Citrus Sinensis ID: 046898

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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--
Protein Sequence
MEEDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCNVVKKPVQLEQITGKIFSYNEKESNSEEKGFKLFGVQIN
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccEEEEEEccccEEEEcccccHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHcccccccccccccHHHHcccccccccccccccccccccHHHHHHHHccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccEEEEccccccccEEEEEccccHHHHHcccccccEEEEEEccccccccccccEEEEEEEEccccccccccccccccccccccccccccccccccccEEEEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccEEcccccccEccccccccccccccccccccccHHHHHHHccEEEEcccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHccHHHHHHHHHHcccHHHHHHHHHcccccccccccccccccccccccHHHHHHHccEEccccccccccccEccHHHHHHHcccccHHccccccccccccEEEEEEEccccEEEEEEEEcccccEEEEEccHHHHHHHcccccccEEEEEEEccccccccccEEEEEEEEcccccccccccccccccccccccccHHcccccccccEEEEEEEEcc
Coil and Loop (DISEMBL)
MEEDASSMVSnaktnannteasdsnnstsglqpapkrmrhdknvslvkfkgvvpqqnghwgAQIYANHQRIWLGTFKSEREAAMAYDSAAIKirggdshrnfpwtdtnnqepnfqnqySTEAVLNMirdgtyqpkfADYLRVQsqrednnsnasLNQIMVHGDEQFAYRQLFQkeltpsdvgklnrlvipkkyavkyfpfisenagenainggvddmELVFFDklmrpwkfrycfwrssqsyvftrgwNRFVKEKKLKEKDIITFYACEcangakegqnFFLVDVIHcegqncnvvkkpvqleqITGKIFsynekesnseekgFKLFGVQIN
Flexible Loop (DISEMBL)
MEEDASSMVSNAKtnannteasdsnnstsglqpapkrMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWtdtnnqepnfqNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKeltpsdvgklnrlvIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRssqsyvftrgwnrfvkekklkeKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCnvvkkpvqleQITGKIfsynekesnseekgfklfgvqin
Low Complexity Region (SEG)
MEEDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCNVVKKPVQLEQITGKIFSYnekesnseekGFKLFGVQIN
Disordered region (IsUnstruct)
*******************************************VSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGG****NFPW*************YSTEAVLNMIRDGTYQPKFADYLRV**************QIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCNVVKKPVQLEQITGKIFSY********************
Disordered Region (DISOPRED)
****************************************************VPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSH**************************MIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKEL**SDVGKLNRLVIPKKYAVK*******************DMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVI**********************************EKGFKLFGVQIN
Disordered Region (DISEMBL)
***********AKTNANN*******************MRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCNVVKKPVQLEQITGKIFSYNEKESNSEEKGFKLFGVQIN
Disordered Region (DISPRO)
*******************************************VSL*KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLR**********************EQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENA*******GVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHC*******************************EEKGFKLFGVQIN
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEEDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCNVVKKPVQLEQITGKIFSYNEKESNSEEKGFKLFGVQIN
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	332	2.2.26 [Sep-21-2011]
Q9C688	352	AP2/ERF and B3 domain-con	yes	no	0.975	0.920	0.543	4e-92
Q9C6P5	337	AP2/ERF and B3 domain-con	no	no	0.840	0.827	0.561	5e-92
Q9ZWM9	344	AP2/ERF and B3 domain-con	no	no	0.617	0.595	0.444	1e-46
Q9LS06	333	AP2/ERF and B3 domain-con	no	no	0.635	0.633	0.481	2e-46
Q9C6M5	361	AP2/ERF and B3 domain-con	no	no	0.641	0.590	0.434	5e-46
Q8RZX9	393	AP2/ERF and B3 domain-con	yes	no	0.789	0.666	0.393	5e-46
P82280	352	AP2/ERF and B3 domain-con	no	no	0.689	0.650	0.413	2e-44
Q6L4H4	394	AP2/ERF and B3 domain-con	no	no	0.650	0.548	0.433	3e-41
Q9AWS7	317	Putative AP2/ERF and B3 d	no	no	0.689	0.722	0.402	4e-39
Q9AWS0	365	AP2/ERF and B3 domain-con	no	no	0.626	0.569	0.447	2e-38

>sp|Q9C688|RAVL3_ARATH AP2/ERF and B3 domain-containing transcription factor At1g51120 OS=Arabidopsis thaliana GN=At1g51120 PE=2 SV=1

 Score =  338 bits (866), Expect = 4e-92,   Method: Compositional matrix adjust.
 Identities = 189/348 (54%), Positives = 231/348 (66%), Gaps = 24/348 (6%)

Query: 8   MVSNAKTNANNTEASDSNNS-TSGLQPAPKRMRHDKNVS-LVKFKGVVPQQNGHWGAQIY 65
           M + AKT    +  +DS  S T  ++P          +S   KFKGVV QQNGHWGAQIY
Sbjct: 4   MSNVAKTTTETSGLTDSVLSLTKRMKPTEVTTTTKPALSNTTKFKGVVQQQNGHWGAQIY 63

Query: 66  ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPWTDTNNQEPNFQNQYSTEAV 123
           A+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW+D    EP+FQ  Y+TEAV
Sbjct: 64  ADHRRIWLGTFKSAHEAAAAYDSASIKLRSFDANSHRNFPWSDFTLHEPDFQECYTTEAV 123

Query: 124 LNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGD------EQFAYRQLFQKELT 177
           LNMIRDG+YQ KF D+LR++SQ   N +     Q++  G+      + F+  QLFQKELT
Sbjct: 124 LNMIRDGSYQHKFRDFLRIRSQIVANINIVGSKQVLGGGEGGQESNKCFSCTQLFQKELT 183

Query: 178 PSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWR 237
           PSDVGKLNRLVIPKKYAVKY PFIS++  E   + GV+D+E+VF+D+ MR WKFRYC+WR
Sbjct: 184 PSDVGKLNRLVIPKKYAVKYMPFISDDQSEKETSEGVEDVEVVFYDRAMRQWKFRYCYWR 243

Query: 238 SSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAK--EGQN--FFLVDVIHCEGQNC 293
           SSQS+VFTRGWN FVKEK LKEKDII FY C+  N  K  EGQ+  F ++DV H  G   
Sbjct: 244 SSQSFVFTRGWNGFVKEKNLKEKDIIVFYTCDVPNNVKTLEGQSKTFLMIDVHHFSGNGF 303

Query: 294 NV---VKKPVQ----LEQITGKIFSYNEKESNSEEK---GFKLFGVQI 331
            V   V K V      E  T  +F+   +E    E+   GF LFGV+I
Sbjct: 304 VVPEEVNKTVHEISDEEMKTETLFTSKVEEETKSEEKKGGFMLFGVRI 351

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9C6P5|RAVL2_ARATH AP2/ERF and B3 domain-containing transcription factor At1g50680 OS=Arabidopsis thaliana GN=At1g50680 PE=2 SV=1

 Score =  338 bits (866), Expect = 5e-92,   Method: Compositional matrix adjust.
 Identities = 177/315 (56%), Positives = 215/315 (68%), Gaps = 36/315 (11%)

Query: 47  VKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPW 104
           VK+KGVV QQNGHWGAQIYA+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW
Sbjct: 26  VKYKGVVQQQNGHWGAQIYADHKRIWLGTFKSADEAATAYDSASIKLRSFDANSHRNFPW 85

Query: 105 TDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLN-------- 156
           +     EP+FQN Y+TE VLNMIRDG+YQ KF D+LR++SQ       AS+N        
Sbjct: 86  STITLNEPDFQNCYTTETVLNMIRDGSYQHKFRDFLRIRSQ-----IVASINIGGPKQAR 140

Query: 157 -QIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGE---NAING 212
            ++    D+ F+  QLFQKELTPSDVGKLNRLVIPKKYAVKY PFIS +  E     I G
Sbjct: 141 GEVNQESDKCFSCTQLFQKELTPSDVGKLNRLVIPKKYAVKYMPFISADQSEKEEGEIVG 200

Query: 213 GVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECAN 272
            V+D+E+VF+D+ MR WKFRYC+W+SSQS+VFTRGWN FVKEK LKEKD+I FY C+  N
Sbjct: 201 SVEDVEVVFYDRAMRQWKFRYCYWKSSQSFVFTRGWNSFVKEKNLKEKDVIAFYTCDVPN 260

Query: 273 GAK--EGQ--NFFLVDVIHCEGQNCNVVKKPVQL------------EQITGKIFSYNEKE 316
             K  EGQ  NF ++DV HC   N +VV + V +            E +   +    E +
Sbjct: 261 NVKTLEGQRKNFLMIDV-HCFSDNGSVVAEEVSMTVHDSSVQVKKTENLVSSMLEDKETK 319

Query: 317 SNSEEKGFKLFGVQI 331
           S   + GF LFGV+I
Sbjct: 320 SEENKGGFMLFGVRI 334

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZWM9|RAV1_ARATH AP2/ERF and B3 domain-containing transcription factor RAV1 OS=Arabidopsis thaliana GN=RAV1 PE=1 SV=1

 Score =  187 bits (474), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 101/227 (44%), Positives = 134/227 (59%), Gaps = 22/227 (9%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDT 107
           K+KGVVPQ NG WGAQIY  HQR+WLGTF  E EAA AYD A  + R  D+  NF     
Sbjct: 61  KYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEDEAARAYDVAVHRFRRRDAVTNFKDVKM 120

Query: 108 NNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMV------H 161
           +  E +F N +S   +++M+R  TY  +       QS+R   N N ++ + ++       
Sbjct: 121 DEDEVDFLNSHSKSEIVDMLRKHTYNEELE-----QSKRR-RNGNGNMTRTLLTSGLSND 174

Query: 162 GDEQFAYRQ---LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDME 218
           G     +R    LF+K +TPSDVGKLNRLVIPK +A K+FP  S N         V  + 
Sbjct: 175 GVSTTGFRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNV-------SVKGVL 227

