccccEEEEEcccccccccccccHHHHHHccccccccEEEEcccccEEEEEEEEEccEEEEEccHHHHHHHHccccccEEEEEEEcccEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccccccccccccccccccccccccccEEEEccccccccccHHHHHHHHHHHHHHcccccccEEEEccccccccccEEcccccccccccccccccccccEEEEEccccccccHHHHHHccccccEEEEEEEccccEEEEEEEEEccEEEEcccHHHHHHHcccccccEEEEEEEcccccEEEEEEEEccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEEEccccccccEEccHHHHHHHccccccEEEEEcccccEEEEEEEEcccEEEEcccHHHHHHHcccccccEEEEEEccccEEEEEEEcccccEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccccccccHHHHHHHHHHHHHccccccEEEEEEcccccccccEEEccccccccccccccccEEEEEEcccccEEEEEcHHHHHHHccccccEEEEEcccccEEEEEEEEccccEEEcccHHHHHHHcccccccEEEEEEEcccEEEEEEEEEEEEccccccccc
Coil and Loop (DISEMBL)
MPRPYFHKLILASTirdkrlripenfVRNFKDDLSAAATlivpngmvsrvglrrldnkvwfYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFnlpsseinyqpnalsnfevpnhskqyhifaemedddsehvdqptvnktfnppsfqnllnssklsnsingAGEANLQRLKVKLYsqdgetpklkkpgrkrkidpnvqassaqevhdgemqFRFYESASARKRTVTAEERERAINAakafepsnpfcrvvlrpsylykgcimVSCRISITLHCfsvshdnmldVRCIYFLLLQYlpscfaekhlNGVCGFIklqlsdgkqwpvrclyrggrakfsqgWYEFTVenrlgegdvcVFEVLRAREFVLKVTVFRvsesagfmsrh
Flexible Loop (DISEMBL)
mprpyfhklilastirdkrlriPENFVRNFKDdlsaaatlivpngmvsrvglrrldnKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSqdgetpklkkpgrkrkidpnvqassaqevhdgemQFRFYESASARKRTVTAEERERAInaakafepsnpfcrVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVfrvsesagfmsrh
Low Complexity Region (SEG)
MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDSEHVDQPTVNKTFNPPSFQnllnssklsnsinGAGEANLQRLKVKLYSQDGETPKLKKPGRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSESAGFMSRH
Disordered region (IsUnstruct)
****YFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEV*****QYHIF**********************************************************************************************************************FEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVS*********
Disordered Region (DISOPRED)
*PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVP***********************************NLLNSSKLSNSINGAGEANLQRLKVKLYSQDGETPKLKKPGRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSC*********SVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVF************
Disordered Region (DISEMBL)
MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQDGETPKLKKPGRKRKIDPNVQASSAQEVHDGEMQFRFYESA***********RERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSE********
Disordered Region (DISPRO)
**RPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNA*********************************************************************************************************QFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSES*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQDGETPKLKKPGRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSESAGFMSRH
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	385	2.2.26 [Sep-21-2011]
Q8L3W1	341	B3 domain-containing tran	yes	no	0.870	0.982	0.556	1e-110
Q9XIB5	226	B3 domain-containing prot	no	no	0.431	0.734	0.608	6e-59
Q8S2E6	402	B3 domain-containing prot	yes	no	0.883	0.845	0.264	2e-20
Q9ZSH7	190	B3 domain-containing prot	no	no	0.280	0.568	0.425	3e-20
Q84R27	209	B3 domain-containing prot	no	no	0.280	0.516	0.407	4e-19
Q9XIB4	190	B3 domain-containing prot	no	no	0.337	0.684	0.390	3e-17
Q2R9D2	406	B3 domain-containing prot	yes	no	0.854	0.810	0.221	2e-15
Q851V5	1029	Putative B3 domain-contai	no	no	0.233	0.087	0.380	1e-10
Q2QMT2	358	B3 domain-containing prot	no	no	0.766	0.824	0.231	1e-10
Q10GM3	378	B3 domain-containing prot	no	no	0.742	0.756	0.242	5e-09

>sp|Q8L3W1|VRN1_ARATH B3 domain-containing transcription factor VRN1 OS=Arabidopsis thaliana GN=VRN1 PE=1 SV=1

 Score =  397 bits (1021), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 212/381 (55%), Positives = 260/381 (68%), Gaps = 46/381 (12%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP+FHKLI +STI++KRLR+P+ FV  FKD+LS A  L VP+G V RVGLR+ DNK+W
Sbjct: 1   MPRPFFHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKADNKIW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQEF++RY IRIGY L+FRYEGNSAF+VYIFNL  SEINY    L +    NH K+
Sbjct: 61  FQDGWQEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGLMD-SAHNHFKR 119

Query: 121 YHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQ 180
             +F ++ED+D+E +   +V   +  P  ++ + ++K      G   + +Q L       
Sbjct: 120 ARLFEDLEDEDAEVIFPSSV---YPSPLPESTVPANK------GYASSAIQTLFTGPVKA 170

Query: 181 DGETPKLKKP---GRKRK-IDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERA 236
           +  TP  K P   GRK+K  DP    SSA    D E + +FYESASARKRTVTAEERERA
Sbjct: 171 EEPTPTPKIPKKRGRKKKNADPEEINSSAPRDDDPENRSKFYESASARKRTVTAEERERA 230

Query: 237 INAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQ 296
           INAAK FEP+NPF RVVLRPSYLY+GCIM                               
Sbjct: 231 INAAKTFEPTNPFFRVVLRPSYLYRGCIM------------------------------- 259

Query: 297 YLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVC 356
           YLPS FAEK+L+G+ GFIK+QL++ KQWPVRCLY+ GRAKFSQGWYEFT+EN LGEGDVC
Sbjct: 260 YLPSGFAEKYLSGISGFIKVQLAE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVC 318

Query: 357 VFEVLRAREFVLKVTVFRVSE 377
           VFE+LR R+FVLKVT FRV+E
Sbjct: 319 VFELLRTRDFVLKVTAFRVNE 339

Involved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9XIB5|REM19_ARATH B3 domain-containing protein REM19 OS=Arabidopsis thaliana GN=REM19 PE=2 SV=1

 Score =  228 bits (581), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 123/202 (60%), Positives = 144/202 (71%), Gaps = 36/202 (17%)

Query: 179 SQDGETPK-LKKPGRKRKIDPNVQA--SSAQEVHDGEMQFRFYESASARKRTVTAEERER 235
           S+  ETPK LKK GRK+K +PN +   SS     D E + +FYESASARKRTVTAEERER
Sbjct: 56  SKAEETPKVLKKRGRKKK-NPNPEEVNSSTPGGDDSENRSKFYESASARKRTVTAEERER 114

Query: 236 AINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLL 295
           A+NAAK FEP+NP+ RVVLRPSYLY+GCIM                              
Sbjct: 115 AVNAAKTFEPTNPYFRVVLRPSYLYRGCIM------------------------------ 144

Query: 296 QYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDV 355
            YLPS FAEK+L+G+ GFIKLQL + KQWPVRCLY+ GRAKFSQGWYEFT+EN +GEGDV
Sbjct: 145 -YLPSGFAEKYLSGISGFIKLQLGE-KQWPVRCLYKAGRAKFSQGWYEFTLENNIGEGDV 202

Query: 356 CVFEVLRAREFVLKVTVFRVSE 377
           CVFE+LR R+FVL+VT FRV+E
Sbjct: 203 CVFELLRTRDFVLEVTAFRVNE 224

Arabidopsis thaliana (taxid: 3702)

>sp|Q8S2E6|Y1235_ORYSJ B3 domain-containing protein Os01g0723500 OS=Oryza sativa subsp. japonica GN=Os01g0723500 PE=2 SV=1

 Score =  100 bits (248), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 107/404 (26%), Positives = 162/404 (40%), Gaps = 64/404 (15%)

Query: 3   RPYFHKLILASTIRDKRLRIPENFVRNFK----------DDLSAAATLIVPNGMVSRVGL 52
           RP+F K+++      +RL+IP NF ++             + S AATL  P+G    V +
Sbjct: 18  RPHFFKVLVGDF--KQRLKIPPNFCKHIPWEESRKAKGLKEASMAATLEGPSGRTWLVVI 75

Query: 53  RRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNF 112
           RR     +F  GW +F++   +R   F+VFRY+GN+ F   +F+  + E           
Sbjct: 76  RRTAEGTFFTSGWPKFVQDQALRELEFVVFRYDGNTRFTAMVFDRTACEREDLMGGGGGD 135

Query: 113 EVPNHSKQYHIFAEMED---DDSEHVDQPTVNKTFNPPSFQNL--LNSSKLSNSINGA-- 165
                  +    A   D      + V +  V    +P   Q L  ++SS      + A  
Sbjct: 136 RPRKKRGRPRTAAASRDAARPKKDSVGKEMVTYRASPSGGQPLQIVDSSWTPEPGSTAVK 195

Query: 166 GEANLQRLKVKLYSQDGETPKLKKPGRKRKIDPNVQ---ASSAQEVHDG------EMQFR 216
            E +   L V        +P    P      D       A+  + + D           R
Sbjct: 196 NEEDADELPVCELPASSASPPRHVPEGALDADGGAARRGAAKTRSLQDDLALASIPPSIR 255

Query: 217 FYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHC 276
            Y+   +R+R V   ER+RA   A AF    P+C  V+R S               T+H 
Sbjct: 256 RYKGYVSRRRAVATAERQRATEIAHAFRSPLPYC--VIRMS---------------TMH- 297

Query: 277 FSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLY-RGGRA 335
                        +Y+  +   P+ F+ +HL      + L+   GK W V  LY    R 
Sbjct: 298 -------------VYYSFMMRFPTGFSRQHLPRERTDVVLRDPGGKVWSV--LYIPNTRD 342

Query: 336 KFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSESA 379
           + S+GW  F   N L EGD CVFE++ A EF  +V +FRV E A
Sbjct: 343 RLSRGWCAFARGNCLEEGDYCVFELVAAAEF--RVHIFRVVEPA 384

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9ZSH7|Y4158_ARATH B3 domain-containing protein At4g01580 OS=Arabidopsis thaliana GN=At4g01580 PE=2 SV=1

 Score =  100 bits (248), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 46/108 (42%), Positives = 67/108 (62%)

Query: 2   PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWF 61
           P   F KL+L ST++DK +RIP  FV+     LS   TL+ P G    + L+R+  ++WF
Sbjct: 26  PVKKFFKLVLPSTMKDKMMRIPPRFVKLQGSKLSEVVTLVTPAGYKRSIKLKRIGEEIWF 85

Query: 62  YDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNAL 109
           ++GW EF E + I  G+FL+F Y+ NS+F V IFN  + E NY  +A+
Sbjct: 86  HEGWSEFAEAHSIEEGHFLLFEYKKNSSFRVIIFNASACETNYPLDAV 133

Arabidopsis thaliana (taxid: 3702)

>sp|Q84R27|Y3896_ARATH B3 domain-containing protein At3g18960 OS=Arabidopsis thaliana GN=At3g18960 PE=2 SV=1

 Score = 95.9 bits (237), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 44/108 (40%), Positives = 66/108 (61%)

Query: 2   PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWF 61
           P   F KL+L ST++DK ++IP  FV+     LS   TL  P G    + L+R+  ++WF
Sbjct: 26  PVKKFFKLVLPSTMKDKMMKIPPRFVKLQGSKLSEVVTLETPAGFKRSIKLKRIGEEIWF 85

Query: 62  YDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNAL 109
           ++GW EF E + I  G+FL+F Y+ NS+F V IFN+ + E  Y  +A+
Sbjct: 86  HEGWSEFAEAHSIEEGHFLLFEYKENSSFRVIIFNVSACETKYPLDAV 133

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XIB4|Y1475_ARATH B3 domain-containing protein At1g49475 OS=Arabidopsis thaliana GN=At1g49475 PE=2 SV=2

 Score = 89.7 bits (221), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/133 (39%), Positives = 75/133 (56%), Gaps = 3/133 (2%)

Query: 6   FHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGW 65
           F K+IL S I +K +++P  FVR F   L+   TL  P G    + ++R+ ++VWF  GW
Sbjct: 34  FIKIILLSRIIEKMMKVPARFVR-FGPKLTDNVTLQTPVGFKRSIRIKRIGDEVWFEKGW 92

Query: 66  QEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSN--FEVPNHSKQYHI 123
            EF E + +  G+FL F YEG+S F V IF++ +SEI Y  +   +   EV +  +Q   
Sbjct: 93  SEFAEAHSLSDGHFLFFHYEGDSCFRVVIFDVSASEIEYPLDDTDDNREEVMDDDEQGFT 152

Query: 124 FAEMEDDDSEHVD 136
             E  DDD E VD
Sbjct: 153 GFESSDDDGEVVD 165

Arabidopsis thaliana (taxid: 3702)

