Citrus Sinensis ID: 042542

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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-------36
Protein Sequence
MAFRRRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA
Secondary Structure (PSIPRED)
cccccccccccccccccccccEEEEEccccccccEEcccHHHHHHHccccccEEEEEcccccEEEEEEEEEccEEEEcccHHHHHHHcccccccEEEEEEEccEEEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccHHHHHHHHHccccccccccccccHHHHHHHHHHHHccccccccEEEEcccccccccccccccHHHccccccccEEEEEEccccEEEEEEEEcccEEEEccHHHHHHHcccccccEEEEEEEEccEEEEEEEEEcc
Secondary Structure Prediction (SSPRO)
cccHccccccccHHcccccccEEEEEEcccccccccEccHHHHHHHccccccEEEEEcccccEEEEEEEEcccEEEEcccHHHHHHHcccccccEEEEEEcccEEEEEEEEcccccEEEccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHccccccEEEEEEccccccccEEEccHHHHHHHcccccEEEEEEccccEEEEEEEEccccEEcccHHHHHHHcccccccEEEEEEEccccEEEEEEEEcc
Coil and Loop (DISEMBL)
mafrrraepkmassmkkTNSLFFQVILAVTIedkkmkipqnfvgrfgDELSYVAtltnpkgyvVRIGItkkegkiwfdDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTfeiqypsrnmfppsrqnqatvnsskskngckmqsktyrmeelevndeldnvnDSIQDIIgtsnsegsvhAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALledmdtydcesrmTLEEKQEAINVARFLKPEKPSFLVFLRASNmqlncvyvpnsfarkyfngeecvtiqdsdgrKLAVKVKVSCSKclltrwgkffkktnvkegDILFFEMIQMKNILLKVSVFNA
Flexible Loop (DISEMBL)
mafrrraepkmassmkktnslFFQVILAVTiedkkmkipQNFVGRFGDELSYVatltnpkgyvvRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRqnqatvnsskskngckmqSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKakhnlkyelradsvdQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTiqdsdgrklaVKVKVScskclltrwgkffkktnvkEGDILFFEMIQMKNILLKVSVFNA
Low Complexity Region (SEG)
MAFRRRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA
Disordered region (IsUnstruct)
*******************SLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQY******************************************************************VHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF**
Disordered Region (DISOPRED)
**********************FQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMF******QATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA
Disordered Region (DISEMBL)
**************MKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFP********************QSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA
Disordered Region (DISPRO)
*****************TNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSR**************************************************************************************************************************MT*EEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAFRRRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA
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	359	2.2.26 [Sep-21-2011]
Q8L3W1	341	B3 domain-containing tran	yes	no	0.863	0.909	0.287	1e-36
Q9ZSH7	190	B3 domain-containing prot	no	no	0.250	0.473	0.45	2e-21
Q84R27	209	B3 domain-containing prot	no	no	0.314	0.540	0.418	3e-21
Q9XIB4	190	B3 domain-containing prot	no	no	0.320	0.605	0.383	1e-17
Q8RYD1	337	B3 domain-containing prot	no	no	0.771	0.821	0.231	1e-10
Q9XIB5	226	B3 domain-containing prot	no	no	0.311	0.495	0.289	4e-10
Q2R9D2	406	B3 domain-containing prot	yes	no	0.913	0.807	0.228	2e-09
Q851V5	1029	Putative B3 domain-contai	no	no	0.777	0.271	0.224	5e-09
Q6AV22	536	B3 domain-containing prot	no	no	0.752	0.503	0.231	2e-07
Q8S2E6	402	B3 domain-containing prot	no	no	0.874	0.781	0.222	6e-07

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

 Score =  154 bits (388), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 103/358 (28%), Positives = 176/358 (49%), Gaps = 48/358 (13%)

Query: 21  LFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDG 80
            F ++I + TI++K++++P  FV +F DELS    LT P G+V R+G+ K + KIWF DG
Sbjct: 5   FFHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKADNKIWFQDG 64

Query: 81  WNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSK 140
           W EFV  +SI +GY ++F+Y  NS F V++FN +  EI Y S  +               
Sbjct: 65  WQEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGL--------------- 109

Query: 141 SKNGCKMQSKTYRMEELEVNDELDNVNDSI---QDIIGTSNSEGSVHAK--VHLSETQCL 195
                 M S     +   + ++L++ +  +     +  +   E +V A      S  Q L
Sbjct: 110 ------MDSAHNHFKRARLFEDLEDEDAEVIFPSSVYPSPLPESTVPANKGYASSAIQTL 163

Query: 196 SVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESR---------- 245
                  +  +   K  K   + +  AD  ++I S A  +D    D E+R          
Sbjct: 164 FTGPVKAEEPTPTPKIPKKRGRKKKNADP-EEINSSAPRDD----DPENRSKFYESASAR 218

Query: 246 ---MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYFNG-EECVT 300
              +T EE++ AIN A+  +P  P F V LR S +   C+ Y+P+ FA KY +G    + 
Sbjct: 219 KRTVTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIK 278

Query: 301 IQDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
           +Q ++ ++  V+      +   ++ W +F  + N+ EGD+  FE+++ ++ +LKV+ F
Sbjct: 279 VQLAE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAF 335

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

 Score =  103 bits (257), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 45/100 (45%), Positives = 66/100 (66%)

Query: 22  FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGW 81
           FF+++L  T++DK M+IP  FV   G +LS V TL  P GY   I + +   +IWF +GW
Sbjct: 30  FFKLVLPSTMKDKMMRIPPRFVKLQGSKLSEVVTLVTPAGYKRSIKLKRIGEEIWFHEGW 89

Query: 82  NEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP 121
           +EF + HSI  G+F++F+Y+KNS F+V +FN +  E  YP
Sbjct: 90  SEFAEAHSIEEGHFLLFEYKKNSSFRVIIFNASACETNYP 129

Arabidopsis thaliana (taxid: 3702)

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

 Score =  103 bits (256), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 49/117 (41%), Positives = 75/117 (64%), Gaps = 4/117 (3%)

Query: 5   RRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVV 64
           RR++    S +KK    FF+++L  T++DK MKIP  FV   G +LS V TL  P G+  
Sbjct: 17  RRSQQDPESPVKK----FFKLVLPSTMKDKMMKIPPRFVKLQGSKLSEVVTLETPAGFKR 72

Query: 65  RIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP 121
            I + +   +IWF +GW+EF + HSI  G+F++F+Y++NS F+V +FN +  E +YP
Sbjct: 73  SIKLKRIGEEIWFHEGWSEFAEAHSIEEGHFLLFEYKENSSFRVIIFNVSACETKYP 129

Arabidopsis thaliana (taxid: 3702)

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

 Score = 91.3 bits (225), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 46/120 (38%), Positives = 73/120 (60%), Gaps = 5/120 (4%)

Query: 2   AFRRRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKG 61
           A +RR +P+   ++KK    F ++IL   I +K MK+P  FV RFG +L+   TL  P G
Sbjct: 18  ATQRRLKPEPEPTVKK----FIKIILLSRIIEKMMKVPARFV-RFGPKLTDNVTLQTPVG 72

Query: 62  YVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP 121
           +   I I +   ++WF+ GW+EF + HS+  G+F+ F Y  +S F+V +F+ +  EI+YP
Sbjct: 73  FKRSIRIKRIGDEVWFEKGWSEFAEAHSLSDGHFLFFHYEGDSCFRVVIFDVSASEIEYP 132

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RYD1|REM16_ARATH B3 domain-containing protein REM16 OS=Arabidopsis thaliana GN=REM16 PE=2 SV=1

 Score = 67.8 bits (164), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 77/333 (23%), Positives = 147/333 (44%), Gaps = 56/333 (16%)

Query: 35  KMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGK-IWFDDGWNEFVQYHSIGVG 93
           ++ IP+ F      +L  + TL +P G    +G+ + + K + F  GW++FV+ HS+   
Sbjct: 36  RLVIPRKFSTHCKRKLPQIVTLKSPSGVTYNVGVEEDDEKTMAFRFGWDKFVKDHSLEEN 95

Query: 94  YFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQSKTYR 153
             +VF++   S+F+V VF+  T   +       P S   +   ++ K+K      S T  
Sbjct: 96  DLLVFKFHGVSEFEVLVFDGQTLCEK-------PTSYFVRKCGHAEKTK-----ASHTGY 143

Query: 154 MEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAK 213
            +E  +N ++D  +  +  I  TS                  +V+ ++ K   + FKK  
Sbjct: 144 EQEEHINSDIDTASAQLPVISPTS------------------TVRVSEGKYPLSGFKK-- 183

Query: 214 HNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVA-RFLKPEKPSFLVFL 272
             ++ EL  D++DQ   + ++            +    ++A+++A R + P+   FLVF+
Sbjct: 184 --MRRELSNDNLDQKADVEMI------------SAGSNKKALSLAKRAISPD--GFLVFM 227

Query: 273 RASNMQLNC-VYVPNSFARKYFNGEECVTIQDSDGRKLAVKVKV---SCSKCLLTRWGKF 328
           + S++   C + +P  +  K         +   D  K  +K  +     S  + T W KF
Sbjct: 228 KRSHVVSKCFLTIPYKWCVKNMLITRQEVVMQVDQTKWEMKFNIFGARGSGGISTGWKKF 287

Query: 329 FKKTNVKEGDILFFEMI--QMKNILLKVSVFNA 359
            +  N++EGD+  FE    + K + L V +F  
Sbjct: 288 VQDNNLREGDVCVFEPANSETKPLHLNVYIFRG 320

Arabidopsis thaliana (taxid: 3702)

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

 Score = 66.2 bits (160), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 62/114 (54%), Gaps = 2/114 (1%)

Query: 246 MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYFNGEECVTIQDS 304
           +T EE++ A+N A+  +P  P F V LR S +   C+ Y+P+ FA KY +G         
Sbjct: 107 VTAEERERAVNAAKTFEPTNPYFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKLQL 166

Query: 305 DGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
             ++  V+      +   ++ W +F  + N+ EGD+  FE+++ ++ +L+V+ F
Sbjct: 167 GEKQWPVRCLYKAGRAKFSQGWYEFTLENNIGEGDVCVFELLRTRDFVLEVTAF 220

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 = 63.9 bits (154), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 83/363 (22%), Positives = 158/363 (43%), Gaps = 35/363 (9%)

Query: 22  FFQVILAV-TIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDG 80
           FF+V+L + ++E  +MKIP +F     ++ + + +L +  G      +T      +F  G
Sbjct: 32  FFRVLLTLQSLE--RMKIPSSFNQCLQNQPTGMVSLVDRSGNKWSAELTSDSEGFFFVHG 89

Query: 81  WNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFE-----IQYPSRNMFPPSRQNQAT 135
           W EFV+ +SI  G F+VF Y K S+F V VF  +  +       +PS+N+   +  ++  
Sbjct: 90  WKEFVRDNSIQCGQFLVFTYDKRSQFSVTVFEPSGIDKISTFSAHPSKNVIIKTESDEGG 149

Query: 136 VNSS-----------KSKNGC---KMQSKTYRMEELEV----NDELDNVNDSIQDIIGTS 177
           + ++           K  NG    + +   Y ME+  V    + E +    S +   G S
Sbjct: 150 MVTAAITTEKMAPALKENNGITGKRTRDVDYLMEDRVVVFKKSSEANVCESSRRKRAGAS 209

Query: 178 NSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDM 237
             +  V +  H S     S   +D    S+K       +++ L  +   + + ++  +  
Sbjct: 210 AGKSKVTSTSHNSTRG--SSCSSDEDNSSSKSPNPPFLMRF-LSGEVSRRGRCVSKGQRQ 266

Query: 238 DTYDCESRMTLE-EKQEAINVARFLKPEKPSFLVFLRASNMQLN-CVYVPNSFARKYF-N 294
            T   + R   E EK  A+  AR  K + P  +  +  S + +   + +P  F R+   +
Sbjct: 267 LTVISQRRPVTEAEKDHALQRAREFKSKNPFAVQIMMESYVYVGFFMNIPCEFVRECLPH 326

