Citrus Sinensis ID: 012348

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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-------390-------400-------410-------420-------430-------440-------450-------460-----
Protein Sequence
MKHKTHPCNPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHVHALN
Secondary Structure (PSIPRED)
cccccccccccEEEEEEEEEEEEEcccccccccEEEEEEEEEcEEccEEEcHHHHHHHHHHHHHccccccccccccccccccccccccccEEEEEEEHHHHHHHHccccccEEccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccEEEEcccccccccccEEEEHHHHHHHcccccccccccEEEEEccccEEEEEEEEEccccccEEEEcccHHHHHccccccccEEEEEcccccccEEEEEEEEcccccc
Secondary Structure Prediction (SSPRO)
ccccccccccEEEEEEEEEEEEEEcccccccccHHHHHHHHHccccccEHHHHEEEEEHccccHHHcccHHHHHccccccccccccccccEEEEEEEEHHHEEEEcccccEEHHHHcccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccHHHHHHccccccHccHHHHHEEccHccccccccEEEcHHHHHHHcccccccccEEEEEEccccEEEEEEEEEcccccccEEEEccccHHHHHcccccccEEEEEEccccccEEEEEEEEcccccc
Coil and Loop (DISEMBL)
mkhkthpcnpvalSFISVSVFIFNLDltclscnyCYLVLQILNIRCFVFCAAILTLILCVYRSIyeegrfcdtfhvnasgwrccescgkrvhcgcitsvhaftlldaggiecmtcarknvlvaptpswppslfyqtpfperikdlsvknwtqlagsgpvpwrqapslfnssipqpelrprlpyevdlsagidrinaserlsvpslekrKLEDFSERLMngglksgsrdipenanagsncdmqpssclnkpqqsstlkddsstphfglavsyaspsetnsqigvsgshlrpvvqpplvkqfhgnlpngadslgetqvrngrprvdargrsqllprywprftdqdlqqisgdsnsvITPLFEKMLsasdagrigrlvlpkkcaeayfppisqpeglplkvqdskgKEWIFQFrfwpnnnsrmyvLEGVTPCiqnmqlqagdignqpksqeSYEMFSFMWKVHVHALN
Flexible Loop (DISEMBL)
mkhkthpcnpvALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFnssipqpelrPRLPYEVDLSAGIdrinaserlsvpslekrkledFSERLmngglksgsrdiPENANAGSNCDMQPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHGNLPngadslgetqvrngrprvdargrsqllprywPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAyfppisqpeglPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHVHALN
Low Complexity Region (SEG)
MKHKTHPCNPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHVHALN
Disordered region (IsUnstruct)
*******CNPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWR************************************************************************************************************************************************************************LLPRYWPRFTDQDLQQI****NSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAG***********YEMFSFMWKVHVH***
Disordered Region (DISOPRED)
********NPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKN**********************************************************************************************************************************************************************************************************************************************LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFM**V******
Disordered Region (DISEMBL)
MKHKTHPCNPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCD*********************TPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHVHALN
Disordered Region (DISPRO)
*****HPCNPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQ**GSGPVPWRQAPSLFNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVP******LEDFSERLMNGGLKSGSRDIPEN***************************************************************************************************LPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHV****
Transmembrane Helix (TMHMM)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSiiHHHHHHHHHHHHHHHHoooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooHHHHHHHHHHHHHHHHHHHHHHHHHHHHiiiiiiHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKHKTHPCNPVALSFISVSVFIFNLDLTCLSCNYCYLVLQILNIRCFVFCAAILTLILCVYRSIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHVHALN
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	465	2.2.26 [Sep-21-2011]
Q0D5G4	955	B3 domain-containing prot	yes	no	0.797	0.388	0.477	1e-94
O65420	713	B3 domain-containing tran	yes	no	0.763	0.497	0.422	8e-77
Q8W4L5	790	B3 domain-containing tran	no	no	0.696	0.410	0.434	2e-69
Q6Z3U3	949	B3 domain-containing prot	yes	no	0.264	0.129	0.824	4e-58
Q5CCK4	780	B3 domain-containing tran	no	no	0.270	0.161	0.776	3e-55
Q7XKC5	433	B3 domain-containing prot	no	no	0.204	0.219	0.479	1e-17
Q7XKC4	438	Putative B3 domain-contai	no	no	0.197	0.210	0.494	2e-17
Q9LW31	313	B3 domain-containing tran	no	no	0.178	0.265	0.464	1e-16
Q01593	720	B3 domain-containing tran	no	no	0.245	0.158	0.355	2e-14
Q6Z1Z3	362	B3 domain-containing prot	no	no	0.178	0.229	0.452	2e-14

>sp|Q0D5G4|Y7633_ORYSJ B3 domain-containing protein Os07g0563300 OS=Oryza sativa subsp. japonica GN=Os07g0563300 PE=2 SV=2

 Score =  347 bits (890), Expect = 1e-94,   Method: Compositional matrix adjust.
 Identities = 201/421 (47%), Positives = 257/421 (61%), Gaps = 50/421 (11%)

Query: 65  YEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARK-NVLVA 123
           +E G FC+TFH+  +GWR CESCGKR+HCGCI SVHAF  LDAGG+EC+ CARK +  +A
Sbjct: 119 FEHGGFCETFHLEVAGWRNCESCGKRLHCGCIVSVHAFVHLDAGGVECVMCARKSHAAMA 178

Query: 124 PTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLPY 183
           P+  W  S+       +R KD  VK+W   AG     WRQ  ++++ S  Q +L+ RL +
Sbjct: 179 PSQIWSSSMHMAQNVADR-KDNFVKSWRPPAGQFSSQWRQN-NMWSMSTMQSDLQQRLAF 236

Query: 184 EVDLSAGIDRINASERLSVPSLEKR--KLEDFS-----------ERLMNGGLKSGSRD-- 228
           E D  +G +++    R  + + EK+   + D S           ER  NG  +  + D  
Sbjct: 237 EFDRPSGSEKLLPG-RTFIHAHEKKFDDMHDRSTTPAGMNQIMRERYANGHTQHTTLDPT 295

Query: 229 ---------------IPENANAGSN-------------CDMQPSSCLNKPQQSSTLKDDS 260
                             + +AG N             C    ++        S LKDD 
Sbjct: 296 YAYTLYHREGTNPNLHDHSHHAGENDHLTARKGVTSDPCSSVSTTFKLDSHHPSILKDDP 355

Query: 261 STPHFGLAVSYASPSETNSQIGVSGSHLRP-VVQPPLVKQFHGNLPNGADSLGETQVRNG 319
           S    GL+ +++S +     I +  +  +  +    L KQF+ +  +  D+  + Q+RNG
Sbjct: 356 SAVPAGLSSNFSSANGPKDHIRIGPTQQQQQMASSSLQKQFYSH--SVIDNDFQAQLRNG 413

Query: 320 RPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKK 379
           RPR+DA+ RSQLLPRYWPR TDQ+LQ +SGDSNSVITPLFEKMLSASDAGRIGRLVLPKK
Sbjct: 414 RPRMDAKARSQLLPRYWPRITDQELQHLSGDSNSVITPLFEKMLSASDAGRIGRLVLPKK 473

Query: 380 CAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGD 439
           CAEAYFP ISQ EGLPLKVQD+ GKEW+FQFRFWPNNNSRMYVLEGVTPCIQ+MQLQAGD
Sbjct: 474 CAEAYFPAISQAEGLPLKVQDATGKEWVFQFRFWPNNNSRMYVLEGVTPCIQSMQLQAGD 533

Query: 440 I 440
            
Sbjct: 534 T 534

Oryza sativa subsp. japonica (taxid: 39947)

>sp|O65420|VAL3_ARATH B3 domain-containing transcription factor VAL3 OS=Arabidopsis thaliana GN=VAL3 PE=4 SV=3

 Score =  288 bits (736), Expect = 8e-77,   Method: Compositional matrix adjust.
 Identities = 161/381 (42%), Positives = 226/381 (59%), Gaps = 26/381 (6%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S YE+G+FCD FH  ASGWRCCESCGKR+HCGCI S  A+TL+DAGGIEC+ CARK   +
Sbjct: 50  SAYEQGKFCDVFHQRASGWRCCESCGKRIHCGCIASASAYTLMDAGGIECLACARKKFAL 109

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
            P  S  PS  +Q+P  E+ KDLS+ NW+    S  + + Q PS  + S+ Q + R R  
Sbjct: 110 GPNFSPSPSFLFQSPISEKFKDLSI-NWSSSTRSNQISY-QPPSCLDPSVLQFDFRNR-- 165

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRK-LEDFSERLMNGGLKSGSRDIPENANAGSNCDM 241
                +    +  + ER++  ++EK++ + D   +LM+           EN+    +  +
Sbjct: 166 ---GGNNEFSQPASKERVTACTMEKKRGMNDMIGKLMS-----------ENSK---HYRV 208

Query: 242 QPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFH 301
            P   +N      +LK+          V   +P E      + GS+L        + + H
Sbjct: 209 SPFPNVNVYHPLISLKEGPCGTQLAFPVPITTPIEKTGHSRLDGSNLWHTRNSSPLSRLH 268

Query: 302 GNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPR--FTDQDLQQISGDSNSVITPLF 359
            +L  GADS  E++ RN    ++  G+ Q++PR+WP+  + +Q LQ  S +S SV+TPLF
Sbjct: 269 NDLNGGADSPFESKSRNVMAHLETPGKYQVVPRFWPKVSYKNQVLQNQSKESESVVTPLF 328

Query: 360 EKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSR 419
           EK+LSA+D G+  RLVLPKK AEA+ P +S  +G+PL VQD  GKEW FQFRFWP++  R
Sbjct: 329 EKILSATDTGK--RLVLPKKYAEAFLPQLSHTKGVPLTVQDPMGKEWRFQFRFWPSSKGR 386

Query: 420 MYVLEGVTPCIQNMQLQAGDI 440
           +YVLEGVTP IQ +QLQAGD 
Sbjct: 387 IYVLEGVTPFIQTLQLQAGDT 407

May be involved in plant development.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  263 bits (673), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 173/398 (43%), Positives = 213/398 (53%), Gaps = 74/398 (18%)

Query: 58  LCVYR--SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTC 115
           LC YR  S YE   FC+ FH + SGWR C  C KR+HCGCI S     L+D GG+ C TC
Sbjct: 38  LC-YRCGSAYESSLFCEQFHKDQSGWRECYLCSKRLHCGCIASKVTIELMDYGGVGCSTC 96

Query: 116 ARKNVLVAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQP 175
           A  + L   T    P +F + P    +K L+ +        G    R    LF+    QP
Sbjct: 97  ACCHQLNLNTRGENPGVFSRLP----MKTLADRQHVNGESGG----RNEGDLFS----QP 144