Query: 219 LVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
           L F D   + W+FRY +W SSQSYV T+GW+RFVKEK L+  D+++F
Sbjct: 228 LNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSF 274

Binds specifically to bipartite recognition sequences composed of two unrelated motifs, 5'-CAACA-3' and 5'-CACCTG-3'. May function as negative regulator of plant growth and development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LS06|RAVL4_ARATH AP2/ERF and B3 domain-containing transcription factor ARF14 OS=Arabidopsis thaliana GN=ARF14 PE=2 SV=1

 Score =  186 bits (472), Expect = 2e-46,   Method: Compositional matrix adjust.
 Identities = 105/218 (48%), Positives = 134/218 (61%), Gaps = 7/218 (3%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDT 107
           +FKGVVPQ NG WGAQIY  HQR+WLGTF  E EAA AYD AA + RG D+  NF  T T
Sbjct: 61  RFKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEDEAARAYDVAAHRFRGRDAVTNFKDT-T 119

Query: 108 NNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFA 167
             +E  F N +S   +++M+R  TY+ +     R +       +  +L  ++V    + A
Sbjct: 120 FEEEVEFLNAHSKSEIVDMLRKHTYKEELDQRKRNRDGNGKETTAFALASMVVMTGFKTA 179

Query: 168 YRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMR 227
              LF+K +TPSDVGKLNRLVIPK  A K+FP      G N  N  V  M L F D   +
Sbjct: 180 -ELLFEKTVTPSDVGKLNRLVIPKHQAEKHFPL---PLGNN--NVSVKGMLLNFEDVNGK 233

Query: 228 PWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
            W+FRY +W SSQSYV T+GW+RFVKEK+L   D+I+F
Sbjct: 234 VWRFRYSYWNSSQSYVLTKGWSRFVKEKRLCAGDLISF 271

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C6M5|RAVL1_ARATH AP2/ERF and B3 domain-containing transcription repressor TEM1 OS=Arabidopsis thaliana GN=TEM1 PE=1 SV=1

 Score =  185 bits (469), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 97/223 (43%), Positives = 135/223 (60%), Gaps = 10/223 (4%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNF-PWTD 106
           K+KGVVPQ NG WGAQIY  HQR+WLGTF  E EAA +YD A  + RG D+  NF    D
Sbjct: 71  KYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEEEAASSYDIAVRRFRGRDAVTNFKSQVD 130

Query: 107 TNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLN--QIMVHGDE 164
            N+ E  F + +S   +++M+R  TY  +F      QS+R+  N +   +  +   +G++
Sbjct: 131 GNDAESAFLDAHSKAEIVDMLRKHTYADEFE-----QSRRKFVNGDGKRSGLETATYGND 185

Query: 165 QF--AYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFF 222
               A   LF+K +TPSDVGKLNRLVIPK++A K+FP  +              + +   
Sbjct: 186 AVLRAREVLFEKTVTPSDVGKLNRLVIPKQHAEKHFPLPAMTTAMGMNPSPTKGVLINLE 245

Query: 223 DKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
           D+  + W+FRY +W SSQSYV T+GW+RFVKEK L+  D++ F
Sbjct: 246 DRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCF 288

Transcritptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RZX9|Y1934_ORYSJ AP2/ERF and B3 domain-containing protein Os01g0693400 OS=Oryza sativa subsp. japonica GN=Os01g0693400 PE=2 SV=1

 Score =  185 bits (469), Expect = 5e-46,   Method: Compositional matrix adjust.
 Identities = 116/295 (39%), Positives = 154/295 (52%), Gaps = 33/295 (11%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNF-PWTD 106
           KFKGVVPQ NG WGAQIY  HQR+WLGTF  E +AA AYD AA + RG D+  NF P  +
Sbjct: 81  KFKGVVPQPNGRWGAQIYERHQRVWLGTFAGEDDAARAYDVAAQRFRGRDAVTNFRPLAE 140

Query: 107 TNNQEP---NFQNQYSTEAVLNMIRDGTYQPKFADYLRV--QSQREDNNSNASLNQIMVH 161
            +        F    S   V++M+R  TY  + A   R    S      + ASL+   + 
Sbjct: 141 ADPDAAAELRFLATRSKAEVVDMLRKHTYFDELAQSKRTFAASTPSAATTTASLSNGHLS 200

Query: 162 GDEQ-----FAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDD 216
                     A   LF K +TPSDVGKLNRLVIPK++A K+FP    +AG     G    
Sbjct: 201 SPRSPFAPAAARDHLFDKTVTPSDVGKLNRLVIPKQHAEKHFPLQLPSAG-----GESKG 255

Query: 217 MELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKE 276
           + L F D   + W+FRY +W SSQSYV T+GW+RFVKEK L   D++ FY    A+   +
Sbjct: 256 VLLNFEDAAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKGLHAGDVVGFYR-SAASAGDD 314

Query: 277 GQNFFLVDVIHCEGQNCNVVKKPVQLEQITGKIFSYNEKESNSEEKGFKLFGVQI 331
           G+ F           +C +V+           + S  ++ + S  K  +LFGV +
Sbjct: 315 GKLFI----------DCKLVR------STGAALASPADQPAPSPVKAVRLFGVDL 353

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P82280|RAV2_ARATH AP2/ERF and B3 domain-containing transcription repressor RAV2 OS=Arabidopsis thaliana GN=RAV2 PE=2 SV=1

 Score =  179 bits (455), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 103/249 (41%), Positives = 145/249 (58%), Gaps = 20/249 (8%)

Query: 24  SNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAA 83
           S  S+  L P        + +   K+KGVVPQ NG WGAQIY  HQR+WLGTF  + EAA
Sbjct: 40  SGGSSVVLDPENGLETESRKLPSSKYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEQEEAA 99

Query: 84  MAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFAD----- 138
            +YD AA + RG D+  NF      + +  F   +S   +++M+R  TY  +        
Sbjct: 100 RSYDIAACRFRGRDAVVNFK-NVLEDGDLAFLEAHSKAEIVDMLRKHTYADELEQNNKRQ 158

Query: 139 -YLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKY 197
            +L V +  + N S+ + N  ++   E      LF+K +TPSDVGKLNRLVIPK++A K+
Sbjct: 159 LFLSVDANGKRNGSSTTQNDKVLKTRE-----VLFEKAVTPSDVGKLNRLVIPKQHAEKH 213

Query: 198 FPFISENAGENAINGGVDDMELVFFDKL-MRPWKFRYCFWRSSQSYVFTRGWNRFVKEKK 256
           FP  S +    A+  GV    L+ F+ +  + W+FRY +W SSQSYV T+GW+RFVKEK 
Sbjct: 214 FPLPSPSP---AVTKGV----LINFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKN 266

Query: 257 LKEKDIITF 265
           L+  D++TF
Sbjct: 267 LRAGDVVTF 275

Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcritptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6L4H4|Y5498_ORYSJ AP2/ERF and B3 domain-containing protein Os05g0549800 OS=Oryza sativa subsp. japonica GN=Os05g0549800 PE=2 SV=1

 Score =  169 bits (427), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 101/233 (43%), Positives = 127/233 (54%), Gaps = 17/233 (7%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNF-PWTD 106
           K+KGVVPQ NG WGAQIY  HQR+WLGTF  E EAA AYD AA + RG D+  NF P  +
Sbjct: 68  KYKGVVPQPNGRWGAQIYERHQRVWLGTFTGEAEAARAYDVAAQRFRGRDAVTNFRPLAE 127

Query: 107 TNNQ---EPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGD 163
           ++ +   E  F    S   V++M+R  TY  +     R  +           +       
Sbjct: 128 SDPEAAVELRFLASRSKAEVVDMLRKHTYLEELTQNKRAFAAISPPPPK---HPASSPTS 184

Query: 164 EQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPF----------ISENAGENAINGG 213
              A   LF K +TPSDVGKLNRLVIPK++A K+FP           ++  A   A  G 
Sbjct: 185 SSAAREHLFDKTVTPSDVGKLNRLVIPKQHAEKHFPLQLPPPTTTSSVAAAADAAAGGGD 244

Query: 214 VDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFY 266
              + L F D   + WKFRY +W SSQSYV T+GW+RFVKEK L   D + FY
Sbjct: 245 CKGVLLNFEDAAGKVWKFRYSYWNSSQSYVLTKGWSRFVKEKGLHAGDAVGFY 297

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9AWS7|Y1407_ORYSJ Putative AP2/ERF and B3 domain-containing protein Os01g0140700 OS=Oryza sativa subsp. japonica GN=Os01g0140700 PE=3 SV=1

 Score =  162 bits (410), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 101/251 (40%), Positives = 135/251 (53%), Gaps = 22/251 (8%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPWT 105
           ++KGVVPQ NG WGAQIY  H R+WLGTF  E  AA AYD AA++ RG D  ++R     
Sbjct: 66  RYKGVVPQPNGRWGAQIYERHARVWLGTFPDEEAAARAYDVAALRFRGRDAVTNRAPAAE 125

Query: 106 DTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQ 165
             +  E  F   +S   V++M+R  TY  +    LR  S+ +                 +
Sbjct: 126 GASAGELAFLAAHSKAEVVDMLRKHTYDDELQQGLRRGSRAQPT--------------PR 171

Query: 166 FAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKL 225
           +A   LF+K +TPSDVGKLNRLV+PK+ A ++FPF       +A   GV    L F D  
Sbjct: 172 WAREPLFEKAVTPSDVGKLNRLVVPKQQAERHFPFPLRRHSSDAAGKGV---LLNFEDGD 228

Query: 226 MRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDV 285
            + W+FRY +W SSQSYV T+GW+RFV+EK L+  D + F     A G    +   L+D 
Sbjct: 229 GKVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRPGDTVAFSRSAAAWGT---EKHLLIDC 285