>sp|Q2R9D2|Y1176_ORYSJ B3 domain-containing protein Os11g0197600 OS=Oryza sativa subsp. japonica GN=Os11g0197600 PE=2 SV=1

 Score = 84.0 bits (206), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 90/407 (22%), Positives = 156/407 (38%), Gaps = 78/407 (19%)

Query: 3   RPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFY 62
           R +F  L+   ++  +R++IP +F +  ++  +   +L+  +G      L       +F 
Sbjct: 30  RSFFRVLLTLQSL--ERMKIPSSFNQCLQNQPTGMVSLVDRSGNKWSAELTSDSEGFFFV 87

Query: 63  DGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYH 122
            GW+EF+    I+ G FLVF Y+  S F+V +F         +P+ +      +     +
Sbjct: 88  HGWKEFVRDNSIQCGQFLVFTYDKRSQFSVTVF---------EPSGIDKISTFSAHPSKN 138

Query: 123 IFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQDG 182
           +  + E D+   V      +   P   +N   + K +  ++   E  +   K    +   
Sbjct: 139 VIIKTESDEGGMVTAAITTEKMAPALKENNGITGKRTRDVDYLMEDRVVVFKKSSEANVC 198

Query: 183 ETPKLKKPGR---KRKIDP----NVQASSAQEVHDGEMQ--------FRFYESASAR--- 224
           E+ + K+ G    K K+      + + SS     D             RF     +R   
Sbjct: 199 ESSRRKRAGASAGKSKVTSTSHNSTRGSSCSSDEDNSSSKSPNPPFLMRFLSGEVSRRGR 258

Query: 225 --------------KRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRI 270
                         +R VT  E++ A+  A+ F+  NPF   ++  SY+Y G  M     
Sbjct: 259 CVSKGQRQLTVISQRRPVTEAEKDHALQRAREFKSKNPFAVQIMMESYVYVGFFM----- 313

Query: 271 SITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLY 330
                                      +P  F  + L      I L    GK W V  +Y
Sbjct: 314 --------------------------NIPCEFVRECLPHTNKRITLWDPQGKAWEVNYVY 347

Query: 331 RGGRA--KFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRV 375
              R+   FS GW +F V N L + DVCVFE+++     +KV ++RV
Sbjct: 348 YSDRSVGSFSGGWGKFAVGNNLEKFDVCVFELVQKDN--IKVHIYRV 392

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q851V5|Y3216_ORYSJ Putative B3 domain-containing protein Os03g0621600 OS=Oryza sativa subsp. japonica GN=Os03g0621600 PE=3 SV=1

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 35/92 (38%), Positives = 49/92 (53%), Gaps = 2/92 (2%)

Query: 5   YFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDG 64
           YF K+++    R  ++ IP  F  NF+D +     L   NG    V + +  NK+    G
Sbjct: 149 YFFKVMIGGFRR--QMTIPYKFAENFRDQIQGTIKLKARNGNTCSVLVDKCSNKLVLTKG 206

Query: 65  WQEFMERYFIRIGYFLVFRYEGNSAFNVYIFN 96
           W EF   + I++G FLVFRY GNS F V IF+
Sbjct: 207 WAEFANSHDIKMGDFLVFRYTGNSQFEVKIFD 238

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q2QMT2|Y1223_ORYSJ B3 domain-containing protein Os12g0592300 OS=Oryza sativa subsp. japonica GN=Os12g0592300 PE=2 SV=2

 Score = 68.2 bits (165), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 85/367 (23%), Positives = 147/367 (40%), Gaps = 72/367 (19%)

Query: 20  LRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYF 79
           + IPE     F   ++    L  P+G   RV + ++ +++    GW++F + + ++    
Sbjct: 40  ISIPEKVADRFSGQITKGFNLKAPSGETWRVSVEKVADELILMSGWEDFAKAHELQENDL 99

Query: 80  LVF----RYEGNSAFNVYIFNLPSSE-----INYQPNALSNFEVPNHSKQYHIFAEMEDD 130
           L F    R  G+ +F+V IF+    E        + N++       +++QYH+       
Sbjct: 100 LFFTCNGRCNGSFSFDVLIFDASGCEKVSCFFIGKKNSIGG--QTQNAEQYHL------S 151

Query: 131 DSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQDGETPKLKKP 190
           DSE    P+     +P       + +  S  +NG  + N ++        + E P   + 
Sbjct: 152 DSEDTSTPSTFLVGSP-------HKASTSKKLNGKTKTNPRK--------EPEDPNSSRS 196

Query: 191 GRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNP-F 249
             K ++    ++    E  D E    +Y   S     +T EERE  I +  + +P NP F
Sbjct: 197 HVKHEMIEEEKSDDDDEHADYEHADYYY---SRFANYLTGEEREE-IFSLVSLQPGNPVF 252

Query: 250 CRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNG 309
             V+  P    KG ++V                                PS FA  HL+ 
Sbjct: 253 VTVLQAPQIHRKGLLIV--------------------------------PSGFAADHLDS 280

Query: 310 VCGFIKLQLSDGKQ-WPVRCLYRGGRAKFS-QGWYEFTVENRLGEGDVCVFEVLR-AREF 366
               I L   + K+ W V+  +      F+ Q W +F  ENRL EG +C+FE+++ AR  
Sbjct: 281 RSQEILLMRPNKKEKWYVKYYHASTTRGFNCQRWIKFIRENRLREGYICIFELMKGARRV 340

Query: 367 VLKVTVF 373
            + V V 
Sbjct: 341 TMTVHVI 347

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q10GM3|Y3222_ORYSJ B3 domain-containing protein Os03g0622200 OS=Oryza sativa subsp. japonica GN=Os03g0622200 PE=2 SV=1

 Score = 62.4 bits (150), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 85/351 (24%), Positives = 136/351 (38%), Gaps = 65/351 (18%)

Query: 20  LRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLD-NKVWFYDGWQEFMERYFIRIGY 78
           + +P  F  NF   +S    L  P+G    +G+   D  ++    GW+EF++   I  G 
Sbjct: 44  MTVPARFANNFNGHISEEVNLRSPSGETWSIGVANSDAGELVLQPGWKEFVDGNGIEEGD 103

Query: 79  FLVFRYEG-NSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDSEHVDQ 137
            L+FRY G +S+F+V IF+ PS      P+ + +          H F   E  +S   +Q
Sbjct: 104 CLLFRYSGVSSSFDVLIFD-PSGCEKASPHFVGS----------HGFGRAE--NSAGAEQ 150

Query: 138 PTVNKTFNPP------SFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQDGETPKLKKPG 191
              N    PP        ++ L  +   NS      A     K  L+S   ET   +  G
Sbjct: 151 GGRNGRRTPPIVDGDNGHRHHLEMTLHRNSCRSIPRA----CKRSLFSD--ETEAKENDG 204

Query: 192 RKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCR 251
               +      ++A+    GE  + F       +  +  E+RE         +P NP   
Sbjct: 205 EDEDV-----VAAAEGGRYGE--YYFSRHGRVAEYNLREEDREEISRVPVPVQPGNPVFV 257

Query: 252 VVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVC 311
            V+  S+                            VR   + ++   P  FA K+L  V 
Sbjct: 258 QVIHSSH----------------------------VRSSKYCIVGVSPE-FAGKYLGAVE 288

Query: 312 GFIKLQ-LSDGKQWPVRCLYR-GGRAKFSQGWYEFTVENRLGEGDVCVFEV 360
             + L+  S G +W V  ++R   R  +  GW +F  +NRL   DVC+FE+
Sbjct: 289 REVVLERASRGGEWHVPFVHRQNTRGFYGAGWRQFAGDNRLVAHDVCLFEL 339

Oryza sativa subsp. japonica (taxid: 39947)

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	385
255556221	333	DNA binding protein, putative [Ricinus c	0.836	0.966	0.580	1e-116
449471266	412	PREDICTED: B3 domain-containing transcri	0.893	0.834	0.543	1e-111
449455216	415	PREDICTED: B3 domain-containing transcri	0.893	0.828	0.539	1e-109
297834810	341	hypothetical protein ARALYDRAFT_479415 [	0.872	0.985	0.560	1e-108
30685150	341	B3 domain-containing transcription facto	0.870	0.982	0.556	1e-108
312282979	341	unnamed protein product [Thellungiella h	0.875	0.988	0.562	1e-107
356521114	437	PREDICTED: B3 domain-containing transcri	0.911	0.803	0.493	1e-105
356575102	435	PREDICTED: B3 domain-containing transcri	0.914	0.809	0.496	1e-105
255637330	437	unknown [Glycine max]	0.911	0.803	0.490	1e-104
357473115	429	B3 domain-containing transcription facto	0.906	0.813	0.491	1e-104

>gi|255556221|ref|XP_002519145.1| DNA binding protein, putative [Ricinus communis] gi|223541808|gb|EEF43356.1| DNA binding protein, putative [Ricinus communis]

 Score =  424 bits (1089), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 224/386 (58%), Positives = 263/386 (68%), Gaps = 64/386 (16%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRPYFHKLIL+++I+DK+LRIP+NFV+ F +DLSA   L VP G V  VGL + D+K W
Sbjct: 1   MPRPYFHKLILSNSIKDKKLRIPDNFVKKFGNDLSAFGRLSVPGGPVWPVGLIKADDKFW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F +GWQEFMERY IR+GYFLVFRYEG+S F V+IFNL +SEINYQ N  +        ++
Sbjct: 61  FREGWQEFMERYSIRVGYFLVFRYEGHSVFTVHIFNLSASEINYQSNNTAG-------RR 113

Query: 121 YHIFAEMEDDD-SEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYS 179
           Y +F +MEDDD  EH+   +      P    N L S                   V+ Y+
Sbjct: 114 YLLFEDMEDDDFVEHLSSSS------PCLVPNSLKSD------------------VRYYT 149

Query: 180 QDGETPKLKKPGRKR-KIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAIN 238
            D E  K KK GRK+ K+DPN Q  SAQ+  + +M+FRFYESASARKRTVTAEERERAIN
Sbjct: 150 PDAEAQKPKKRGRKKLKVDPNQQQPSAQQEDEVDMRFRFYESASARKRTVTAEERERAIN 209

Query: 239 AAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYL 298
            AK FEP NPFCRVVLRPSYLY+GCIM                               YL
Sbjct: 210 TAKTFEPMNPFCRVVLRPSYLYRGCIM-------------------------------YL 238

Query: 299 PSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVF 358
           PSCFAEKHLNGV GFIKLQ SDGKQWPVRCLYRGGRAK SQGWYEFT+EN +GEGDVCVF
Sbjct: 239 PSCFAEKHLNGVSGFIKLQSSDGKQWPVRCLYRGGRAKLSQGWYEFTLENNMGEGDVCVF 298

Query: 359 EVLRAREFVLKVTVFRVSESAGFMSR 384
           E+L++R+ VLKVTVFRV E AG M++
Sbjct: 299 ELLKSRDIVLKVTVFRVLEGAGRMTQ 324

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449471266|ref|XP_004153259.1| PREDICTED: B3 domain-containing transcription factor VRN1-like [Cucumis sativus] gi|449502391|ref|XP_004161627.1| PREDICTED: B3 domain-containing transcription factor VRN1-like [Cucumis sativus]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 224/412 (54%), Positives = 267/412 (64%), Gaps = 68/412 (16%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP+FHKL+L STI+ ++LRIPE FVR  +D+LSA ATL VP+G V RVGLR+ DNK W
Sbjct: 16  MPRPHFHKLVLTSTIQARKLRIPETFVRMIRDELSAVATLTVPDGHVWRVGLRKADNKFW 75

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQ F+E Y IR+GY LVFRYEGNS+F V+IFNL +SEINYQ  ALSN +  N+S Q
Sbjct: 76  FEDGWQGFLEHYSIRVGYLLVFRYEGNSSFCVFIFNLNTSEINYQSAALSNNQRNNYSIQ 135

Query: 121 YHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLL-------NSSKLSNSING--------- 164
             IF EMED D    +    N++ N  S +N L       + SK ++++           
Sbjct: 136 NRIFEEMEDYDIP--EAIPSNQSMNSGSLRNKLFGDEWNLHQSKSASTLQAEYLSTRDIG 193

Query: 165 -----------AGEANLQRLKVKLYSQDGETPKLKKPG-RKRKIDPNVQASSAQEVHD-G 211
                      A E   Q L       D    ++KK G +KRKI+ +    SA    D G
Sbjct: 194 VQFSAVEVKKSADEVRFQNLG------DDAAHRVKKSGSKKRKIESSEHHPSAHNSEDLG 247

Query: 212 EMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRIS 271
           +++FRFYESASARKRTVTAEERERAIN+AKAFEP NPFCRVVLRPSYLY+GCIM      
Sbjct: 248 DIRFRFYESASARKRTVTAEERERAINSAKAFEPGNPFCRVVLRPSYLYRGCIM------ 301