Query: 176 ELRPRLPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANA 235
                      L  G D                K E+F      G L S     PE+   
Sbjct: 145 -----------LVMGGD----------------KREEFMPHRGFGKLMS-----PESTTT 172

Query: 236 GSNCD----MQPSSCLNKPQQSSTLKDDSSTPHFGL----AVSYASPSETNSQIGVSGSH 287
           G   D    M  SS L +P  +  L  +  +P F       + + SPS++N  +  S S+
Sbjct: 173 GHRLDAAGEMHESSPL-QPSLNMGLAVNPFSPSFATEAVEGMKHISPSQSN-MVHCSASN 230

Query: 288 L-----RPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQ 342
           +     RP +  P V            +    Q R GRP V+ RGR  LLPRYWP++TD+
Sbjct: 231 ILQKPSRPAISTPPV------------ASKSAQARIGRPPVEGRGRGHLLPRYWPKYTDK 278

Query: 343 DLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSK 402
           ++QQISG+ N  I PLFEK LSASDAGRIGRLVLPK CAEAYFPPISQ EG+PLK+QD +
Sbjct: 279 EVQQISGNLNLNIVPLFEKTLSASDAGRIGRLVLPKACAEAYFPPISQSEGIPLKIQDVR 338

Query: 403 GKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDI 440
           G+EW FQFR+WPNNNSRMYVLEGVTPCIQ+M LQAGD 
Sbjct: 339 GREWTFQFRYWPNNNSRMYVLEGVTPCIQSMMLQAGDT 376

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q6Z3U3|Y7797_ORYSJ B3 domain-containing protein Os07g0679700 OS=Oryza sativa subsp. japonica GN=Os07g0679700 PE=2 SV=1

 Score =  225 bits (574), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 103/125 (82%), Positives = 112/125 (89%)

Query: 315 QVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRL 374
            +R  RP  + RGR+QLLPRYWPR TDQ+LQQISGDSNS I PLFEK+LSASDAGRIGRL
Sbjct: 319 HLRVARPPAEGRGRNQLLPRYWPRITDQELQQISGDSNSTIVPLFEKVLSASDAGRIGRL 378

Query: 375 VLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQ 434
           VLPK CAEAYFPPISQPEG PL +QD+KGKEW FQFRFWPNNNSRMYVLEGVTPCIQ++Q
Sbjct: 379 VLPKACAEAYFPPISQPEGRPLTIQDAKGKEWHFQFRFWPNNNSRMYVLEGVTPCIQSLQ 438

Query: 435 LQAGD 439
           LQAGD
Sbjct: 439 LQAGD 443

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q5CCK4|VAL2_ARATH B3 domain-containing transcription repressor VAL2 OS=Arabidopsis thaliana GN=VAL2 PE=2 SV=1

 Score =  216 bits (550), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 101/130 (77%), Positives = 112/130 (86%), Gaps = 4/130 (3%)

Query: 314 TQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGD----SNSVITPLFEKMLSASDAG 369
           +Q+   RP  + RG++QLLPRYWPR TDQ+L Q+SG     SNS I PLFEK+LSASDAG
Sbjct: 237 SQIHVARPPPEGRGKTQLLPRYWPRITDQELLQLSGQYPHLSNSKIIPLFEKVLSASDAG 296

Query: 370 RIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPC 429
           RIGRLVLPK CAEAYFPPIS PEGLPLK+QD KGKEW+FQFRFWPNNNSRMYVLEGVTPC
Sbjct: 297 RIGRLVLPKACAEAYFPPISLPEGLPLKIQDIKGKEWVFQFRFWPNNNSRMYVLEGVTPC 356

Query: 430 IQNMQLQAGD 439
           IQ+MQLQAGD
Sbjct: 357 IQSMQLQAGD 366

Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 91.7 bits (226), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 46/96 (47%), Positives = 61/96 (63%), Gaps = 1/96 (1%)

Query: 358 LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSK-GKEWIFQFRFWPNN 416
           +  K L+ SD G IGR+V+PK+ AEA+ P + Q EG+ LK+ D K    W F++RFWPNN
Sbjct: 296 ILRKELTNSDVGNIGRIVMPKRDAEAHLPALHQREGVMLKMDDFKLETTWNFKYRFWPNN 355

Query: 417 NSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEM 452
            SRMYVLE     ++   LQ GDI    KS ES ++
Sbjct: 356 KSRMYVLESTGGFVKQHVLQTGDIFIIYKSSESEKL 391

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

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 90.9 bits (224), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 46/93 (49%), Positives = 61/93 (65%), Gaps = 1/93 (1%)

Query: 358 LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKE-WIFQFRFWPNN 416
           +  K L+ SD G IGR+V+PK+ AEA+ P + Q EG+ LK+ D K +  W F++RFWPNN
Sbjct: 301 ILRKELTNSDVGNIGRIVMPKRDAEAHLPALHQREGVTLKMDDFKFETTWNFKYRFWPNN 360

Query: 417 NSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQES 449
            SRMYVLE     +++  LQ GDI    KS ES
Sbjct: 361 KSRMYVLESTGGFVKHHGLQTGDIFIIYKSSES 393

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 88.2 bits (217), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 39/84 (46%), Positives = 54/84 (64%), Gaps = 1/84 (1%)

Query: 358 LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKG-KEWIFQFRFWPNN 416
           LF+K L  SD   + R++LPKK AEA+ P +   EG+P++++D  G   W F++R+WPNN
Sbjct: 91  LFQKELKNSDVSSLRRMILPKKAAEAHLPALECKEGIPIRMEDLDGFHVWTFKYRYWPNN 150

Query: 417 NSRMYVLEGVTPCIQNMQLQAGDI 440
           NSRMYVLE     +    LQ GD 
Sbjct: 151 NSRMYVLENTGDFVNAHGLQLGDF 174

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 81.3 bits (199), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 48/135 (35%), Positives = 69/135 (51%), Gaps = 21/135 (15%)

Query: 313 ETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITP------LFEKMLSAS 366
           ETQ+    P +D  G +  +PR          QQ+  D      P      L +K+L  S
Sbjct: 534 ETQL----PTMDRAGSASAMPR----------QQVVPDRRQGWKPEKNLRFLLQKVLKQS 579

Query: 367 DAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQD-SKGKEWIFQFRFWPNNNSRMYVLEG 425
           D G +GR+VLPKK AE + P +   +G+ L ++D    + W  ++RFWPNN SRMY+LE 
Sbjct: 580 DVGNLGRIVLPKKEAETHLPELEARDGISLAMEDIGTSRVWNMRYRFWPNNKSRMYLLEN 639

Query: 426 VTPCIQNMQLQAGDI 440
               ++   LQ GD 
Sbjct: 640 TGDFVKTNGLQEGDF 654

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

Arabidopsis thaliana (taxid: 3702)

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

 Score = 80.5 bits (197), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/84 (45%), Positives = 53/84 (63%), Gaps = 1/84 (1%)

Query: 358 LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSK-GKEWIFQFRFWPNN 416
           +  K L+ SD G +GR+VLPKK AEA  PP+ Q + L L + D      W F++R+WPNN
Sbjct: 252 ILRKELTKSDVGNVGRIVLPKKDAEASLPPLLQRDPLILHMDDMVLPVTWKFKYRYWPNN 311

Query: 417 NSRMYVLEGVTPCIQNMQLQAGDI 440
            SRMY+L+     ++   LQAGD+
Sbjct: 312 KSRMYILDSAGEFLKTHGLQAGDV 335

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

Oryza sativa subsp. japonica (taxid: 39947)

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	465
449479362	899	PREDICTED: LOW QUALITY PROTEIN: B3 domai	0.810	0.419	0.717	1e-160
449433878	896	PREDICTED: B3 domain-containing protein	0.804	0.417	0.728	1e-159
302144200	601	unnamed protein product [Vitis vinifera]	0.793	0.613	0.721	1e-155
224076806	918	predicted protein [Populus trichocarpa]	0.782	0.396	0.676	1e-150
359495507	564	PREDICTED: B3 domain-containing protein	0.769	0.634	0.710	1e-150
255560846	854	transcription factor, putative [Ricinus	0.772	0.420	0.691	1e-147
357446313	888	B3 domain-containing transcription repre	0.795	0.416	0.645	1e-127
356555034	854	PREDICTED: B3 domain-containing protein	0.780	0.425	0.621	1e-127
356549413	855	PREDICTED: B3 domain-containing protein	0.782	0.425	0.619	1e-127
356549411	889	PREDICTED: B3 domain-containing protein	0.802	0.419	0.612	1e-125

>gi|449479362|ref|XP_004155579.1| PREDICTED: LOW QUALITY PROTEIN: B3 domain-containing protein Os07g0563300-like [Cucumis sativus]

 Score =  570 bits (1469), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 272/379 (71%), Positives = 315/379 (83%), Gaps = 2/379 (0%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S YEEGRFC+TFH+NASGWRCCESCGKRVHCGCI S HAFTLLD GGIECMTCARKNV++
Sbjct: 53  SAYEEGRFCETFHLNASGWRCCESCGKRVHCGCIVSAHAFTLLDPGGIECMTCARKNVIL 112

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
              P+WPPSL + +  P+R+K+LSVKNW+QLAGSGPVPWRQAPS+FNSS+P  EL  R P
Sbjct: 113 PLNPAWPPSLLFHSALPDRLKELSVKNWSQLAGSGPVPWRQAPSMFNSSLPSGELHHRAP 172

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGS-NCDM 241
           YEVD+SA ++++N SER +     K+K EDFSER +NG LK   +D+ EN  AG   CD 
Sbjct: 173 YEVDISAALNKLNTSERXAC-IFRKKKNEDFSERFLNGSLKPCGQDLCENGTAGGIKCDD 231

Query: 242 QPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFH 301
           +PSSC N P+QSS +K+DSST  +GL + YA P+E +++  +SG+HLRP     L KQ H
Sbjct: 232 KPSSCSNMPKQSSFVKEDSSTMQYGLNIPYAPPNEPSARGRISGTHLRPTPLSSLPKQIH 291

Query: 302 GNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEK 361
            NL NGADS  ETQ+RNGRPR ++RG++ LLPRYWPRFTDQ+LQQIS DSNSVITPLFEK
Sbjct: 292 TNLQNGADSSNETQLRNGRPRGESRGKNYLLPRYWPRFTDQELQQISVDSNSVITPLFEK 351

Query: 362 MLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMY 421
           MLSASDAGRIGRLVLPKKCAEAYFP ISQPEGLPLKVQD+KGKEWIFQFRFWPNNNSRMY
Sbjct: 352 MLSASDAGRIGRLVLPKKCAEAYFPSISQPEGLPLKVQDAKGKEWIFQFRFWPNNNSRMY 411