Query: 286 IHCEGQNCNVV 296
              E  N   V
Sbjct: 286 KKMERNNLATV 296

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9AWS0|Y1410_ORYSJ AP2/ERF and B3 domain-containing protein Os01g0141000 OS=Oryza sativa subsp. japonica GN=Os01g0141000 PE=2 SV=1

 Score =  159 bits (403), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 98/219 (44%), Positives = 128/219 (58%), Gaps = 11/219 (5%)

Query: 48  KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDT 107
           ++KGVVPQ NG WGAQIY  H R+WLGTF  E  AA AYD AA++ RG D+  NFP    
Sbjct: 68  RYKGVVPQPNGRWGAQIYERHARVWLGTFPDEEAAARAYDVAALRYRGRDAATNFPGAAA 127

Query: 108 NNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFA 167
           +  E  F   +S   +++M+R  TY    AD LR Q  R      A            +A
Sbjct: 128 SAAELAFLAAHSKAEIVDMLRKHTY----ADELR-QGLRRGRGMGARAQPT-----PSWA 177

Query: 168 YRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELV-FFDKLM 226
              LF+K +TPSDVGKLNRLV+PK++A K+FP     + ++A         L+ F D   
Sbjct: 178 REPLFEKAVTPSDVGKLNRLVVPKQHAEKHFPLRRAASSDSASAAATGKGVLLNFEDGEG 237

Query: 227 RPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
           + W+FRY +W SSQSYV T+GW+RFV+EK L+  D I F
Sbjct: 238 KVWRFRYSYWNSSQSYVLTKGWSRFVREKGLRAGDTIVF 276

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	332
255578178	374	DNA binding protein, putative [Ricinus c	0.876	0.778	0.667	1e-108
225445893	357	PREDICTED: AP2/ERF and B3 domain-contain	0.987	0.918	0.568	1e-108
224073210	369	AP2 domain-containing transcription fact	0.927	0.834	0.576	1e-100
449457911	339	PREDICTED: AP2/ERF and B3 domain-contain	0.975	0.955	0.559	9e-97
449462611	356	PREDICTED: AP2/ERF and B3 domain-contain	0.981	0.915	0.524	2e-92
224143966	549	AP2 domain-containing transcription fact	0.828	0.500	0.604	1e-91
15223743	352	RAV-like factor [Arabidopsis thaliana] g	0.975	0.920	0.543	3e-90
15223618	337	RAV-like factor [Arabidopsis thaliana] g	0.840	0.827	0.561	3e-90
48479356	337	putative AP2/EREBP transcription factor	0.840	0.827	0.561	7e-90
255587881	349	DNA-binding protein RAV1, putative [Rici	0.975	0.928	0.491	1e-88

>gi|255578178|ref|XP_002529958.1| DNA binding protein, putative [Ricinus communis] gi|223530556|gb|EEF32435.1| DNA binding protein, putative [Ricinus communis]

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 205/307 (66%), Positives = 235/307 (76%), Gaps = 16/307 (5%)

Query: 1   MEEDAS-SMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNV---SLVKFKGVVPQQ 56
           MEE+AS SM+SNAK      E SDS +S     PA KR R   N+   +L KFKGVVPQQ
Sbjct: 1   MEEEASTSMLSNAKNENGTAEVSDSFDSHCHPFPANKRPRLGNNIGAANLAKFKGVVPQQ 60

Query: 57  NGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQN 116
           NGHWGAQIYANHQRIWLGTFKSE+EAAMAYDSAAIK+R GDSHRNFPWTD N  EP+FQ 
Sbjct: 61  NGHWGAQIYANHQRIWLGTFKSEKEAAMAYDSAAIKLRSGDSHRNFPWTDKNIPEPDFQT 120

Query: 117 QYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDE--QFAYRQLFQK 174
           QYSTEA+LNMIRDG+YQPKFAD+LR QS R++    +  NQ  V G +  QF+  QLFQK
Sbjct: 121 QYSTEAILNMIRDGSYQPKFADFLRTQSGRQEQAGASFNNQTKVPGSDHGQFSCIQLFQK 180

Query: 175 ELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENA------INGG---VDDMELVFFDKL 225
           ELTPSDVGKLNRLVIPKK+AVKYFP+IS N  E        + G    +DD+ELVF+D+L
Sbjct: 181 ELTPSDVGKLNRLVIPKKFAVKYFPYISGNGEEEGEEEEEKVVGAPSVLDDIELVFYDRL 240

Query: 226 MRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECA-NGAKEGQNFFLVD 284
           M+ WKFRYC+WRSSQS+VFTRGWNRFVKEK LKEKDIITFYAC    N  +EGQNF L+D
Sbjct: 241 MKCWKFRYCYWRSSQSFVFTRGWNRFVKEKNLKEKDIITFYACASPDNRVQEGQNFSLID 300

Query: 285 VIHCEGQ 291
           + +  GQ
Sbjct: 301 ISYSNGQ 307

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445893|ref|XP_002276492.1| PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g51120-like [Vitis vinifera]

 Score =  396 bits (1018), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 204/359 (56%), Positives = 255/359 (71%), Gaps = 31/359 (8%)

Query: 1   MEEDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHW 60
           MEE+  S++SN  TN    EASDSN+S+       KR +   +VS  +FKGVVPQQNGHW
Sbjct: 1   MEEEILSVISNGGTNVI-VEASDSNSSSLPFH-GSKRTKQGISVSSGRFKGVVPQQNGHW 58

Query: 61  GAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYST 120
           GAQIYANHQRIWLGT+KSE EAAMAYDSAAIK+R GD+HRNFPWT+   QEPNFQ+ +ST
Sbjct: 59  GAQIYANHQRIWLGTYKSETEAAMAYDSAAIKLRSGDNHRNFPWTNLTIQEPNFQSFFST 118

Query: 121 EAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSD 180
           E V+NMI+DG+Y  KFA++L+ +SQR +     SL+Q+ VH + +F  R LFQKELTPSD
Sbjct: 119 ETVVNMIKDGSYPSKFAEFLKTESQRGETEV-LSLDQVGVHRNGRFMCRLLFQKELTPSD 177

Query: 181 VGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQ 240
           VGKLNRLVIPKKYA K+FP ISE+A EN + G   DM+LVF+D+LMR WKFRYC+WRSSQ
Sbjct: 178 VGKLNRLVIPKKYATKHFPPISESAEENEVGGAAADMQLVFYDRLMRLWKFRYCYWRSSQ 237

Query: 241 SYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIH---CEGQNCN--- 294
           SYVFTRGWNRFVK+K+L E DI+TFY CE   G KEG+ F ++DV +    +G++ N   
Sbjct: 238 SYVFTRGWNRFVKDKELNENDIVTFYLCEYGQGTKEGRTFCMIDVAYDRSTDGRDANNGS 297

Query: 295 VVKKP-------VQLEQITGKIFSYNEKESNSEE---------------KGFKLFGVQI 331
            V+ P       ++L+Q   +   YN+ E  S+E               KG +LFGVQI
Sbjct: 298 FVEGPNRYVGLQIELQQDLKQNIGYNKHERKSQEEEESVGTEPALEGQKKGLRLFGVQI 356

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224073210|ref|XP_002304025.1| AP2 domain-containing transcription factor [Populus trichocarpa] gi|222841457|gb|EEE79004.1| AP2 domain-containing transcription factor [Populus trichocarpa]

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 193/335 (57%), Positives = 234/335 (69%), Gaps = 27/335 (8%)

Query: 25  NNSTSGLQPAPKRMRHDKNV-SLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAA 83
           N  T     + K  R   N+ ++ KFKG+VPQ+NGHWGAQIY+NHQRIWLGTFK+E+EAA
Sbjct: 20  NVETLAFSTSNKLGRLHSNIGNVAKFKGIVPQKNGHWGAQIYSNHQRIWLGTFKTEKEAA 79

Query: 84  MAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQ 143
           MAYDSAAIK+R  DSHRNFPW D N QEP+FQNQYSTE +LNMIRDG+YQ  F D++  Q
Sbjct: 80  MAYDSAAIKLRSTDSHRNFPWNDRNVQEPSFQNQYSTEEILNMIRDGSYQQIFVDFIMKQ 139

Query: 144 SQREDNNSNASLNQIMVHG-DEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFIS 202
           SQRE+   +   N   VH  DEQF+  QLFQK+LTPSDVGKLNRLVIPKK+AVKYFP I 
Sbjct: 140 SQREEIGGSDDPNGRRVHADDEQFSCIQLFQKDLTPSDVGKLNRLVIPKKFAVKYFPNIF 199

Query: 203 ENAGENAI--NGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEK 260
           ++  ++ +    GVDD EL+F+D+ M+ WKFRYC+WRSSQS+VFT+GWNRFVKEKKLKEK
Sbjct: 200 KDVEDDRVLNAAGVDDTELIFYDRFMKSWKFRYCYWRSSQSFVFTKGWNRFVKEKKLKEK 259

Query: 261 DIITFYACECANGAKE----GQNFFLVDVIHCEGQNCNV--------VKK--PVQLEQIT 306
           DII FY C C N   E    GQ F ++DV++C GQ   V        V++   V L Q  
Sbjct: 260 DIIIFYTCACPNKVLEQHGQGQYFSMIDVVYCNGQGGKVDGFNQTEDVQRELAVVLRQNM 319

Query: 307 GKIFSYNEKESNSE---------EKGFKLFGVQIN 332
            K    + KE   E         +KGF+LFGVQIN
Sbjct: 320 RKKLQKDGKELKEEKETLKNKVKQKGFRLFGVQIN 354

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449457911|ref|XP_004146691.1| PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g50680-like [Cucumis sativus] gi|449503179|ref|XP_004161873.1| PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g50680-like [Cucumis sativus]

 Score =  359 bits (922), Expect = 9e-97,   Method: Compositional matrix adjust.
 Identities = 193/345 (55%), Positives = 235/345 (68%), Gaps = 21/345 (6%)