Query: 272 ITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYR 331
                                    YLPSCFAEK+L+GV GFIKLQ  DG+QWPVRCLY+
Sbjct: 302 -------------------------YLPSCFAEKNLSGVSGFIKLQTPDGRQWPVRCLYK 336

Query: 332 GGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSESAGFMS 383
            GRAK SQGWYEF +EN LGEGDVCVFE+LR RE VLKVT+FRV E  G M+
Sbjct: 337 VGRAKLSQGWYEFCLENNLGEGDVCVFELLRMREIVLKVTMFRVIEEGGRMA 388

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449455216|ref|XP_004145349.1| PREDICTED: B3 domain-containing transcription factor VRN1-like [Cucumis sativus]

 Score =  402 bits (1033), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 224/415 (53%), Positives = 267/415 (64%), Gaps = 71/415 (17%)

Query: 1   MPRPYFHKLILAST---IRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDN 57
           MPRP+FHKL+L ST   I+ ++LRIPE FVR  +D+LSA ATL VP+G V RVGLR+ DN
Sbjct: 16  MPRPHFHKLVLTSTTSTIQARKLRIPETFVRMIRDELSAVATLTVPDGHVWRVGLRKADN 75

Query: 58  KVWFYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNH 117
           K WF DGWQ F+E Y IR+GY LVFRYEGNS+F V+IFNL +SEINYQ  ALSN +  N+
Sbjct: 76  KFWFEDGWQGFLEHYSIRVGYLLVFRYEGNSSFCVFIFNLNTSEINYQSAALSNNQRNNY 135

Query: 118 SKQYHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLL-------NSSKLSNSING------ 164
           S Q  IF EMED D    +    N++ N  S +N L       + SK ++++        
Sbjct: 136 SIQNRIFEEMEDYDIP--EAIPSNQSMNSGSLRNKLFGDEWNLHQSKSASTLQAEYLSTR 193

Query: 165 --------------AGEANLQRLKVKLYSQDGETPKLKKPG-RKRKIDPNVQASSAQEVH 209
                         A E   Q L       D    ++KK G +KRKI+ +    SA    
Sbjct: 194 DIGVQFSAVEVKKSADEVRFQNLG------DDAAHRVKKSGSKKRKIESSEHHPSAHNSE 247

Query: 210 D-GEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSC 268
           D G+++FRFYESASARKRTVTAEERERAIN+AKAFEP NPFCRVVLRPSYLY+GCIM   
Sbjct: 248 DLGDIRFRFYESASARKRTVTAEERERAINSAKAFEPGNPFCRVVLRPSYLYRGCIM--- 304

Query: 269 RISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRC 328
                                       YLPSCFAEK+L+GV GFIKLQ  DG+QWPVRC
Sbjct: 305 ----------------------------YLPSCFAEKNLSGVSGFIKLQTPDGRQWPVRC 336

Query: 329 LYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSESAGFMS 383
           LY+ GRAK SQGWYEF +EN LGEGDVCVFE+LR RE VLKVT+FRV E  G M+
Sbjct: 337 LYKVGRAKLSQGWYEFCLENNLGEGDVCVFELLRMREIVLKVTMFRVIEEGGRMA 391

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297834810|ref|XP_002885287.1| hypothetical protein ARALYDRAFT_479415 [Arabidopsis lyrata subsp. lyrata] gi|297331127|gb|EFH61546.1| hypothetical protein ARALYDRAFT_479415 [Arabidopsis lyrata subsp. lyrata]

 Score =  399 bits (1026), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 213/380 (56%), Positives = 261/380 (68%), Gaps = 44/380 (11%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP+FHKLI +STI++KRLR+P+ FV  FKD+LS A  L VP+G V RVGLR+ DNK+W
Sbjct: 1   MPRPFFHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKADNKIW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQEF++RY IRIGY L+FRYEGNSAF+VYIFNL  SEINY    L +    NH K+
Sbjct: 61  FQDGWQEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGLMD-SAHNHFKR 119

Query: 121 YHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQ 180
             +F ++ED+D+E +   +V        + + L  S +  +   AG A        + ++
Sbjct: 120 ARLFEDLEDEDAEFIFPSSV--------YPSPLPESTVPANKGYAGSAIQSLFTGSVKAE 171

Query: 181 DGE-TPKL-KKPGRKRK-IDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAI 237
           +   TPK+ KK GRK+K  DP    SSA    D E + +FYESASARKRTVTAEERERAI
Sbjct: 172 EATPTPKIPKKRGRKKKNADPEEINSSAPRDDDPENRSKFYESASARKRTVTAEERERAI 231

Query: 238 NAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQY 297
           NAAK FEP+NPF RVVLRPSYLY+GCIM                               Y
Sbjct: 232 NAAKTFEPTNPFFRVVLRPSYLYRGCIM-------------------------------Y 260

Query: 298 LPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCV 357
           LPS FAEK+L+G+ GFIK+QL++ KQWPVRCLY+ GRAKFSQGWYEFT+EN LGEGDVCV
Sbjct: 261 LPSGFAEKYLSGISGFIKVQLAE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCV 319

Query: 358 FEVLRAREFVLKVTVFRVSE 377
           FE+LR R+FVLKVT FRV+E
Sbjct: 320 FELLRTRDFVLKVTAFRVNE 339

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|30685150|ref|NP_188529.2| B3 domain-containing transcription factor VRN1 [Arabidopsis thaliana] gi|75153628|sp|Q8L3W1.1|VRN1_ARATH RecName: Full=B3 domain-containing transcription factor VRN1; AltName: Full=Protein VERNALIZATION 1 gi|21734794|gb|AAM76972.1|AF289051_1 reduced vernalization response 1 [Arabidopsis thaliana] gi|21734796|gb|AAM76973.1|AF289052_1 reduced vernalization response 1 [Arabidopsis thaliana] gi|89000959|gb|ABD59069.1| At3g18990 [Arabidopsis thaliana] gi|110741272|dbj|BAF02186.1| hypothetical protein [Arabidopsis thaliana] gi|225898655|dbj|BAH30458.1| hypothetical protein [Arabidopsis thaliana] gi|332642657|gb|AEE76178.1| B3 domain-containing transcription factor VRN1 [Arabidopsis thaliana]

 Score =  397 bits (1021), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 212/381 (55%), Positives = 260/381 (68%), Gaps = 46/381 (12%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP+FHKLI +STI++KRLR+P+ FV  FKD+LS A  L VP+G V RVGLR+ DNK+W
Sbjct: 1   MPRPFFHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKADNKIW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQEF++RY IRIGY L+FRYEGNSAF+VYIFNL  SEINY    L +    NH K+
Sbjct: 61  FQDGWQEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGLMD-SAHNHFKR 119

Query: 121 YHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQ 180
             +F ++ED+D+E +   +V   +  P  ++ + ++K      G   + +Q L       
Sbjct: 120 ARLFEDLEDEDAEVIFPSSV---YPSPLPESTVPANK------GYASSAIQTLFTGPVKA 170

Query: 181 DGETPKLKKP---GRKRK-IDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERA 236
           +  TP  K P   GRK+K  DP    SSA    D E + +FYESASARKRTVTAEERERA
Sbjct: 171 EEPTPTPKIPKKRGRKKKNADPEEINSSAPRDDDPENRSKFYESASARKRTVTAEERERA 230

Query: 237 INAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQ 296
           INAAK FEP+NPF RVVLRPSYLY+GCIM                               
Sbjct: 231 INAAKTFEPTNPFFRVVLRPSYLYRGCIM------------------------------- 259

Query: 297 YLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVC 356
           YLPS FAEK+L+G+ GFIK+QL++ KQWPVRCLY+ GRAKFSQGWYEFT+EN LGEGDVC
Sbjct: 260 YLPSGFAEKYLSGISGFIKVQLAE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVC 318

Query: 357 VFEVLRAREFVLKVTVFRVSE 377
           VFE+LR R+FVLKVT FRV+E
Sbjct: 319 VFELLRTRDFVLKVTAFRVNE 339

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|312282979|dbj|BAJ34355.1| unnamed protein product [Thellungiella halophila]

 Score =  396 bits (1017), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 213/379 (56%), Positives = 261/379 (68%), Gaps = 42/379 (11%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP+FHKLI +STI++KRLR+P+ FV  FKD+LS A  L VP+G V RVGLR+ +NK+W
Sbjct: 1   MPRPFFHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKAENKIW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQEF++RY IRIGY L+FRYEGNSAF+VYIFNL  SEINY    L +    NH K+
Sbjct: 61  FQDGWQEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGLMD-SAHNHFKR 119

Query: 121 YHIFAEMEDDDSEHVDQPTVNKTFNPPSFQNLLNSSKLSNSINGAGEANLQRLKVKLYSQ 180
             +F ++ED+D+E +   +V  +  P S      +   +   +G+   +L    VK   +
Sbjct: 120 ARLFEDLEDEDAEVIYPSSVYPSPLPDS------TVPANKGYSGSAIQSLFTGPVKA-EE 172

Query: 181 DGETPKL-KKPGRKRK-IDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAIN 238
              TPK+ KK GRK+K  DP    SSA    D E + +FYESASARKRTVTAEERERAIN
Sbjct: 173 ATPTPKVPKKRGRKKKNADPEEINSSAPRDDDPENRSKFYESASARKRTVTAEERERAIN 232

Query: 239 AAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYL 298
           AAK FEP+NPF RVVLRPSYLY+GCIM                               YL
Sbjct: 233 AAKTFEPTNPFFRVVLRPSYLYRGCIM-------------------------------YL 261

Query: 299 PSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVF 358
           PS FAEK+L+G+ GFIK+QL++ KQWPVRCLY+ GRAKFSQGWYEFT+EN LGEGDVCVF
Sbjct: 262 PSGFAEKYLSGISGFIKVQLAE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCVF 320

Query: 359 EVLRAREFVLKVTVFRVSE 377
           E+LR R+FVLKVT FRV+E
Sbjct: 321 ELLRTRDFVLKVTAFRVNE 339

Source: Thellungiella halophila

Species: Eutrema halophilum

Genus: Eutrema

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356521114|ref|XP_003529203.1| PREDICTED: B3 domain-containing transcription factor VRN1-like [Glycine max]

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 215/436 (49%), Positives = 270/436 (61%), Gaps = 85/436 (19%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP F KL+L +T++ ++LRIP+NF+R +   LS  ATL VP+G V  +GL++ DN++W
Sbjct: 1   MPRPCFDKLVLPTTLQSRQLRIPDNFLRKYGTQLSTIATLTVPDGSVWPIGLKKADNRIW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQ+F++RY I +GYFLVF YEGNS+F V+IFNL +SE+NYQ    ++ E    +  
Sbjct: 61  FVDGWQDFVQRYSIGVGYFLVFMYEGNSSFIVHIFNLSTSEVNYQSAMRNHNEGSCFANY 120

Query: 121 YHIFAEMEDDDS----------------------EHVDQPTVNKTFNPPSFQNLLNSSKL 158
           +HIF EMED DS                        VDQ T  K+ + P+ QNL N    
Sbjct: 121 HHIFDEMEDVDSLGLSDLSPQYLTPGALQSKGFAGSVDQLTPGKS-HTPALQNLFNGGSK 179

Query: 159 SNSIN-GAG-------EANLQ----------------------RLKVKLYSQDGETPKLK 188
            N +N G G       +AN Q                       LK++ YS   E    K
Sbjct: 180 LNRVNWGDGGSAFSLKDANSQGNQSTRDIGVQFNAVEFKRSTEELKLR-YSNSNEEAVNK 238

Query: 189 KPGRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNP 248
              +KRK +P  +  S +   + EM++RFYESASARKRTVTAEERERAINA+K FEP+NP
Sbjct: 239 TAKKKRKSEPYGEEPSGENEEEAEMRYRFYESASARKRTVTAEERERAINASKTFEPTNP 298

Query: 249 FCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLN 308
           FCRVVLRPSYLY+GCIM                               YLPS FAEK+LN
Sbjct: 299 FCRVVLRPSYLYRGCIM-------------------------------YLPSTFAEKNLN 327

Query: 309 GVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVL 368
           GV GFIKLQLS+G+QW VRCLYRGGRAK SQGW+EFTVEN LGEGDVCVFE+LR +E VL
Sbjct: 328 GVSGFIKLQLSNGRQWSVRCLYRGGRAKLSQGWFEFTVENNLGEGDVCVFELLRMKEVVL 387

Query: 369 KVTVFRVSESAGFMSR 384
           +VTVFRV+E AG +++
Sbjct: 388 QVTVFRVTEDAGLLNQ 403

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356575102|ref|XP_003555681.1| PREDICTED: B3 domain-containing transcription factor VRN1-like [Glycine max]