Query: 422 VLEGVTPCIQNMQLQAGDI 440
           VLEGVTPCIQ+MQLQAGD 
Sbjct: 412 VLEGVTPCIQSMQLQAGDT 430

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449433878|ref|XP_004134723.1| PREDICTED: B3 domain-containing protein Os07g0563300-like [Cucumis sativus]

 Score =  569 bits (1466), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 276/379 (72%), Positives = 316/379 (83%), Gaps = 5/379 (1%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S YEEGRFC+TFH+NASGWRCCESCGKRVHCGCI S HAFTLLD GGIECMTCARKNV++
Sbjct: 53  SAYEEGRFCETFHLNASGWRCCESCGKRVHCGCIVSAHAFTLLDPGGIECMTCARKNVIL 112

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
              P+WPPSL + +  P+R+K+LSVKNW+QLAGSGPVPWRQAPS+FNSS+P  EL  R P
Sbjct: 113 PLNPAWPPSLLFHSALPDRLKELSVKNWSQLAGSGPVPWRQAPSMFNSSLPSGELHHRAP 172

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKS-GSRDIPENANAGSNCDM 241
           YEVD+SA ++++N SERL V SLEKRK EDFSER +NG LK  GS  +      G  CD 
Sbjct: 173 YEVDISAALNKLNTSERLPV-SLEKRKNEDFSERFLNGSLKPCGSVLV---VMRGIKCDD 228

Query: 242 QPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFH 301
           +PSSC N P+QSS +K+DSST  +GL + YA P+E +++  +SG+HLRP     L KQ H
Sbjct: 229 KPSSCSNMPKQSSFVKEDSSTMQYGLNIPYAPPNEPSARGRISGTHLRPTPLSSLPKQIH 288

Query: 302 GNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEK 361
            NL NGADS  ETQ+RNGRPR ++RG++ LLPRYWPRFTDQ+LQQIS DSNSVITPLFEK
Sbjct: 289 TNLQNGADSSNETQLRNGRPRGESRGKNYLLPRYWPRFTDQELQQISVDSNSVITPLFEK 348

Query: 362 MLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMY 421
           MLSASDAGRIGRLVLPKKCAEAYFP ISQPEGLPLKVQD+KGKEWIFQFRFWPNNNSRMY
Sbjct: 349 MLSASDAGRIGRLVLPKKCAEAYFPSISQPEGLPLKVQDAKGKEWIFQFRFWPNNNSRMY 408

Query: 422 VLEGVTPCIQNMQLQAGDI 440
           VLEGVTPCIQ+MQLQAGD 
Sbjct: 409 VLEGVTPCIQSMQLQAGDT 427

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302144200|emb|CBI23327.3| unnamed protein product [Vitis vinifera]

 Score =  554 bits (1428), Expect = e-155,   Method: Compositional matrix adjust.
 Identities = 272/377 (72%), Positives = 310/377 (82%), Gaps = 8/377 (2%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S+Y+EGRFC+TFH NASGWR C+SC KRVHCGCI S+H+FTLLD GGIEC+ CARKNV++
Sbjct: 42  SLYDEGRFCETFHSNASGWRGCKSCAKRVHCGCIASIHSFTLLDTGGIECIPCARKNVVL 101

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
            P P+WPP  F   P PER+KD  VKNW+Q   S PV WR A +LFN+SIPQ +LRPR+P
Sbjct: 102 TPNPAWPPHFFL--PLPERLKD-PVKNWSQ---SQPV-WR-ASNLFNTSIPQSDLRPRMP 153

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQ 242
            E DLS G+DR+  SER S  S+EK+K+ED SER MNGGLK G+ ++ EN N+G+NC+ Q
Sbjct: 154 SEADLSTGVDRLIVSERSSASSMEKKKIEDSSERSMNGGLKLGALEMLENGNSGTNCEEQ 213

Query: 243 PSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHG 302
           P+SC+N PQQSS+L DD S P   LAV YAS SETN Q  VSG+  +P   PPL K+F G
Sbjct: 214 PASCVNIPQQSSSLNDDHSAPLLSLAVPYASSSETNGQTVVSGTLSQPTPSPPLAKKFSG 273

Query: 303 NLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKM 362
           +  NG DS GE QVRNGRPR DARGR+QLLPRYWPR TDQ+LQQISGDSNSVITPLFEKM
Sbjct: 274 HPHNGVDSSGEAQVRNGRPRGDARGRNQLLPRYWPRITDQELQQISGDSNSVITPLFEKM 333

Query: 363 LSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYV 422
           LSASDAGRIGRLVLPKKCAEAYFP ISQPEGLPLKVQD+KG EWIFQFRFWPNNNSRMYV
Sbjct: 334 LSASDAGRIGRLVLPKKCAEAYFPAISQPEGLPLKVQDAKGHEWIFQFRFWPNNNSRMYV 393

Query: 423 LEGVTPCIQNMQLQAGD 439
           LEGVTPCIQ+MQLQAGD
Sbjct: 394 LEGVTPCIQSMQLQAGD 410

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224076806|ref|XP_002305001.1| predicted protein [Populus trichocarpa] gi|222847965|gb|EEE85512.1| predicted protein [Populus trichocarpa]

 Score =  538 bits (1385), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 266/393 (67%), Positives = 299/393 (76%), Gaps = 29/393 (7%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVL- 121
           S YEEG FC+TFH+ ASGWRCCESCGK VHCGCI S+  FTLLDAGGI CM C RK+ + 
Sbjct: 65  SAYEEGSFCETFHLRASGWRCCESCGKGVHCGCIVSIQTFTLLDAGGIACMACERKSFVL 124

Query: 122 --------------VAPTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSL 167
                         V   P+W P LFY  PFPER+KDLSVK+W+QLAGSGPVPWRQAPSL
Sbjct: 125 ESNPQILLTATSADVTSNPAWSP-LFYHAPFPERLKDLSVKSWSQLAGSGPVPWRQAPSL 183

Query: 168 FNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSR 227
           FN S  Q EL+ R+PYEVD      R+N  ER S PSLEKRK+EDFSE+ +NG L+   +
Sbjct: 184 FNPSAAQSELQTRMPYEVD------RLNTGERFSAPSLEKRKVEDFSEKFINGNLRIRLQ 237

Query: 228 DIPENANAGSNCDMQPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSH 287
           DI EN NAG   + QP       Q SS+L +D+S   FG+ + Y S SE+NSQI  S + 
Sbjct: 238 DIVENGNAGIIGEEQP-------QPSSSLMEDASGQQFGITIPYKSISESNSQIEGSVNA 290

Query: 288 LRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQI 347
           L+P   PP  K FHG+L NG DS  +  +RNG+PR DARGRSQLLPRYWPRFTD +LQQI
Sbjct: 291 LQPAPPPPFTKHFHGSLHNGVDSSVDGHIRNGKPRTDARGRSQLLPRYWPRFTDGELQQI 350

Query: 348 SGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWI 407
           SG+SNSVI PLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPL+VQDSKGKEWI
Sbjct: 351 SGNSNSVIKPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLRVQDSKGKEWI 410

Query: 408 FQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDI 440
           FQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDI
Sbjct: 411 FQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDI 443

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495507|ref|XP_002270901.2| PREDICTED: B3 domain-containing protein Os07g0563300-like, partial [Vitis vinifera]

 Score =  537 bits (1384), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 268/377 (71%), Positives = 302/377 (80%), Gaps = 19/377 (5%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S+Y+EGRFC+TFH NASGWR C+SC KRVHCGCI S+H+FTLLD GGIEC+ CARKNV++
Sbjct: 42  SLYDEGRFCETFHSNASGWRGCKSCAKRVHCGCIASIHSFTLLDTGGIECIPCARKNVVL 101

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
            P P+WPP  F   P PER+KD  VKNW+Q   S PV WR A +LFN+SIPQ +LRPR+P
Sbjct: 102 TPNPAWPPHFFL--PLPERLKD-PVKNWSQ---SQPV-WR-ASNLFNTSIPQSDLRPRMP 153

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQ 242
            E DLS G+DR+  SER S  S+EK+K+ED SER MNGGLK            G+NC+ Q
Sbjct: 154 SEADLSTGVDRLIVSERSSASSMEKKKIEDSSERSMNGGLK-----------LGTNCEEQ 202

Query: 243 PSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHG 302
           P+SC+N PQQSS+L DD S P   LAV YAS SETN Q  VSG+  +P   PPL K+F G
Sbjct: 203 PASCVNIPQQSSSLNDDHSAPLLSLAVPYASSSETNGQTVVSGTLSQPTPSPPLAKKFSG 262

Query: 303 NLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKM 362
           +  NG DS GE QVRNGRPR DARGR+QLLPRYWPR TDQ+LQQISGDSNSVITPLFEKM
Sbjct: 263 HPHNGVDSSGEAQVRNGRPRGDARGRNQLLPRYWPRITDQELQQISGDSNSVITPLFEKM 322

Query: 363 LSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYV 422
           LSASDAGRIGRLVLPKKCAEAYFP ISQPEGLPLKVQD+KG EWIFQFRFWPNNNSRMYV
Sbjct: 323 LSASDAGRIGRLVLPKKCAEAYFPAISQPEGLPLKVQDAKGHEWIFQFRFWPNNNSRMYV 382

Query: 423 LEGVTPCIQNMQLQAGD 439
           LEGVTPCIQ+MQLQAGD
Sbjct: 383 LEGVTPCIQSMQLQAGD 399

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255560846|ref|XP_002521436.1| transcription factor, putative [Ricinus communis] gi|223539335|gb|EEF40926.1| transcription factor, putative [Ricinus communis]

 Score =  527 bits (1358), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 262/379 (69%), Positives = 297/379 (78%), Gaps = 20/379 (5%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S++EEGRFCDTFH+NA+GWRCCESCGKRVHCGCI S +AF LLDAGGIECM CARKN+++
Sbjct: 47  SMFEEGRFCDTFHLNATGWRCCESCGKRVHCGCIVSNNAFMLLDAGGIECMACARKNIVL 106

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
           +    WPP LFY TP  ER KDLSVK   QLAGSGPVPWRQAPSLFNS I   EL+PR  
Sbjct: 107 SSNTPWPPPLFYNTPLSERFKDLSVKGLGQLAGSGPVPWRQAPSLFNSPISHSELQPRAL 166

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQ 242
           YE      IDR+   ER S P+LEK +++DFSERL+NG LK            G+  + +
Sbjct: 167 YE------IDRLATGERSSAPALEKGRMDDFSERLINGSLK-----------LGAGIEEK 209