Query: 1   MEEDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHW 60
           M+++ SSM+S AKTNA   E  DS+  T  L P     R  ++++  KFKGVVPQQNGHW
Sbjct: 1   MKQEFSSMISKAKTNAVG-ETLDSSCITCPL-PINGCSRQGRSLT-SKFKGVVPQQNGHW 57

Query: 61  GAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYST 120
           GAQIYANHQRIWLGTFKSE EAAMAYDSAAI+IR GD HRNFPWT    +EPNFQ  Y+T
Sbjct: 58  GAQIYANHQRIWLGTFKSENEAAMAYDSAAIRIRSGDCHRNFPWTKVTIEEPNFQKLYTT 117

Query: 121 EAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSD 180
           E +LNMI+DG+Y+ KF++YLR +S  E   ++AS +    H +   + +QLFQKELTPSD
Sbjct: 118 ETLLNMIKDGSYRTKFSEYLRDRS--ESTQTSASPSTEKAHNNGGTSIKQLFQKELTPSD 175

Query: 181 VGKLNRLVIPKKYAVKYFPFISENAGENAINGGVD-DMELVFFDKLMRPWKFRYCFWRSS 239
           VGKLNRLVIPKKYAVKYFP IS +  EN  +   D D++L+FFDK+MR WKFRYC+W+SS
Sbjct: 176 VGKLNRLVIPKKYAVKYFPRISASTTENVEHVDDDRDLQLLFFDKMMRQWKFRYCYWKSS 235

Query: 240 QSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDV-------------I 286
           QSYVFTRGWNRFVKEK+LK  D I FY CE A  +     F +VDV              
Sbjct: 236 QSYVFTRGWNRFVKEKQLKANDTIAFYLCEAAKSSDSKTTFCVVDVKNRDNSGGLVENET 295

Query: 287 HCEGQNCNVVKKPVQLEQITGKIFSYNEKESNSEEKGFKLFGVQI 331
            C     N+    V+ E ++ K    +E +   E KGFKLFGV I
Sbjct: 296 TCSELQLNLRHGEVE-ESVSPKHID-DELKDEREVKGFKLFGVHI 338

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462611|ref|XP_004149034.1| PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g51120-like [Cucumis sativus] gi|449525498|ref|XP_004169754.1| PREDICTED: AP2/ERF and B3 domain-containing transcription factor At1g51120-like [Cucumis sativus]

 Score =  345 bits (884), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 190/362 (52%), Positives = 235/362 (64%), Gaps = 36/362 (9%)

Query: 1   MEEDASS-MVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLV----KFKGVVPQ 55
           ME++ASS ++S+ K      E SDSN +   + P  KR R D +++ V    KFKGVVPQ
Sbjct: 1   MEDEASSSLLSHIKNPILAEEVSDSNFTYYAI-PEAKRPRLDNDLNDVMAVGKFKGVVPQ 59

Query: 56  QNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQ 115
           QNG WGAQIYANHQRIWLGTFK+E++AAMAYDSA+IK+R  DSHRNFPWT    +EPNFQ
Sbjct: 60  QNGRWGAQIYANHQRIWLGTFKTEKDAAMAYDSASIKLRTRDSHRNFPWTRRTIEEPNFQ 119

Query: 116 NQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKE 175
            ++ST+AVL+MI+DG+Y  KF+ YLR +SQ  D N           GD  F+   LFQKE
Sbjct: 120 IKFSTDAVLSMIKDGSYYSKFSAYLRTRSQIHDTNIQNPKKIDNGDGDSLFSCSHLFQKE 179

Query: 176 LTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCF 235
           LTPSDVGKLNRLVIPKKYAVK+FP+ISE+A EN      DD+E+VF+D  M+ WKFRYC+
Sbjct: 180 LTPSDVGKLNRLVIPKKYAVKHFPYISESAEENG-----DDIEIVFYDTSMKIWKFRYCY 234

Query: 236 WRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIH-------C 288
           WRSSQS+VFTRGWNRFVKEKKLK  DIITFY  E     + G +   +DVI+        
Sbjct: 235 WRSSQSFVFTRGWNRFVKEKKLKANDIITFYTYESCGREENGGSLNFIDVIYKKPEDDQS 294

Query: 289 EGQNCNVVKKPVQLEQITGK------------------IFSYNEKESNSEEKGFKLFGVQ 330
           E       K+ V+ E+I  +                   F  N  ++   EK  +LFGV 
Sbjct: 295 ESSCLAAEKESVKNEKILEREKQNEEKDYEKMKKKELLSFELNHNDNKVGEKRIRLFGVN 354

Query: 331 IN 332
           IN
Sbjct: 355 IN 356

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143966|ref|XP_002325139.1| AP2 domain-containing transcription factor [Populus trichocarpa] gi|222866573|gb|EEF03704.1| AP2 domain-containing transcription factor [Populus trichocarpa]

 Score =  342 bits (878), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 173/286 (60%), Positives = 207/286 (72%), Gaps = 11/286 (3%)

Query: 1   MEEDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHW 60
           ME++  S++SN +T+    E SDSN+ST    PA KR R   N+S  KFKGVVP  NGHW
Sbjct: 1   MEDETVSLISNGETSVVE-EFSDSNSSTHPF-PASKRARSGSNISASKFKGVVPLPNGHW 58

Query: 61  GAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYST 120
           G QIYANHQRIWLGTFKSE+EAAMAYDSAAIK+R GDS RNFP TD   +EP F++ +ST
Sbjct: 59  GCQIYANHQRIWLGTFKSEKEAAMAYDSAAIKLRSGDSRRNFPLTDVTVEEPKFRSYFST 118

Query: 121 EAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSD 180
           E VLNMI+DGTYQ KFA++ R  SQ  +  +  SL  +M   ++    +QLFQKELTPSD
Sbjct: 119 EVVLNMIKDGTYQCKFANFTRTCSQSVE--TELSLKLMMPQSNQGLTCKQLFQKELTPSD 176

Query: 181 VGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQ 240
           VGKLNR+VIPKKYA+KYFP ISE+A E      VD + L F+DK M+ WKFRYC+W+SSQ
Sbjct: 177 VGKLNRIVIPKKYAIKYFPHISESAEE------VDGVMLAFYDKSMKLWKFRYCYWKSSQ 230

Query: 241 SYVFTRGWNRFVKEKKLKEKDIITFYACECANGA-KEGQNFFLVDV 285
           SYVFTRGWNRFVKEKKLK  D I+F  CE         Q F ++DV
Sbjct: 231 SYVFTRGWNRFVKEKKLKANDTISFSLCERGETVDSAAQTFNMIDV 276

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15223743|ref|NP_175524.1| RAV-like factor [Arabidopsis thaliana] gi|75268188|sp|Q9C688.1|RAVL3_ARATH RecName: Full=AP2/ERF and B3 domain-containing transcription factor At1g51120; AltName: Full=RAV1-like ethylene-responsive transcription factor At1g51120 gi|12320776|gb|AAG50531.1|AC079828_2 DNA-binding protein RAV1, putative [Arabidopsis thaliana] gi|48479358|gb|AAT44950.1| putative AP2/EREBP transcription factor [Arabidopsis thaliana] gi|332194503|gb|AEE32624.1| RAV-like factor [Arabidopsis thaliana]

 Score =  338 bits (866), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 189/348 (54%), Positives = 231/348 (66%), Gaps = 24/348 (6%)

Query: 8   MVSNAKTNANNTEASDSNNS-TSGLQPAPKRMRHDKNVS-LVKFKGVVPQQNGHWGAQIY 65
           M + AKT    +  +DS  S T  ++P          +S   KFKGVV QQNGHWGAQIY
Sbjct: 4   MSNVAKTTTETSGLTDSVLSLTKRMKPTEVTTTTKPALSNTTKFKGVVQQQNGHWGAQIY 63

Query: 66  ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPWTDTNNQEPNFQNQYSTEAV 123
           A+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW+D    EP+FQ  Y+TEAV
Sbjct: 64  ADHRRIWLGTFKSAHEAAAAYDSASIKLRSFDANSHRNFPWSDFTLHEPDFQECYTTEAV 123

Query: 124 LNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGD------EQFAYRQLFQKELT 177
           LNMIRDG+YQ KF D+LR++SQ   N +     Q++  G+      + F+  QLFQKELT
Sbjct: 124 LNMIRDGSYQHKFRDFLRIRSQIVANINIVGSKQVLGGGEGGQESNKCFSCTQLFQKELT 183

Query: 178 PSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWR 237
           PSDVGKLNRLVIPKKYAVKY PFIS++  E   + GV+D+E+VF+D+ MR WKFRYC+WR
Sbjct: 184 PSDVGKLNRLVIPKKYAVKYMPFISDDQSEKETSEGVEDVEVVFYDRAMRQWKFRYCYWR 243

Query: 238 SSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAK--EGQN--FFLVDVIHCEGQNC 293
           SSQS+VFTRGWN FVKEK LKEKDII FY C+  N  K  EGQ+  F ++DV H  G   
Sbjct: 244 SSQSFVFTRGWNGFVKEKNLKEKDIIVFYTCDVPNNVKTLEGQSKTFLMIDVHHFSGNGF 303

Query: 294 NV---VKKPVQ----LEQITGKIFSYNEKESNSEEK---GFKLFGVQI 331
            V   V K V      E  T  +F+   +E    E+   GF LFGV+I
Sbjct: 304 VVPEEVNKTVHEISDEEMKTETLFTSKVEEETKSEEKKGGFMLFGVRI 351

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15223618|ref|NP_175483.1| RAV-like factor [Arabidopsis thaliana] gi|75268209|sp|Q9C6P5.1|RAVL2_ARATH RecName: Full=AP2/ERF and B3 domain-containing transcription factor At1g50680; AltName: Full=RAV1-like ethylene-responsive transcription factor At1g50680 gi|12322330|gb|AAG51186.1|AC079279_7 RAV-like DNA-binding protein, putative [Arabidopsis thaliana] gi|332194457|gb|AEE32578.1| RAV-like factor [Arabidopsis thaliana]