Query: 295 GEECVTIQDSDGRKLAVKVKVSCSKCLLT---RWGKFFKKTNVKEGDILFFEMIQMKNIL 351
             + +T+ D  G+   V       + + +    WGKF    N+++ D+  FE++Q  NI 
Sbjct: 327 TNKRITLWDPQGKAWEVNYVYYSDRSVGSFSGGWGKFAVGNNLEKFDVCVFELVQKDNIK 386

Query: 352 LKV 354
           + +
Sbjct: 387 VHI 389

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 = 62.4 bits (150), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 78/348 (22%), Positives = 131/348 (37%), Gaps = 69/348 (19%)

Query: 22   FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGW 81
            FF+V++    E  +M IP  F+  F  ++     L    G    + +TK  GKI    GW
Sbjct: 734  FFKVMIGRFRE--RMIIPNEFLQYFRGKIPRTIKLQLRDGCTYDVQVTKNLGKISLQSGW 791

Query: 82   NEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKS 141
              FV  H + +G F+VF Y   SK +V +F         PS                   
Sbjct: 792  KAFVTAHDLQMGDFLVFSYDGISKLKVLIFG--------PS------------------- 824

Query: 142  KNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETD 201
              GC         E++     L N                + H      E   +S    D
Sbjct: 825  --GC---------EKVHSRSTLKN----------------ATHCGEKWEEPLHISSNSHD 857

Query: 202  LKIDSTK-FKKAKHNLKYELRADSVDQIKSIAL----LEDMDTYDC----ESRMTLEEKQ 252
            L + S +   K++       + +    I+ +AL    L+     +C     +R+T  +KQ
Sbjct: 858  LPVKSPQNVSKSEKQWDSSEQENDTANIEEVALQGDDLQGHPVLNCILPKHTRLTDMQKQ 917

Query: 253  EAINVARFLKPEKPSFLVFLRASNMQ--LNCVYVPNSFARKYFNGEECVTIQDSDGRKLA 310
            +  +    +  E P +   LR S +      V +   +A  Y   +E        G+   
Sbjct: 918  QLESKVGAIHSEIPIYGCILRKSRVHGKSQTVDICREYADVYLPFKELNMTLQRHGKNWE 977

Query: 311  V--KVKVSCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSV 356
            V  + K + +K L T W +F ++ N++ GDI  FE+++ K   + V +
Sbjct: 978  VLCRTKDTRTKRLSTGWSRFAQENNLQVGDICLFELLKKKEYSMNVHI 1025

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6AV22|Y3196_ORYSJ B3 domain-containing protein Os03g0619600 OS=Oryza sativa subsp. japonica GN=Os03g0619600 PE=2 SV=1

 Score = 57.4 bits (137), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 73/316 (23%), Positives = 126/316 (39%), Gaps = 46/316 (14%)

Query: 34  KKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVG 93
           + M +P  FV  FG + S    L +P G +  + +TK + K     GW  FV  H I   
Sbjct: 39  RSMIMPCKFVNHFGGDFSGTIKLQSPNGILYVVEVTKCKNKTVLRCGWEAFVDAHHIEEN 98

Query: 94  YFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQSKTYR 153
             ++F+  +NS+F+V +F++   E  +    +     +N       KS + C   +++  
Sbjct: 99  DSLLFRCVENSRFEVLIFDSDDCEKVFSCAGI-----RNTCKSIQEKSSSSCDDTAESSE 153

Query: 154 MEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAK 213
            E    N +      S      T+N   S       S ++  SV+  DL+     +  ++
Sbjct: 154 SEGFARNQK-----GSFSHRRKTANLASSSEDSGEDSPSEHESVESGDLETSQEPYVLSR 208

Query: 214 HNLKYELRADSVDQIKSIALLEDMDTYDCESRMTLEEKQEAINVARFLKPEKPSFLVFLR 273
            +   E + + VD     AL+++                        ++PE  +F+  +R
Sbjct: 209 RSYLSEFQKEKVD-----ALIQE------------------------IQPETTAFVAIMR 239

Query: 274 ASNMQLNCVYVPNSF--ARKYFNGEEC-VTIQDSDGRK----LAVKVKVSCSKCLLTRWG 326
            SN+QL   ++  SF  A  +F  +   VT+Q     K       K K +    L   W 
Sbjct: 240 KSNVQLPTPFLVISFCYAEVHFPHKSVTVTLQRPCKSKKWHPRFYKRKDARMNILRGSWV 299

Query: 327 KFFKKTNVKEGDILFF 342
           +F K   V+E DI  F
Sbjct: 300 EFVKDNRVQEQDICVF 315

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 55.5 bits (132), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 85/382 (22%), Positives = 145/382 (37%), Gaps = 68/382 (17%)

Query: 22  FFQVILAVTIEDKKMKIPQNFVGRFG----------DELSYVATLTNPKGYVVRIGITKK 71
           FF+V+  V    +++KIP NF                E S  ATL  P G    + I + 
Sbjct: 21  FFKVL--VGDFKQRLKIPPNFCKHIPWEESRKAKGLKEASMAATLEGPSGRTWLVVIRRT 78

Query: 72  EGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFE-------------- 117
               +F  GW +FVQ  ++    FVVF+Y  N++F   VF+ T  E              
Sbjct: 79  AEGTFFTSGWPKFVQDQALRELEFVVFRYDGNTRFTAMVFDRTACEREDLMGGGGGDRPR 138

Query: 118 -------IQYPSRNMFPPSR----QNQATVNSSKSKNGCKMQ----SKTYRMEELEVNDE 162
                      SR+   P +    +   T  +S S  G  +Q    S T       V +E
Sbjct: 139 KKRGRPRTAAASRDAARPKKDSVGKEMVTYRASPS-GGQPLQIVDSSWTPEPGSTAVKNE 197

Query: 163 LDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNLKYELRA 222
            D     + ++  +S S        H+ E   L       +  + K +  + +L      
Sbjct: 198 EDADELPVCELPASSASP-----PRHVPEG-ALDADGGAARRGAAKTRSLQDDLALASIP 251

Query: 223 DSVDQIKSIALLEDMDTYDCESR-MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNC 281
            S+ + K          Y    R +   E+Q A  +A   +   P     +R S M +  
Sbjct: 252 PSIRRYKG---------YVSRRRAVATAERQRATEIAHAFR--SPLPYCVIRMSTMHVYY 300

Query: 282 VYV---PNSFARKYFNGEEC-VTIQDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKE 336
            ++   P  F+R++   E   V ++D  G+  +V + +  ++  L+R W  F +   ++E
Sbjct: 301 SFMMRFPTGFSRQHLPRERTDVVLRDPGGKVWSV-LYIPNTRDRLSRGWCAFARGNCLEE 359

Query: 337 GDILFFEMIQMKNILLKVSVFN 358
           GD   FE++       +V +F 
Sbjct: 360 GDYCVFELVAAAE--FRVHIFR 379

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	359
297741372	355	unnamed protein product [Vitis vinifera]	0.894	0.904	0.337	2e-44
225428645	407	PREDICTED: B3 domain-containing transcri	0.958	0.845	0.322	1e-43
449471266	412	PREDICTED: B3 domain-containing transcri	0.891	0.776	0.307	4e-40
255556211	591	sulfotransferase, putative [Ricinus comm	0.869	0.527	0.313	3e-39
147855058	563	hypothetical protein VITISV_027620 [Viti	0.880	0.561	0.324	1e-38
449455216	415	PREDICTED: B3 domain-containing transcri	0.869	0.751	0.308	1e-38
224123414	321	predicted protein [Populus trichocarpa]	0.810	0.906	0.308	2e-37
224109350	341	predicted protein [Populus trichocarpa]	0.874	0.920	0.301	2e-37
147855057	641	hypothetical protein VITISV_027619 [Viti	0.824	0.461	0.309	7e-37
255556221	333	DNA binding protein, putative [Ricinus c	0.824	0.888	0.307	4e-36

>gi|297741372|emb|CBI32503.3| unnamed protein product [Vitis vinifera]

 Score =  186 bits (471), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 120/356 (33%), Positives = 203/356 (57%), Gaps = 35/356 (9%)

Query: 10  KMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGIT 69
           +  SS    + LF+++I++  ++ K+++IPQ FV + GD+LS V TLT P G V  +G+T
Sbjct: 13  RRPSSQPTRSLLFYKLIVSSVLQAKRLRIPQKFVKKSGDQLSAVTTLTLPNGGVWYVGLT 72

Query: 70  KKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPS 129
           K + K WF  GW+EFV+Y+SI VGYF++F+Y  NS F V +F+ T  EI YPS N+    
Sbjct: 73  KADNKFWFYHGWHEFVEYYSIHVGYFLIFRYEGNSNFNVNIFDLTASEINYPSNNL---- 128

Query: 130 RQNQATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHL 189
                  NS K+ +G +  +     +  E+ND+ D+V     +I+G++ S  S+ +KV  
Sbjct: 129 ------RNSEKTSHGKQCPAS----DGEEMNDDDDSV-----EILGSA-SPVSLRSKVF- 171

Query: 190 SETQCLSVQETDLKI-DSTKFKKAKHNLKYELRA--DSVDQIKSIALLEDMDTYDCESR- 245
              +C+  Q       ++    K  ++L+  +R+  D   Q  S     ++   +C+   
Sbjct: 172 --DECIDQQPLGKNYNENLHLAKDANSLQVTIRSSRDIGIQFNS----SELTNSECKRWR 225

Query: 246 -MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLN-CVYVPNSFARKYFNG-EECVTIQ 302
            +T+EEK+ A++ A   +P  P   V LR S +     +++P+ FA KY NG  + + +Q
Sbjct: 226 VVTMEEKKRALHAAEMFQPSNPFCRVILRRSYVHERFLLHMPSRFAEKYLNGVSKFIKLQ 285

Query: 303 DSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
            SDG++  V+     S+  L++ W +F K  N++EGD+  FE+I M++++LKVS+F
Sbjct: 286 TSDGKQWHVRCLSGESRVKLSKGWTEFVKDNNLEEGDVCVFELINMEDVVLKVSIF 341

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225428645|ref|XP_002281517.1| PREDICTED: B3 domain-containing transcription factor VRN1-like [Vitis vinifera]

 Score =  183 bits (464), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 124/385 (32%), Positives = 203/385 (52%), Gaps = 41/385 (10%)

Query: 10  KMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGIT 69
           +  SS    + LF+++I++  ++ K+++IPQ FV + GD+LS V TLT P G V  +G+T
Sbjct: 13  RRPSSQPTRSLLFYKLIVSSVLQAKRLRIPQKFVKKSGDQLSAVTTLTLPNGGVWYVGLT 72

Query: 70  KKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPS 129
           K + K WF  GW+EFV+Y+SI VGYF++F+Y  NS F V +F+ T  EI YPS N+    
Sbjct: 73  KADNKFWFYHGWHEFVEYYSIHVGYFLIFRYEGNSNFNVNIFDLTASEINYPSNNL---- 128

Query: 130 RQNQATVNSSK--SKNGCKMQSKTYRMEEL------------------------EVNDEL 163
           R ++ T +  +  + +G +M      +E L                          N+ L
Sbjct: 129 RNSEKTSHGKQCPASDGEEMNDDDDSVEILGSASPVSLRSKVFDECIDQQPLGKNYNENL 188

Query: 164 DNVND--SIQDIIGTSNSEGSVHAKVHLSETQC----LSVQETDLKIDSTKFKKAKHNLK 217
               D  S+Q  I +S   G       L+ ++C    L + E + K   TK K+ ++   
Sbjct: 189 HLAKDANSLQVTIRSSRDIGIQFNSSELTNSECKVGLLRLDEANGKTYRTKAKRKRNEPD 248

Query: 218 Y-ELRADSVDQIKSIALLEDMDTYDCESRM-TLEEKQEAINVARFLKPEKPSFLVFLRAS 275
             E  A   D+++   L    +T     R+ T+EEK+ A++ A   +P  P   V LR S
Sbjct: 249 ANESPAKHKDEVEMPDLKTSAETSKQRWRVVTMEEKKRALHAAEMFQPSNPFCRVILRRS 308