Query: 243 PSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLR-PVVQPPLVKQFH 301
           P SCL  P Q S+L++D ST    + + +AS +E N    VSG+ LR P   P L KQFH
Sbjct: 210 PGSCLGIPHQPSSLREDPSTAQR-MVIPFASLNEPNIS-AVSGTPLRQPAPPPSLPKQFH 267

Query: 302 GNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEK 361
           GNL NG DS  +T +RNGRPRVDAR RSQLLPRYWPRFTD++LQQISG+SNSVITPLFEK
Sbjct: 268 GNLHNGVDSSIDTHIRNGRPRVDARARSQLLPRYWPRFTDEELQQISGNSNSVITPLFEK 327

Query: 362 MLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMY 421
           MLSASDAGRIGRLVLPKKCAEAYFPPIS PEGLPLKVQD+KG+EWIFQFRFWPNNNSRMY
Sbjct: 328 MLSASDAGRIGRLVLPKKCAEAYFPPISHPEGLPLKVQDAKGREWIFQFRFWPNNNSRMY 387

Query: 422 VLEGVTPCIQNMQLQAGDI 440
           VLEGVTPCIQNM+LQAGDI
Sbjct: 388 VLEGVTPCIQNMRLQAGDI 406

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357446313|ref|XP_003593434.1| B3 domain-containing transcription repressor VAL2 [Medicago truncatula] gi|355482482|gb|AES63685.1| B3 domain-containing transcription repressor VAL2 [Medicago truncatula]

 Score =  461 bits (1187), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 246/381 (64%), Positives = 278/381 (72%), Gaps = 11/381 (2%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S +EEGRFCD FH N SGWR CE+C KR+HCGCI S   F LLD GGIEC TCARKNV++
Sbjct: 53  SAFEEGRFCDIFHANTSGWRNCETCRKRIHCGCIVSSSTFVLLDPGGIECFTCARKNVIL 112

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNS--SIPQPELRPR 180
                WP SL       ER +D+S K+W+QLAGSGPVPW+QAPSLFNS  S  QP   P 
Sbjct: 113 PSNLPWPQSLSLTNRLSERYRDMSGKSWSQLAGSGPVPWKQAPSLFNSASSSDQP---PA 169

Query: 181 LPYEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCD 240
           +   VDLS   D+I  +ERL   SLEK+  ED +    N  +K GS ++    N   N D
Sbjct: 170 VHSLVDLSNNFDKIYGNERLPPSSLEKKN-EDLAGISANWNVKLGSSEMVL-MNGMRNED 227

Query: 241 MQPSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPP-LVKQ 299
            +   CLN  QQ  TLK+DSS+  FGL+V Y+SP+E N QIGV+G H  P   PP L KQ
Sbjct: 228 -KSGPCLNMCQQPHTLKEDSSSQPFGLSVPYSSPNERNGQIGVTGIH--PQQTPPHLGKQ 284

Query: 300 FHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLF 359
           F G +    DS GE QVRNGRPR DARGRSQLLPRYWPR T+ +LQQIS DSNSVITPLF
Sbjct: 285 FGGTMHLPLDSSGEAQVRNGRPRADARGRSQLLPRYWPRCTELELQQISVDSNSVITPLF 344

Query: 360 EKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSR 419
           +K LSASDAGRIGRLVLPKKCAE YFPPISQPEGLPLK+ D+KGKEWIFQFRFWPNNNSR
Sbjct: 345 QKTLSASDAGRIGRLVLPKKCAETYFPPISQPEGLPLKILDAKGKEWIFQFRFWPNNNSR 404

Query: 420 MYVLEGVTPCIQNMQLQAGDI 440
           MYVLEGVTPCIQ+MQLQAGD 
Sbjct: 405 MYVLEGVTPCIQSMQLQAGDT 425

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356555034|ref|XP_003545844.1| PREDICTED: B3 domain-containing protein Os07g0563300-like [Glycine max]

 Score =  461 bits (1186), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 235/378 (62%), Positives = 279/378 (73%), Gaps = 15/378 (3%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S +EEGRFC+ FH NASGWR CE+C KR+HCGCI S HAF LLD GGIEC  CARK++++
Sbjct: 45  SAFEEGRFCEIFHSNASGWRSCETCRKRIHCGCIVSSHAFMLLDPGGIECYACARKSIIL 104

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
                WP S   Q    +R++DLS K W+QLAGSGPVPW+QAPSLFNS+    ++ P +P
Sbjct: 105 PSNLPWPQSFPLQNRLSDRLRDLSGKGWSQLAGSGPVPWKQAPSLFNSA-SSSDMIPEVP 163

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQ 242
             V+LS   D++  +ERL V +LEK+  ED S   +N  +K G R+           + +
Sbjct: 164 SLVELSNSFDKMYCNERLPVSALEKKN-EDLSGMSVNWNIKLGMRN-----------EDK 211

Query: 243 PSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHG 302
            SSCLN  QQ S+LK++SS   FGL V  +  +E N ++GV+GSH  P   PP  KQF+G
Sbjct: 212 SSSCLNMCQQPSSLKEESSPQPFGLPVPNSCQNERNGKLGVTGSH--PQQTPPPGKQFNG 269

Query: 303 NLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKM 362
            +    DS GE QVRNGRPR DARGR+QLLPRYWPR TD +LQQIS DSNSVITPLF+K 
Sbjct: 270 TMHLAPDSSGEAQVRNGRPRADARGRNQLLPRYWPRCTDLELQQISIDSNSVITPLFQKT 329

Query: 363 LSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYV 422
           LSASDAGRIGRLVLPKKCAE YFPPISQPEGLPLK+ D+KGKEWIFQFRFWPNNNSRMYV
Sbjct: 330 LSASDAGRIGRLVLPKKCAETYFPPISQPEGLPLKILDAKGKEWIFQFRFWPNNNSRMYV 389

Query: 423 LEGVTPCIQNMQLQAGDI 440
           LEGVTPCIQ+MQLQAGD 
Sbjct: 390 LEGVTPCIQSMQLQAGDT 407

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549413|ref|XP_003543088.1| PREDICTED: B3 domain-containing protein Os07g0563300-like isoform 2 [Glycine max]

 Score =  460 bits (1183), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 234/378 (61%), Positives = 279/378 (73%), Gaps = 14/378 (3%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S +EEGRFC+ FH NASGWR CE+C KR+HCGCI S HAF LLD GGIEC  CARK++++
Sbjct: 45  SAFEEGRFCEIFHSNASGWRSCETCLKRIHCGCIVSSHAFMLLDPGGIECYACARKSIIL 104

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
                WP S   Q    +R++DLS K W+QLAGSGPVPW+QAPSLFNS+    +L P +P
Sbjct: 105 PSNLPWPQSFSLQNRLSDRLRDLSAKGWSQLAGSGPVPWKQAPSLFNSA-SSSDLIPEVP 163

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQ 242
             V+LS   D++  +ERL   +LEK+  ED S   +N  +K G R+           + +
Sbjct: 164 SLVELSNSFDKMYCNERLPASALEKKN-EDLSGIPVNWNVKLGMRN-----------EDK 211

Query: 243 PSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHG 302
            SSCLN  QQ S+LK++SS   FGLAV  +  +E N Q+GV+GSH +    PP  KQF+G
Sbjct: 212 SSSCLNMCQQPSSLKEESSPQPFGLAVPNSCQNERNGQLGVTGSHPQQTPPPP-GKQFNG 270

Query: 303 NLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKM 362
            +    DS GE Q+RNGRPR D+RGR+QLLPRYWPR TD +LQQIS DSNSVITPLF+K 
Sbjct: 271 TMHLAPDSSGEAQIRNGRPRADSRGRNQLLPRYWPRCTDLELQQISIDSNSVITPLFQKT 330

Query: 363 LSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYV 422
           LSASDAGRIGRLVLPKKCAE YFPPISQPEGLPLK+ D+KGKEWIFQFRFWPNNNSRMYV
Sbjct: 331 LSASDAGRIGRLVLPKKCAETYFPPISQPEGLPLKILDAKGKEWIFQFRFWPNNNSRMYV 390

Query: 423 LEGVTPCIQNMQLQAGDI 440
           LEGVTPCIQ+MQLQAGD 
Sbjct: 391 LEGVTPCIQSMQLQAGDT 408

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549411|ref|XP_003543087.1| PREDICTED: B3 domain-containing protein Os07g0563300-like isoform 1 [Glycine max]

 Score =  455 bits (1171), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 237/387 (61%), Positives = 283/387 (73%), Gaps = 14/387 (3%)

Query: 63  SIYEEGRFCDTFHVNASGWRCCESCGKRVHCGCITSVHAFTLLDAGGIECMTCARKNVLV 122
           S +EEGRFC+ FH NASGWR CE+C KR+HCGCI S HAF LLD GGIEC  CARK++++
Sbjct: 45  SAFEEGRFCEIFHSNASGWRSCETCLKRIHCGCIVSSHAFMLLDPGGIECYACARKSIIL 104

Query: 123 APTPSWPPSLFYQTPFPERIKDLSVKNWTQLAGSGPVPWRQAPSLFNSSIPQPELRPRLP 182
                WP S   Q    +R++DLS K W+QLAGSGPVPW+QAPSLFNS+    +L P +P
Sbjct: 105 PSNLPWPQSFSLQNRLSDRLRDLSAKGWSQLAGSGPVPWKQAPSLFNSA-SSSDLIPEVP 163

Query: 183 YEVDLSAGIDRINASERLSVPSLEKRKLEDFSERLMNGGLKSGSRDIPENANAGSNCDMQ 242
             V+LS   D++  +ERL   +LEK+  ED S   +N  +K GSR++    N   N D +
Sbjct: 164 SLVELSNSFDKMYCNERLPASALEKKN-EDLSGIPVNWNVKLGSREM-MLMNGMRNED-K 220

Query: 243 PSSCLNKPQQSSTLKDDSSTPHFGLAVSYASPSETNSQIGVSGSHLRPVVQPPLVKQFHG 302
            SSCLN  QQ S+LK++SS   FGLAV  +  +E N Q+GV+GSH +    PP  KQF+G
Sbjct: 221 SSSCLNMCQQPSSLKEESSPQPFGLAVPNSCQNERNGQLGVTGSHPQQTPPPP-GKQFNG 279

Query: 303 NLPNGADSLGETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGD---------SNS 353
            +    DS GE Q+RNGRPR D+RGR+QLLPRYWPR TD +LQQIS +         SNS
Sbjct: 280 TMHLAPDSSGEAQIRNGRPRADSRGRNQLLPRYWPRCTDLELQQISIEYPSNQMIVVSNS 339

Query: 354 VITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFW 413
           VITPLF+K LSASDAGRIGRLVLPKKCAE YFPPISQPEGLPLK+ D+KGKEWIFQFRFW
Sbjct: 340 VITPLFQKTLSASDAGRIGRLVLPKKCAETYFPPISQPEGLPLKILDAKGKEWIFQFRFW 399