 Score =  338 bits (866), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 177/315 (56%), Positives = 215/315 (68%), Gaps = 36/315 (11%)

Query: 47  VKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPW 104
           VK+KGVV QQNGHWGAQIYA+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW
Sbjct: 26  VKYKGVVQQQNGHWGAQIYADHKRIWLGTFKSADEAATAYDSASIKLRSFDANSHRNFPW 85

Query: 105 TDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLN-------- 156
           +     EP+FQN Y+TE VLNMIRDG+YQ KF D+LR++SQ       AS+N        
Sbjct: 86  STITLNEPDFQNCYTTETVLNMIRDGSYQHKFRDFLRIRSQ-----IVASINIGGPKQAR 140

Query: 157 -QIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGE---NAING 212
            ++    D+ F+  QLFQKELTPSDVGKLNRLVIPKKYAVKY PFIS +  E     I G
Sbjct: 141 GEVNQESDKCFSCTQLFQKELTPSDVGKLNRLVIPKKYAVKYMPFISADQSEKEEGEIVG 200

Query: 213 GVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECAN 272
            V+D+E+VF+D+ MR WKFRYC+W+SSQS+VFTRGWN FVKEK LKEKD+I FY C+  N
Sbjct: 201 SVEDVEVVFYDRAMRQWKFRYCYWKSSQSFVFTRGWNSFVKEKNLKEKDVIAFYTCDVPN 260

Query: 273 GAK--EGQ--NFFLVDVIHCEGQNCNVVKKPVQL------------EQITGKIFSYNEKE 316
             K  EGQ  NF ++DV HC   N +VV + V +            E +   +    E +
Sbjct: 261 NVKTLEGQRKNFLMIDV-HCFSDNGSVVAEEVSMTVHDSSVQVKKTENLVSSMLEDKETK 319

Query: 317 SNSEEKGFKLFGVQI 331
           S   + GF LFGV+I
Sbjct: 320 SEENKGGFMLFGVRI 334

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|48479356|gb|AAT44949.1| putative AP2/EREBP transcription factor [Arabidopsis thaliana]

 Score =  337 bits (863), Expect = 7e-90,   Method: Compositional matrix adjust.
 Identities = 177/315 (56%), Positives = 215/315 (68%), Gaps = 36/315 (11%)

Query: 47  VKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPW 104
           VK+KGVV QQNGHWGAQIYA+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW
Sbjct: 26  VKYKGVVQQQNGHWGAQIYADHKRIWLGTFKSADEAATAYDSASIKLRSFDANSHRNFPW 85

Query: 105 TDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLN-------- 156
           +     EP+FQN Y+TE VLNMIRDG+YQ KF D+LR++SQ       AS+N        
Sbjct: 86  STITLNEPDFQNCYTTETVLNMIRDGSYQHKFRDFLRIRSQ-----IVASINIGGPKQAR 140

Query: 157 -QIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGE---NAING 212
            ++    D+ F+  QLFQKELTPSDVGKLNRLVIPKKYAVKY PFIS +  E     I G
Sbjct: 141 GEVNQESDKCFSCTQLFQKELTPSDVGKLNRLVIPKKYAVKYMPFISADQSEKEEGEIVG 200

Query: 213 GVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECAN 272
            V+D+E+VF+D+ MR WKFRYC+W+SSQS+VFTRGWN FVKEK LKEKD+I FY C+  N
Sbjct: 201 SVEDVEVVFYDRAMRQWKFRYCYWKSSQSFVFTRGWNGFVKEKNLKEKDVIAFYTCDVPN 260

Query: 273 GAK--EGQ--NFFLVDVIHCEGQNCNVVKKPVQL------------EQITGKIFSYNEKE 316
             K  EGQ  NF ++DV HC   N +VV + V +            E +   +    E +
Sbjct: 261 NVKTLEGQRKNFLMIDV-HCFSDNGSVVAEEVSMTVHDSSVQVKKTENLVSSMLEDKETK 319

Query: 317 SNSEEKGFKLFGVQI 331
           S   + GF LFGV+I
Sbjct: 320 SEENKGGFMLFGVRI 334

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255587881|ref|XP_002534427.1| DNA-binding protein RAV1, putative [Ricinus communis] gi|223525312|gb|EEF27956.1| DNA-binding protein RAV1, putative [Ricinus communis]

 Score =  332 bits (851), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 172/350 (49%), Positives = 227/350 (64%), Gaps = 26/350 (7%)

Query: 3   EDASSMVSNAKTNANNTEASDSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGA 62
           E+  SM+SN +T A   E SDSN+ST     A KR+ H  N+   +F+GVVP QNGHWG 
Sbjct: 4   EEIVSMISNGET-AVTEEVSDSNSSTYP-ALASKRVMHGSNICTSRFRGVVPHQNGHWGC 61

Query: 63  QIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEA 122
           QIYANHQRIWLGTFKSE+EAAMAYDSAA+K+R GD  RNFP T+ + +EP FQ+ YSTEA
Sbjct: 62  QIYANHQRIWLGTFKSEKEAAMAYDSAALKLRSGDCRRNFPITNISVEEPKFQSYYSTEA 121

Query: 123 VLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVG 182
           VL MI+DGTYQ K A +    SQ  +   +  L +     +     ++LFQKELTPSDVG
Sbjct: 122 VLKMIKDGTYQSKLAYFSSTSSQSVETELSIKLTK--TQRNRSLMCKELFQKELTPSDVG 179

Query: 183 KLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSY 242
           KLNRLVIPK++A+K+F  ISE+  +N      +D +L F+DK M+ WKFRYC+W+SSQSY
Sbjct: 180 KLNRLVIPKRFAIKFFSHISESVEQNIGGNKANDGQLAFYDKAMKLWKFRYCYWKSSQSY 239

Query: 243 VFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQNCNVVKKPVQ- 301
           VFTRGWNRFVKEK+LK  D I    CEC   A+   +++++DV + EG + ++++   Q 
Sbjct: 240 VFTRGWNRFVKEKQLKANDTIAICLCECRENAELTDSYYMIDVKN-EGDSSSLLESGSQS 298

Query: 302 ----------LEQITGKIFSYNEKES----------NSEEKGFKLFGVQI 331
                     L Q T   ++ N+ E           + + K F+LFG +I
Sbjct: 299 ETTKMQVHLHLGQTTACHYNKNKVEGEGLKEARPRHDGDRKSFRLFGTEI 348

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	332
TAIR|locus:2026058	352	AT1G51120 [Arabidopsis thalian	0.972	0.917	0.543	3e-85
TAIR|locus:2015832	337	AT1G50680 [Arabidopsis thalian	0.855	0.842	0.558	3.1e-83
TAIR|locus:2085969	333	EDF3 "ethylene response DNA bi	0.635	0.633	0.481	5.6e-45
TAIR|locus:2031185	361	TEM1 "TEMPRANILLO 1" [Arabidop	0.641	0.590	0.434	3.9e-44
TAIR|locus:2205319	344	RAV1 "related to ABI3/VP1 1" [	0.617	0.595	0.444	1e-43
TAIR|locus:2012438	352	RAV2 "related to ABI3/VP1 2" [	0.692	0.653	0.423	1.3e-43
TAIR|locus:2039165	244	ABS2 "ABNORMAL SHOOT 2" [Arabi	0.274	0.372	0.541	1.4e-23
TAIR|locus:2079537	299	NGA2 "NGATHA2" [Arabidopsis th	0.286	0.317	0.53	3.8e-23
TAIR|locus:2200950	358	NGA3 "NGATHA3" [Arabidopsis th	0.313	0.290	0.512	4.8e-23
TAIR|locus:2164215	282	DPA4 "DEVELOPMENT-RELATED PcG	0.361	0.425	0.44	7.8e-23

TAIR|locus:2026058 AT1G51120 [Arabidopsis thaliana (taxid:3702)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 189/348 (54%), Positives = 228/348 (65%)

Query:     9 VSN-AKTNANNTEASDSNNS-TSGLQPAPKRMRHDKNVS-LVKFKGVVPQQNGHWGAQIY 65
             +SN AKT    +  +DS  S T  ++P          +S   KFKGVV QQNGHWGAQIY
Sbjct:     4 MSNVAKTTTETSGLTDSVLSLTKRMKPTEVTTTTKPALSNTTKFKGVVQQQNGHWGAQIY 63

Query:    66 ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPWTDTNNQEPNFQNQYSTEAV 123
             A+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW+D    EP+FQ  Y+TEAV
Sbjct:    64 ADHRRIWLGTFKSAHEAAAAYDSASIKLRSFDANSHRNFPWSDFTLHEPDFQECYTTEAV 123

Query:   124 LNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGD---EQ---FAYRQLFQKELT 177
             LNMIRDG+YQ KF D+LR++SQ   N +     Q++  G+   E    F+  QLFQKELT
Sbjct:   124 LNMIRDGSYQHKFRDFLRIRSQIVANINIVGSKQVLGGGEGGQESNKCFSCTQLFQKELT 183

Query:   178 PSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWR 237
             PSDVGKLNRLVIPKKYAVKY PFIS++  E   + GV+D+E+VF+D+ MR WKFRYC+WR
Sbjct:   184 PSDVGKLNRLVIPKKYAVKYMPFISDDQSEKETSEGVEDVEVVFYDRAMRQWKFRYCYWR 243

Query:   238 SSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAK--EGQN--FFLVDVIHCEGQNC 293
             SSQS+VFTRGWN FVKEK LKEKDII FY C+  N  K  EGQ+  F ++DV H  G   
Sbjct:   244 SSQSFVFTRGWNGFVKEKNLKEKDIIVFYTCDVPNNVKTLEGQSKTFLMIDVHHFSGNGF 303