 Score =  388 bits (997), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 215/433 (49%), Positives = 268/433 (61%), Gaps = 81/433 (18%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP FHKL+L +T++ ++LRIP+NF+R +   LS  ATL VP+G V R+GL++ DN++ 
Sbjct: 1   MPRPCFHKLVLPTTLQSRQLRIPDNFLRKYGTQLSTIATLTVPDGSVWRIGLKKADNRIL 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQ+F++ Y I +GYFLVF YEGNS+F V+IFNL +SE+NYQ    +  E    +  
Sbjct: 61  FVDGWQDFVQHYSIGVGYFLVFMYEGNSSFIVHIFNLSTSEVNYQSAIRNRNEGSCLANY 120

Query: 121 YHIFAEMEDDDS----------------------EHVDQPTVNKTFNPPSFQNLLNSSKL 158
           +HIF EMED DS                        VDQ T  K+ + P+ QNL N    
Sbjct: 121 HHIFDEMEDVDSLDLSDLSPQYLTPGSLQNKGCVGSVDQLTPGKS-HTPALQNLFNGGSK 179

Query: 159 SNSIN-GAG-------EANLQ----------RLKVKLYSQDGETPKL---------KKPG 191
            N IN G G        AN Q          +     + +  E  KL         K   
Sbjct: 180 LNRINWGDGGSAFSSKNANSQGNQSTRDIGVQFNANEFKRSTEELKLRYSNEETVNKTAK 239

Query: 192 RKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCR 251
           +KRK +P  +  S +   + EM++RFYESASARKRTVTAEERERAINA+K FEP+NPFCR
Sbjct: 240 KKRKSEPYGEEPSGENEEEAEMRYRFYESASARKRTVTAEERERAINASKTFEPTNPFCR 299

Query: 252 VVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVC 311
           VVLRPSYLY+GCIM                               YLPSCFAEK+LNGV 
Sbjct: 300 VVLRPSYLYRGCIM-------------------------------YLPSCFAEKNLNGVS 328

Query: 312 GFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVT 371
           GFIKLQLS+G+QW VRCLYRGGRAK SQGW+EFTVEN LGEGDVCVFE+LR +E VL+VT
Sbjct: 329 GFIKLQLSNGRQWSVRCLYRGGRAKLSQGWFEFTVENNLGEGDVCVFELLRTKEVVLQVT 388

Query: 372 VFRVSESAGFMSR 384
           VFRV+E AG +++
Sbjct: 389 VFRVTEDAGLLNQ 401

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255637330|gb|ACU18995.1| unknown [Glycine max]

 Score =  385 bits (990), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 214/436 (49%), Positives = 269/436 (61%), Gaps = 85/436 (19%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MPRP F KL+L +T++ ++LRIP+NF+R +   LS  ATL VP+G V  +GL++ DN++W
Sbjct: 1   MPRPCFDKLVLPTTLQSRQLRIPDNFLRKYGTQLSTIATLTVPDGSVWPIGLKKADNRIW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGWQ+F++RY I +GYFLVF YEGNS+F V+IFNL +SE+NYQ    ++ E    +  
Sbjct: 61  FVDGWQDFVQRYSIGVGYFLVFMYEGNSSFIVHIFNLSTSEVNYQSAMRNHNEGSCFANY 120

Query: 121 YHIFAEMEDDDS----------------------EHVDQPTVNKTFNPPSFQNLLNSSKL 158
           +HIF EMED DS                        VDQ T  K+ + P+ QNL N    
Sbjct: 121 HHIFDEMEDVDSLGLSDLSPQYLTPGALQSKGFAGSVDQLTPGKS-HTPALQNLFNGGSK 179

Query: 159 SNSIN-GAG-------EANLQ----------------------RLKVKLYSQDGETPKLK 188
            N +N G G       +AN Q                       LK++ YS   E    K
Sbjct: 180 LNRVNWGDGGSAFSLKDANSQGNQSTRDIGVQFNAVEFKRSTEELKLR-YSNSNEEAVNK 238

Query: 189 KPGRKRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNP 248
              +KRK +P  +  S +   + EM++RFYESASARKRTVTAEERERAINA+K FEP+NP
Sbjct: 239 TAKKKRKSEPYGEEPSGENEEEAEMRYRFYESASARKRTVTAEERERAINASKTFEPTNP 298

Query: 249 FCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLN 308
           FCRVVLRPSYLY+GCIM                               YLPS FAEK+LN
Sbjct: 299 FCRVVLRPSYLYRGCIM-------------------------------YLPSTFAEKNLN 327

Query: 309 GVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVL 368
           GV GFIKLQLS+G+ W VRCLYRGGRAK SQGW+EFTVEN LGEGDVCVFE+LR +E VL
Sbjct: 328 GVSGFIKLQLSNGRPWSVRCLYRGGRAKLSQGWFEFTVENNLGEGDVCVFELLRMKEVVL 387

Query: 369 KVTVFRVSESAGFMSR 384
           +VTVFRV+E AG +++
Sbjct: 388 QVTVFRVTEDAGLLNQ 403

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357473115|ref|XP_003606842.1| B3 domain-containing transcription factor VRN1 [Medicago truncatula] gi|355507897|gb|AES89039.1| B3 domain-containing transcription factor VRN1 [Medicago truncatula]

 Score =  384 bits (986), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 212/431 (49%), Positives = 261/431 (60%), Gaps = 82/431 (19%)

Query: 1   MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
           MP P FHKL+L ST++ K+LR+P++F+R +  D+S   TL VP+G V RV ++++DNK W
Sbjct: 1   MPSPSFHKLVLPSTLQAKQLRLPDDFMRKYGGDISPTVTLTVPDGSVWRVIMKKVDNKFW 60

Query: 61  FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
           F DGW EF++ Y I  GY LVF+YEG S F V IF+LP+SEINYQ  A  + E     K+
Sbjct: 61  FLDGWNEFVQNYSISTGYLLVFKYEGKSHFTVNIFSLPTSEINYQSPAQRSNEASLFGKR 120

Query: 121 YHIFAEMEDDDSEHV----------------------DQPTVNKTFNPPSFQNLLNSSKL 158
             IF EMED+DS  +                      D+ T  K+  PP+ QNL N SKL
Sbjct: 121 LTIFEEMEDEDSVEIMESSPTKLTPSLLQNKAVSGSADKLTPGKSRPPPALQNLFNGSKL 180

Query: 159 SNSIN-GAGEANLQR----------------LKVKLYSQDGETPKL---------KKPGR 192
            NSIN G G     R                  V  + +  E  KL         K   +
Sbjct: 181 -NSINWGEGGNTPSRNDNSVDNQLTRDIGLQFNVVEFKKSNEELKLRAATDEKVKKTAVK 239

Query: 193 KRKIDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRV 252
           KRK D  VQ   ++   + EM+ RFYESASARKRT TAEERE+AINAAK FEPSNPFCRV
Sbjct: 240 KRKSD--VQEPPSEHEDEVEMRNRFYESASARKRTATAEEREKAINAAKTFEPSNPFCRV 297

Query: 253 VLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCG 312
           VLRPSYLY+GCIM                               YLPSCFAEK+LNGV G
Sbjct: 298 VLRPSYLYRGCIM-------------------------------YLPSCFAEKNLNGVSG 326

Query: 313 FIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTV 372
            IKLQ+SDG+QWPVRCLYRGGRAK SQGW+EF++EN LGEGDVCVFE++  +E VL+VTV
Sbjct: 327 IIKLQISDGRQWPVRCLYRGGRAKLSQGWFEFSLENNLGEGDVCVFELVATKEVVLQVTV 386

Query: 373 FRVSESAGFMS 383
           FR++E  G +S
Sbjct: 387 FRITEDEGPLS 397

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	385
TAIR|locus:2085849	341	VRN1 "REDUCED VERNALIZATION RE	0.659	0.744	0.562	9.4e-105
TAIR|locus:2010262	226	RTV1 "AT1G49480" [Arabidopsis	0.225	0.384	0.715	2.6e-59
TAIR|locus:2133362	190	AT4G01580 [Arabidopsis thalian	0.280	0.568	0.425	2.2e-20
TAIR|locus:2085859	209	AT3G18960 [Arabidopsis thalian	0.280	0.516	0.407	5.6e-19
TAIR|locus:504956318	190	AT1G49475 [Arabidopsis thalian	0.353	0.715	0.381	1.2e-18
TAIR|locus:2172319	301	AT5G18090 [Arabidopsis thalian	0.223	0.285	0.272	1.1e-09
TAIR|locus:2119166	337	AT4G33280 [Arabidopsis thalian	0.233	0.267	0.322	1.8e-09
TAIR|locus:2161533	307	VDD "VERDANDI" [Arabidopsis th	0.205	0.257	0.3	1.2e-08
TAIR|locus:2124824	462	AT4G31680 [Arabidopsis thalian	0.340	0.283	0.280	1.7e-08
TAIR|locus:2124839	461	AT4G31690 [Arabidopsis thalian	0.283	0.236	0.283	3e-07

TAIR|locus:2085849 VRN1 "REDUCED VERNALIZATION RESPONSE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 708 (254.3 bits), Expect = 9.4e-105, Sum P(2) = 9.4e-105
 Identities = 152/270 (56%), Positives = 185/270 (68%)

Query:     1 MPRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW 60
             MPRP+FHKLI +STI++KRLR+P+ FV  FKD+LS A  L VP+G V RVGLR+ DNK+W
Sbjct:     1 MPRPFFHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKADNKIW 60

Query:    61 FYDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQ 120
             F DGWQEF++RY IRIGY L+FRYEGNSAF+VYIFNL  SEINY    L +    NH K+
Sbjct:    61 FQDGWQEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGLMD-SAHNHFKR 119

Query:   121 YHIFAEMEDDDSEHVDQPTVNKTFNPPSFQXXXXXXXXXXXXXGAGEANLQRL---KVKL 177
               +F ++ED+D+E +   +V  +  P S               G   + +Q L    VK 
Sbjct:   120 ARLFEDLEDEDAEVIFPSSVYPSPLPES---------TVPANKGYASSAIQTLFTGPVKA 170

Query:   178 YSQDGETPKL-KKPGRKRK-IDPNVQASSAQEVHDGEMQFRFYESASARKRTVTAEERER 235
               +   TPK+ KK GRK+K  DP    SSA    D E + +FYESASARKRTVTAEERER
Sbjct:   171 -EEPTPTPKIPKKRGRKKKNADPEEINSSAPRDDDPENRSKFYESASARKRTVTAEERER 229

Query:   236 AINAAKAFEPSNPFCRVVLRPSYLYKGCIM 265
             AINAAK FEP+NPF RVVLRPSYLY+GCIM
Sbjct:   230 AINAAKTFEPTNPFFRVVLRPSYLYRGCIM 259

GO:0005634 "nucleus" evidence=ISM

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

GO:0003677 "DNA binding" evidence=IDA

GO:0009909 "regulation of flower development" evidence=IMP

GO:0005654 "nucleoplasm" evidence=IDA

GO:0010048 "vernalization response" evidence=IMP

TAIR|locus:2010262 RTV1 "AT1G49480" [Arabidopsis thaliana (taxid:3702)]

 Score = 345 (126.5 bits), Expect = 2.6e-59, Sum P(2) = 2.6e-59
 Identities = 63/88 (71%), Positives = 76/88 (86%)

Query:   290 IYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENR 349
             +Y   + YLPS FAEK+L+G+ GFIKLQL + KQWPVRCLY+ GRAKFSQGWYEFT+EN 
Sbjct:   138 LYRGCIMYLPSGFAEKYLSGISGFIKLQLGE-KQWPVRCLYKAGRAKFSQGWYEFTLENN 196

Query:   350 LGEGDVCVFEVLRAREFVLKVTVFRVSE 377
             +GEGDVCVFE+LR R+FVL+VT FRV+E
Sbjct:   197 IGEGDVCVFELLRTRDFVLEVTAFRVNE 224

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0032880 "regulation of protein localization" evidence=RCA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0034613 "cellular protein localization" evidence=IDA

TAIR|locus:2133362 AT4G01580 [Arabidopsis thaliana (taxid:3702)]

 Score = 242 (90.2 bits), Expect = 2.2e-20, P = 2.2e-20
 Identities = 46/108 (42%), Positives = 67/108 (62%)

Query:     2 PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWF 61
             P   F KL+L ST++DK +RIP  FV+     LS   TL+ P G    + L+R+  ++WF
Sbjct:    26 PVKKFFKLVLPSTMKDKMMRIPPRFVKLQGSKLSEVVTLVTPAGYKRSIKLKRIGEEIWF 85

Query:    62 YDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNAL 109
             ++GW EF E + I  G+FL+F Y+ NS+F V IFN  + E NY  +A+
Sbjct:    86 HEGWSEFAEAHSIEEGHFLLFEYKKNSSFRVIIFNASACETNYPLDAV 133

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

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

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2085859 AT3G18960 [Arabidopsis thaliana (taxid:3702)]

 Score = 230 (86.0 bits), Expect = 5.6e-19, P = 5.6e-19
 Identities = 44/108 (40%), Positives = 66/108 (61%)

Query:     2 PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWF 61
             P   F KL+L ST++DK ++IP  FV+     LS   TL  P G    + L+R+  ++WF
Sbjct:    26 PVKKFFKLVLPSTMKDKMMKIPPRFVKLQGSKLSEVVTLETPAGFKRSIKLKRIGEEIWF 85