Query: 414 PNNNSRMYVLEGVTPCIQNMQLQAGDI 440
           PNNNSRMYVLEGVTPCIQ+MQLQAGD 
Sbjct: 400 PNNNSRMYVLEGVTPCIQSMQLQAGDT 426

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	465
TAIR|locus:2064417	790	HSI2 "high-level expression of	0.550	0.324	0.482	1e-70
TAIR|locus:2116592	780	HSL1 "HSI2-like 1" [Arabidopsi	0.341	0.203	0.658	2.1e-70
TAIR|locus:2088439	313	FUS3 "FUSCA 3" [Arabidopsis th	0.176	0.261	0.469	1.4e-15
UNIPROTKB|Q7XKC5	433	LOC_Os04g58000 "B3 domain-cont	0.204	0.219	0.479	4.1e-15
UNIPROTKB|Q6Z1Z3	362	IDEF1 "B3 domain-containing pr	0.367	0.472	0.324	1.1e-13
TAIR|locus:2093166	720	ABI3 "AT3G24650" [Arabidopsis	0.255	0.165	0.359	4.8e-13
TAIR|locus:2032170	363	LEC2 "LEAFY COTYLEDON 2" [Arab	0.318	0.407	0.326	3.5e-12
UNIPROTKB|A4LBC0	402	LFL1 "B3 domain-containing pro	0.331	0.383	0.329	8.2e-12
UNIPROTKB|P37398	727	VP1 "B3 domain-containing prot	0.212	0.136	0.378	5.3e-11
TAIR|locus:2039165	244	ABS2 "ABNORMAL SHOOT 2" [Arabi	0.208	0.397	0.388	9e-11

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

 Score = 552 (199.4 bits), Expect = 1.0e-70, Sum P(2) = 1.0e-70
 Identities = 137/284 (48%), Positives = 170/284 (59%)

Query:   165 PSLFNSSIPQPELRPRLPYEVDLSAGIDRINASERLSVPS-LEKRKLEDFSERLMNGGLK 223
             P +F S +P   L  R    V+  +G  R N  +  S P  +   K E+F      G L 
Sbjct:   111 PGVF-SRLPMKTLADR--QHVNGESG-GR-NEGDLFSQPLVMGGDKREEFMPHRGFGKLM 165

Query:   224 SGSRDIPENANAGSNCD----MQPSSCLNKPQQSSTLKDDSSTPHFGL-AVS---YASPS 275
             S     PE+   G   D    M  SS L +P  +  L  +  +P F   AV    + SPS
Sbjct:   166 S-----PESTTTGHRLDAAGEMHESSPL-QPSLNMGLAVNPFSPSFATEAVEGMKHISPS 219

Query:   276 ETNSQIGVSGSHLRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQLLPRY 335
             ++N  +  S S++      P +     + P  A      Q R GRP V+ RGR  LLPRY
Sbjct:   220 QSN-MVHCSASNILQKPSRPAI-----STPPVASK--SAQARIGRPPVEGRGRGHLLPRY 271

Query:   336 WPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLP 395
             WP++TD+++QQISG+ N  I PLFEK LSASDAGRIGRLVLPK CAEAYFPPISQ EG+P
Sbjct:   272 WPKYTDKEVQQISGNLNLNIVPLFEKTLSASDAGRIGRLVLPKACAEAYFPPISQSEGIP 331

Query:   396 LKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGD 439
             LK+QD +G+EW FQFR+WPNNNSRMYVLEGVTPCIQ+M LQAGD
Sbjct:   332 LKIQDVRGREWTFQFRYWPNNNSRMYVLEGVTPCIQSMMLQAGD 375

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0005739 "mitochondrion" evidence=IDA

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

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

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

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

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

GO:0005515 "protein binding" evidence=IPI

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

 Score = 545 (196.9 bits), Expect = 2.1e-70, Sum P(2) = 2.1e-70
 Identities = 114/173 (65%), Positives = 130/173 (75%)

Query:   275 SETNS--QIGVSGSHL--RPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPRVDARGRSQ 330
             S+TNS  Q+      L  +P    P+     G  P+G  SL  +Q+   RP  + RG++Q
Sbjct:   200 SKTNSIFQLAPRSRQLLPKPANSAPIAA---GMEPSG--SL-VSQIHVARPPPEGRGKTQ 253

Query:   331 LLPRYWPRFTDQDLQQISGD----SNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFP 386
             LLPRYWPR TDQ+L Q+SG     SNS I PLFEK+LSASDAGRIGRLVLPK CAEAYFP
Sbjct:   254 LLPRYWPRITDQELLQLSGQYPHLSNSKIIPLFEKVLSASDAGRIGRLVLPKACAEAYFP 313

Query:   387 PISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGD 439
             PIS PEGLPLK+QD KGKEW+FQFRFWPNNNSRMYVLEGVTPCIQ+MQLQAGD
Sbjct:   314 PISLPEGLPLKIQDIKGKEWVFQFRFWPNNNSRMYVLEGVTPCIQSMQLQAGD 366

GO:0005634 "nucleus" evidence=ISM

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

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

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

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

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0009790 "embryo development" evidence=RCA

GO:0009880 "embryonic pattern specification" evidence=RCA

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

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010431 "seed maturation" evidence=RCA

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

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

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

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

GO:0048316 "seed development" evidence=RCA

GO:0048366 "leaf development" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0051301 "cell division" evidence=RCA

GO:0005515 "protein binding" evidence=IPI

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

 Score = 210 (79.0 bits), Expect = 1.4e-15, Sum P(2) = 1.4e-15
 Identities = 39/83 (46%), Positives = 54/83 (65%)

Query:   358 LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKE-WIFQFRFWPNN 416
             LF+K L  SD   + R++LPKK AEA+ P +   EG+P++++D  G   W F++R+WPNN
Sbjct:    91 LFQKELKNSDVSSLRRMILPKKAAEAHLPALECKEGIPIRMEDLDGFHVWTFKYRYWPNN 150

Query:   417 NSRMYVLEGVTPCIQNMQLQAGD 439
             NSRMYVLE     +    LQ GD
Sbjct:   151 NSRMYVLENTGDFVNAHGLQLGD 173

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

GO:0005634 "nucleus" evidence=ISM

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

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

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

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

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

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

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

GO:0010262 "somatic embryogenesis" evidence=IMP

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

 Score = 218 (81.8 bits), Expect = 4.1e-15, P = 4.1e-15
 Identities = 46/96 (47%), Positives = 62/96 (64%)

Query:   358 LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKE-WIFQFRFWPNN 416
             +  K L+ SD G IGR+V+PK+ AEA+ P + Q EG+ LK+ D K +  W F++RFWPNN
Sbjct:   296 ILRKELTNSDVGNIGRIVMPKRDAEAHLPALHQREGVMLKMDDFKLETTWNFKYRFWPNN 355

Query:   417 NSRMYVLEGVTPCIQNMQLQAGDIGNQPKSQESYEM 452
              SRMYVLE     ++   LQ GDI    KS ES ++
Sbjct:   356 KSRMYVLESTGGFVKQHVLQTGDIFIIYKSSESEKL 391

GO:0003677 "DNA binding" evidence=IDA

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

 Score = 203 (76.5 bits), Expect = 1.1e-13, P = 1.1e-13
 Identities = 58/179 (32%), Positives = 85/179 (47%)

Query:   266 GLAVSYASPSETNSQIGVS-GSHLRPVVQPPLVKQFHGN--LPNGADSLGETQVRNGRPR 322
             G A SY   S T+  +  +  +H+ P+  P   K+      LP    S  E + RN    
Sbjct:   161 GPASSYGVESFTSPSMAPNICTHMPPIEGPISAKEDKKPEILPRVVKSSDELETRNSNVE 220

Query:   323 VDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAE 382
               +     L P        +  + ++     VI     K L+ SD G +GR+VLPKK AE
Sbjct:   221 FHSETVGTL-PESKQGHDSRATKLLNSGEYQVI---LRKELTKSDVGNVGRIVLPKKDAE 276

Query:   383 AYFPPISQPEGLPLKVQDSK-GKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDI 440
             A  PP+ Q + L L + D      W F++R+WPNN SRMY+L+     ++   LQAGD+
Sbjct:   277 ASLPPLLQRDPLILHMDDMVLPVTWKFKYRYWPNNKSRMYILDSAGEFLKTHGLQAGDV 335

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

GO:0005634 "nucleus" evidence=IDA

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

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

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

 Score = 199 (75.1 bits), Expect = 4.8e-13, Sum P(2) = 4.8e-13
 Identities = 46/128 (35%), Positives = 69/128 (53%)

Query:   313 ETQVRNGRPRVDARGRSQLLPRYWPRFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIG 372
             ETQ+    P +D  G +  +PR   +      Q    + N  +  L +K+L  SD G +G
Sbjct:   534 ETQL----PTMDRAGSASAMPRQ--QVVPDRRQGWKPEKN--LRFLLQKVLKQSDVGNLG 585

Query:   373 RLVLPKKCAEAYFPPISQPEGLPLKVQD-SKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQ 431
             R+VLPKK AE + P +   +G+ L ++D    + W  ++RFWPNN SRMY+LE     ++
Sbjct:   586 RIVLPKKEAETHLPELEARDGISLAMEDIGTSRVWNMRYRFWPNNKSRMYLLENTGDFVK 645

Query:   432 NMQLQAGD 439
                LQ GD
Sbjct:   646 TNGLQEGD 653

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:0009657 "plastid organization" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0009790 "embryo development" evidence=IEP

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

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

GO:0005829 "cytosol" evidence=IDA

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

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

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

GO:0016114 "terpenoid biosynthetic process" evidence=RCA

GO:0048825 "cotyledon development" evidence=RCA

GO:0051301 "cell division" evidence=RCA

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

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

 Score = 190 (71.9 bits), Expect = 3.5e-12, P = 3.5e-12
 Identities = 50/153 (32%), Positives = 77/153 (50%)

Query:   292 VQPPLVKQFHGNLPNGADSLGETQVRNGRPR--VDARGRSQLLP-RYWPRFTDQ-DLQQI 347
             + P + K    N  N           N  P   VD++ +  +L  +   + +D+ D  Q 
Sbjct:   100 LDPRMTKMARINRKNAMMRSRNNSSPNSSPSELVDSKRQLMMLNLKNNVQISDKKDSYQQ 159

Query:   348 SGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKE-W 406
             S   N  +  L EK L  SD G +GR+VLPK+ AEA  P +S  EG+ ++++D    + W
Sbjct:   160 STFDNKKLRVLCEKELKNSDVGSLGRIVLPKRDAEANLPKLSDKEGIVVQMRDVFSMQSW 219