Query:   294 NV---VKKPVQL----EQITGKIFSYXXXXXXXXXX---GFKLFGVQI 331
              V   V K V      E  T  +F+              GF LFGV+I
Sbjct:   304 VVPEEVNKTVHEISDEEMKTETLFTSKVEEETKSEEKKGGFMLFGVRI 351

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

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

GO:0005634 "nucleus" evidence=ISM;ISS

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

TAIR|locus:2015832 AT1G50680 [Arabidopsis thaliana (taxid:3702)]

 Score = 834 (298.6 bits), Expect = 3.1e-83, P = 3.1e-83
 Identities = 173/310 (55%), Positives = 209/310 (67%)

Query:    47 VKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGD--SHRNFPW 104
             VK+KGVV QQNGHWGAQIYA+H+RIWLGTFKS  EAA AYDSA+IK+R  D  SHRNFPW
Sbjct:    26 VKYKGVVQQQNGHWGAQIYADHKRIWLGTFKSADEAATAYDSASIKLRSFDANSHRNFPW 85

Query:   105 TDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQ--REDN--NSNASLNQIMV 160
             +     EP+FQN Y+TE VLNMIRDG+YQ KF D+LR++SQ     N      +  ++  
Sbjct:    86 STITLNEPDFQNCYTTETVLNMIRDGSYQHKFRDFLRIRSQIVASINIGGPKQARGEVNQ 145

Query:   161 HGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENA---INGGVDDM 217
               D+ F+  QLFQKELTPSDVGKLNRLVIPKKYAVKY PFIS +  E     I G V+D+
Sbjct:   146 ESDKCFSCTQLFQKELTPSDVGKLNRLVIPKKYAVKYMPFISADQSEKEEGEIVGSVEDV 205

Query:   218 ELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAK-- 275
             E+VF+D+ MR WKFRYC+W+SSQS+VFTRGWN FVKEK LKEKD+I FY C+  N  K  
Sbjct:   206 EVVFYDRAMRQWKFRYCYWKSSQSFVFTRGWNSFVKEKNLKEKDVIAFYTCDVPNNVKTL 265

Query:   276 EGQ--NFFLVDVIHCEGQNCNVVKKPVQL------------EQITGKIFSYXXXXXXXXX 321
             EGQ  NF ++DV HC   N +VV + V +            E +   +            
Sbjct:   266 EGQRKNFLMIDV-HCFSDNGSVVAEEVSMTVHDSSVQVKKTENLVSSMLEDKETKSEENK 324

Query:   322 XGFKLFGVQI 331
              GF LFGV+I
Sbjct:   325 GGFMLFGVRI 334

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

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

GO:0005634 "nucleus" evidence=ISM;ISS

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

TAIR|locus:2085969 EDF3 "ethylene response DNA binding factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 105/218 (48%), Positives = 134/218 (61%)

Query:    48 KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDT 107
             +FKGVVPQ NG WGAQIY  HQR+WLGTF  E EAA AYD AA + RG D+  NF  T T
Sbjct:    61 RFKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEDEAARAYDVAAHRFRGRDAVTNFKDT-T 119

Query:   108 NNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMVHGDEQFA 167
               +E  F N +S   +++M+R  TY+ +     R +       +  +L  ++V    + A
Sbjct:   120 FEEEVEFLNAHSKSEIVDMLRKHTYKEELDQRKRNRDGNGKETTAFALASMVVMTGFKTA 179

Query:   168 YRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMR 227
                LF+K +TPSDVGKLNRLVIPK  A K+FP      G N  N  V  M L F D   +
Sbjct:   180 -ELLFEKTVTPSDVGKLNRLVIPKHQAEKHFPL---PLGNN--NVSVKGMLLNFEDVNGK 233

Query:   228 PWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
              W+FRY +W SSQSYV T+GW+RFVKEK+L   D+I+F
Sbjct:   234 VWRFRYSYWNSSQSYVLTKGWSRFVKEKRLCAGDLISF 271

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

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

GO:0009691 "cytokinin biosynthetic process" evidence=RCA

TAIR|locus:2031185 TEM1 "TEMPRANILLO 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 465 (168.7 bits), Expect = 3.9e-44, P = 3.9e-44
 Identities = 97/223 (43%), Positives = 135/223 (60%)

Query:    48 KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFP-WTD 106
             K+KGVVPQ NG WGAQIY  HQR+WLGTF  E EAA +YD A  + RG D+  NF    D
Sbjct:    71 KYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEEEAASSYDIAVRRFRGRDAVTNFKSQVD 130

Query:   107 TNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLN--QIMVHGDE 164
              N+ E  F + +S   +++M+R  TY  +F      QS+R+  N +   +  +   +G++
Sbjct:   131 GNDAESAFLDAHSKAEIVDMLRKHTYADEFE-----QSRRKFVNGDGKRSGLETATYGND 185

Query:   165 QF--AYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFF 222
                 A   LF+K +TPSDVGKLNRLVIPK++A K+FP  +              + +   
Sbjct:   186 AVLRAREVLFEKTVTPSDVGKLNRLVIPKQHAEKHFPLPAMTTAMGMNPSPTKGVLINLE 245

Query:   223 DKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
             D+  + W+FRY +W SSQSYV T+GW+RFVKEK L+  D++ F
Sbjct:   246 DRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCF 288

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

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

GO:0005634 "nucleus" evidence=ISM

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

GO:0009873 "ethylene mediated signaling pathway" evidence=NAS

GO:0048573 "photoperiodism, flowering" evidence=IMP

GO:0030003 "cellular cation homeostasis" evidence=RCA

GO:0070838 "divalent metal ion transport" evidence=RCA

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

 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 101/227 (44%), Positives = 136/227 (59%)

Query:    48 KFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDT 107
             K+KGVVPQ NG WGAQIY  HQR+WLGTF  E EAA AYD A  + R  D+  NF     
Sbjct:    61 KYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEDEAARAYDVAVHRFRRRDAVTNFKDVKM 120

Query:   108 NNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQSQREDNNSNASLNQIMV------H 161
             +  E +F N +S   +++M+R  TY  +       QS+R   N N ++ + ++       
Sbjct:   121 DEDEVDFLNSHSKSEIVDMLRKHTYNEELE-----QSKRR-RNGNGNMTRTLLTSGLSND 174

Query:   162 GDEQFAYRQ---LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDME 218
             G     +R    LF+K +TPSDVGKLNRLVIPK +A K+FP  S N    ++ G +    
Sbjct:   175 GVSTTGFRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNV---SVKGVL---- 227

Query:   219 LVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
             L F D   + W+FRY +W SSQSYV T+GW+RFVKEK L+  D+++F
Sbjct:   228 LNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSF 274

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

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

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

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

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

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

GO:0048366 "leaf development" evidence=IMP

GO:0048527 "lateral root development" evidence=IMP

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

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

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

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

TAIR|locus:2012438 RAV2 "related to ABI3/VP1 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 460 (167.0 bits), Expect = 1.3e-43, P = 1.3e-43
 Identities = 105/248 (42%), Positives = 146/248 (58%)

Query:    24 SNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAA 83
             S  S+  L P        + +   K+KGVVPQ NG WGAQIY  HQR+WLGTF  + EAA
Sbjct:    40 SGGSSVVLDPENGLETESRKLPSSKYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEQEEAA 99

Query:    84 MAYDSAAIKIRGGDSHRNFPWTDTNNQEPNFQNQYSTEAVLNMIRDGTYQPKFADYLRVQ 143
              +YD AA + RG D+  NF      + +  F   +S   +++M+R  TY    AD L   
Sbjct:   100 RSYDIAACRFRGRDAVVNFK-NVLEDGDLAFLEAHSKAEIVDMLRKHTY----ADELEQN 154

Query:   144 SQRE---DNNSNASLN-QIMVHGDEQFAYRQ-LFQKELTPSDVGKLNRLVIPKKYAVKYF 198
             ++R+     ++N   N       D+    R+ LF+K +TPSDVGKLNRLVIPK++A K+F
Sbjct:   155 NKRQLFLSVDANGKRNGSSTTQNDKVLKTREVLFEKAVTPSDVGKLNRLVIPKQHAEKHF 214

Query:   199 PFISENAGENAINGGVDDMELVFFDKLM-RPWKFRYCFWRSSQSYVFTRGWNRFVKEKKL 257
             P  S +    A+  GV    L+ F+ +  + W+FRY +W SSQSYV T+GW+RFVKEK L
Sbjct:   215 PLPSPSP---AVTKGV----LINFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNL 267

Query:   258 KEKDIITF 265
             +  D++TF
Sbjct:   268 RAGDVVTF 275

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

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

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0010167 "response to nitrate" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

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

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 52/96 (54%), Positives = 70/96 (72%)

Query:   171 LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWK 230
             LF+K LTPSDVGKLNRLVIPK++A +YFP  +  A  +A+  G   + L F D+  +PW+
Sbjct:    37 LFEKPLTPSDVGKLNRLVIPKQHAERYFPLAA--AAADAVEKG---LLLCFEDEEGKPWR 91

Query:   231 FRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFY 266
             FRY +W SSQSYV T+GW+R+VKEK L   D++ F+
Sbjct:    92 FRYSYWNSSQSYVLTKGWSRYVKEKHLDAGDVVLFH 127

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

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

GO:0080167 "response to karrikin" evidence=IEP

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

TAIR|locus:2079537 NGA2 "NGATHA2" [Arabidopsis thaliana (taxid:3702)]

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 53/100 (53%), Positives = 69/100 (69%)

Query:   171 LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWK 230
             +F K +TPSDVGKLNRLVIPK++A +YFP   +N+  N  N G   + L F D+    W+
Sbjct:    22 MFDKVVTPSDVGKLNRLVIPKQHAERYFPL--DNSTTNDSNKG---LLLNFEDRSGNSWR 76