Query: 276 NMQLN-CVYVPNSFARKYFNG-EECVTIQDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKT 332
            +     +++P+ FA KY NG  + + +Q SDG++  V+     S+  L++ W +F K  
Sbjct: 309 YVHERFLLHMPSRFAEKYLNGVSKFIKLQTSDGKQWHVRCLSGESRVKLSKGWTEFVKDN 368

Query: 333 NVKEGDILFFEMIQMKNILLKVSVF 357
           N++EGD+  FE+I M++++LKVS+F
Sbjct: 369 NLEEGDVCVFELINMEDVVLKVSIF 393

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  171 bits (433), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 115/374 (30%), Positives = 196/374 (52%), Gaps = 54/374 (14%)

Query: 22  FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGW 81
           F +++L  TI+ +K++IP+ FV    DELS VATLT P G+V R+G+ K + K WF+DGW
Sbjct: 21  FHKLVLTSTIQARKLRIPETFVRMIRDELSAVATLTVPDGHVWRVGLRKADNKFWFEDGW 80

Query: 82  NEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKS 141
             F++++SI VGY +VF+Y  NS F VF+FN  T EI Y            Q+   S+  
Sbjct: 81  QGFLEHYSIRVGYLLVFRYEGNSSFCVFIFNLNTSEINY------------QSAALSNNQ 128

Query: 142 KNGCKMQSKTY-RMEELEVNDELDNVNDSIQD------IIGTSNSEGSVHAKVHLSETQC 194
           +N   +Q++ +  ME+ ++ + + + N S+        + G    E ++H     S  Q 
Sbjct: 129 RNNYSIQNRIFEEMEDYDIPEAIPS-NQSMNSGSLRNKLFG---DEWNLHQSKSASTLQA 184

Query: 195 --LSVQETDLKIDSTKFKKAKHNLKYE-LRADSVDQIK----------------SIALLE 235
             LS ++  ++  + + KK+   ++++ L  D+  ++K                S    E
Sbjct: 185 EYLSTRDIGVQFSAVEVKKSADEVRFQNLGDDAAHRVKKSGSKKRKIESSEHHPSAHNSE 244

Query: 236 DMDT-----YDCESR----MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVP 285
           D+       Y+  S     +T EE++ AIN A+  +P  P   V LR S +   C+ Y+P
Sbjct: 245 DLGDIRFRFYESASARKRTVTAEERERAINSAKAFEPGNPFCRVVLRPSYLYRGCIMYLP 304

Query: 286 NSFARKYFNG-EECVTIQDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFE 343
           + FA K  +G    + +Q  DGR+  V+      +  L++ W +F  + N+ EGD+  FE
Sbjct: 305 SCFAEKNLSGVSGFIKLQTPDGRQWPVRCLYKVGRAKLSQGWYEFCLENNLGEGDVCVFE 364

Query: 344 MIQMKNILLKVSVF 357
           +++M+ I+LKV++F
Sbjct: 365 LLRMREIVLKVTMF 378

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255556211|ref|XP_002519140.1| sulfotransferase, putative [Ricinus communis] gi|223541803|gb|EEF43351.1| sulfotransferase, putative [Ricinus communis]

 Score =  168 bits (426), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 115/367 (31%), Positives = 178/367 (48%), Gaps = 55/367 (14%)

Query: 12  ASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKK 71
           ++S  +TN +F+++I+A  + DKK++IP+ FV ++ DELS +ATLT P G +  + + K 
Sbjct: 11  SNSPARTNCMFYKLIVASILHDKKLRIPEKFVKKYRDELSCIATLTVPNGRIWVVELEKV 70

Query: 72  EGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQ 131
             K+WF  GW+EFV+Y+SI VGYF+VF+Y   S F+V +F+ T  EI+YP  N  P S Q
Sbjct: 71  NKKLWFCSGWHEFVEYYSIRVGYFLVFRYEGESNFRVCIFDLTVSEIRYPG-NCVPASSQ 129

Query: 132 NQATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSE 191
                      N C +  K +             V +    I+G+ N   +         
Sbjct: 130 VPC------HDNPCHVAHKKHV------------VTNGPTGILGSGNPSHT--------- 162

Query: 192 TQCLSVQETDLKIDSTKFKKAKHNLKYEL-------RADSVDQIKSIALLEDMDTYD--- 241
               +     +  D     K      YE        R D+ D       L  MD      
Sbjct: 163 ----TAPSRSMLFDKFVHSKWTVTGNYEASREMLLSRKDAYDSQDIDVQLNGMDKRSPSM 218

Query: 242 ---CES------RMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLN-CVYVPNSFARK 291
              CE+       +T EEKQ  I  A   KP+ P F V LR S +     +++P+SFA++
Sbjct: 219 KIACEALTRRWRAVTPEEKQRTICAAHTFKPDNPFFRVILRPSYVYRGFLLHIPSSFAQR 278

Query: 292 YFNGEECVTIQDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNI 350
           Y     C+T+Q S+G++  V+         L++ W +F    N++EGD+  FE+I M   
Sbjct: 279 YLTTTGCMTLQVSEGKQWPVRCVCRNRGAKLSKGWTEFAWDNNLEEGDVCVFELINMN-- 336

Query: 351 LLKVSVF 357
           +LKV++F
Sbjct: 337 VLKVTIF 343

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147855058|emb|CAN82369.1| hypothetical protein VITISV_027620 [Vitis vinifera]

 Score =  166 bits (421), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 116/357 (32%), Positives = 184/357 (51%), Gaps = 41/357 (11%)

Query: 38  IPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVV 97
           IPQ FV + GD+LS V TLT P G V  +G+TK + K WF  GW+EFV+Y+SI VGYF++
Sbjct: 197 IPQKFVKKSGDQLSAVTTLTLPNGGVWYVGLTKADNKFWFYHGWHEFVEYYSIHVGYFLI 256

Query: 98  FQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSK--SKNGCKMQSKTYRME 155
           F+Y  NS F   +F+ T  EI YPS N+    R ++ T +  +  + +G +M      +E
Sbjct: 257 FRYEGNSNFNXNIFDLTASEINYPSNNL----RNSEKTSHGKQCPASDGEEMNDDDDSVE 312

Query: 156 EL------------------------EVNDELDNVNDS--IQDIIGTSNSEGSVHAKVHL 189
            L                          N+ L    D+  +Q  I +S   G       L
Sbjct: 313 ILGSASPVSLSSKVFDECIDQQPLGKNYNENLHLAKDANNLQVTIRSSRDIGIQFNSSEL 372

Query: 190 SETQC----LSVQETDLKIDSTKFKKAKHNLKY-ELRADSVDQIKSIALLEDMDTYDCES 244
           + ++C    L + E + K   TK K+ ++     E  A   D+++   L    +T     
Sbjct: 373 TNSECKVGLLRLDEANGKTYRTKAKRKRNEPDANESPAKHKDEVEMPDLKTSAETSKQRW 432

Query: 245 RM-TLEEKQEAINVARFLKPEKPSFLVFLRASNMQLN-CVYVPNSFARKYFNG-EECVTI 301
           R+ T+EEK+ A++ A   +P  P   V LR S +     +++P+ FA KY NG  + + +
Sbjct: 433 RVVTMEEKKRALHAAEMFQPSNPFCRVILRRSYVHERFLLHMPSRFAEKYLNGVSKFIKL 492

Query: 302 QDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
           Q SDG++  V+     S+  L++ W +F K  N++EGD+  FE+I M++++LKVS+F
Sbjct: 493 QTSDGKQWHVRCLSGESRVKLSKGWTEFVKDNNLEEGDVCVFELINMEDVVLKVSIF 549

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  166 bits (420), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 113/366 (30%), Positives = 191/366 (52%), Gaps = 54/366 (14%)

Query: 30  TIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHS 89
           TI+ +K++IP+ FV    DELS VATLT P G+V R+G+ K + K WF+DGW  F++++S
Sbjct: 32  TIQARKLRIPETFVRMIRDELSAVATLTVPDGHVWRVGLRKADNKFWFEDGWQGFLEHYS 91

Query: 90  IGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQS 149
           I VGY +VF+Y  NS F VF+FN  T EI Y            Q+   S+  +N   +Q+
Sbjct: 92  IRVGYLLVFRYEGNSSFCVFIFNLNTSEINY------------QSAALSNNQRNNYSIQN 139

Query: 150 KTY-RMEELEVNDELDNVNDSIQD------IIGTSNSEGSVHAKVHLSETQC--LSVQET 200
           + +  ME+ ++ + + + N S+        + G    E ++H     S  Q   LS ++ 
Sbjct: 140 RIFEEMEDYDIPEAIPS-NQSMNSGSLRNKLFG---DEWNLHQSKSASTLQAEYLSTRDI 195

Query: 201 DLKIDSTKFKKAKHNLKYE-LRADSVDQIK----------------SIALLEDMDT---- 239
            ++  + + KK+   ++++ L  D+  ++K                S    ED+      
Sbjct: 196 GVQFSAVEVKKSADEVRFQNLGDDAAHRVKKSGSKKRKIESSEHHPSAHNSEDLGDIRFR 255

Query: 240 -YDCESR----MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYF 293
            Y+  S     +T EE++ AIN A+  +P  P   V LR S +   C+ Y+P+ FA K  
Sbjct: 256 FYESASARKRTVTAEERERAINSAKAFEPGNPFCRVVLRPSYLYRGCIMYLPSCFAEKNL 315

Query: 294 NG-EECVTIQDSDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNIL 351
           +G    + +Q  DGR+  V+      +  L++ W +F  + N+ EGD+  FE+++M+ I+
Sbjct: 316 SGVSGFIKLQTPDGRQWPVRCLYKVGRAKLSQGWYEFCLENNLGEGDVCVFELLRMREIV 375

Query: 352 LKVSVF 357
           LKV++F
Sbjct: 376 LKVTMF 381

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224123414|ref|XP_002330309.1| predicted protein [Populus trichocarpa] gi|222871344|gb|EEF08475.1| predicted protein [Populus trichocarpa]

 Score =  162 bits (411), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 109/353 (30%), Positives = 174/353 (49%), Gaps = 62/353 (17%)

Query: 21  LFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDG 80
           +F+++++A  ++DKK+KIP+ FV ++GDELS VATLT P G +  + + K  GK+WF  G
Sbjct: 1   MFYKLMVASILQDKKLKIPKKFVNKYGDELSSVATLTVPCGRICLVELQKVNGKLWFHKG 60

Query: 81  WNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSK 140
           W+EFV+ +SI VGYF+VF Y   S F V +F+ T  EI+ P  ++        + +  S 
Sbjct: 61  WHEFVECYSIRVGYFLVFIYEGKSNFNVHMFDLTVSEIKNPCNSL--------SQLQESS 112

Query: 141 SKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSV--------HAKVHLSET 192
             N C + ++                +D ++ +  T +  GSV          +  +SE 
Sbjct: 113 HDNPCLLPNEK---------------DDGLEKLTSTEDGAGSVIPGITRKTRGRKRMSEN 157

Query: 193 -----QCLSVQETDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMT 247
                +  S    ++K+ ST  +     L    RA                       +T
Sbjct: 158 IEDVDKHASPGIQNVKLKSTHVRNTSETLTRRRRA-----------------------VT 194

Query: 248 LEEKQEAINVARFLKPEKPSFLVFLRASNMQLN-CVYVPNSFARKYFNG-EECVTIQDSD 305
            EEK+  I  A   + + P F V LR S +     +++P+SFAR + N     VT+Q SD
Sbjct: 195 PEEKERTIRAAHMFRSDNPFFRVILRPSYVYRGFLLHIPSSFARTFLNTVTGFVTLQVSD 254

Query: 306 GRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
           G++  V+      K  L + W +F  + N++EGD+  FE+I  K I+LKV+VF
Sbjct: 255 GKQWPVRCSFKDGKAKLGQGWTEFVWENNLEEGDVCIFELIHAKEIVLKVAVF 307

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224109350|ref|XP_002315168.1| predicted protein [Populus trichocarpa] gi|222864208|gb|EEF01339.1| predicted protein [Populus trichocarpa]

 Score =  162 bits (410), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 102/338 (30%), Positives = 177/338 (52%), Gaps = 24/338 (7%)