Query:   407 IFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGD 439
              F+++FW NN SRMYVLE     ++    + GD
Sbjct:   220 SFKYKFWSNNKSRMYVLENTGEFVKQNGAEIGD 252

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

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0010262 "somatic embryogenesis" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

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

GO:0010344 "seed oilbody biogenesis" evidence=IMP

GO:0010431 "seed maturation" evidence=IMP

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

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

 Score = 188 (71.2 bits), Expect = 8.2e-12, P = 8.2e-12
 Identities = 53/161 (32%), Positives = 82/161 (50%)

Query:   284 SGSHLRPVVQPPLVKQFHGNLPNGADSLGETQVRNGRPR-VDARGRSQ-LLPRYWPRFTD 341
             S S  RP     +  +   +  + + S G+    + RPR V  + RS    PR  P  + 
Sbjct:   105 STSAARPTDMAGVTSKRRSSSASTSSSSGDGAAVSDRPRGVTRKRRSGGRCPR--PAASL 162

Query:   342 QDLQ-QISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLP-LKVQ 399
             +    + S    + +  + +K L  SD  ++GR+VLPKK AEAY P ++  +G   L + 
Sbjct:   163 RPAAPRPSSHHTAGLRVILQKELRYSDVSQLGRIVLPKKEAEAYLPILTSKDGKKSLCMH 222

Query:   400 DSKGKE-WIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGD 439
             D +  + W F++R+WPNN SRMYVLE     ++   LQ GD
Sbjct:   223 DLQNAQLWTFKYRYWPNNKSRMYVLENTGDYVRTHDLQLGD 263

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

GO:0005634 "nucleus" evidence=IDA

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

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

GO:0048573 "photoperiodism, flowering" evidence=IMP

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

 Score = 191 (72.3 bits), Expect = 5.3e-11, Sum P(2) = 5.3e-11
 Identities = 39/103 (37%), Positives = 62/103 (60%)

Query:   338 RFTDQDLQQISGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLK 397
             R T  + +Q   D N  +  L +K+L  SD G +GR+VLPK+ AE + P +   +G+ + 
Sbjct:   518 RSTASEKRQAKTDKN--LRFLLQKVLKQSDVGSLGRIVLPKE-AEVHLPELKTRDGVSIP 574

Query:   398 VQD-SKGKEWIFQFRFWPNNNSRMYVLEGVTPCIQNMQLQAGD 439
             ++D    + W  ++RFWPNN SRMY+LE     +++ +LQ GD
Sbjct:   575 MEDIGTSQVWNMRYRFWPNNKSRMYLLENTGDFVRSNELQEGD 617

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

GO:0009790 "embryo development" evidence=IEP

TAIR|locus:2039165 ABS2 "ABNORMAL SHOOT 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 169 (64.5 bits), Expect = 9.0e-11, P = 9.0e-11
 Identities = 42/108 (38%), Positives = 62/108 (57%)

Query:   342 QDLQQISGDSNSVITP---LFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQP-----EG 393
             Q  QQ     N V+     LFEK L+ SD G++ RLV+PK+ AE YFP  +       +G
Sbjct:    18 QQQQQQQQHQNDVVEEKEALFEKPLTPSDVGKLNRLVIPKQHAERYFPLAAAAADAVEKG 77

Query:   394 LPLKVQDSKGKEWIFQFRFWPNNNSRMYVL-EGVTPCIQNMQLQAGDI 440
             L L  +D +GK W F++ +W  N+S+ YVL +G +  ++   L AGD+
Sbjct:    78 LLLCFEDEEGKPWRFRYSYW--NSSQSYVLTKGWSRYVKEKHLDAGDV 123

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

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

GO:0080167 "response to karrikin" evidence=IEP

GO:0009062 "fatty acid catabolic process" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.00040219 hypothetical protein (918 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	465
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	1e-16
pfam02362	97	pfam02362, B3, B3 DNA binding domain	4e-14
smart01019	96	smart01019, B3, B3 DNA binding domain	2e-11
cd10015	109	cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o	1e-07

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

 Score = 74.7 bits (184), Expect = 1e-16
 Identities = 32/84 (38%), Positives = 49/84 (58%), Gaps = 4/84 (4%)

Query: 357 PLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNN 416
           PLF K+L+ SD   +GRLVLPKK A+A+ PP    EG+ + ++D  GK+W  + +   N+
Sbjct: 1   PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPP---KEGVEVTLEDPDGKKWTVKLKKRKNS 57

Query: 417 NSRMYVLEGVTPCIQNMQLQAGDI 440
             RM +  G    ++   L+ GD 
Sbjct: 58  G-RMVLSGGWKEFVRANGLKEGDF 80

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 = 67.7 bits (166), Expect = 4e-14
 Identities = 29/83 (34%), Positives = 42/83 (50%), Gaps = 6/83 (7%)

Query: 359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNS 418
           F K+L+ SD  + GRLVLPKK AE         +G  + + D  GK W  + R+    + 
Sbjct: 1   FVKVLTPSDVSKDGRLVLPKKFAEENGLN---KKGQEITLLDPDGKSWTVKLRYR--KSG 55

Query: 419 RMYVLE-GVTPCIQNMQLQAGDI 440
           R Y+L  G    ++   L+AGD 
Sbjct: 56  RRYLLTSGWKEFVKANGLKAGDS 78

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 = 60.0 bits (146), Expect = 2e-11
 Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 8/84 (9%)

Query: 359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNS 418
           F K L+ SD  + GRLVLPK+ AE+  PP+   E   + + D  GK W  + ++    +S
Sbjct: 1   FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKE---ITLLDPDGKSWKVKLKYR--GSS 55

Query: 419 RMYVLEGVTP--CIQNMQLQAGDI 440
            M++L G        N  L+AGD 
Sbjct: 56  GMFLLTGGWKEFVKAN-GLKAGDS 78

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

 Score = 49.6 bits (118), Expect = 1e-07
 Identities = 23/92 (25%), Positives = 39/92 (42%), Gaps = 9/92 (9%)

Query: 358 LFEKMLSASDAGRIG----RLVLPKKCAEAYFPPISQPEGLP----LKVQD-SKGKEWIF 408
           +  K LSA+D G  G     L +PK   E + P I+          L + D S  ++W  
Sbjct: 2   VLIKRLSANDTGATGGHQVGLYIPKGIVEKFPPSINHTREANPSIFLTMHDISDCRDWEA 61

Query: 409 QFRFWPNNNSRMYVLEGVTPCIQNMQLQAGDI 440
           +  F+ +N +   +  G    ++   L  GD+
Sbjct: 62  RAIFYNSNRNEKRLTRGGRGFVKQNPLNTGDL 93

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	465
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.71
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	98.22
PF09217	156	EcoRII-N: Restriction endonuclease EcoRII, N-termi	97.73

>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=99.71  E-value=8.2e-17  Score=131.96  Aligned_cols=98  Identities=22%  Similarity=0.325  Sum_probs=71.9

Q ss_pred             EEEecccccCCCCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEeEEEEcCCCCCCceeec-CchhHhhhcCCCC
Q 012348          359 FEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE-GVTPCIQNMQLQA  437 (465)
Q Consensus       359 F~KvLT~SDVg~lgRLVIPK~~AEa~FP~L~~~~Gv~L~veD~~Gk~W~Frfrfw~NnsSR~YVLt-GW~~FVrsK~Lqa  437 (465)
                      |.|+|+++|+.+..+|+||++.+++|.  .....++.|.++|..|++|.+++.++  +.++.|+|+ ||.+||++++|++
T Consensus         1 F~K~l~~s~~~~~~~l~iP~~f~~~~~--~~~~~~~~v~l~~~~g~~W~v~~~~~--~~~~~~~l~~GW~~Fv~~n~L~~   76 (100)
T PF02362_consen    1 FFKVLKPSDVSSSCRLIIPKEFAKKHG--GNKRKSREVTLKDPDGRSWPVKLKYR--KNSGRYYLTGGWKKFVRDNGLKE   76 (100)
T ss_dssp             EEEE--TTCCCCTT-EEE-HHHHTTTS----SS--CEEEEEETTTEEEEEEEEEE--CCTTEEEEETTHHHHHHHCT--T
T ss_pred             CEEEEEccCcCCCCEEEeCHHHHHHhC--CCcCCCeEEEEEeCCCCEEEEEEEEE--ccCCeEEECCCHHHHHHHcCCCC
Confidence            899999999998889999999999882  22235789999999999999999987  445568886 9999999999999


Q ss_pred             CCEEEEeecCCCCceEEEEEeee
Q 012348          438 GDIGNQPKSQESYEMFSFMWKVH  460 (465)
Q Consensus       438 GDtVtF~R~~ngg~rf~I~~rr~  460 (465)
                      ||.|+|+...++...+.+.+.++
T Consensus        77 GD~~~F~~~~~~~~~~~v~i~~~   99 (100)
T PF02362_consen   77 GDVCVFELIGNSNFTLKVHIFRK   99 (100)
T ss_dssp             T-EEEEEE-SSSCE-EEEEEE--
T ss_pred             CCEEEEEEecCCCceEEEEEEEC
Confidence            99999999876555567777654

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

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

Probab=98.22  E-value=3.3e-06  Score=74.89  Aligned_cols=80  Identities=21%  Similarity=0.433  Sum_probs=63.9

Q ss_pred             CcccceEEEecccccCC-CCCcEEeehhhhhh--cCCC-----C-------CCCCCceEEEEeCCCCeEEeEEEEcCC-C
Q 012348          353 SVITPLFEKMLSASDAG-RIGRLVLPKKCAEA--YFPP-----I-------SQPEGLPLKVQDSKGKEWIFQFRFWPN-N  416 (465)
Q Consensus       353 s~~~~LF~KvLT~SDVg-~lgRLVIPK~~AEa--~FP~-----L-------~~~~Gv~L~veD~~Gk~W~Frfrfw~N-n  416 (465)
                      .....+++|+|++|||. ..+||.||......  +|=+     +       ....|+.+.+.|..+++|..+++.|.- +
T Consensus        18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~   97 (114)
T PF03754_consen   18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGN   97 (114)
T ss_pred             CCCeEEEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccC
Confidence            45578999999999999 48899999987633  2211     2       235689999999999999999999965 4


Q ss_pred             CCCceeec-CchhHhhh
Q 012348          417 NSRMYVLE-GVTPCIQN  432 (465)
Q Consensus       417 sSR~YVLt-GW~~FVrs  432 (465)
                      ..-.|+|. ||.+.|.+
T Consensus        98 ~~~~YvL~~gWn~VV~~  114 (114)
T PF03754_consen   98 GTSNYVLNSGWNKVVED  114 (114)
T ss_pred             CceEEEEEcChHhhccC
Confidence            45689996 99999863