Query:   231 FRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACEC 270
             FRY +W SSQSYV T+GW+RFVK+KKL   DI++F    C
Sbjct:    77 FRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQRDSC 116

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0009908 "flower development" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2200950 NGA3 "NGATHA3" [Arabidopsis thaliana (taxid:3702)]

 Score = 266 (98.7 bits), Expect = 4.8e-23, P = 4.8e-23
 Identities = 60/117 (51%), Positives = 78/117 (66%)

Query:   149 NNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGEN 208
             NN+N  L  +M+   E+     +F K +TPSDVGKLNRLVIPK++A +YFP  S N   N
Sbjct:    38 NNNN--LPMMMIPPPEK---EHMFDKVVTPSDVGKLNRLVIPKQHAERYFPLDSSN---N 89

Query:   209 AINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
               NG +    L F D+  + W+FRY +W SSQSYV T+GW+RFVKEKKL   DI++F
Sbjct:    90 Q-NGTL----LNFQDRNGKMWRFRYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSF 141

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

GO:0009908 "flower development" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2164215 DPA4 "DEVELOPMENT-RELATED PcG TARGET IN THE APEX 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 55/125 (44%), Positives = 76/125 (60%)

Query:   143 QSQREDNNSNASLNQIMVHGDEQFAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFIS 202
             Q +   + S  +     +H D +     LF+K LTPSDVGKLNRLVIPK++A KYFP  +
Sbjct:    20 QHRHTTDTSETTTTATWLHDDLK---ESLFEKSLTPSDVGKLNRLVIPKQHAEKYFPLNA 76

Query:   203 ENAGENAINGGVDD--MELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEK 260
                   A +    +  M L F D+  + W+FRY +W SSQSYV T+GW+RFVK+K+L   
Sbjct:    77 VLVSSAAADTSSSEKGMLLSFEDESGKSWRFRYSYWNSSQSYVLTKGWSRFVKDKQLDPG 136

Query:   261 DIITF 265
             D++ F
Sbjct:   137 DVVFF 141

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

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

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

GO:0010073 "meristem maintenance" evidence=IMP

GO:0010358 "leaf shaping" evidence=IGI

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

GO:0048366 "leaf development" evidence=IGI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9C688	RAVL3_ARATH	No assigned EC number	0.5431	0.9759	0.9204	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00017239001 SubName- Full=Chromosome chr11 scaffold_14, whole genome shotgun sequence; Flags- Fragment; (359 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	332
pfam02362	97	pfam02362, B3, B3 DNA binding domain	6e-23
cd00018	61	cd00018, AP2, DNA-binding domain found in transcri	6e-23
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	1e-22
smart01019	96	smart01019, B3, B3 DNA binding domain	5e-21
smart00380	64	smart00380, AP2, DNA-binding domain in plant prote	8e-20
cd10015	109	cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o	1e-06
pfam00847	53	pfam00847, AP2, AP2 domain	3e-04

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

 Score = 90.9 bits (226), Expect = 6e-23
 Identities = 31/95 (32%), Positives = 42/95 (44%), Gaps = 13/95 (13%)

Query: 172 FQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKF 231
           F K LTPSDV K  RLV+PKK+A +                     E+   D   + W  
Sbjct: 1   FVKVLTPSDVSKDGRLVLPKKFAEENG-------------LNKKGQEITLLDPDGKSWTV 47

Query: 232 RYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFY 266
           +  + +S + Y+ T GW  FVK   LK  D + F 
Sbjct: 48  KLRYRKSGRRYLLTSGWKEFVKANGLKAGDSLVFK 82

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|237985 cd00018, AP2, DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein)

 Score = 89.6 bits (223), Expect = 6e-23
 Identities = 28/60 (46%), Positives = 39/60 (65%), Gaps = 2/60 (3%)

Query: 48  KFKGVVPQQNGHWGAQIY--ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWT 105
           K++GV  +  G W A+I   +  +RIWLGTF +  EAA AYD AA+K+RG  +  NFP +
Sbjct: 2   KYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61

In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies. Length = 61

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

 Score = 90.1 bits (224), Expect = 1e-22
 Identities = 32/96 (33%), Positives = 45/96 (46%), Gaps = 13/96 (13%)

Query: 171 LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWK 230
           LF K LTPSDV  L RLV+PKK+A  + P               + +E+   D   + W 
Sbjct: 2   LFFKVLTPSDVSSLGRLVLPKKFAKAHLPPK-------------EGVEVTLEDPDGKKWT 48

Query: 231 FRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFY 266
            +    ++S   V + GW  FV+   LKE D + F 
Sbjct: 49  VKLKKRKNSGRMVLSGGWKEFVRANGLKEGDFLVFE 84

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

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

 Score = 85.8 bits (213), Expect = 5e-21
 Identities = 32/95 (33%), Positives = 43/95 (45%), Gaps = 13/95 (13%)

Query: 172 FQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKF 231
           F K LT SDV K  RLV+PK++A    P +                E+   D   + WK 
Sbjct: 1   FFKTLTTSDVSKHGRLVLPKQFAESNGPPLKP-------------KEITLLDPDGKSWKV 47

Query: 232 RYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFY 266
           +  +  SS  ++ T GW  FVK   LK  D +TF 
Sbjct: 48  KLKYRGSSGMFLLTGGWKEFVKANGLKAGDSLTFE 82

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|197689 smart00380, AP2, DNA-binding domain in plant proteins such as APETALA2 and EREBPs

 Score = 81.5 bits (202), Expect = 8e-20
 Identities = 27/58 (46%), Positives = 36/58 (62%), Gaps = 2/58 (3%)

Query: 48  KFKGVVPQQNGHWGAQIY--ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFP 103
           K++GV  +  G W A+I   +  +R+WLGTF +  EAA AYD AA K RG  +  NFP
Sbjct: 1   KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFP 58

Length = 64

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

 Score = 46.1 bits (109), Expect = 1e-06
 Identities = 27/105 (25%), Positives = 39/105 (37%), Gaps = 10/105 (9%)

Query: 171 LFQKELTPSDVGK----LNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLM 226
           +  K L+ +D G        L IPK    K+ P I  N    A       M  +      
Sbjct: 2   VLIKRLSANDTGATGGHQVGLYIPKGIVEKFPPSI--NHTREANPSIFLTMHDI---SDC 56

Query: 227 RPWKFRYCFWRSSQSYVF-TRGWNRFVKEKKLKEKDIITFYACEC 270
           R W+ R  F+ S+++    TRG   FVK+  L   D+        
Sbjct: 57  RDWEARAIFYNSNRNEKRLTRGGRGFVKQNPLNTGDLTLIAFDLD 101

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

>gnl|CDD|216148 pfam00847, AP2, AP2 domain

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 21/53 (39%), Positives = 30/53 (56%), Gaps = 6/53 (11%)

Query: 48 KFKGVV-PQQNGHWGAQIYAN----HQRIWLGTFKSEREAAMAYDSAAIKIRG 95
           +KGV   ++ G W A+I        +R  LGTF +E EAA A  +A +K+RG
Sbjct: 2  GYKGVRYDKRWGRWVAEIRDPGEKKKKRFSLGTFGTE-EAARAAIAARLKLRG 53

This 60 amino acid residue domain can bind to DNA and is found in transcription factor proteins. Length = 53

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	332
cd00018	61	AP2 DNA-binding domain found in transcription regu	99.79
smart00380	64	AP2 DNA-binding domain in plant proteins such as A	99.78
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.74
PHA00280	121	putative NHN endonuclease	99.62
PF00847	56	AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-	99.05
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	98.78
PF09217	156	EcoRII-N: Restriction endonuclease EcoRII, N-termi	98.08

>cd00018 AP2 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein)

Probab=99.79  E-value=1.5e-19  Score=134.42  Aligned_cols=59  Identities=47%  Similarity=0.808  Sum_probs=56.6

Q ss_pred             CceeeEEECCCCeEEEEEeeC--CeEEEEccCCCHHHHHHHHHHHHHHhhCCCCCCCCCCC
Q 046898           47 VKFKGVVPQQNGHWGAQIYAN--HQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWT  105 (332)
Q Consensus        47 S~yrGV~~~~~gkw~A~I~~~--~k~~~LG~f~t~eeAA~Ayd~aa~~~~g~~a~~NFp~~  105 (332)
                      |+|+||+++++|+|+|+|+.+  ++++|||+|+|+||||.|||.|+++++|..+.+|||++
T Consensus         1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~   61 (61)
T cd00018           1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS   61 (61)
T ss_pred             CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence            789999998789999999999  99999999999999999999999999999999999964

In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies.