Query:    62 YDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNAL 109
             ++GW EF E + I  G+FL+F Y+ NS+F V IFN+ + E  Y  +A+
Sbjct:    86 HEGWSEFAEAHSIEEGHFLLFEYKENSSFRVIIFNVSACETKYPLDAV 133

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

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

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:504956318 AT1G49475 [Arabidopsis thaliana (taxid:3702)]

 Score = 227 (85.0 bits), Expect = 1.2e-18, P = 1.2e-18
 Identities = 53/139 (38%), Positives = 77/139 (55%)

Query:     6 FHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGW 65
             F K+IL S I +K +++P  FVR F   L+   TL  P G    + ++R+ ++VWF  GW
Sbjct:    34 FIKIILLSRIIEKMMKVPARFVR-FGPKLTDNVTLQTPVGFKRSIRIKRIGDEVWFEKGW 92

Query:    66 QEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNF--EVPNHSKQYHI 123
              EF E + +  G+FL F YEG+S F V IF++ +SEI Y  +   +   EV +  +Q   
Sbjct:    93 SEFAEAHSLSDGHFLFFHYEGDSCFRVVIFDVSASEIEYPLDDTDDNREEVMDDDEQGFT 152

Query:   124 FAEMEDDDSEHVDQPTVNK 142
               E  DDD E VD   + K
Sbjct:   153 GFESSDDDGEVVDMDELLK 171

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

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

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2172319 AT5G18090 [Arabidopsis thaliana (taxid:3702)]

 Score = 108 (43.1 bits), Expect = 1.1e-09, Sum P(2) = 1.1e-09
 Identities = 24/88 (27%), Positives = 42/88 (47%)

Query:   285 LDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQ-WPVRCLYRGGRAKFSQGWYE 343
             L ++  Y + L  +P  F E H+       K+   +GK+ W V   +   + +F  GW  
Sbjct:   214 LTIKKSYLIFLG-IPKMFEELHMPTEATMFKIHDPEGKRSWDVMYKFSNNQTRFCAGWIR 272

Query:   344 FTVENRLGEGDVCVFEVLRAREFVLKVT 371
                E  L  GDVC F +++  E +++V+
Sbjct:   273 LAKELGLEIGDVCTFTLIKPTEMLVRVS 300

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

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

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2119166 AT4G33280 [Arabidopsis thaliana (taxid:3702)]

 Score = 114 (45.2 bits), Expect = 1.8e-09, Sum P(2) = 1.8e-09
 Identities = 30/93 (32%), Positives = 46/93 (49%)

Query:     5 YFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVW-FYD 63
             +F +L+L       RL IP  F  + K  L    TL  P+G+   VG+   D K   F  
Sbjct:    24 HFTQLLLPGF--HNRLVIPRKFSTHCKRKLPQIVTLKSPSGVTYNVGVEEDDEKTMAFRF 81

Query:    64 GWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFN 96
             GW +F++ + +     LVF++ G S F V +F+
Sbjct:    82 GWDKFVKDHSLEENDLLVFKFHGVSEFEVLVFD 114

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

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

GO:0005634 "nucleus" evidence=ISM

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

GO:0005773 "vacuole" evidence=IDA

TAIR|locus:2161533 VDD "VERDANDI" [Arabidopsis thaliana (taxid:3702)]

 Score = 100 (40.3 bits), Expect = 1.2e-08, Sum P(2) = 1.2e-08
 Identities = 24/80 (30%), Positives = 39/80 (48%)

Query:   293 LLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQ-WPVRCLYRGGRAKFSQGWYEFTVENRLG 351
             LL   +P  F + H+       K+    GK+ W V  +    +++FS GW     E  L 
Sbjct:   226 LLFLGIPKKFVDMHMPTETTMFKIHYPRGKKSWDVTYVVTDVQSRFSGGWSRLAKELGLL 285

Query:   352 EGDVCVFEVLRAREFVLKVT 371
              GDVC F++++  E  +KV+
Sbjct:   286 VGDVCTFKLIKPTEMRVKVS 305

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

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

GO:0005634 "nucleus" evidence=ISM

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

GO:0009553 "embryo sac development" evidence=IMP

GO:0009567 "double fertilization forming a zygote and endosperm" evidence=IMP

TAIR|locus:2124824 AT4G31680 [Arabidopsis thaliana (taxid:3702)]

 Score = 112 (44.5 bits), Expect = 1.7e-08, Sum P(2) = 1.7e-08
 Identities = 39/139 (28%), Positives = 68/139 (48%)

Query:     5 YFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLD-NKVWFYD 63
             +F K +L    R+  L IP  F     +      T+ +      R    ++D N++   +
Sbjct:    13 HFFKPLLPGFQRN--LNIPVKFFSEHIEGKHEGETVKLRADASKRTWEVKMDGNRLT--E 68

Query:    64 GWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHI 123
             GW+EF+E + +RI  F+VFR+EG+  F+V        EI Y P ++S+ E    S +  I
Sbjct:    69 GWKEFVEAHDLRIRDFVVFRHEGDMVFHVTALGPSCCEIQY-PQSISH-EEGEESGEVEI 126

Query:   124 FA-EMEDDDSEHVDQPTVN 141
                E+E++  +  DQ + +
Sbjct:   127 SEREVEENLQKEYDQSSAD 145

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

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

GO:0005634 "nucleus" evidence=ISM

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

TAIR|locus:2124839 AT4G31690 [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 3.0e-07, Sum P(2) = 3.0e-07
 Identities = 32/113 (28%), Positives = 55/113 (48%)

Query:    20 LRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYF 79
             L+IP N+     +      T+ +      R    +++      +GW+EF+E + +RIG F
Sbjct:    26 LKIPVNYFSEHIEGKHEGKTVTLRTDASERTWEVKMEGHR-LTEGWKEFVEAHDLRIGDF 84

Query:    80 LVFRYEGNSAFNVYIFNLPSSEINYQPNALSNFEVPNHSKQYHIFAEMEDDDS 132
             +VFR+EG+  F+V        EI Y P + S  E    S +  I +E E +++
Sbjct:    85 VVFRHEGDMVFHVTALGPSCCEIQY-PQS-SRHEEGEESGENEI-SEKEGEEN 134

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

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

GO:0005634 "nucleus" evidence=ISM

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

GO:0009941 "chloroplast envelope" evidence=IDA

---

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)
Q8L3W1	VRN1_ARATH	No assigned EC number	0.5564	0.8701	0.9824	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	385
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	5e-15
smart01019	96	smart01019, B3, B3 DNA binding domain	7e-14
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	2e-13
pfam02362	97	pfam02362, B3, B3 DNA binding domain	1e-12
smart01019	96	smart01019, B3, B3 DNA binding domain	9e-12
pfam02362	97	pfam02362, B3, B3 DNA binding domain	1e-10

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

 Score = 69.7 bits (171), Expect = 5e-15
 Identities = 35/81 (43%), Positives = 41/81 (50%), Gaps = 4/81 (4%)

Query: 297 YLPSCFAEKHLNGVCG-FIKLQLSDGKQWPVRCLYRG--GRAKFSQGWYEFTVENRLGEG 353
            LP  FA+ HL    G  + L+  DGK+W V+   R   GR   S GW EF   N L EG
Sbjct: 19  VLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMVLSGGWKEFVRANGLKEG 78

Query: 354 DVCVFEVLRAREFVLKVTVFR 374
           D  VFE L  R    KV +FR
Sbjct: 79  DFLVFE-LDGRNSKFKVRIFR 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|214977 smart01019, B3, B3 DNA binding domain

 Score = 66.6 bits (163), Expect = 7e-14
 Identities = 32/96 (33%), Positives = 39/96 (40%), Gaps = 14/96 (14%)

Query: 278 SVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGV-CGFIKLQLSDGKQWPVRCLYRG--GR 334
            VS    L            LP  FAE +   +    I L   DGK W V+  YRG  G 
Sbjct: 9   DVSKHGRL-----------VLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGM 57

Query: 335 AKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKV 370
              + GW EF   N L  GD   FE+    EFV+ +
Sbjct: 58  FLLTGGWKEFVKANGLKAGDSLTFELDGNGEFVVSI 93

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

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

 Score = 65.4 bits (160), Expect = 2e-13
 Identities = 31/98 (31%), Positives = 47/98 (47%), Gaps = 5/98 (5%)

Query: 4  PYFHKLILAS-TIRDKRLRIPENFVR-NFKDDLSAAATLIVPNGMVSRVGLRRLDN--KV 59
          P F K++  S      RL +P+ F + +         TL  P+G    V L++  N  ++
Sbjct: 1  PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRM 60

Query: 60 WFYDGWQEFMERYFIRIGYFLVFRYEG-NSAFNVYIFN 96
              GW+EF+    ++ G FLVF  +G NS F V IF 
Sbjct: 61 VLSGGWKEFVRANGLKEGDFLVFELDGRNSKFKVRIFR 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 = 63.1 bits (154), Expect = 1e-12
 Identities = 34/83 (40%), Positives = 42/83 (50%), Gaps = 5/83 (6%)

Query: 297 YLPSCFAEKH-LNGVCGFIKLQLSDGKQWPVRCLYR--GGRAKFSQGWYEFTVENRLGEG 353
            LP  FAE++ LN     I L   DGK W V+  YR  G R   + GW EF   N L  G
Sbjct: 17  VLPKKFAEENGLNKKGQEITLLDPDGKSWTVKLRYRKSGRRYLLTSGWKEFVKANGLKAG 76

Query: 354 DVCVFEVLRAREFVLKVTVFRVS 376
           D  VF++    +FV  V +FR S
Sbjct: 77  DSLVFKLDGGGKFV--VGIFRKS 97

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|214977 smart01019, B3, B3 DNA binding domain

 Score = 60.8 bits (148), Expect = 9e-12
 Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 3/95 (3%)

Query: 5  YFHKLILASTIRDKRLRIPENFVRNFKDDLSAA-ATLIVPNGMVSRVGLRRLDNKVWFY- 62
          +F  L  +   +  RL +P+ F  +    L     TL+ P+G   +V L+   +   F  
Sbjct: 1  FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLL 60

Query: 63 -DGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFN 96
            GW+EF++   ++ G  L F  +GN  F V IF 
Sbjct: 61 TGGWKEFVKANGLKAGDSLTFELDGNGEFVVSIFR 95

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

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

 Score = 57.7 bits (140), Expect = 1e-10
 Identities = 29/95 (30%), Positives = 45/95 (47%), Gaps = 4/95 (4%)

Query: 6  FHKLILAS-TIRDKRLRIPENFVR-NFKDDLSAAATLIVPNGMVSRVGLRRL--DNKVWF 61
          F K++  S   +D RL +P+ F   N  +      TL+ P+G    V LR      +   
Sbjct: 1  FVKVLTPSDVSKDGRLVLPKKFAEENGLNKKGQEITLLDPDGKSWTVKLRYRKSGRRYLL 60

Query: 62 YDGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFN 96
            GW+EF++   ++ G  LVF+ +G   F V IF 
Sbjct: 61 TSGWKEFVKANGLKAGDSLVFKLDGGGKFVVGIFR 95

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	385
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.86
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.83
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	91.89
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	91.47

>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=99.86  E-value=1.4e-21  Score=160.25  Aligned_cols=96  Identities=42%  Similarity=0.763  Sum_probs=72.3

Q ss_pred             EEEEccccccCCCeEEeeecccccccccccccccchhhhhhhhccCcccCHHHHHhcCCC--CceeEEEEeCCCCeEEEE
Q 016655          250 CRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNG--VCGFIKLQLSDGKQWPVR  327 (385)
Q Consensus       250 f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IP~~Fa~~~lp~--~~~~i~L~~~~Gr~W~v~  327 (385)
                      |+++|.++++...+.|                               .||++|+++|...  ...+|+|+|++|+.|.|+
T Consensus         1 F~K~l~~s~~~~~~~l-------------------------------~iP~~f~~~~~~~~~~~~~v~l~~~~g~~W~v~   49 (100)
T PF02362_consen    1 FFKVLKPSDVSSSCRL-------------------------------IIPKEFAKKHGGNKRKSREVTLKDPDGRSWPVK   49 (100)
T ss_dssp             EEEE--TTCCCCTT-E-------------------------------EE-HHHHTTTS--SS--CEEEEEETTTEEEEEE
T ss_pred             CEEEEEccCcCCCCEE-------------------------------EeCHHHHHHhCCCcCCCeEEEEEeCCCCEEEEE
Confidence            6889999988887667                               8999999999633  567999999999999999


Q ss_pred             EEEe--CCeeEeccChHHHhhHcCCCCCCEEEEEEecCceeEEEEEEEeec
Q 016655          328 CLYR--GGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVS  376 (385)
Q Consensus       328 ~~~~--~~~~~ls~GW~~F~~dN~L~~GDvcvFel~~~~~~~~~V~Ifr~~  376 (385)
                      +.+.  .++++|++||.+||+||+|++||+|+|+++++..+.+.|+|||+.
T Consensus        50 ~~~~~~~~~~~l~~GW~~Fv~~n~L~~GD~~~F~~~~~~~~~~~v~i~~~~  100 (100)
T PF02362_consen   50 LKYRKNSGRYYLTGGWKKFVRDNGLKEGDVCVFELIGNSNFTLKVHIFRKS  100 (100)
T ss_dssp             EEEECCTTEEEEETTHHHHHHHCT--TT-EEEEEE-SSSCE-EEEEEE---
T ss_pred             EEEEccCCeEEECCCHHHHHHHcCCCCCCEEEEEEecCCCceEEEEEEECc
Confidence            9654  357899999999999999999999999999877788999999963

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.