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

Probab=97.73  E-value=0.00011  Score=68.63  Aligned_cols=89  Identities=21%  Similarity=0.301  Sum_probs=56.5

Q ss_pred             cceEEEecccccCCC----CCcEEeehhhhhhcCCCCCCCCC----ceEEEEeCCC--CeEEeEEEEcCC----CCCCce
Q 012348          356 TPLFEKMLSASDAGR----IGRLVLPKKCAEAYFPPISQPEG----LPLKVQDSKG--KEWIFQFRFWPN----NNSRMY  421 (465)
Q Consensus       356 ~~LF~KvLT~SDVg~----lgRLVIPK~~AEa~FP~L~~~~G----v~L~veD~~G--k~W~Frfrfw~N----nsSR~Y  421 (465)
                      ...|.|.||+.|++.    ..+++|||..++.+||.+...++    +.|.+.+..+  ..|.+||+|..|    +.+..|
T Consensus         7 ~~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~   86 (156)
T PF09217_consen    7 WAIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEY   86 (156)
T ss_dssp             EEEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EE
T ss_pred             eEEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCce
Confidence            468999999999994    34799999999999988765433    7788888866  678899999955    346779


Q ss_pred             eecCchhHhhhcC-CCCCCEEEEe
Q 012348          422 VLEGVTPCIQNMQ-LQAGDIGNQP  444 (465)
Q Consensus       422 VLtGW~~FVrsK~-LqaGDtVtF~  444 (465)
                      -||+|+....-.+ =.+||.++|-
T Consensus        87 RIT~~G~~~~~~~~~~tGaL~vla  110 (156)
T PF09217_consen   87 RITRFGRGFPLQNPENTGALLVLA  110 (156)
T ss_dssp             EEE---TTSGGG-GGGTT-EEEEE
T ss_pred             EEeeecCCCccCCccccccEEEEE
Confidence            9999986665333 3689987765

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	465
1wid_A	130	Solution Structure Of The B3 Dna-Binding Domain Of		2e-11

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

Iteration: 1
 Score = 66.6 bits (161), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/105 (37%), Positives = 62/105 (59%), Gaps = 6/105 (5%)
Query: 358 LFEKMLSASDAGRIGRLVLPKKCAEAYFP-PISQ--PEGLPLKVQDSKGKEWIFQFRFWP 414
           LFEK ++ SD G++ RLV+PK  AE +FP P S    +G+ L  +D  GK W F++ +W 
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYW- 71
Query: 415 NNNSRMYVL-EGVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWK 458
            N+S+ YVL +G +  ++   L+AGD+ +  +S    +     WK
Sbjct: 72  -NSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWK 115

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	465
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	3e-21

>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 = 88.2 bits (218), Expect = 3e-21
 Identities = 38/97 (39%), Positives = 58/97 (59%), Gaps = 6/97 (6%)

Query: 348 SGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPIS---QPEGLPLKVQDSKGK 404
           SG S      LFEK ++ SD G++ RLV+PK  AE +FP  S     +G+ L  +D  GK
Sbjct: 3   SGSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGK 62

Query: 405 EWIFQFRFWPNNNSRMYVL-EGVTPCIQNMQLQAGDI 440
            W F++ +W  N+S+ YVL +G +  ++   L+AGD+
Sbjct: 63  VWRFRYSYW--NSSQSYVLTKGWSRFVKEKNLRAGDV 97

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	465
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.96
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.61
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.49
1na6_A	404	Ecorii, restriction endonuclease ecorii; site-spec	90.42

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

Probab=99.96  E-value=1.5e-28  Score=215.26  Aligned_cols=113  Identities=36%  Similarity=0.659  Sum_probs=100.9

Q ss_pred             cCCCCCcccceEEEecccccCCCCCcEEeehhhhhhcCCCCCC---CCCceEEEEeCCCCeEEeEEEEcCCCCCCceeec
Q 012348          348 SGDSNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQ---PEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE  424 (465)
Q Consensus       348 sg~~~s~~~~LF~KvLT~SDVg~lgRLVIPK~~AEa~FP~L~~---~~Gv~L~veD~~Gk~W~Frfrfw~NnsSR~YVLt  424 (465)
                      +|..+.+.+++|+|+||+|||++.+||+||+++||+|||.++.   .+++.|.++|.+|++|+|+|+||  +++++|+|+
T Consensus         3 ~~~~~~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~--~~~~~~~Lt   80 (130)
T 1wid_A            3 SGSSGRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYW--NSSQSYVLT   80 (130)
T ss_dssp             -----CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEE--TTTTEEEEE
T ss_pred             CCCCCCCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEE--CCCCceEEc
Confidence            3456667789999999999999889999999999999999875   47899999999999999999999  668899997


Q ss_pred             -CchhHhhhcCCCCCCEEEEeecCCCCceEEEEEeeecc
Q 012348          425 -GVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKVHVH  462 (465)
Q Consensus       425 -GW~~FVrsK~LqaGDtVtF~R~~ngg~rf~I~~rr~~~  462 (465)
                       ||..||++++|++||+|+|++.++++.+|+|++||+..
T Consensus        81 ~GW~~FV~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~~~  119 (130)
T 1wid_A           81 KGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSRSG  119 (130)
T ss_dssp             SSHHHHHHHTTCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             CChHHHHHHcCCCCCCEEEEEEecCCCcEEEEEEEECCC
Confidence             99999999999999999999999888899999999865

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

Probab=99.61  E-value=2.8e-15  Score=134.05  Aligned_cols=114  Identities=18%  Similarity=0.141  Sum_probs=89.1

Q ss_pred             CCCCchhhhhccCC--CCCcccceEEEecccccCCCCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEeEEEEcC
Q 012348          337 PRFTDQDLQQISGD--SNSVITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWP  414 (465)
Q Consensus       337 prvtd~el~~~sg~--~~s~~~~LF~KvLT~SDVg~lgRLVIPK~~AEa~FP~L~~~~Gv~L~veD~~Gk~W~Frfrfw~  414 (465)
                      ..+|++|.+.....  .-..-.+.|.|+||+|||.+..+|.||++.+++|||..    ...|.++|. |+.|.+++.|+.
T Consensus        25 ~~~t~~~k~~a~~~A~~~~s~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~----~~~i~L~~~-gk~W~v~~~~~~   99 (146)
T 4i1k_A           25 RTVTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGI----SGFIKVQLA-EKQWPVRCLYKA   99 (146)
T ss_dssp             -CCCHHHHHHHHHHHHHCCCSSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTC----CSEEEEEET-TEEEEEEEEEET
T ss_pred             CCCCHHHHHHHHHHHHHcCCCCCEEEEEECchhcCCCcEEEeCHHHHHHhCCCC----CeEEEEEEC-CcEEEEEEEEeC
Confidence            35776654433211  11123579999999999997668999999999999975    467888887 699999999983


Q ss_pred             CCCCCceeec-CchhHhhhcCCCCCCEEEEeecCCCCceEEEEEee
Q 012348          415 NNNSRMYVLE-GVTPCIQNMQLQAGDIGNQPKSQESYEMFSFMWKV  459 (465)
Q Consensus       415 NnsSR~YVLt-GW~~FVrsK~LqaGDtVtF~R~~ngg~rf~I~~rr  459 (465)
                          ..++|+ ||..||++++|++||+|+|...++....|.+.+-|
T Consensus       100 ----~~~~ls~GW~~Fv~dn~L~~GD~cvFeli~~~~~~f~V~IfR  141 (146)
T 4i1k_A          100 ----GRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAFR  141 (146)
T ss_dssp             ----TEEEECTTHHHHHHHTTCCTTCEEEEEECSSSSCEEEEEEEC
T ss_pred             ----CcEEECCchHHHHHHcCCCCCCEEEEEEecCCceEEEEEEEe
Confidence                246776 99999999999999999999998865677777655

>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=99.49  E-value=1e-13  Score=116.07  Aligned_cols=91  Identities=15%  Similarity=0.246  Sum_probs=75.1

Q ss_pred             ccceEEEecccccCCCCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEeEEEEcCCCCCCceeec-CchhHhhhc
Q 012348          355 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE-GVTPCIQNM  433 (465)
Q Consensus       355 ~~~LF~KvLT~SDVg~lgRLVIPK~~AEa~FP~L~~~~Gv~L~veD~~Gk~W~Frfrfw~NnsSR~YVLt-GW~~FVrsK  433 (465)
                      ..+.|.|+|+++|.  ..+|.||++.++.+.+.+    +-.++++|..|++|.++++++.    +.++|+ ||.+||+++
T Consensus         7 ~~p~F~K~l~~~~~--~~~L~IP~~F~~~~~~~~----~~~v~L~~~~G~~W~v~~~~~~----~~~~l~~GW~~Fv~~~   76 (104)
T 1yel_A            7 GEVQFMKPFISEKS--SKSLEIPLGFNEYFPAPF----PITVDLLDYSGRSWTVRMKKRG----EKVFLTVGWENFVKDN   76 (104)
T ss_dssp             CCEEEEEECCHHHH--TTCEECCHHHHTTCCCCC----CSEEEEEETTSCEEEEEEEEET----TEEEECTTHHHHHHHH
T ss_pred             CCCCEEEEECCCCc--cceEECCHHHHHhcCccC----CCEEEEECCCCCEEEEEEEEEC----CcEEEccChHHHHHHc
Confidence            34789999999994  479999999998765543    4678999999999999999872    456776 999999999


Q ss_pred             CCCCCCEEEEeecCCCCceEEEEE
Q 012348          434 QLQAGDIGNQPKSQESYEMFSFMW  457 (465)
Q Consensus       434 ~LqaGDtVtF~R~~ngg~rf~I~~  457 (465)
                      +|++||.++|....+.  .|.+.+
T Consensus        77 ~L~~GD~lvF~~~~~~--~f~V~I   98 (104)
T 1yel_A           77 NLEDGKYLQFIYDRDR--TFYVII   98 (104)
T ss_dssp             TCCTTCEEEEEECSSS--EEEEEE
T ss_pred             CCCCCCEEEEEEcCCC--eEEEEE
Confidence            9999999999887764  565544

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

Probab=90.42  E-value=0.32  Score=50.36  Aligned_cols=91  Identities=15%  Similarity=0.138  Sum_probs=63.8