Query: 37  KIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFV 96
           +IP+ FV +FG+ LS +A +  P G   ++GITK+   IWFD+GW EFV++HSIG GY V
Sbjct: 3   RIPRKFVEKFGEGLSDIAKVAVPNGNEWQVGITKEHNNIWFDEGWQEFVEHHSIGSGYLV 62

Query: 97  VFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKSKNGCKMQSKTYRMEE 156
           VF+YR +S F V +F+ T  EIQY  R M P   +    +N ++    C    +    +E
Sbjct: 63  VFRYRGDSNFSVLIFDMTACEIQY--RRMRPTGGEG---MNDAEK---CSFYDEDEMKDE 114

Query: 157 LEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQETDLKIDSTKFKKAKHNL 216
             V     +   +++  +   N+     +K     ++     E     D+++ ++ K   
Sbjct: 115 GSVESLDTHYCRALKSRVFNLNAREGGSSKGRGPSSETTVKNEMTYIDDTSESRRGKSLK 174

Query: 217 KYELRADSVDQIKSIA-----LLEDMDTYDCES--------RMTLEEKQEAINVARFLKP 263
           K+ + A   +     +     L E+    +CE+            E+ + AI+ AR  KP
Sbjct: 175 KHRMSAPHGETKAKKSKSKSRLGENELLPECEAIEFVPRGFAKASEKSKRAIHAARMFKP 234

Query: 264 EKPSFLVFLRASNMQLNCVYVPNSFARKYF-NGEECVTIQDSDGRKLAVKV-KVSCSKCL 321
           + PSF+V LR  N   + +YVP  FA+++  +   C+ +Q SDGR+  +++ +  C    
Sbjct: 235 KSPSFMVMLRRYNFYNHFLYVPLEFAQRHLSDAPRCIKLQVSDGREWPIQINRNQCRYLS 294

Query: 322 LTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFN 358
           +++ W +F ++ N+KEGD+  FE+I  +  +LKV++F+
Sbjct: 295 ISKGWNEFSQENNLKEGDVCVFELINKEKFVLKVAIFH 332

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147855057|emb|CAN82368.1| hypothetical protein VITISV_027619 [Vitis vinifera]

 Score =  160 bits (406), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 106/342 (30%), Positives = 167/342 (48%), Gaps = 46/342 (13%)

Query: 22  FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITK-KEGKIWFDDG 80
           FF+++L     D K+KIP  FV  F DEL+  ATLT P G V  + + K  +   W  DG
Sbjct: 13  FFKIVLPSNANDTKLKIPPKFVNIFRDELTASATLTTPMGQVWPVRLEKASDNSCWICDG 72

Query: 81  WNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSK 140
           W EF ++HSIG GYF+VF Y   S F+V VF+ T  EI+YP + +         +    K
Sbjct: 73  WQEFAEHHSIGCGYFLVFGYEGVSNFRVSVFDLTACEIRYPCQQIHRRGSNPLGSKKHKK 132

Query: 141 SKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQET 200
           +K+GC   SK  ++E+   +  +D++N S   I    NS G                   
Sbjct: 133 TKHGCFRGSKKCKIEDHVESTRVDHLNPSSSRIF---NSHG------------------- 170

Query: 201 DLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDTYDCESRMTL-------EEKQE 253
            L +   K K   HN     + D  D     +L+++       +R  L       + ++ 
Sbjct: 171 -LSLGKAKAKYRNHN-----QTDCED-----SLIKNRKEAKTNARTLLPKRCGRTKSRER 219

Query: 254 AINVARFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTIQDSDGRKLAVKV 313
            I+ AR LKP  PSF + ++    +L  +YVP  F RKY    + + ++DS GR+  +  
Sbjct: 220 IIHAARMLKPANPSFTIIMKPYKNRL--LYVPTEFGRKYLK-RKSIKLEDSTGRQWLLSC 276

Query: 314 KVSCSKC--LLTRWGKFFKKTNVKEGDILFFEMIQMKNILLK 353
             +  +   L   W +F ++ N+KEGD+  FE++Q ++++LK
Sbjct: 277 LFNGGRNIRLSKGWNEFVEEKNLKEGDVCVFELVQREDVVLK 318

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  158 bits (399), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 107/348 (30%), Positives = 180/348 (51%), Gaps = 52/348 (14%)

Query: 22  FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGW 81
           F ++IL+ +I+DKK++IP NFV +FG++LS    L+ P G V  +G+ K + K WF +GW
Sbjct: 6   FHKLILSNSIKDKKLRIPDNFVKKFGNDLSAFGRLSVPGGPVWPVGLIKADDKFWFREGW 65

Query: 82  NEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKS 141
            EF++ +SI VGYF+VF+Y  +S F V +FN +  EI Y S N                 
Sbjct: 66  QEFMERYSIRVGYFLVFRYEGHSVFTVHIFNLSASEINYQSNN----------------- 108

Query: 142 KNGCKMQSKTYRM-EELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCLSVQET 200
                   + Y + E++E +D +++++ S   ++  S  +  V      +E Q       
Sbjct: 109 -----TAGRRYLLFEDMEDDDFVEHLSSSSPCLVPNS-LKSDVRYYTPDAEAQ------- 155

Query: 201 DLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLEDMDT----YDCESR----MTLEEKQ 252
                     K K   + +L+ D   Q  S    +++D     Y+  S     +T EE++
Sbjct: 156 ----------KPKKRGRKKLKVDPNQQQPSAQQEDEVDMRFRFYESASARKRTVTAEERE 205

Query: 253 EAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYFNG-EECVTIQDSDGRKLA 310
            AIN A+  +P  P   V LR S +   C+ Y+P+ FA K+ NG    + +Q SDG++  
Sbjct: 206 RAINTAKTFEPMNPFCRVVLRPSYLYRGCIMYLPSCFAEKHLNGVSGFIKLQSSDGKQWP 265

Query: 311 VKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
           V+      +  L++ W +F  + N+ EGD+  FE+++ ++I+LKV+VF
Sbjct: 266 VRCLYRGGRAKLSQGWYEFTLENNMGEGDVCVFELLKSRDIVLKVTVF 313

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	359
TAIR|locus:2085849	341	VRN1 "REDUCED VERNALIZATION RE	0.880	0.926	0.302	5.7e-36
TAIR|locus:2085859	209	AT3G18960 [Arabidopsis thalian	0.314	0.540	0.418	3.9e-24
TAIR|locus:2133362	190	AT4G01580 [Arabidopsis thalian	0.314	0.594	0.418	2.4e-21
TAIR|locus:504956318	190	AT1G49475 [Arabidopsis thalian	0.320	0.605	0.383	5e-18
TAIR|locus:2010262	226	RTV1 "AT1G49480" [Arabidopsis	0.309	0.491	0.295	3.8e-11
TAIR|locus:2124879	352	AT4G31640 [Arabidopsis thalian	0.392	0.400	0.278	2.5e-06
TAIR|locus:2052991	291	AT2G16210 [Arabidopsis thalian	0.314	0.388	0.266	7.8e-06
TAIR|locus:2161533	307	VDD "VERDANDI" [Arabidopsis th	0.504	0.589	0.237	9.3e-06
TAIR|locus:2063434	288	AT2G35310 [Arabidopsis thalian	0.481	0.600	0.264	9.8e-06
TAIR|locus:2172319	301	AT5G18090 [Arabidopsis thalian	0.518	0.617	0.205	2e-05

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

 Score = 388 (141.6 bits), Expect = 5.7e-36, P = 5.7e-36
 Identities = 106/350 (30%), Positives = 183/350 (52%)

Query:    22 FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGW 81
             F ++I + TI++K++++P  FV +F DELS    LT P G+V R+G+ K + KIWF DGW
Sbjct:     6 FHKLIFSSTIQEKRLRVPDKFVSKFKDELSVAVALTVPDGHVWRVGLRKADNKIWFQDGW 65

Query:    82 NEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQATVNSSKS 141
              EFV  +SI +GY ++F+Y  NS F V++FN +  EI Y S  +   +       N  K 
Sbjct:    66 QEFVDRYSIRIGYLLIFRYEGNSAFSVYIFNLSHSEINYHSTGLMDSAH------NHFK- 118

Query:   142 KNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHA-KVHLSET-QCLSVQE 199
                   +++ +  E+LE +++ + +  S   +  +   E +V A K + S   Q L    
Sbjct:   119 ------RARLF--EDLE-DEDAEVIFPS--SVYPSPLPESTVPANKGYASSAIQTLFTGP 167

Query:   200 TDLKIDSTKFKKAKHNLKYELRADSVDQIKSIALLED-----MDTYDCESR----MTLEE 250
                +  +   K  K   + +  AD  ++I S A  +D        Y+  S     +T EE
Sbjct:   168 VKAEEPTPTPKIPKKRGRKKKNADP-EEINSSAPRDDDPENRSKFYESASARKRTVTAEE 226

Query:   251 KQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYFNG-EECVTIQDSDGRK 308
             ++ AIN A+  +P  P F V LR S +   C+ Y+P+ FA KY +G    + +Q ++ ++
Sbjct:   227 RERAINAAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKVQLAE-KQ 285

Query:   309 LAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
               V+      +   ++ W +F  + N+ EGD+  FE+++ ++ +LKV+ F
Sbjct:   286 WPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAF 335

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:2085859 AT3G18960 [Arabidopsis thaliana (taxid:3702)]

 Score = 249 (92.7 bits), Expect = 3.9e-24, Sum P(2) = 3.9e-24
 Identities = 49/117 (41%), Positives = 75/117 (64%)

Query:     5 RRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVV 64
             RR++    S +KK    FF+++L  T++DK MKIP  FV   G +LS V TL  P G+  
Sbjct:    17 RRSQQDPESPVKK----FFKLVLPSTMKDKMMKIPPRFVKLQGSKLSEVVTLETPAGFKR 72

Query:    65 RIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP 121
              I + +   +IWF +GW+EF + HSI  G+F++F+Y++NS F+V +FN +  E +YP
Sbjct:    73 SIKLKRIGEEIWFHEGWSEFAEAHSIEEGHFLLFEYKENSSFRVIIFNVSACETKYP 129

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:2133362 AT4G01580 [Arabidopsis thaliana (taxid:3702)]

 Score = 250 (93.1 bits), Expect = 2.4e-21, P = 2.4e-21
 Identities = 49/117 (41%), Positives = 74/117 (63%)

Query:     5 RRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVV 64
             R+++    S +KK    FF+++L  T++DK M+IP  FV   G +LS V TL  P GY  
Sbjct:    17 RQSQQDPESPVKK----FFKLVLPSTMKDKMMRIPPRFVKLQGSKLSEVVTLVTPAGYKR 72

Query:    65 RIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP 121
              I + +   +IWF +GW+EF + HSI  G+F++F+Y+KNS F+V +FN +  E  YP
Sbjct:    73 SIKLKRIGEEIWFHEGWSEFAEAHSIEEGHFLLFEYKKNSSFRVIIFNASACETNYP 129

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 = 221 (82.9 bits), Expect = 5.0e-18, P = 5.0e-18
 Identities = 46/120 (38%), Positives = 73/120 (60%)

Query:     2 AFRRRAEPKMASSMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKG 61
             A +RR +P+   ++KK    F ++IL   I +K MK+P  FV RFG +L+   TL  P G
Sbjct:    18 ATQRRLKPEPEPTVKK----FIKIILLSRIIEKMMKVPARFV-RFGPKLTDNVTLQTPVG 72

Query:    62 YVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP 121
             +   I I +   ++WF+ GW+EF + HS+  G+F+ F Y  +S F+V +F+ +  EI+YP
Sbjct:    73 FKRSIRIKRIGDEVWFEKGWSEFAEAHSLSDGHFLFFHYEGDSCFRVVIFDVSASEIEYP 132

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

 Score = 164 (62.8 bits), Expect = 3.8e-11, P = 3.8e-11
 Identities = 34/115 (29%), Positives = 66/115 (57%)

Query:   246 MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYFNG-EECVTIQD 303
             +T EE++ A+N A+  +P  P F V LR S +   C+ Y+P+ FA KY +G    + +Q 
Sbjct:   107 VTAEERERAVNAAKTFEPTNPYFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKLQL 166