>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=99.83  E-value=3.6e-20  Score=151.88  Aligned_cols=93  Identities=31%  Similarity=0.521  Sum_probs=70.6

Q ss_pred             eEEEccCCccC-CCeeecCHHHHHhccCC--CCceEEEEcCCCCEEEEEE--EEeCCeEEeccCHHHHHhHhCCCCCcEE
Q 016655            6 FHKLILASTIR-DKRLRIPENFVRNFKDD--LSAAATLIVPNGMVSRVGL--RRLDNKVWFYDGWQEFMERYFIRIGYFL   80 (385)
Q Consensus         6 F~kv~~~~~l~-~~~L~IP~~F~~~~~~~--~~~~v~L~~p~G~~W~V~l--~~~~~~~~~~~GW~~Fv~~~~L~~Gd~l   80 (385)
                      |+|+|++++.. ...|.||..|++.|+..  .+..|+|++++|+.|.|++  .+.++.++|+.||++||++|+|++||+|
T Consensus         1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~~~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~~GD~~   80 (100)
T PF02362_consen    1 FFKVLKPSDVSSSCRLIIPKEFAKKHGGNKRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLKEGDVC   80 (100)
T ss_dssp             EEEE--TTCCCCTT-EEE-HHHHTTTS--SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--TT-EE
T ss_pred             CEEEEEccCcCCCCEEEeCHHHHHHhCCCcCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCCCCCEE
Confidence            89999988764 35799999999999754  5779999999999999999  4557789999999999999999999999


Q ss_pred             EEEEeecceE--EEEEEcCC
Q 016655           81 VFRYEGNSAF--NVYIFNLP   98 (385)
Q Consensus        81 vF~~~g~s~F--~V~If~~s   98 (385)
                      +|++++++.|  .|.||+.+
T Consensus        81 ~F~~~~~~~~~~~v~i~~~~  100 (100)
T PF02362_consen   81 VFELIGNSNFTLKVHIFRKS  100 (100)
T ss_dssp             EEEE-SSSCE-EEEEEE---
T ss_pred             EEEEecCCCceEEEEEEECc
Confidence            9999987766  99999864

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=91.89  E-value=0.76  Score=39.06  Aligned_cols=66  Identities=18%  Similarity=0.368  Sum_probs=47.2

Q ss_pred             eEEEccCCccC--CCeeecCHHHHHh--c----------------cCCCCceEEEEcCCCCEEEEEEEEe-C----CeEE
Q 016655            6 FHKLILASTIR--DKRLRIPENFVRN--F----------------KDDLSAAATLIVPNGMVSRVGLRRL-D----NKVW   60 (385)
Q Consensus         6 F~kv~~~~~l~--~~~L~IP~~F~~~--~----------------~~~~~~~v~L~~p~G~~W~V~l~~~-~----~~~~   60 (385)
                      +-|.+..+++.  ..+|.||-.=+..  |                .....-.|+|.+|.++.|.+.|++- .    ..+.
T Consensus        24 ~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~~~~~Yv  103 (114)
T PF03754_consen   24 IEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGNGTSNYV  103 (114)
T ss_pred             EeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccCCceEEE
Confidence            45777777764  3678888664411  1                1234568999999999999999985 3    1566


Q ss_pred             eccCHHHHHhH
Q 016655           61 FYDGWQEFMER   71 (385)
Q Consensus        61 ~~~GW~~Fv~~   71 (385)
                      |..||.++|.+
T Consensus       104 L~~gWn~VV~~  114 (114)
T PF03754_consen  104 LNSGWNKVVED  114 (114)
T ss_pred             EEcChHhhccC
Confidence            89999998864

>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=91.47  E-value=0.3  Score=41.45  Aligned_cols=38  Identities=13%  Similarity=0.182  Sum_probs=31.3

Q ss_pred             CceeEEEEeCCCCeEEEEEEEeCC-----eeEeccChHHHhhH
Q 016655          310 VCGFIKLQLSDGKQWPVRCLYRGG-----RAKFSQGWYEFTVE  347 (385)
Q Consensus       310 ~~~~i~L~~~~Gr~W~v~~~~~~~-----~~~ls~GW~~F~~d  347 (385)
                      ..-.++|.||.++.|.+.+.+..-     .|.|..||.++|.+
T Consensus        72 ~Gv~V~lvdp~~~~~~m~lkkW~mg~~~~~YvL~~gWn~VV~~  114 (114)
T PF03754_consen   72 KGVEVILVDPSLRKWTMRLKKWNMGNGTSNYVLNSGWNKVVED  114 (114)
T ss_pred             CCceEEEECCcCcEEEEEEEEecccCCceEEEEEcChHhhccC
Confidence            345799999999999999887643     58899999999864

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	385
4i1k_A	146	Crystal Structure Of Vrn1 (residues 208-341) Length		2e-55

>pdb|4I1K|A Chain A, Crystal Structure Of Vrn1 (residues 208-341) Length = 146

Iteration: 1
 Score =  213 bits (542), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 108/162 (66%), Positives = 122/162 (75%), Gaps = 32/162 (19%)
Query: 216 RFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLH 275
           +FYESASARKRTVTAEERERAINAAK FEP+NPF RVVLRPSYLY+GCIM          
Sbjct: 15  KFYESASARKRTVTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIM---------- 64
Query: 276 CFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRA 335
                                YLPS FAEK+L+G+ GFIK+QL++ KQWPVRCLY+ GRA
Sbjct: 65  ---------------------YLPSGFAEKYLSGISGFIKVQLAE-KQWPVRCLYKAGRA 102
Query: 336 KFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSE 377
           KFSQGWYEFT+EN LGEGDVCVFE+LR R+FVLKVT FRV+E
Sbjct: 103 KFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAFRVNE 144

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	385
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	4e-30
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	4e-14
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	2e-10

>1yel_A AT1G16640; CESG, protein structure initiative, structural genomics, center for eukaryotic structural genomics, unknown function; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Length = 104

 Score =  110 bits (277), Expect = 4e-30
 Identities = 24/94 (25%), Positives = 39/94 (41%), Gaps = 1/94 (1%)

Query: 3   RPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFY 62
              F K  + S    K L IP  F   F         L+  +G    V +++   KV+  
Sbjct: 8   EVQFMKPFI-SEKSSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLT 66

Query: 63  DGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFN 96
            GW+ F++   +  G +L F Y+ +  F V I+ 
Sbjct: 67  VGWENFVKDNNLEDGKYLQFIYDRDRTFYVIIYG 100

>1yel_A AT1G16640; CESG, protein structure initiative, structural genomics, center for eukaryotic structural genomics, unknown function; NMR {Arabidopsis thaliana} SCOP: b.142.1.2 Length = 104

 Score = 67.1 bits (164), Expect = 4e-14
 Identities = 24/103 (23%), Positives = 38/103 (36%), Gaps = 11/103 (10%)

Query: 283 NMLDVRCIYFL--LLQ-------YLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGG 333
           +M D   + F+   +         +P  F E         + L    G+ W VR   RG 
Sbjct: 2   SMADTGEVQFMKPFISEKSSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGE 61

Query: 334 RAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVS 376
           +   + GW  F  +N L +G    F   R R F   V ++  +
Sbjct: 62  KVFLTVGWENFVKDNNLEDGKYLQFIYDRDRTF--YVIIYGHN 102

>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 = 57.0 bits (137), Expect = 2e-10
 Identities = 26/150 (17%), Positives = 42/150 (28%), Gaps = 40/150 (26%)

Query: 238 NAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQY 297
           ++  +   +       + PS + K   +V                               
Sbjct: 2   SSGSSGRSAEALFEKAVTPSDVGKLNRLV------------------------------- 30

Query: 298 LPSCFAEKHLNGVCGF-------IKLQLSDGKQWPVRCLYRGG--RAKFSQGWYEFTVEN 348
           +P   AEKH              +  +  +GK W  R  Y         ++GW  F  E 
Sbjct: 31  IPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEK 90

Query: 349 RLGEGDVCVFEVLRAREFVLKVTVFRVSES 378
            L  GDV  F     ++  L +     S S
Sbjct: 91  NLRAGDVVSFSRSNGQDQQLYIGWKSRSGS 120

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	385
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	100.0
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.95
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.88
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.83
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.82
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.56

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

Probab=100.00  E-value=5.9e-36  Score=262.48  Aligned_cols=134  Identities=81%  Similarity=1.342  Sum_probs=113.9

Q ss_pred             ccchhhhhhccccccCCHHHHHHHHHHhhhcCCCCCEEEEEccccccCCCeEEeeecccccccccccccccchhhhhhhh
Q 016655          213 MQFRFYESASARKRTVTAEERERAINAAKAFEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYF  292 (385)
Q Consensus       213 ~~~~~~~~~~~~~~~vt~~e~~~~~~~a~~~~s~~P~f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  292 (385)
                      ++..||+++++++++||.+|+++|+++|++|+|++|+|+++|++|+|+++++|                           
T Consensus        12 ~~~~~~~~~~~~r~~~t~~~k~~a~~~A~~~~s~~P~Fvk~l~~S~v~~~~~L---------------------------   64 (146)
T 4i1k_A           12 SRSKFYESASARKRTVTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIM---------------------------   64 (146)
T ss_dssp             --------------CCCHHHHHHHHHHHHHCCCSSCEEEEECCGGGSSTTCCE---------------------------
T ss_pred             chhhhhhhhccCCCCCCHHHHHHHHHHHHHcCCCCCEEEEEECchhcCCCcEE---------------------------
Confidence            45678999999999999999999999999999999999999999999998878                           


Q ss_pred             ccCcccCHHHHHhcCCCCceeEEEEeCCCCeEEEEEEEeCCeeEeccChHHHhhHcCCCCCCEEEEEEecCceeEEEEEE
Q 016655          293 LLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTV  372 (385)
Q Consensus       293 ~~~~~IP~~Fa~~~lp~~~~~i~L~~~~Gr~W~v~~~~~~~~~~ls~GW~~F~~dN~L~~GDvcvFel~~~~~~~~~V~I  372 (385)
                          .||.+|+++|||...++|+|+++ |+.|.|++.+.+++..|++||++||+||+|++||+|+|||+++.+++|+|||
T Consensus        65 ----~IP~~Fa~~~lp~~~~~i~L~~~-gk~W~v~~~~~~~~~~ls~GW~~Fv~dn~L~~GD~cvFeli~~~~~~f~V~I  139 (146)
T 4i1k_A           65 ----YLPSGFAEKYLSGISGFIKVQLA-EKQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTA  139 (146)
T ss_dssp             ----ECCHHHHHHHCTTCCSEEEEEET-TEEEEEEEEEETTEEEECTTHHHHHHHTTCCTTCEEEEEECSSSSCEEEEEE
T ss_pred             ----EeCHHHHHHhCCCCCeEEEEEEC-CcEEEEEEEEeCCcEEECCchHHHHHHcCCCCCCEEEEEEecCCceEEEEEE
Confidence                89999999999999999999998 5999999998888899999999999999999999999999998789999999


Q ss_pred             EeecCC
Q 016655          373 FRVSES  378 (385)
Q Consensus       373 fr~~~~  378 (385)
                      ||++|+
T Consensus       140 fR~~e~  145 (146)
T 4i1k_A          140 FRVNEY  145 (146)
T ss_dssp             ECCC--
T ss_pred             EeccCC
Confidence            999986

>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=99.95  E-value=1.7e-27  Score=197.17  Aligned_cols=98  Identities=23%  Similarity=0.420  Sum_probs=93.8