Q ss_pred             cceEEEecccccCCC----CCcEEeehhhhhhcCCCCCCC---CC-c--eEEEEeCCCCeEEeEEEEcCC----CCCCce
Q 012348          356 TPLFEKMLSASDAGR----IGRLVLPKKCAEAYFPPISQP---EG-L--PLKVQDSKGKEWIFQFRFWPN----NNSRMY  421 (465)
Q Consensus       356 ~~LF~KvLT~SDVg~----lgRLVIPK~~AEa~FP~L~~~---~G-v--~L~veD~~Gk~W~Frfrfw~N----nsSR~Y  421 (465)
                      ...|.|.|++.|++.    ...+.+||.-++.+||.+..+   +. +  .+.+-|...-.+.++++|..|    ..+..|
T Consensus        18 ~~v~~K~LSAnDtgatgshQ~gi~ipk~~l~~lfp~lg~~~e~~~~~~~~~~l~d~d~p~td~~~twYn~R~~~~tRnEy   97 (404)
T 1na6_A           18 YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTRNEK   97 (404)
T ss_dssp             EEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCCCEE
T ss_pred             chheeEEcccccCCCCCCcccccCCchHHHHHhcccCCCccccCCcceeEEEeccCCCceEEEEEEEecccccCCCCCce
Confidence            478999999999993    558999998788999988632   22 2  222334433445888887732    234468


Q ss_pred             eecCch-hHhhhcCCCCCCEEEEeec
Q 012348          422 VLEGVT-PCIQNMQLQAGDIGNQPKS  446 (465)
Q Consensus       422 VLtGW~-~FVrsK~LqaGDtVtF~R~  446 (465)
                      -|++|. .+.=.....+||.++|-+.
T Consensus        98 RLt~~~~~~~~~~~a~~GDLlvia~~  123 (404)
T 1na6_A           98 RITRWGRGSPLQDPENTGALTLLAFK  123 (404)
T ss_dssp             EEECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             EEeecCCCCcccccCCCCCEEEEEEe
Confidence            898885 3455578899999988765

---

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	465
d1wida_	117	b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre	1e-22
d1na6a1	175	b.142.1.1 (A:4-178) Restriction endonuclease EcoRI	2e-18
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	6e-10

>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 = 90.4 bits (224), Expect = 1e-22
 Identities = 31/88 (35%), Positives = 52/88 (59%), Gaps = 4/88 (4%)

Query: 356 TPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQ---PEGLPLKVQDSKGKEWIFQFRF 412
             LFEK ++ SD G++ RLV+PK  AE +FP  S     +G+ L  +D  GK W F++ +
Sbjct: 4   EALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSY 63

Query: 413 WPNNNSRMYVLEGVTPCIQNMQLQAGDI 440
           W ++ S +   +G +  ++   L+AGD+
Sbjct: 64  WNSSQSYVL-TKGWSRFVKEKNLRAGDV 90

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

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

 Score = 80.8 bits (199), Expect = 2e-18
 Identities = 19/108 (17%), Positives = 33/108 (30%), Gaps = 19/108 (17%)

Query: 350 DSNSVITPLFEKMLSASDAGRIGR----LVLPKKCAEAYFPPISQPE------GLPLKVQ 399
           +       ++ K LSA+D G  G     L +P    E  FP I+          L   V 
Sbjct: 9   EIACENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVS 68

Query: 400 DSKGKEWIFQFRFWPN-------NNSRMYVLEGVTPCIQNMQLQAGDI 440
                +   +  ++ +       N  R+      +P         G +
Sbjct: 69  SHDCPDSEARAIYYNSAHFGKTRNEKRITRWGRGSPLQD--PENTGAL 114

>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 = 54.1 bits (130), Expect = 6e-10
 Identities = 12/84 (14%), Positives = 30/84 (35%), Gaps = 9/84 (10%)

Query: 357 PLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNN 416
             F K   +  + +   L +P    E +  P        + + D  G+ W  + +     
Sbjct: 7   VQFMKPFISEKSSK--SLEIPLGFNEYFPAPFPI----TVDLLDYSGRSWTVRMK---KR 57

Query: 417 NSRMYVLEGVTPCIQNMQLQAGDI 440
             ++++  G    +++  L+ G  
Sbjct: 58  GEKVFLTVGWENFVKDNNLEDGKY 81

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	465
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.93
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	99.67
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.39

>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=99.93  E-value=3.4e-26  Score=192.92  Aligned_cols=105  Identities=35%  Similarity=0.665  Sum_probs=95.3

Q ss_pred             ccceEEEecccccCCCCCcEEeehhhhhhcCCCCCC---CCCceEEEEeCCCCeEEeEEEEcCCCCCCceeec-CchhHh
Q 012348          355 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQ---PEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE-GVTPCI  430 (465)
Q Consensus       355 ~~~LF~KvLT~SDVg~lgRLVIPK~~AEa~FP~L~~---~~Gv~L~veD~~Gk~W~Frfrfw~NnsSR~YVLt-GW~~FV  430 (465)
                      ..++|+|+||+|||++.+||+||+++|++|||+++.   .+++.|.+.|.+|++|.|+|++|.  +++.|+|. ||.+||
T Consensus         3 ~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~--~~~~~~l~~GW~~Fv   80 (117)
T d1wida_           3 AEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN--SSQSYVLTKGWSRFV   80 (117)
T ss_dssp             CEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEET--TTTEEEEESSHHHHH
T ss_pred             CceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEEC--CCCceEEecCHHHHH
Confidence            468999999999999888999999999999999865   367999999999999999999994  45677775 999999


Q ss_pred             hhcCCCCCCEEEEeecCCCCceEEEEEeeec
Q 012348          431 QNMQLQAGDIGNQPKSQESYEMFSFMWKVHV  461 (465)
Q Consensus       431 rsK~LqaGDtVtF~R~~ngg~rf~I~~rr~~  461 (465)
                      ++++|++||+|+|+|...++..|.|++|++-
T Consensus        81 ~~~~Lk~GD~~~F~~~~~~~~~~~i~~r~~~  111 (117)
T d1wida_          81 KEKNLRAGDVVSFSRSNGQDQQLYIGWKSRS  111 (117)
T ss_dssp             HHTTCCTTCEEEEEECCSSSCCEEEEEECCC
T ss_pred             HHcCCCCCCEEEEEEEeCCCCEEEEEEEECC
Confidence            9999999999999999888889999999864

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

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

Probab=99.67  E-value=1.4e-17  Score=151.71  Aligned_cols=107  Identities=16%  Similarity=0.107  Sum_probs=86.3

Q ss_pred             CcccceEEEecccccCCCCCc----EEeehhhhhhcCCCCCCCC------CceEEEEeCCCCeEEeEEEEcCC----CCC
Q 012348          353 SVITPLFEKMLSASDAGRIGR----LVLPKKCAEAYFPPISQPE------GLPLKVQDSKGKEWIFQFRFWPN----NNS  418 (465)
Q Consensus       353 s~~~~LF~KvLT~SDVg~lgR----LVIPK~~AEa~FP~L~~~~------Gv~L~veD~~Gk~W~Frfrfw~N----nsS  418 (465)
                      +...++|.|.||+||++++||    |+|||++||++||+|+...      ++.+.|+|.+|++|+|||+||.|    +..
T Consensus        12 ~~~~~~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i~d~~g~~w~fR~iYyn~~~~ggTR   91 (175)
T d1na6a1          12 CENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTR   91 (175)
T ss_dssp             HSSEEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCC
T ss_pred             CCceEEEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccccCCCceEEEEEecCCCCeeEEEEEEECCccCCCcc
Confidence            456899999999999999887    9999999999999987532      35567789999999999999954    234


Q ss_pred             Cceeec-CchhHhhhcCCCCCCEEEEeec--CCCCceEEEEEee
Q 012348          419 RMYVLE-GVTPCIQNMQLQAGDIGNQPKS--QESYEMFSFMWKV  459 (465)
Q Consensus       419 R~YVLt-GW~~FVrsK~LqaGDtVtF~R~--~ngg~rf~I~~rr  459 (465)
                      ..|.|| .|..|+..+.+.+||+++|.+.  ++....-.|+|-.
T Consensus        92 neyRiT~~g~~~~~~~~~n~G~l~i~af~~~~~~~~~~~~~vwv  135 (175)
T d1na6a1          92 NEKRITRWGRGSPLQDPENTGALTLLAFKLDEQGGDCKEVNIWV  135 (175)
T ss_dssp             CEEEEECCCTTSGGGCGGGTTCEEEEEEECCTTSCCCCEEEEEE
T ss_pred             ccEEEEeccccccccCccccccEEEEEeecCCCCCceeEEEEEE
Confidence            779998 7789999999999999998884  3444555666544

>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=99.39  E-value=6.2e-13  Score=110.02  Aligned_cols=90  Identities=16%  Similarity=0.271  Sum_probs=73.0

Q ss_pred             ccceEEEecccccCCCCCcEEeehhhhhhcCCCCCCCCCceEEEEeCCCCeEEeEEEEcCCCCCCceeec-CchhHhhhc
Q 012348          355 ITPLFEKMLSASDAGRIGRLVLPKKCAEAYFPPISQPEGLPLKVQDSKGKEWIFQFRFWPNNNSRMYVLE-GVTPCIQNM  433 (465)
Q Consensus       355 ~~~LF~KvLT~SDVg~lgRLVIPK~~AEa~FP~L~~~~Gv~L~veD~~Gk~W~Frfrfw~NnsSR~YVLt-GW~~FVrsK  433 (465)
                      -.+-|-|+|.+++..  .+|.||++.+..+.+.+    +..++++|..|+.|.+++...    ++..+|+ ||.+||+++
T Consensus         5 ~~~~Ffkv~~~~~~~--~~L~IP~~F~~~~~~~~----~~~i~L~d~~G~~W~v~~~~~----~~~~~~~~GW~~Fv~~n   74 (102)
T d1yela1           5 GEVQFMKPFISEKSS--KSLEIPLGFNEYFPAPF----PITVDLLDYSGRSWTVRMKKR----GEKVFLTVGWENFVKDN   74 (102)
T ss_dssp             CCEEEEEECCHHHHT--TCEECCHHHHTTCCCCC----CSEEEEEETTSCEEEEEEEEE----TTEEEECTTHHHHHHHH
T ss_pred             CCCeEEEEEcCcccC--CCEECCHHHHHhCCCCC----CCEEEEEcCCCCEEEEEEEEe----CCeEEEccCHHHHHHHc
Confidence            346699999999976  68999999998776654    567899999999999998765    2344554 999999999


Q ss_pred             CCCCCCEEEEeecCCCCceEEEE
Q 012348          434 QLQAGDIGNQPKSQESYEMFSFM  456 (465)
Q Consensus       434 ~LqaGDtVtF~R~~ngg~rf~I~  456 (465)
                      +|++||.|+|....+.  .|.+.
T Consensus        75 ~L~~GD~~vF~~~~~~--~f~V~   95 (102)
T d1yela1          75 NLEDGKYLQFIYDRDR--TFYVI   95 (102)
T ss_dssp             TCCTTCEEEEEECSSS--EEEEE
T ss_pred             CCCcCCEEEEEEcCCc--EEEEE
Confidence            9999999999888764  45443