Query:   304 SDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
              + ++  V+      +   ++ W +F  + N+ EGD+  FE+++ ++ +L+V+ F
Sbjct:   167 GE-KQWPVRCLYKAGRAKFSQGWYEFTLENNIGEGDVCVFELLRTRDFVLEVTAF 220

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:2124879 AT4G31640 [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 2.5e-06, Sum P(2) = 2.5e-06
 Identities = 42/151 (27%), Positives = 67/151 (44%)

Query:    22 FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVR-IGITKKEGKIWFDDG 80
             FFQ IL        +KIP  F  +   E  +       + Y  R     K EG     +G
Sbjct:    14 FFQPILPGF--KSHIKIPVKFFSKH-IEGKHEGNTVYLRSYPSRRTWKVKMEGHK-LTEG 69

Query:    81 WNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQY-PSRNMFPPSRQNQATVNSS 139
             W EFV+ H + VG FVVF+++ +  F V     +  E+QY PSR+     R  ++     
Sbjct:    70 WKEFVEAHDLRVGDFVVFKHKGDMLFHVTAIGPSCCEVQYAPSRSH---DRNEESDEIGE 126

Query:   140 KSKNGCKMQSKTYRMEELEVNDELDNVNDSI 170
              S+N  K+  +  + E  + + +L   + S+
Sbjct:   127 SSRNE-KIIEENVKTEPDQFSPDLTCFSQSV 156

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:2052991 AT2G16210 [Arabidopsis thaliana (taxid:3702)]

 Score = 111 (44.1 bits), Expect = 7.8e-06, Sum P(2) = 7.8e-06
 Identities = 32/120 (26%), Positives = 59/120 (49%)

Query:    16 KKTNSLFFQVILAVTIE-DKKMKIPQNFVGRFGD-ELSYVATLTNPKGYVVRIGITKKEG 73
             ++ N  FF+V+ ++ +  + K  +P +F   F D ELS    +    G    +GI+K   
Sbjct:    13 ERKNESFFKVVQSINVSSENKRALPHDFSRSFTDKELSRKMKIRAQWGNSWEVGISKNP- 71

Query:    74 KIWFDD--GWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYP--SRNMFPPS 129
             + +F +  GW +FV+ +++G    + F ++    F V +F     E+  P  SR+ F  S
Sbjct:    72 RFYFMEKSGWEKFVRDNALGNSELLTFTHKGKMHFTVNIFKLDGKEMMQPPQSRSFFASS 131

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

 Score = 120 (47.3 bits), Expect = 9.3e-06, Sum P(2) = 9.3e-06
 Identities = 48/202 (23%), Positives = 89/202 (44%)

Query:    16 KKTNSLFFQVILAVTIEDKKMK-IPQNFVGRFGDELS-YVATLTNPKGYVVRIGITKKEG 73
             ++ N  FF+++       + M+ IP + +    D+ S +   L  P G   ++ I+K   
Sbjct:    14 ERDNPAFFKILRREDHSTEMMRMIPHHLIRSISDKSSSFKMVLRVPWGRSWQVKISKNPN 73

Query:    74 KIWFDD-GWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQN 132
               + +D GWN+FV  + +G   ++ F +  N       FN T FE       M  P +  
Sbjct:    74 FHYMEDRGWNQFVNDNGLGENEYLTFTHEAN-----MCFNVTIFEAD--GTEMLRPRK-- 124

Query:   133 QATVNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNS-EGSVHAKVHLSE 191
               T+ SS  +N  + +   Y+  +++  +E+++ ++S      T+ S  G +  K  L+ 
Sbjct:   125 --TITSSSGRNKREERKSIYK--DVKKEEEIESWSESSHPCHKTAESTSGRLTQKQELN- 179

Query:   192 TQCLSVQETDLKIDSTKFKKAK 213
                L  +E D    S   KK K
Sbjct:   180 ---LRKKEADKTEKSKTSKKKK 198

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:2063434 AT2G35310 [Arabidopsis thaliana (taxid:3702)]

 Score = 129 (50.5 bits), Expect = 9.8e-06, P = 9.8e-06
 Identities = 51/193 (26%), Positives = 90/193 (46%)

Query:     5 RRAEPKMASSMKKTNSLFFQVILAVTIEDKKMK-IPQNFVGRFGD-ELSYVATLTNPKGY 62
             R ++  M    +K  S FF+V+  V I  + M+ +P +FV  F + ELS    +    G 
Sbjct:     3 RNSDNDMCKEERKRES-FFKVLQRVDISSENMRALPYDFVRSFSNNELSRKMKIKARWGS 61

Query:    63 VVRIGITKKEGKIWFDD--GWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQY 120
                + I K   + +F +  GW +FV  +++G   F+ F ++ N +F V +F     E+  
Sbjct:    62 SWEVEICKNP-RFYFMEKSGWEKFVSDNALGASEFLTFTHKGNMRFTVNIFMQDGKEMLQ 120

Query:   121 PSRNM-F-----PPSRQ----NQATVNSSKSKNGC----KMQSKTYRMEELEVNDELDNV 166
             P ++M F     PP R+    + AT  +++S  G     K+  +  + EE   +   D V
Sbjct:   121 PPQSMSFMASSRPPKREQGIPSLATTIAAESNGGGNYKRKLNFEKKKAEESHNSKRTDKV 180

Query:   167 NDSIQDIIGTSNS 179
                 ++  G S+S
Sbjct:   181 FSVQRESAGASSS 193

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 = 107 (42.7 bits), Expect = 2.0e-05, Sum P(2) = 2.0e-05
 Identities = 42/204 (20%), Positives = 94/204 (46%)

Query:    19 NSLFFQVILAVTIEDKKMK-IPQNFVGRFGDE-LSYVATLTNPKGYVVRIGITKKEGKIW 76
             N  FF+++ +  +  + M+ IP NF+    +E LS    L    G    I I +     +
Sbjct:    15 NPGFFKILRSADLSSEIMRGIPLNFIKSISEEELSAKMLLKVSWGSSWPIKICRNPSFYF 74

Query:    77 FDD-GWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTTFEIQYPSRNMFPPSRQNQAT 135
              +  GW++F+  + +G   F+ F ++ N  F V ++       Q   + +  P R   AT
Sbjct:    75 MEKKGWDQFLSDNGLGNDEFLTFTHQGNMCFTVDIY-------QIDGKELLTPRRS--AT 125

Query:   136 VNSSKSKNGCKMQSKTYRMEELEVNDELDNVNDSIQDIIGTSNSEGSVHAKVHLSETQCL 195
             + SS  +N  + ++  Y+  +++  +++++ ++S      T+ S G    ++ LS  +  
Sbjct:   126 IASSSGRNKREQRNNIYK--DVKEEEDIESWSESSYPGHKTAESTGR-RQRLSLSNKKAK 182

Query:   196 SVQETD---LKIDSTKFKKAKHNL 216
               +++    +K++S  +     +L
Sbjct:   183 ETEKSKKKKMKVESISYDSQDDSL 206

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

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	359
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	1e-10
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	2e-10
pfam02362	97	pfam02362, B3, B3 DNA binding domain	9e-10
smart01019	96	smart01019, B3, B3 DNA binding domain	8e-08
smart01019	96	smart01019, B3, B3 DNA binding domain	6e-07
pfam02362	97	pfam02362, B3, B3 DNA binding domain	1e-06

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

 Score = 57.3 bits (139), Expect = 1e-10
 Identities = 31/99 (31%), Positives = 48/99 (48%), Gaps = 7/99 (7%)

Query: 266 PSFLVFLRASN-MQLNCVYVPNSFARKYFNGEECVTI--QDSDGRKLAVKVKVSCSK--- 319
           P F   L  S+   L  + +P  FA+ +   +E V +  +D DG+K  VK+K   +    
Sbjct: 1   PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRM 60

Query: 320 CLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFN 358
            L   W +F +   +KEGD L FE+   +N   KV +F 
Sbjct: 61  VLSGGWKEFVRANGLKEGDFLVFELDG-RNSKFKVRIFR 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|197383 cd10017, B3_DNA, Plant-specific B3-DNA binding domain

 Score = 57.0 bits (138), Expect = 2e-10
 Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 5/97 (5%)

Query: 21  LFFQVILA-VTIEDKKMKIPQNFVGRFGDE-LSYVATLTNPKG--YVVRIGITKKEGKIW 76
           LFF+V+         ++ +P+ F             TL +P G  + V++   K  G++ 
Sbjct: 2   LFFKVLTPSDVSSLGRLVLPKKFAKAHLPPKEGVEVTLEDPDGKKWTVKLKKRKNSGRMV 61

Query: 77  FDDGWNEFVQYHSIGVGYFVVFQY-RKNSKFQVFVFN 112
              GW EFV+ + +  G F+VF+   +NSKF+V +F 
Sbjct: 62  LSGGWKEFVRANGLKEGDFLVFELDGRNSKFKVRIFR 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 = 55.0 bits (133), Expect = 9e-10
 Identities = 24/97 (24%), Positives = 44/97 (45%), Gaps = 4/97 (4%)

Query: 22  FFQVILAV-TIEDKKMKIPQNFVGRFG-DELSYVATLTNPKGYV--VRIGITKKEGKIWF 77
           F +V+      +D ++ +P+ F    G ++     TL +P G    V++   K   +   
Sbjct: 1   FVKVLTPSDVSKDGRLVLPKKFAEENGLNKKGQEITLLDPDGKSWTVKLRYRKSGRRYLL 60

Query: 78  DDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTT 114
             GW EFV+ + +  G  +VF+     KF V +F  +
Sbjct: 61  TSGWKEFVKANGLKAGDSLVFKLDGGGKFVVGIFRKS 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 = 49.2 bits (118), Expect = 8e-08
 Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 4/96 (4%)

Query: 22  FFQVILAV-TIEDKKMKIPQNFVGRFGDELSYV-ATLTNPKG--YVVRIGITKKEGKIWF 77
           FF+ +      +  ++ +P+ F    G  L     TL +P G  + V++      G    
Sbjct: 1   FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLL 60

Query: 78  DDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNT 113
             GW EFV+ + +  G  + F+   N +F V +F  
Sbjct: 61  TGGWKEFVKANGLKAGDSLTFELDGNGEFVVSIFRK 96

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

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

 Score = 46.9 bits (112), Expect = 6e-07
 Identities = 22/93 (23%), Positives = 37/93 (39%), Gaps = 5/93 (5%)

Query: 268 FLVFLRASNMQLNCVYVPNSFARKYFNGEEC--VTIQDSDGRKLAVKVKV---SCSKCLL 322
           F     +   +   + +P  FA       +   +T+ D DG+   VK+K    S    L 
Sbjct: 2   FKTLTTSDVSKHGRLVLPKQFAESNGPPLKPKEITLLDPDGKSWKVKLKYRGSSGMFLLT 61

Query: 323 TRWGKFFKKTNVKEGDILFFEMIQMKNILLKVS 355
             W +F K   +K GD L FE+      ++ + 
Sbjct: 62  GGWKEFVKANGLKAGDSLTFELDGNGEFVVSIF 94

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 = 46.2 bits (110), Expect = 1e-06
 Identities = 24/105 (22%), Positives = 41/105 (39%), Gaps = 14/105 (13%)

Query: 260 FLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEECVTI--QDSDGRKLAVKVKV-S 316
           F+K   PS +        +   + +P  FA +    ++   I   D DG+   VK++   
Sbjct: 1   FVKVLTPSDV-------SKDGRLVLPKKFAEENGLNKKGQEITLLDPDGKSWTVKLRYRK 53

Query: 317 CSKCLLTR--WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA 359
             +  L    W +F K   +K GD L F++         V +F  
Sbjct: 54  SGRRYLLTSGWKEFVKANGLKAGDSLVFKLD--GGGKFVVGIFRK 96

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	359
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.85
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.84
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	94.31
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	92.43

>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=99.85  E-value=2.6e-21  Score=155.84  Aligned_cols=92  Identities=36%  Similarity=0.632  Sum_probs=69.2