Q ss_pred             CCCceEEEccCCccCCCeeecCHHHHHhccCCCCceEEEEcCCCCEEEEEEEEeCCeEEeccCHHHHHhHhCCCCCcEEE
Q 016655            2 PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLV   81 (385)
Q Consensus         2 ~~P~F~kv~~~~~l~~~~L~IP~~F~~~~~~~~~~~v~L~~p~G~~W~V~l~~~~~~~~~~~GW~~Fv~~~~L~~Gd~lv   81 (385)
                      .+|+|+|+|++++. ...|.||..|++.|++..+++|+|++++|++|+|++.+.+++++|++||++||.+|+|++||+|+
T Consensus         7 ~~p~F~K~l~~~~~-~~~L~IP~~F~~~~~~~~~~~v~L~~~~G~~W~v~~~~~~~~~~l~~GW~~Fv~~~~L~~GD~lv   85 (104)
T 1yel_A            7 GEVQFMKPFISEKS-SKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKYLQ   85 (104)
T ss_dssp             CCEEEEEECCHHHH-TTCEECCHHHHTTCCCCCCSEEEEEETTSCEEEEEEEEETTEEEECTTHHHHHHHHTCCTTCEEE
T ss_pred             CCCCEEEEECCCCc-cceEECCHHHHHhcCccCCCEEEEECCCCCEEEEEEEEECCcEEEccChHHHHHHcCCCCCCEEE
Confidence            57999999999873 58999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeecceEEEEEEcCCCc
Q 016655           82 FRYEGNSAFNVYIFNLPSS  100 (385)
Q Consensus        82 F~~~g~s~F~V~If~~s~c  100 (385)
                      |+|+|++.|.|+||+.+||
T Consensus        86 F~~~~~~~f~V~If~~s~C  104 (104)
T 1yel_A           86 FIYDRDRTFYVIIYGHNMC  104 (104)
T ss_dssp             EEECSSSEEEEEEECSSCC
T ss_pred             EEEcCCCeEEEEEECCCCC
Confidence            9999999999999999998

>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=99.88  E-value=1.3e-22  Score=167.83  Aligned_cols=99  Identities=20%  Similarity=0.272  Sum_probs=88.1

Q ss_pred             cCCCCCEEEEEccccccCCCeEEeeecccccccccccccccchhhhhhhhccCcccCHHHHHhcCCCCceeEEEEeCCCC
Q 016655          243 FEPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGK  322 (385)
Q Consensus       243 ~~s~~P~f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IP~~Fa~~~lp~~~~~i~L~~~~Gr  322 (385)
                      ..+++|.|.++|.+++.  ...|                               .||.+|++.|.+....+|+|++++|+
T Consensus         4 ~~~~~p~F~K~l~~~~~--~~~L-------------------------------~IP~~F~~~~~~~~~~~v~L~~~~G~   50 (104)
T 1yel_A            4 ADTGEVQFMKPFISEKS--SKSL-------------------------------EIPLGFNEYFPAPFPITVDLLDYSGR   50 (104)
T ss_dssp             CCCCCEEEEEECCHHHH--TTCE-------------------------------ECCHHHHTTCCCCCCSEEEEEETTSC
T ss_pred             CCCCCCCEEEEECCCCc--cceE-------------------------------ECCHHHHHhcCccCCCEEEEECCCCC
Confidence            35788999999998872  2346                               89999999988888899999999999


Q ss_pred             eEEEEEEEeCCeeEeccChHHHhhHcCCCCCCEEEEEEecCceeEEEEEEEeec
Q 016655          323 QWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVS  376 (385)
Q Consensus       323 ~W~v~~~~~~~~~~ls~GW~~F~~dN~L~~GDvcvFel~~~~~~~~~V~Ifr~~  376 (385)
                      +|.|++.+..++.+|++||++||+||+|++||+|+|+|+++.  .|+|+||+..
T Consensus        51 ~W~v~~~~~~~~~~l~~GW~~Fv~~~~L~~GD~lvF~~~~~~--~f~V~If~~s  102 (104)
T 1yel_A           51 SWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKYLQFIYDRDR--TFYVIIYGHN  102 (104)
T ss_dssp             EEEEEEEEETTEEEECTTHHHHHHHHTCCTTCEEEEEECSSS--EEEEEEECSS
T ss_pred             EEEEEEEEECCcEEEccChHHHHHHcCCCCCCEEEEEEcCCC--eEEEEEECCC
Confidence            999999988888999999999999999999999999999864  5999999963

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

Probab=99.83  E-value=6e-20  Score=160.77  Aligned_cols=96  Identities=18%  Similarity=0.289  Sum_probs=88.2

Q ss_pred             CCCceEEEccCCccCCC-eeecCHHHHHhccCCCCceEEEEcCCCCEEEEEEEEeCCeEEeccCHHHHHhHhCCCCCcEE
Q 016655            2 PRPYFHKLILASTIRDK-RLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFL   80 (385)
Q Consensus         2 ~~P~F~kv~~~~~l~~~-~L~IP~~F~~~~~~~~~~~v~L~~p~G~~W~V~l~~~~~~~~~~~GW~~Fv~~~~L~~Gd~l   80 (385)
                      .+|.|+++|+++++... .|.||..|++.|.+..+..|+|+++ |+.|.|.+...+++.+|+.||.+||.+|+|++||+|
T Consensus        45 ~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~~~~i~L~~~-gk~W~v~~~~~~~~~~ls~GW~~Fv~dn~L~~GD~c  123 (146)
T 4i1k_A           45 TNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKVQLA-EKQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVC  123 (146)
T ss_dssp             SSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTCCSEEEEEET-TEEEEEEEEEETTEEEECTTHHHHHHHTTCCTTCEE
T ss_pred             CCCEEEEEECchhcCCCcEEEeCHHHHHHhCCCCCeEEEEEEC-CcEEEEEEEEeCCcEEECCchHHHHHHcCCCCCCEE
Confidence            47999999999998543 6999999999999888899999999 599999999888899999999999999999999999


Q ss_pred             EEEEeecc--eEEEEEEcCC
Q 016655           81 VFRYEGNS--AFNVYIFNLP   98 (385)
Q Consensus        81 vF~~~g~s--~F~V~If~~s   98 (385)
                      +|+|.++.  .|.|+||+..
T Consensus       124 vFeli~~~~~~f~V~IfR~~  143 (146)
T 4i1k_A          124 VFELLRTRDFVLKVTAFRVN  143 (146)
T ss_dssp             EEEECSSSSCEEEEEEECCC
T ss_pred             EEEEecCCceEEEEEEEecc
Confidence            99999865  8999999764

>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=99.82  E-value=9.3e-20  Score=156.58  Aligned_cols=103  Identities=23%  Similarity=0.344  Sum_probs=89.1

Q ss_pred             CCCCCEEEEEccccccCCCeEEeeecccccccccccccccchhhhhhhhccCcccCHHHHHhcCCCCc-------eeEEE
Q 016655          244 EPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVC-------GFIKL  316 (385)
Q Consensus       244 ~s~~P~f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IP~~Fa~~~lp~~~-------~~i~L  316 (385)
                      .+..|+|.++|++|+|...+.|                               .||++||++|||...       .+|+|
T Consensus         8 ~~~~~~F~K~Lt~SDv~~~~rL-------------------------------~iPk~~a~~~lP~~~~~~~~~~~~l~l   56 (130)
T 1wid_A            8 RSAEALFEKAVTPSDVGKLNRL-------------------------------VIPKHHAEKHFPLPSSNVSVKGVLLNF   56 (130)
T ss_dssp             CCCEEEEEEECCTTTTSSSCCE-------------------------------EECHHHHTTTSCCCSSCCSSCCEEEEE
T ss_pred             CCCcceEEEEEehHHcCCCCEE-------------------------------EeCHHHHHhhCCccccccCCCcEEEEE
Confidence            3567999999999999876556                               899999999998654       57889


Q ss_pred             EeCCCCeEEEEEEEeC--CeeEeccChHHHhhHcCCCCCCEEEEEEecCceeEEEEEEEeecC
Q 016655          317 QLSDGKQWPVRCLYRG--GRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSE  377 (385)
Q Consensus       317 ~~~~Gr~W~v~~~~~~--~~~~ls~GW~~F~~dN~L~~GDvcvFel~~~~~~~~~V~Ifr~~~  377 (385)
                      +|.+|+.|.++|.+++  .++.|++||..||++|+|++||+|+|+++++.+-.+.|.+.|...
T Consensus        57 ~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~FV~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~  119 (130)
T 1wid_A           57 EDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSG  119 (130)
T ss_dssp             EETTTEEEEEEEEEETTTTEEEEESSHHHHHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             EeCCCCEEEEEEEEECCCCceEEcCChHHHHHHcCCCCCCEEEEEEecCCCcEEEEEEEECCC
Confidence            9999999999998875  468899999999999999999999999998654567888888763

>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=99.56  E-value=2.6e-14  Score=122.58  Aligned_cols=96  Identities=19%  Similarity=0.229  Sum_probs=80.6

Q ss_pred             CCCceEEEccCCccC-CCeeecCHHHHHhccCCCC-------ceEEEEcCCCCEEEEEEEEe--CCeEEeccCHHHHHhH
Q 016655            2 PRPYFHKLILASTIR-DKRLRIPENFVRNFKDDLS-------AAATLIVPNGMVSRVGLRRL--DNKVWFYDGWQEFMER   71 (385)
Q Consensus         2 ~~P~F~kv~~~~~l~-~~~L~IP~~F~~~~~~~~~-------~~v~L~~p~G~~W~V~l~~~--~~~~~~~~GW~~Fv~~   71 (385)
                      +.|.|.|+|+++++. ...|.||..|+..|.+.+.       ..++|+|+.|+.|++++...  ....+|+.||..||++
T Consensus        10 ~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~FV~~   89 (130)
T 1wid_A           10 AEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKE   89 (130)
T ss_dssp             CEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHHH
T ss_pred             CcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHHHHHH
Confidence            357899999999985 3689999999999887654       36889999999999999876  3577899999999999


Q ss_pred             hCCCCCcEEEEEEeec--ceEEEEEEcC
Q 016655           72 YFIRIGYFLVFRYEGN--SAFNVYIFNL   97 (385)
Q Consensus        72 ~~L~~Gd~lvF~~~g~--s~F~V~If~~   97 (385)
                      |+|++||+|+|....+  ..+.|.+-..
T Consensus        90 ~~L~~GD~~~F~~~~~~~~~l~I~~rr~  117 (130)
T 1wid_A           90 KNLRAGDVVSFSRSNGQDQQLYIGWKSR  117 (130)
T ss_dssp             TTCCTTCEEEEEECCSSSCCEEEEEECC
T ss_pred             cCCCCCCEEEEEEecCCCcEEEEEEEEC
Confidence            9999999999999853  5676665543

---

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	385
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	1e-22
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	8e-18
d1wida_	117	b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre	4e-12

>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 = 89.2 bits (221), Expect = 1e-22
 Identities = 23/94 (24%), Positives = 39/94 (41%), Gaps = 1/94 (1%)

Query: 3  RPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFY 62
             F K  ++     K L IP  F   F         L+  +G    V +++   KV+  
Sbjct: 6  EVQFMKPFISEKSS-KSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLT 64

Query: 63 DGWQEFMERYFIRIGYFLVFRYEGNSAFNVYIFN 96
           GW+ F++   +  G +L F Y+ +  F V I+ 
Sbjct: 65 VGWENFVKDNNLEDGKYLQFIYDRDRTFYVIIYG 98

>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 = 76.1 bits (187), Expect = 8e-18
 Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 2/80 (2%)

Query: 297 YLPSCFAEKHLNGVCGFIKLQLSDGKQWPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVC 356
            +P  F E         + L    G+ W VR   RG +   + GW  F  +N L +G   
Sbjct: 23  EIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKYL 82

Query: 357 VFEVLRAREFVLKVTVFRVS 376
            F   R R F   V ++  +
Sbjct: 83  QFIYDRDRTF--YVIIYGHN 100

>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 = 60.4 bits (146), Expect = 4e-12
 Identities = 22/90 (24%), Positives = 32/90 (35%), Gaps = 9/90 (10%)

Query: 298 LPSCFAEKHL-------NGVCGFIKLQLSDGKQWPVRCLYR--GGRAKFSQGWYEFTVEN 348
           +P   AEKH        +     +  +  +GK W  R  Y         ++GW  F  E 
Sbjct: 24  IPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEK 83

Query: 349 RLGEGDVCVFEVLRAREFVLKVTVFRVSES 378
            L  GDV  F     ++  L +     S S
Sbjct: 84  NLRAGDVVSFSRSNGQDQQLYIGWKSRSGS 113

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	385
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.95
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.86
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.79
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.58
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	98.0
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	97.02

>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=99.95  E-value=8.1e-28  Score=196.63  Aligned_cols=98  Identities=23%  Similarity=0.420  Sum_probs=94.1