Q ss_pred             EEEEccCcccccCc-eEcCHHHHHhhCCC--CC-eEEEEeCCCCEEEEEEEecc---ccccccchhhhhcccCCCCCCEE
Q 042542          268 FLVFLRASNMQLNC-VYVPNSFARKYFNG--EE-CVTIQDSDGRKLAVKVKVSC---SKCLLTRWGKFFKKTNVKEGDIL  340 (359)
Q Consensus       268 f~~~m~~s~v~~~~-l~iP~~F~~~~l~~--~~-~i~L~~~~G~~W~v~l~~~~---~~~l~~GW~~F~~~n~L~~GD~c  340 (359)
                      |+++|.++++...+ |.||++|+++|...  .. +|+|++++|+.|.|.+.++.   .+.|++||.+||++|+|++||+|
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            77888888887665 99999999999643  45 99999999999999995432   25899999999999999999999


Q ss_pred             EEEEEecceeEEEEEEEeC
Q 042542          341 FFEMIQMKNILLKVSVFNA  359 (359)
Q Consensus       341 vFeli~~~~~~~~VhIfr~  359 (359)
                      +|+++++....+.|+|||+
T Consensus        81 ~F~~~~~~~~~~~v~i~~~   99 (100)
T PF02362_consen   81 VFELIGNSNFTLKVHIFRK   99 (100)
T ss_dssp             EEEE-SSSCE-EEEEEE--
T ss_pred             EEEEecCCCceEEEEEEEC
Confidence            9999987677889999986

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=99.84  E-value=7.1e-21  Score=153.26  Aligned_cols=93  Identities=28%  Similarity=0.600  Sum_probs=70.8

Q ss_pred             eEEEccCCccc-cceeeCchHHHHhhCCC--CCceEEEECCCCCEEEEEE--EEECCeeEEcccHHHHHhHcCCCCCCEE
Q 042542           22 FFQVILAVTIE-DKKMKIPQNFVGRFGDE--LSYVATLTNPKGYVVRIGI--TKKEGKIWFDDGWNEFVQYHSIGVGYFV   96 (359)
Q Consensus        22 F~k~i~~~~l~-~~~l~IP~~F~~~~~~~--~~~~i~L~~~~g~~W~V~l--~~~~~~~~~~~GW~~F~~~~~l~~Gd~l   96 (359)
                      |+|+|++++.. .+.|.||..|++.|+..  .+..|+|.+++|+.|.|.+  .+.++.++|+.||++||++|+|++||+|
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            89999887654 46899999999999865  5779999999999999999  5566789999999999999999999999


Q ss_pred             EEEEeecceE--EEEEEccC
Q 042542           97 VFQYRKNSKF--QVFVFNTT  114 (359)
Q Consensus        97 vF~~~g~s~F--~V~if~~s  114 (359)
                      +|++++++.|  .|+||+.+
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            9999987776  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=94.31  E-value=0.15  Score=42.06  Aligned_cols=65  Identities=15%  Similarity=0.187  Sum_probs=47.8

Q ss_pred             eEEEEccCcccccCc--eEcCHHHHHh--h--------C--------CCCC-eEEEEeCCCCEEEEEEEecc------cc
Q 042542          267 SFLVFLRASNMQLNC--VYVPNSFARK--Y--------F--------NGEE-CVTIQDSDGRKLAVKVKVSC------SK  319 (359)
Q Consensus       267 ~f~~~m~~s~v~~~~--l~iP~~F~~~--~--------l--------~~~~-~i~L~~~~G~~W~v~l~~~~------~~  319 (359)
                      .+.+.+..++|..+.  |.||..=...  +        +        .... .++|.|+.++.|.+.|..+.      .|
T Consensus        23 i~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~~~~~Y  102 (114)
T PF03754_consen   23 IIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGNGTSNY  102 (114)
T ss_pred             EEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccCCceEE
Confidence            467788999997764  9999763311  1        1        1223 88999999999999987542      36


Q ss_pred             ccccchhhhhcc
Q 042542          320 CLLTRWGKFFKK  331 (359)
Q Consensus       320 ~l~~GW~~F~~~  331 (359)
                      .|..||.++|.+
T Consensus       103 vL~~gWn~VV~~  114 (114)
T PF03754_consen  103 VLNSGWNKVVED  114 (114)
T ss_pred             EEEcChHhhccC
Confidence            899999999864

>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=92.43  E-value=0.66  Score=38.34  Aligned_cols=70  Identities=13%  Similarity=0.251  Sum_probs=49.1

Q ss_pred             CCCc--eEEEccCCccc--cceeeCchHHHHhh------------------CCCCCceEEEECCCCCEEEEEEEEE-C--
Q 042542           18 TNSL--FFQVILAVTIE--DKKMKIPQNFVGRF------------------GDELSYVATLTNPKGYVVRIGITKK-E--   72 (359)
Q Consensus        18 ~~p~--F~k~i~~~~l~--~~~l~IP~~F~~~~------------------~~~~~~~i~L~~~~g~~W~V~l~~~-~--   72 (359)
                      ..|.  +-|.+..+++.  ..+|.||-.=+...                  .....-.|+|.+|+++.|.+.|++- .  
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            4553  56777777775  36888886644111                  1123456999999999999999873 2  


Q ss_pred             --CeeEEcccHHHHHhH
Q 042542           73 --GKIWFDDGWNEFVQY   87 (359)
Q Consensus        73 --~~~~~~~GW~~F~~~   87 (359)
                        ..+.|..||.++|++
T Consensus        98 ~~~~YvL~~gWn~VV~~  114 (114)
T PF03754_consen   98 GTSNYVLNSGWNKVVED  114 (114)
T ss_pred             CceEEEEEcChHhhccC
Confidence              267899999999864

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	359
4i1k_A	146	Crystal Structure Of Vrn1 (residues 208-341) Length		3e-11

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

Iteration: 1
 Score = 66.2 bits (160), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/115 (31%), Positives = 67/115 (58%), Gaps = 4/115 (3%)
Query: 246 MTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNCV-YVPNSFARKYFNG-EECVTIQD 303
           +T EE++ AIN A+  +P  P F V LR S +   C+ Y+P+ FA KY +G    + +Q 
Sbjct: 27  VTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKVQL 86
Query: 304 SDGRKLAVKVKVSCSKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVF 357
           ++ ++  V+      +   ++ W +F  + N+ EGD+  FE+++ ++ +LKV+ F
Sbjct: 87  AE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAF 140

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	359
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	5e-26
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	3e-06
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	1e-06

>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 = 99.1 bits (247), Expect = 5e-26
 Identities = 22/102 (21%), Positives = 44/102 (43%), Gaps = 2/102 (1%)

Query: 14  SMKKTNSL-FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKE 72
           SM  T  + F +  ++     K ++IP  F   F         L +  G    + + K+ 
Sbjct: 2   SMADTGEVQFMKPFIS-EKSSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRG 60

Query: 73  GKIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTT 114
            K++   GW  FV+ +++  G ++ F Y ++  F V ++   
Sbjct: 61  EKVFLTVGWENFVKDNNLEDGKYLQFIYDRDRTFYVIIYGHN 102

>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 = 44.4 bits (105), Expect = 3e-06
 Identities = 20/97 (20%), Positives = 36/97 (37%), Gaps = 5/97 (5%)

Query: 264 EKPSFLVFLRASNMQLNCVYVPNSFARKYFNG-EECVTIQDSDGRKLAVKVKVSCSKCLL 322
            +  F+    +       + +P  F   +       V + D  GR   V++K    K  L
Sbjct: 7   GEVQFMKPFISEKSS-KSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFL 65

Query: 323 TR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFN 358
           T  W  F K  N+++G  L F   + +     V ++ 
Sbjct: 66  TVGWENFVKDNNLEDGKYLQFIYDRDRT--FYVIIYG 100

>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 = 46.3 bits (109), Expect = 1e-06
 Identities = 21/110 (19%), Positives = 45/110 (40%), Gaps = 12/110 (10%)

Query: 262 KPEKPSFLVFLRASNM-QLNCVYVPNSFARKYFNGEE--------CVTIQDSDGRKLAVK 312
           +  +  F   +  S++ +LN + +P   A K+F             +  +D +G+    +
Sbjct: 8   RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFR 67

Query: 313 VKV---SCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA 359
                 S S  L   W +F K+ N++ GD++ F     ++  L +   + 
Sbjct: 68  YSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGWKSR 117

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	359
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.98
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.95
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.89
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.88
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.79
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.58

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

Probab=99.98  E-value=3.2e-32  Score=233.37  Aligned_cols=118  Identities=31%  Similarity=0.598  Sum_probs=107.4

Q ss_pred             ccCcCCCHHHHHHHHHHhhhcCCCCCeEEEEccCcccccCc-eEcCHHHHHhhCCCCC-eEEEEeCCCCEEEEEEEecc-
Q 042542          241 DCESRMTLEEKQEAINVARFLKPEKPSFLVFLRASNMQLNC-VYVPNSFARKYFNGEE-CVTIQDSDGRKLAVKVKVSC-  317 (359)
Q Consensus       241 ~~~~~lt~~e~~~a~~~a~~~~s~~p~f~~~m~~s~v~~~~-l~iP~~F~~~~l~~~~-~i~L~~~~G~~W~v~l~~~~-  317 (359)
                      ++++++|.+|+++|+++|++|+|++|+|+++|++|++.+++ |.||++|++.|||... +|+|++++ +.|.|++..+. 
T Consensus        22 ~~r~~~t~~~k~~a~~~A~~~~s~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~~~~i~L~~~g-k~W~v~~~~~~~  100 (146)
T 4i1k_A           22 ARKRTVTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKVQLAE-KQWPVRCLYKAG  100 (146)
T ss_dssp             ----CCCHHHHHHHHHHHHHCCCSSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTCCSEEEEEETT-EEEEEEEEEETT
T ss_pred             cCCCCCCHHHHHHHHHHHHHcCCCCCEEEEEECchhcCCCcEEEeCHHHHHHhCCCCCeEEEEEECC-cEEEEEEEEeCC
Confidence            57788999999999999999999999999999999998876 9999999999999998 99999994 99999987654 


Q ss_pred             ccccccchhhhhcccCCCCCCEEEEEEEecceeEEEEEEEeC
Q 042542          318 SKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFNA  359 (359)
Q Consensus       318 ~~~l~~GW~~F~~~n~L~~GD~cvFeli~~~~~~~~VhIfr~  359 (359)
                      ...|++||.+||++|+|++||+|+|||+++.+++|+||||||
T Consensus       101 ~~~ls~GW~~Fv~dn~L~~GD~cvFeli~~~~~~f~V~IfR~  142 (146)
T 4i1k_A          101 RAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLKVTAFRV  142 (146)
T ss_dssp             EEEECTTHHHHHHHTTCCTTCEEEEEECSSSSCEEEEEEECC
T ss_pred             cEEECCchHHHHHHcCCCCCCEEEEEEecCCceEEEEEEEec
Confidence            358999999999999999999999999998789999999997

>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=4.8e-28  Score=196.21  Aligned_cols=102  Identities=19%  Similarity=0.433  Sum_probs=96.6

Q ss_pred             cCCCCCCceEEEccCCccccceeeCchHHHHhhCCCCCceEEEECCCCCEEEEEEEEECCeeEEcccHHHHHhHcCCCCC
Q 042542           14 SMKKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVG   93 (359)
Q Consensus        14 ~~~~~~p~F~k~i~~~~l~~~~l~IP~~F~~~~~~~~~~~i~L~~~~g~~W~V~l~~~~~~~~~~~GW~~F~~~~~l~~G   93 (359)
                      ..++..|+|+|+|++++ ....|.||..|+++|.+..+.+|+|++++|++|+|.+.+.++.++|++||++||.+|+|++|
T Consensus         3 m~~~~~p~F~K~l~~~~-~~~~L~IP~~F~~~~~~~~~~~v~L~~~~G~~W~v~~~~~~~~~~l~~GW~~Fv~~~~L~~G   81 (104)
T 1yel_A            3 MADTGEVQFMKPFISEK-SSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDG   81 (104)
T ss_dssp             CCCCCCEEEEEECCHHH-HTTCEECCHHHHTTCCCCCCSEEEEEETTSCEEEEEEEEETTEEEECTTHHHHHHHHTCCTT
T ss_pred             CCCCCCCCEEEEECCCC-ccceEECCHHHHHhcCccCCCEEEEECCCCCEEEEEEEEECCcEEEccChHHHHHHcCCCCC
Confidence            45678999999999887 35899999999999999999999999999999999999989999999999999999999999


Q ss_pred             CEEEEEEeecceEEEEEEccCCc
Q 042542           94 YFVVFQYRKNSKFQVFVFNTTTF  116 (359)
Q Consensus        94 d~lvF~~~g~s~F~V~if~~s~~  116 (359)
                      |+|+|+|+|++.|.|+||+.++|
T Consensus        82 D~lvF~~~~~~~f~V~If~~s~C  104 (104)
T 1yel_A           82 KYLQFIYDRDRTFYVIIYGHNMC  104 (104)
T ss_dssp             CEEEEEECSSSEEEEEEECSSCC
T ss_pred             CEEEEEEcCCCeEEEEEECCCCC
Confidence            99999999999999999999988

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

Probab=99.89  E-value=9.3e-23  Score=174.57  Aligned_cols=108  Identities=22%  Similarity=0.335  Sum_probs=97.5

Q ss_pred             cccchHHhhcCCCCCCceEEEccCCcccc-ceeeCchHHHHhhCCCCCceEEEECCCCCEEEEEEEEECCeeEEcccHHH
Q 042542            5 RRAEPKMASSMKKTNSLFFQVILAVTIED-KKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNE   83 (359)
Q Consensus         5 ~~~~~~~~~~~~~~~p~F~k~i~~~~l~~-~~l~IP~~F~~~~~~~~~~~i~L~~~~g~~W~V~l~~~~~~~~~~~GW~~   83 (359)
                      .+|.. .|.++.+++|+|+++|+++++.. ..|.||..|++.|.+.....|+|+++ |+.|.|.+...++..+|++||.+
T Consensus        33 ~~a~~-~A~~~~s~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~~~~i~L~~~-gk~W~v~~~~~~~~~~ls~GW~~  110 (146)
T 4i1k_A           33 ERAIN-AAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISGFIKVQLA-EKQWPVRCLYKAGRAKFSQGWYE  110 (146)
T ss_dssp             HHHHH-HHHHCCCSSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTCCSEEEEEET-TEEEEEEEEEETTEEEECTTHHH
T ss_pred             HHHHH-HHHHcCCCCCEEEEEECchhcCCCcEEEeCHHHHHHhCCCCCeEEEEEEC-CcEEEEEEEEeCCcEEECCchHH
Confidence            34444 48899999999999999999864 37999999999999998999999998 59999999887889999999999


Q ss_pred             HHhHcCCCCCCEEEEEEeecc--eEEEEEEccC
Q 042542           84 FVQYHSIGVGYFVVFQYRKNS--KFQVFVFNTT  114 (359)
Q Consensus        84 F~~~~~l~~Gd~lvF~~~g~s--~F~V~if~~s  114 (359)
                      ||.+|+|++||+|+|+|+++.  .|.|+||+..
T Consensus       111 Fv~dn~L~~GD~cvFeli~~~~~~f~V~IfR~~  143 (146)
T 4i1k_A          111 FTLENNLGEGDVCVFELLRTRDFVLKVTAFRVN  143 (146)
T ss_dssp             HHHHTTCCTTCEEEEEECSSSSCEEEEEEECCC
T ss_pred             HHHHcCCCCCCEEEEEEecCCceEEEEEEEecc
Confidence            999999999999999999864  8999999874

>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=164.18  Aligned_cols=96  Identities=19%  Similarity=0.288  Sum_probs=84.5

Q ss_pred             cCCCCCeEEEEccCcccccCceEcCHHHHHhhCCCCC-eEEEEeCCCCEEEEEEEecc-ccccccchhhhhcccCCCCCC
Q 042542          261 LKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEE-CVTIQDSDGRKLAVKVKVSC-SKCLLTRWGKFFKKTNVKEGD  338 (359)
Q Consensus       261 ~~s~~p~f~~~m~~s~v~~~~l~iP~~F~~~~l~~~~-~i~L~~~~G~~W~v~l~~~~-~~~l~~GW~~F~~~n~L~~GD  338 (359)
                      ..+++|.|.++|.+++ ....|.||.+|++.|.+... +|+|++++|+.|.|.+.... ..+|++||++||++|+|++||
T Consensus         4 ~~~~~p~F~K~l~~~~-~~~~L~IP~~F~~~~~~~~~~~v~L~~~~G~~W~v~~~~~~~~~~l~~GW~~Fv~~~~L~~GD   82 (104)
T 1yel_A            4 ADTGEVQFMKPFISEK-SSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGK   82 (104)
T ss_dssp             CCCCCEEEEEECCHHH-HTTCEECCHHHHTTCCCCCCSEEEEEETTSCEEEEEEEEETTEEEECTTHHHHHHHHTCCTTC
T ss_pred             CCCCCCCEEEEECCCC-ccceEECCHHHHHhcCccCCCEEEEECCCCCEEEEEEEEECCcEEEccChHHHHHHcCCCCCC
Confidence            4578999999999987 34569999999998888777 99999999999999997653 358999999999999999999


Q ss_pred             EEEEEEEecceeEEEEEEEeC
Q 042542          339 ILFFEMIQMKNILLKVSVFNA  359 (359)
Q Consensus       339 ~cvFeli~~~~~~~~VhIfr~  359 (359)
                      +|+|+++++  ..|+|+|||.
T Consensus        83 ~lvF~~~~~--~~f~V~If~~  101 (104)
T 1yel_A           83 YLQFIYDRD--RTFYVIIYGH  101 (104)
T ss_dssp             EEEEEECSS--SEEEEEEECS
T ss_pred             EEEEEEcCC--CeEEEEEECC
Confidence            999999875  4699999984

>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=99.79  E-value=2.2e-19  Score=150.81  Aligned_cols=97  Identities=19%  Similarity=0.283  Sum_probs=83.0

Q ss_pred             CCCCeEEEEccCcccccCc-eEcCHHHHHhhCCCCC--------eEEEEeCCCCEEEEEEEecc---ccccccchhhhhc
Q 042542          263 PEKPSFLVFLRASNMQLNC-VYVPNSFARKYFNGEE--------CVTIQDSDGRKLAVKVKVSC---SKCLLTRWGKFFK  330 (359)
Q Consensus       263 s~~p~f~~~m~~s~v~~~~-l~iP~~F~~~~l~~~~--------~i~L~~~~G~~W~v~l~~~~---~~~l~~GW~~F~~  330 (359)
                      +..|+|.++|++|+|.+.. |.||++||++|||...        .|+|+|.+|+.|.+++.++.   .+.|++||.+||+
T Consensus         9 ~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~FV~   88 (130)
T 1wid_A            9 SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVK   88 (130)
T ss_dssp             CCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHH
T ss_pred             CCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHHHHH
Confidence            5688999999999997644 9999999999998643        58889999999999998763   3589999999999


Q ss_pred             ccCCCCCCEEEEEEEecceeEEEEEEEeC
Q 042542          331 KTNVKEGDILFFEMIQMKNILLKVSVFNA  359 (359)
Q Consensus       331 ~n~L~~GD~cvFeli~~~~~~~~VhIfr~  359 (359)
                      +|+|++||+|+|+++++.+-.+.|.+-|+
T Consensus        89 ~~~L~~GD~~~F~~~~~~~~~l~I~~rr~  117 (130)
T 1wid_A           89 EKNLRAGDVVSFSRSNGQDQQLYIGWKSR  117 (130)
T ss_dssp             HTTCCTTCEEEEEECCSSSCCEEEEEECC
T ss_pred             HcCCCCCCEEEEEEecCCCcEEEEEEEEC
Confidence            99999999999999986545577777663

>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=99.58  E-value=1.4e-14  Score=121.50  Aligned_cols=98  Identities=15%  Similarity=0.257  Sum_probs=82.3

Q ss_pred             CCCCCceEEEccCCccc-cceeeCchHHHHhhCCCCC-------ceEEEECCCCCEEEEEEEEEC--CeeEEcccHHHHH
Q 042542           16 KKTNSLFFQVILAVTIE-DKKMKIPQNFVGRFGDELS-------YVATLTNPKGYVVRIGITKKE--GKIWFDDGWNEFV   85 (359)
Q Consensus        16 ~~~~p~F~k~i~~~~l~-~~~l~IP~~F~~~~~~~~~-------~~i~L~~~~g~~W~V~l~~~~--~~~~~~~GW~~F~   85 (359)
                      .+..|.|.|+|+++++. ...|.||..|+..|.+.+.       ..++|.|+.|+.|++.+....  ..++|+.||..||
T Consensus         8 ~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~FV   87 (130)
T 1wid_A            8 RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFV   87 (130)
T ss_dssp             CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHH
T ss_pred             CCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHHHH
Confidence            35667899999999985 3689999999999988665       368899999999999987643  5789999999999


Q ss_pred             hHcCCCCCCEEEEEEeec--ceEEEEEEcc
Q 042542           86 QYHSIGVGYFVVFQYRKN--SKFQVFVFNT  113 (359)
Q Consensus        86 ~~~~l~~Gd~lvF~~~g~--s~F~V~if~~  113 (359)
                      ++|+|++||+|+|.++.+  ..+.|.+-..
T Consensus        88 ~~~~L~~GD~~~F~~~~~~~~~l~I~~rr~  117 (130)
T 1wid_A           88 KEKNLRAGDVVSFSRSNGQDQQLYIGWKSR  117 (130)
T ss_dssp             HHTTCCTTCEEEEEECCSSSCCEEEEEECC
T ss_pred             HHcCCCCCCEEEEEEecCCCcEEEEEEEEC
Confidence            999999999999999853  5677666544

---

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	359
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	3e-20
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	3e-10
d1wida_	117	b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre	7e-07

>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 = 82.2 bits (203), Expect = 3e-20
 Identities = 21/102 (20%), Positives = 43/102 (42%), Gaps = 2/102 (1%)

Query: 15  MKKTNSL-FFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEG 73
           M  T  + F +  ++     K ++IP  F   F         L +  G    + + K+  
Sbjct: 1   MADTGEVQFMKPFIS-EKSSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGE 59

Query: 74  KIWFDDGWNEFVQYHSIGVGYFVVFQYRKNSKFQVFVFNTTT 115
           K++   GW  FV+ +++  G ++ F Y ++  F V ++    
Sbjct: 60  KVFLTVGWENFVKDNNLEDGKYLQFIYDRDRTFYVIIYGHNM 101

>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 = 54.5 bits (131), Expect = 3e-10
 Identities = 22/102 (21%), Positives = 37/102 (36%), Gaps = 13/102 (12%)

Query: 259 RFLKPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGE-ECVTIQDSDGRKLAVKVKVSC 317
           +F+KP                  + +P  F   +       V + D  GR   V++K   
Sbjct: 8   QFMKPFISEK---------SSKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRG 58

Query: 318 SKCLLTR-WGKFFKKTNVKEGDILFFEMIQMKNILLKVSVFN 358
            K  LT  W  F K  N+++G  L F     ++    V ++ 
Sbjct: 59  EKVFLTVGWENFVKDNNLEDGKYLQFIYD--RDRTFYVIIYG 98

>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 = 45.4 bits (107), Expect = 7e-07
 Identities = 21/107 (19%), Positives = 44/107 (41%), Gaps = 12/107 (11%)

Query: 262 KPEKPSFLVFLRASNM-QLNCVYVPNSFARKYFNGEE--------CVTIQDSDGRKLAVK 312
           +  +  F   +  S++ +LN + +P   A K+F             +  +D +G+    +
Sbjct: 1   RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFR 60

Query: 313 VKV---SCSKCLLTRWGKFFKKTNVKEGDILFFEMIQMKNILLKVSV 356
                 S S  L   W +F K+ N++ GD++ F     ++  L +  
Sbjct: 61  YSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQLYIGW 107

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	359
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.95
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.84
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.78
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.58
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	97.94
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	97.15

>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=4.7e-28  Score=193.53  Aligned_cols=100  Identities=19%  Similarity=0.442  Sum_probs=95.4