Q ss_pred             CCCceEEEccCCccCCCeeecCHHHHHhccCCCCceEEEEcCCCCEEEEEEEEeCCeEEeccCHHHHHhHhCCCCCcEEE
Q 016655            2 PRPYFHKLILASTIRDKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLV   81 (385)
Q Consensus         2 ~~P~F~kv~~~~~l~~~~L~IP~~F~~~~~~~~~~~v~L~~p~G~~W~V~l~~~~~~~~~~~GW~~Fv~~~~L~~Gd~lv   81 (385)
                      .+|+|+|++++++. .+.|.||..|+++|++..+++|+|++++|+.|.|++.+.++.++|..||++||++|+|++||+|+
T Consensus         5 ~~~~Ffkv~~~~~~-~~~L~IP~~F~~~~~~~~~~~i~L~d~~G~~W~v~~~~~~~~~~~~~GW~~Fv~~n~L~~GD~~v   83 (102)
T d1yela1           5 GEVQFMKPFISEKS-SKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKYLQ   83 (102)
T ss_dssp             CCEEEEEECCHHHH-TTCEECCHHHHTTCCCCCCSEEEEEETTSCEEEEEEEEETTEEEECTTHHHHHHHHTCCTTCEEE
T ss_pred             CCCeEEEEEcCccc-CCCEECCHHHHHhCCCCCCCEEEEEcCCCCEEEEEEEEeCCeEEEccCHHHHHHHcCCCcCCEEE
Confidence            47899999999975 47899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeecceEEEEEEcCCCc
Q 016655           82 FRYEGNSAFNVYIFNLPSS  100 (385)
Q Consensus        82 F~~~g~s~F~V~If~~s~c  100 (385)
                      |+|+|+++|.|+|||.++|
T Consensus        84 F~~~~~~~f~V~If~~s~C  102 (102)
T d1yela1          84 FIYDRDRTFYVIIYGHNMC  102 (102)
T ss_dssp             EEECSSSEEEEEEECSSCC
T ss_pred             EEEcCCcEEEEEEeCCCCC
Confidence            9999999999999999998

>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=99.86  E-value=1.3e-21  Score=159.36  Aligned_cols=97  Identities=21%  Similarity=0.275  Sum_probs=87.1

Q ss_pred             CCCCCEEEEEccccccCCCeEEeeecccccccccccccccchhhhhhhhccCcccCHHHHHhcCCCCceeEEEEeCCCCe
Q 016655          244 EPSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVCGFIKLQLSDGKQ  323 (385)
Q Consensus       244 ~s~~P~f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IP~~Fa~~~lp~~~~~i~L~~~~Gr~  323 (385)
                      .++.|.|.++|.+++....  |                               .||..|++.|.+...++|+|+|++|+.
T Consensus         3 ~~~~~~Ffkv~~~~~~~~~--L-------------------------------~IP~~F~~~~~~~~~~~i~L~d~~G~~   49 (102)
T d1yela1           3 DTGEVQFMKPFISEKSSKS--L-------------------------------EIPLGFNEYFPAPFPITVDLLDYSGRS   49 (102)
T ss_dssp             CCCCEEEEEECCHHHHTTC--E-------------------------------ECCHHHHTTCCCCCCSEEEEEETTSCE
T ss_pred             CCCCCeEEEEEcCcccCCC--E-------------------------------ECCHHHHHhCCCCCCCEEEEEcCCCCE
Confidence            3567889999999876443  5                               899999999999889999999999999


Q ss_pred             EEEEEEEeCCeeEeccChHHHhhHcCCCCCCEEEEEEecCceeEEEEEEEee
Q 016655          324 WPVRCLYRGGRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRV  375 (385)
Q Consensus       324 W~v~~~~~~~~~~ls~GW~~F~~dN~L~~GDvcvFel~~~~~~~~~V~Ifr~  375 (385)
                      |+|++...++..+|++||.+||+||+|++||+|+|++.++  ..|+|+||+.
T Consensus        50 W~v~~~~~~~~~~~~~GW~~Fv~~n~L~~GD~~vF~~~~~--~~f~V~If~~   99 (102)
T d1yela1          50 WTVRMKKRGEKVFLTVGWENFVKDNNLEDGKYLQFIYDRD--RTFYVIIYGH   99 (102)
T ss_dssp             EEEEEEEETTEEEECTTHHHHHHHHTCCTTCEEEEEECSS--SEEEEEEECS
T ss_pred             EEEEEEEeCCeEEEccCHHHHHHHcCCCcCCEEEEEEcCC--cEEEEEEeCC
Confidence            9999988888899999999999999999999999999986  4599999974

>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=99.79  E-value=2.6e-19  Score=148.74  Aligned_cols=102  Identities=24%  Similarity=0.346  Sum_probs=84.9

Q ss_pred             CCCCEEEEEccccccCCCeEEeeecccccccccccccccchhhhhhhhccCcccCHHHHHhcCCCCc-------eeEEEE
Q 016655          245 PSNPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNGVC-------GFIKLQ  317 (385)
Q Consensus       245 s~~P~f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IP~~Fa~~~lp~~~-------~~i~L~  317 (385)
                      |..|+|.++|++|+|.+...|                               .||++|+++|||...       ..|++.
T Consensus         2 ~~~~iF~K~Lt~sDv~~~~rL-------------------------------~iP~~~~~~~lp~~~~~~~~~~~~~~~~   50 (117)
T d1wida_           2 SAEALFEKAVTPSDVGKLNRL-------------------------------VIPKHHAEKHFPLPSSNVSVKGVLLNFE   50 (117)
T ss_dssp             CCEEEEEEECCTTTTSSSCCE-------------------------------EECHHHHTTTSCCCSSCCSSCCEEEEEE
T ss_pred             CCceEEEEEecchhcCCCCEE-------------------------------EECHHHHHHhCCccccccCCCcEEEEEE
Confidence            557999999999999875556                               899999999998543       358999


Q ss_pred             eCCCCeEEEEEEEeC--CeeEeccChHHHhhHcCCCCCCEEEEEEecCceeEEEEEEEeecC
Q 016655          318 LSDGKQWPVRCLYRG--GRAKFSQGWYEFTVENRLGEGDVCVFEVLRAREFVLKVTVFRVSE  377 (385)
Q Consensus       318 ~~~Gr~W~v~~~~~~--~~~~ls~GW~~F~~dN~L~~GDvcvFel~~~~~~~~~V~Ifr~~~  377 (385)
                      |.+|+.|++++.++.  .++.|++||.+||++|+|++||+|+|++....+..+.|.+.+..+
T Consensus        51 d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~~~~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~  112 (117)
T d1wida_          51 DVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSG  112 (117)
T ss_dssp             ETTTEEEEEEEEEETTTTEEEEESSHHHHHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             eCCCCEEEEEEEEECCCCceEEecCHHHHHHHcCCCCCCEEEEEEEeCCCCEEEEEEEECCC
Confidence            999999999998763  467899999999999999999999999987655556666655544

>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=99.58  E-value=7.7e-15  Score=121.31  Aligned_cols=97  Identities=19%  Similarity=0.254  Sum_probs=81.0

Q ss_pred             CCceEEEccCCccCC-CeeecCHHHHHhccCCCCc-------eEEEEcCCCCEEEEEEEEe--CCeEEeccCHHHHHhHh
Q 016655            3 RPYFHKLILASTIRD-KRLRIPENFVRNFKDDLSA-------AATLIVPNGMVSRVGLRRL--DNKVWFYDGWQEFMERY   72 (385)
Q Consensus         3 ~P~F~kv~~~~~l~~-~~L~IP~~F~~~~~~~~~~-------~v~L~~p~G~~W~V~l~~~--~~~~~~~~GW~~Fv~~~   72 (385)
                      .|-|.|+|+++++.. ..|.||..|++.|.+.+..       .+.+.|+.|+.|+|.+...  ....+|..||.+||.+|
T Consensus         4 ~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~~~   83 (117)
T d1wida_           4 EALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEK   83 (117)
T ss_dssp             EEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHHHT
T ss_pred             ceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEecCHHHHHHHc
Confidence            467999999999854 4799999999999865533       4899999999999999875  45677899999999999


Q ss_pred             CCCCCcEEEEEEee--cceEEEEEEcCCC
Q 016655           73 FIRIGYFLVFRYEG--NSAFNVYIFNLPS   99 (385)
Q Consensus        73 ~L~~Gd~lvF~~~g--~s~F~V~If~~s~   99 (385)
                      +|++||.|+|..+.  +..|.|.+...++
T Consensus        84 ~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~  112 (117)
T d1wida_          84 NLRAGDVVSFSRSNGQDQQLYIGWKSRSG  112 (117)
T ss_dssp             TCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             CCCCCCEEEEEEEeCCCCEEEEEEEECCC
Confidence            99999999999874  4577777665554

>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=98.00  E-value=8.8e-06  Score=69.60  Aligned_cols=103  Identities=14%  Similarity=0.115  Sum_probs=74.9

Q ss_pred             CCEEEEEccccccCCCeEEeeecccccccccccccccchhhhhhhhccCcccCHHHHHhcCCC-----C---ceeEEEE-
Q 016655          247 NPFCRVVLRPSYLYKGCIMVSCRISITLHCFSVSHDNMLDVRCIYFLLLQYLPSCFAEKHLNG-----V---CGFIKLQ-  317 (385)
Q Consensus       247 ~P~f~~vm~~s~v~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~IP~~Fa~~~lp~-----~---~~~i~L~-  317 (385)
                      .-.|.+++++|.+....                .|+.=+           +||+++|.+++|.     +   .+.+.|. 
T Consensus        15 ~~~F~K~LtasD~g~tg----------------~HQaG~-----------~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i   67 (175)
T d1na6a1          15 YFVYIKRLSANDTGATG----------------GHQVGL-----------YIPSGIVEKLFPSINHTRELNPSVFLTAHV   67 (175)
T ss_dssp             EEEEEEECCHHHHTCC-------------------CCCC-----------CCCHHHHHHHCGGGCCCSSSSCEEEEEEEE
T ss_pred             eEEEEEEcccccccccC----------------Ccccee-----------eecHHHHHHhCCCCCcccccCCCceEEEEE
Confidence            46899999999887542                222222           8999999999882     1   1245554 


Q ss_pred             -eCCCCeEEEEEEEeCC--------eeEeccChHHHhhHcCCCCCCEEEEEEecC--ceeEEEEEEEeec
Q 016655          318 -LSDGKQWPVRCLYRGG--------RAKFSQGWYEFTVENRLGEGDVCVFEVLRA--REFVLKVTVFRVS  376 (385)
Q Consensus       318 -~~~Gr~W~v~~~~~~~--------~~~ls~GW~~F~~dN~L~~GDvcvFel~~~--~~~~~~V~Ifr~~  376 (385)
                       |.+|..|.+++.|.++        .++|+.+|+.|...+.+..||+.+|-....  ..-.+-|.|....
T Consensus        68 ~d~~g~~w~fR~iYyn~~~~ggTRneyRiT~~g~~~~~~~~~n~G~l~i~af~~~~~~~~~~~~~vwvc~  137 (175)
T d1na6a1          68 SSHDCPDSEARAIYYNSAHFGKTRNEKRITRWGRGSPLQDPENTGALTLLAFKLDEQGGDCKEVNIWVCA  137 (175)
T ss_dssp             SSSCCCCEEEEEEEECGGGTTSCCCEEEEECCCTTSGGGCGGGTTCEEEEEEECCTTSCCCCEEEEEECC
T ss_pred             ecCCCCeeEEEEEEECCccCCCccccEEEEeccccccccCccccccEEEEEeecCCCCCceeEEEEEEec
Confidence             7789999999988642        488999999999999999999999988522  2334556665544

>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=97.02  E-value=0.00057  Score=58.15  Aligned_cols=81  Identities=12%  Similarity=0.016  Sum_probs=65.3

Q ss_pred             ceEEEccCCccCC-Ce----eecCHHHHHhccCCCC-----c---eEEEE--cCCCCEEEEEEEEeC--------CeEEe
Q 016655            5 YFHKLILASTIRD-KR----LRIPENFVRNFKDDLS-----A---AATLI--VPNGMVSRVGLRRLD--------NKVWF   61 (385)
Q Consensus         5 ~F~kv~~~~~l~~-~~----L~IP~~F~~~~~~~~~-----~---~v~L~--~p~G~~W~V~l~~~~--------~~~~~   61 (385)
                      -|.|.++++++.. ..    +.||+.++..+.+.+.     +   .+.|.  |..|..|+++....+        +...|
T Consensus        17 ~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i~d~~g~~w~fR~iYyn~~~~ggTRneyRi   96 (175)
T d1na6a1          17 VYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTRNEKRI   96 (175)
T ss_dssp             EEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCCCEEEE
T ss_pred             EEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccccCCCceEEEEEecCCCCeeEEEEEEECCccCCCccccEEE
Confidence            5999999998743 33    9999999998876321     1   34444  889999999998763        57889


Q ss_pred             ccCHHHHHhHhCCCCCcEEEEEEe
Q 016655           62 YDGWQEFMERYFIRIGYFLVFRYE   85 (385)
Q Consensus        62 ~~GW~~Fv~~~~L~~Gd~lvF~~~   85 (385)
                      +.+|+.|...+.+..||+++|-+.
T Consensus        97 T~~g~~~~~~~~~n~G~l~i~af~  120 (175)
T d1na6a1          97 TRWGRGSPLQDPENTGALTLLAFK  120 (175)
T ss_dssp             ECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             EeccccccccCccccccEEEEEee
Confidence            999999999999999999999874