Q ss_pred             CCCCCceEEEccCCccccceeeCchHHHHhhCCCCCceEEEECCCCCEEEEEEEEECCeeEEcccHHHHHhHcCCCCCCE
Q 042542           16 KKTNSLFFQVILAVTIEDKKMKIPQNFVGRFGDELSYVATLTNPKGYVVRIGITKKEGKIWFDDGWNEFVQYHSIGVGYF   95 (359)
Q Consensus        16 ~~~~p~F~k~i~~~~l~~~~l~IP~~F~~~~~~~~~~~i~L~~~~g~~W~V~l~~~~~~~~~~~GW~~F~~~~~l~~Gd~   95 (359)
                      ++..|+|||+++++.. .+.|.||..|+++|++..+++|+|++++|+.|.|.+.+.++.++|..||++||++|+|++||+
T Consensus         3 ~~~~~~Ffkv~~~~~~-~~~L~IP~~F~~~~~~~~~~~i~L~d~~G~~W~v~~~~~~~~~~~~~GW~~Fv~~n~L~~GD~   81 (102)
T d1yela1           3 DTGEVQFMKPFISEKS-SKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKY   81 (102)
T ss_dssp             CCCCEEEEEECCHHHH-TTCEECCHHHHTTCCCCCCSEEEEEETTSCEEEEEEEEETTEEEECTTHHHHHHHHTCCTTCE
T ss_pred             CCCCCeEEEEEcCccc-CCCEECCHHHHHhCCCCCCCEEEEEcCCCCEEEEEEEEeCCeEEEccCHHHHHHHcCCCcCCE
Confidence            4678899999999975 478999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeecceEEEEEEccCCc
Q 042542           96 VVFQYRKNSKFQVFVFNTTTF  116 (359)
Q Consensus        96 lvF~~~g~s~F~V~if~~s~~  116 (359)
                      |+|+|+|++.|.|+|||.++|
T Consensus        82 ~vF~~~~~~~f~V~If~~s~C  102 (102)
T d1yela1          82 LQFIYDRDRTFYVIIYGHNMC  102 (102)
T ss_dssp             EEEEECSSSEEEEEEECSSCC
T ss_pred             EEEEEcCCcEEEEEEeCCCCC
Confidence            999999999999999999988

>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=99.84  E-value=1.8e-21  Score=154.87  Aligned_cols=94  Identities=19%  Similarity=0.315  Sum_probs=82.5

Q ss_pred             CCCCCeEEEEccCcccccCceEcCHHHHHhhCCCCC-eEEEEeCCCCEEEEEEEeccc-cccccchhhhhcccCCCCCCE
Q 042542          262 KPEKPSFLVFLRASNMQLNCVYVPNSFARKYFNGEE-CVTIQDSDGRKLAVKVKVSCS-KCLLTRWGKFFKKTNVKEGDI  339 (359)
Q Consensus       262 ~s~~p~f~~~m~~s~v~~~~l~iP~~F~~~~l~~~~-~i~L~~~~G~~W~v~l~~~~~-~~l~~GW~~F~~~n~L~~GD~  339 (359)
                      .+..|.|.++|.+++. ...|.||..|++.|.+... +|+|+|++|+.|+|.+..+.. .+|+.||.+||++|+|++||+
T Consensus         3 ~~~~~~Ffkv~~~~~~-~~~L~IP~~F~~~~~~~~~~~i~L~d~~G~~W~v~~~~~~~~~~~~~GW~~Fv~~n~L~~GD~   81 (102)
T d1yela1           3 DTGEVQFMKPFISEKS-SKSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKY   81 (102)
T ss_dssp             CCCCEEEEEECCHHHH-TTCEECCHHHHTTCCCCCCSEEEEEETTSCEEEEEEEEETTEEEECTTHHHHHHHHTCCTTCE
T ss_pred             CCCCCeEEEEEcCccc-CCCEECCHHHHHhCCCCCCCEEEEEcCCCCEEEEEEEEeCCeEEEccCHHHHHHHcCCCcCCE
Confidence            3567889999998875 3469999999999988888 999999999999999976543 489999999999999999999


Q ss_pred             EEEEEEecceeEEEEEEEe
Q 042542          340 LFFEMIQMKNILLKVSVFN  358 (359)
Q Consensus       340 cvFeli~~~~~~~~VhIfr  358 (359)
                      |+|++..  +..|.|+||+
T Consensus        82 ~vF~~~~--~~~f~V~If~   98 (102)
T d1yela1          82 LQFIYDR--DRTFYVIIYG   98 (102)
T ss_dssp             EEEEECS--SSEEEEEEEC
T ss_pred             EEEEEcC--CcEEEEEEeC
Confidence            9999986  4579999996

>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=99.78  E-value=2.5e-19  Score=145.78  Aligned_cols=97  Identities=19%  Similarity=0.281  Sum_probs=82.0

Q ss_pred             CCCCeEEEEccCcccccC-ceEcCHHHHHhhCCCCC--------eEEEEeCCCCEEEEEEEecc---ccccccchhhhhc
Q 042542          263 PEKPSFLVFLRASNMQLN-CVYVPNSFARKYFNGEE--------CVTIQDSDGRKLAVKVKVSC---SKCLLTRWGKFFK  330 (359)
Q Consensus       263 s~~p~f~~~m~~s~v~~~-~l~iP~~F~~~~l~~~~--------~i~L~~~~G~~W~v~l~~~~---~~~l~~GW~~F~~  330 (359)
                      |..|+|.++|++|+|.+. .|.||+.|+++|||...        .|++.|.+|+.|++++.++.   .++|++||.+||+
T Consensus         2 ~~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~   81 (117)
T d1wida_           2 SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVK   81 (117)
T ss_dssp             CCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHH
T ss_pred             CCceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEecCHHHHHH
Confidence            567899999999999875 49999999999988643        48999999999999998753   3579999999999


Q ss_pred             ccCCCCCCEEEEEEEecceeEEEEEEEeC
Q 042542          331 KTNVKEGDILFFEMIQMKNILLKVSVFNA  359 (359)
Q Consensus       331 ~n~L~~GD~cvFeli~~~~~~~~VhIfr~  359 (359)
                      +|+|++||+|+|++....+..+.|.+.|+
T Consensus        82 ~~~Lk~GD~~~F~~~~~~~~~~~i~~r~~  110 (117)
T d1wida_          82 EKNLRAGDVVSFSRSNGQDQQLYIGWKSR  110 (117)
T ss_dssp             HTTCCTTCEEEEEECCSSSCCEEEEEECC
T ss_pred             HcCCCCCCEEEEEEEeCCCCEEEEEEEEC
Confidence            99999999999999866555566666553

>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=4.9e-15  Score=120.00  Aligned_cols=99  Identities=15%  Similarity=0.265  Sum_probs=81.6

Q ss_pred             CCCCceEEEccCCcccc-ceeeCchHHHHhhCCCCCc-------eEEEECCCCCEEEEEEEEE--CCeeEEcccHHHHHh
Q 042542           17 KTNSLFFQVILAVTIED-KKMKIPQNFVGRFGDELSY-------VATLTNPKGYVVRIGITKK--EGKIWFDDGWNEFVQ   86 (359)
Q Consensus        17 ~~~p~F~k~i~~~~l~~-~~l~IP~~F~~~~~~~~~~-------~i~L~~~~g~~W~V~l~~~--~~~~~~~~GW~~F~~   86 (359)
                      +..+-|.|+|+++++.. ..|.||..|++.|.+.+..       .+.+.++.|+.|++.+...  +...+|..||.+||+
T Consensus         2 ~~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~   81 (117)
T d1wida_           2 SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVK   81 (117)
T ss_dssp             CCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHH
T ss_pred             CCceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEecCHHHHHH
Confidence            34567999999999854 5899999999999876543       4899999999999999764  456789999999999


Q ss_pred             HcCCCCCCEEEEEEe--ecceEEEEEEccCC
Q 042542           87 YHSIGVGYFVVFQYR--KNSKFQVFVFNTTT  115 (359)
Q Consensus        87 ~~~l~~Gd~lvF~~~--g~s~F~V~if~~s~  115 (359)
                      +|+|++||.|+|..+  ++..|.|.+...++
T Consensus        82 ~~~Lk~GD~~~F~~~~~~~~~~~i~~r~~~~  112 (117)
T d1wida_          82 EKNLRAGDVVSFSRSNGQDQQLYIGWKSRSG  112 (117)
T ss_dssp             HTTCCTTCEEEEEECCSSSCCEEEEEECCCS
T ss_pred             HcCCCCCCEEEEEEEeCCCCEEEEEEEECCC
Confidence            999999999999987  34567776665543

>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=97.94  E-value=1e-05  Score=67.36  Aligned_cols=82  Identities=15%  Similarity=0.153  Sum_probs=66.6

Q ss_pred             CCCeEEEEccCcccccCc-----eEcCHHHHHhhCCC-----C--C--eEEEE--eCCCCEEEEEEEeccc---------
Q 042542          264 EKPSFLVFLRASNMQLNC-----VYVPNSFARKYFNG-----E--E--CVTIQ--DSDGRKLAVKVKVSCS---------  318 (359)
Q Consensus       264 ~~p~f~~~m~~s~v~~~~-----l~iP~~F~~~~l~~-----~--~--~i~L~--~~~G~~W~v~l~~~~~---------  318 (359)
                      ..-.|.++++++++....     ++||+.+|..++|.     +  +  .+.|.  |.+|..|.+++.+...         
T Consensus        14 ~~~~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i~d~~g~~w~fR~iYyn~~~~ggTRne   93 (175)
T d1na6a1          14 NYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTRNE   93 (175)
T ss_dssp             SEEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCCCE
T ss_pred             ceEEEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccccCCCceEEEEEecCCCCeeEEEEEEECCccCCCcccc
Confidence            355799999999997642     99999999999983     1  1  34444  6779999999875421         


Q ss_pred             cccccchhhhhcccCCCCCCEEEEEEE
Q 042542          319 KCLLTRWGKFFKKTNVKEGDILFFEMI  345 (359)
Q Consensus       319 ~~l~~GW~~F~~~n~L~~GD~cvFeli  345 (359)
                      ++|+.+|+.|...+.+..||+.+|...
T Consensus        94 yRiT~~g~~~~~~~~~n~G~l~i~af~  120 (175)
T d1na6a1          94 KRITRWGRGSPLQDPENTGALTLLAFK  120 (175)
T ss_dssp             EEEECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             EEEEeccccccccCccccccEEEEEee
Confidence            489999999999999999999999985

>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=97.15  E-value=0.0003  Score=58.26  Aligned_cols=82  Identities=7%  Similarity=0.008  Sum_probs=65.0

Q ss_pred             CceEEEccCCcccc-ce----eeCchHHHHhhCCCCC------c--eEEEE--CCCCCEEEEEEEEEC--------CeeE
Q 042542           20 SLFFQVILAVTIED-KK----MKIPQNFVGRFGDELS------Y--VATLT--NPKGYVVRIGITKKE--------GKIW   76 (359)
Q Consensus        20 p~F~k~i~~~~l~~-~~----l~IP~~F~~~~~~~~~------~--~i~L~--~~~g~~W~V~l~~~~--------~~~~   76 (359)
                      -.|.|.++++++.. ..    +.||+.++..+.+.+.      .  .+.|+  +.+|..|+.....-+        +...
T Consensus        16 ~~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i~d~~g~~w~fR~iYyn~~~~ggTRneyR   95 (175)
T d1na6a1          16 FVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTRNEKR   95 (175)
T ss_dssp             EEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCCCEEE
T ss_pred             EEEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccccCCCceEEEEEecCCCCeeEEEEEEECCccCCCccccEE
Confidence            35999999998753 22    9999999999987331      1  34444  888999999886532        6789


Q ss_pred             EcccHHHHHhHcCCCCCCEEEEEEe
Q 042542           77 FDDGWNEFVQYHSIGVGYFVVFQYR  101 (359)
Q Consensus        77 ~~~GW~~F~~~~~l~~Gd~lvF~~~  101 (359)
                      |+.+|+.|...+.+..||+++|-+.
T Consensus        96 iT~~g~~~~~~~~~n~G~l~i~af~  120 (175)
T d1na6a1          96 ITRWGRGSPLQDPENTGALTLLAFK  120 (175)
T ss_dssp             EECCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             EEeccccccccCccccccEEEEEee
Confidence            9999999999999999999999773