>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs

Probab=99.78  E-value=4.5e-19  Score=133.36  Aligned_cols=61  Identities=44%  Similarity=0.767  Sum_probs=58.6

Q ss_pred             ceeeEEECCCCeEEEEEee--CCeEEEEccCCCHHHHHHHHHHHHHHhhCCCCCCCCCCCCCC
Q 046898           48 KFKGVVPQQNGHWGAQIYA--NHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWTDTN  108 (332)
Q Consensus        48 ~yrGV~~~~~gkw~A~I~~--~~k~~~LG~f~t~eeAA~Ayd~aa~~~~g~~a~~NFp~~~~~  108 (332)
                      +|+||+++++|+|+|+|+.  .++++|||+|+|+||||.|||.|+++++|..+.+|||.++|+
T Consensus         1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~   63 (64)
T smart00380        1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD   63 (64)
T ss_pred             CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence            5999999888999999999  899999999999999999999999999999999999999886

>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=99.74  E-value=1.1e-17  Score=134.24  Aligned_cols=99  Identities=32%  Similarity=0.492  Sum_probs=72.2

Q ss_pred             hccccccCCCCCCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCCCcEEEEEEEecCCCeeEEccChHHH
Q 046898          172 FQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWNRF  251 (332)
Q Consensus       172 F~K~LT~SDV~~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~gk~W~fr~~~~~~~~~yvLt~GW~~F  251 (332)
                      |.|+|++||+...++|.||++++++|...  .          ..++.+.+.|..|+.|.+++.+++++.+|+|++||..|
T Consensus         1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~~--~----------~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~F   68 (100)
T PF02362_consen    1 FFKVLKPSDVSSSCRLIIPKEFAKKHGGN--K----------RKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKF   68 (100)
T ss_dssp             EEEE--TTCCCCTT-EEE-HHHHTTTS----S----------S--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHH
T ss_pred             CEEEEEccCcCCCCEEEeCHHHHHHhCCC--c----------CCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHH
Confidence            78999999998888999999999998211  1          13467888999999999999999988889999999999


Q ss_pred             hhhcCCCCCCEEEEEeeccCCCcccCcceEEEEEEec
Q 046898          252 VKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHC  288 (332)
Q Consensus       252 Vk~k~Lk~GD~i~F~r~~~g~~~~~~~~~~~i~~~~~  288 (332)
                      |++|+|++||+|+|+...+..      ..+.+.+.++
T Consensus        69 v~~n~L~~GD~~~F~~~~~~~------~~~~v~i~~~   99 (100)
T PF02362_consen   69 VRDNGLKEGDVCVFELIGNSN------FTLKVHIFRK   99 (100)
T ss_dssp             HHHCT--TT-EEEEEE-SSSC------E-EEEEEE--
T ss_pred             HHHcCCCCCCEEEEEEecCCC------ceEEEEEEEC
Confidence            999999999999999886422      2346665543

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.

>PHA00280 putative NHN endonuclease

Probab=99.62  E-value=4.8e-16  Score=130.89  Aligned_cols=76  Identities=12%  Similarity=0.100  Sum_probs=70.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCceeeEEEC-CCCeEEEEEeeCCeEEEEccCCCHHHHHHHHHHHHHHhhCCCCC
Q 046898           23 DSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQ-QNGHWGAQIYANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSH   99 (332)
Q Consensus        23 ~~~n~~~~~~~~~~r~~~~~~~~~S~yrGV~~~-~~gkw~A~I~~~~k~~~LG~f~t~eeAA~Ayd~aa~~~~g~~a~   99 (332)
                      .-+||+.++..+|.+++...+.|+|||+||+|. ..|||+|+|..+||+++||.|+++|+|+.||+ ++.++||.+|.
T Consensus        43 ri~NLr~~T~~eN~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~  119 (121)
T PHA00280         43 ALDNLRLALPKENSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTAEGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR  119 (121)
T ss_pred             cHHHhhhcCHHHHhcccCCCCCCCCCCCeeEEecCCCeEEEEEEECCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence            345999999999999999999999999999995 77999999999999999999999999999997 77899999875

>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes

Probab=99.05  E-value=3.3e-10  Score=82.36  Aligned_cols=50  Identities=34%  Similarity=0.452  Sum_probs=44.8

Q ss_pred             CceeeEEEC-CCCeEEEEEeeC-----CeEEEEccCCCHHHHHHHHHHHHHHhhCC
Q 046898           47 VKFKGVVPQ-QNGHWGAQIYAN-----HQRIWLGTFKSEREAAMAYDSAAIKIRGG   96 (332)
Q Consensus        47 S~yrGV~~~-~~gkw~A~I~~~-----~k~~~LG~f~t~eeAA~Ayd~aa~~~~g~   96 (332)
                      |+|+||++. ..++|+|+|++.     ++.++||.|++++||++||+.+++.++|.
T Consensus         1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e   56 (56)
T PF00847_consen    1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE   56 (56)
T ss_dssp             SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred             CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence            789999995 679999999883     49999999999999999999999999874

Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.

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

Probab=98.78  E-value=7.8e-09  Score=86.50  Aligned_cols=86  Identities=26%  Similarity=0.536  Sum_probs=68.6

Q ss_pred             hhhhhccccccCCC-CCCceEEeeccchhhcCCCCCccccccc-----cCCCccceEEEEEeCCCCcEEEEEEEecC---
Q 046898          168 YRQLFQKELTPSDV-GKLNRLVIPKKYAVKYFPFISENAGENA-----INGGVDDMELVFFDKLMRPWKFRYCFWRS---  238 (332)
Q Consensus       168 ~~~lF~K~LT~SDV-~~~~rLvIPk~~ae~~lP~l~~~~~~~~-----~~~~~~~~~l~~~D~~gk~W~fr~~~~~~---  238 (332)
                      ...+|.|+|+.||| .+++||.||-..... ..+|...+....     .+....++.+.+.|..++.|.++++.|..   
T Consensus        20 ~kli~~K~L~~tDv~~~qsRLsmP~~qi~~-~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~~   98 (114)
T PF03754_consen   20 PKLIIEKTLFKTDVDPHQSRLSMPFNQIID-NDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGNG   98 (114)
T ss_pred             CeEEEeeeecccCCCCCCceeeccHHHhcc-cccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccCC
Confidence            56799999999999 467999999998866 466765432211     12234788999999999999999999998   


Q ss_pred             CCeeEEccChHHHhhh
Q 046898          239 SQSYVFTRGWNRFVKE  254 (332)
Q Consensus       239 ~~~yvLt~GW~~FVk~  254 (332)
                      ...|+|..||.++|++
T Consensus        99 ~~~YvL~~gWn~VV~~  114 (114)
T PF03754_consen   99 TSNYVLNSGWNKVVED  114 (114)
T ss_pred             ceEEEEEcChHhhccC
Confidence            4679999999999874

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

Probab=98.08  E-value=7.2e-06  Score=71.49  Aligned_cols=92  Identities=18%  Similarity=0.245  Sum_probs=58.7

Q ss_pred             hhhccccccCCCC----CCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCC--CcEEEEEEEecC-----
Q 046898          170 QLFQKELTPSDVG----KLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLM--RPWKFRYCFWRS-----  238 (332)
Q Consensus       170 ~lF~K~LT~SDV~----~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~g--k~W~fr~~~~~~-----  238 (332)
                      .+|.|.|++.|++    ++.++.|||..++.+||.+.....      .++++.|.+++..+  ..|.||++|.++     
T Consensus         8 ~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~------~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~g   81 (156)
T PF09217_consen    8 AIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKE------ENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGG   81 (156)
T ss_dssp             EEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSS------SS-EEEEEEEETTTT---EEEEEEEE-CCCTTS
T ss_pred             EEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccc------cCCceeEEEEECCCCccceeEEEEEEcccccCC
Confidence            3799999999994    667899999999999999877443      25788998888776  668899999998     


Q ss_pred             -CCeeEEccChHHHhhhcC-CCCCCEEEEEee
Q 046898          239 -SQSYVFTRGWNRFVKEKK-LKEKDIITFYAC  268 (332)
Q Consensus       239 -~~~yvLt~GW~~FVk~k~-Lk~GD~i~F~r~  268 (332)
                       .+-|.|| .|.....--+ =..||.++|.-.
T Consensus        82 TRNE~RIT-~~G~~~~~~~~~~tGaL~vlaf~  112 (156)
T PF09217_consen   82 TRNEYRIT-RFGRGFPLQNPENTGALLVLAFD  112 (156)
T ss_dssp             S--EEEEE----TTSGGG-GGGTT-EEEEEEE
T ss_pred             CcCceEEe-eecCCCccCCccccccEEEEEEc
Confidence             4679998 7877433222 368998888754

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	332
1wid_A	130	Solution Structure Of The B3 Dna-Binding Domain Of		4e-23
1gcc_A	63	Solution Nmr Structure Of The Complex Of Gcc-Box Bi		2e-06
2gcc_A	70	Solution Structure Of The Gcc-Box Binding Domain, N		3e-06

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

Iteration: 1
 Score =  105 bits (261), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 51/95 (53%), Positives = 65/95 (68%), Gaps = 7/95 (7%)
Query: 171 LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWK 230
           LF+K +TPSDVGKLNRLVIPK +A K+FP  S N         V  + L F D   + W+
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVS-------VKGVLLNFEDVNGKVWR 65
Query: 231 FRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
           FRY +W SSQSYV T+GW+RFVKEK L+  D+++F
Sbjct: 66  FRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSF 100

>pdb|1GCC|A Chain A, Solution Nmr Structure Of The Complex Of Gcc-Box Binding Domain Of Aterf1 And Gcc-Box Dna, Minimized Average Structure Length = 63

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 24/58 (41%), Positives = 37/58 (63%), Gaps = 3/58 (5%)
Query: 49  FKGVVPQQNGHWGAQIY---ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFP 103
           ++GV  +  G + A+I     N  R+WLGTF++  +AA+AYD AA ++RG  +  NFP
Sbjct: 3   YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60

>pdb|2GCC|A Chain A, Solution Structure Of The Gcc-Box Binding Domain, Nmr, Minimized Mean Structure Length = 70

Iteration: 1
 Score = 49.3 bits (116), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/58 (41%), Positives = 37/58 (63%), Gaps = 3/58 (5%)
Query: 49  FKGVVPQQNGHWGAQIY---ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFP 103
           ++GV  +  G + A+I     N  R+WLGTF++  +AA+AYD AA ++RG  +  NFP
Sbjct: 6   YRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 63

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	332
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	1e-26
1gcc_A	63	Ethylene responsive element binding factor 1; tran	2e-15
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	2e-05

>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 =  101 bits (252), Expect = 1e-26
 Identities = 50/103 (48%), Positives = 65/103 (63%), Gaps = 7/103 (6%)

Query: 171 LFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWK 230
           LF+K +TPSDVGKLNRLVIPK +A K+FP  S N     +        L F D   + W+
Sbjct: 13  LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGV-------LLNFEDVNGKVWR 65

Query: 231 FRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANG 273
           FRY +W SSQSYV T+GW+RFVKEK L+  D+++F      + 
Sbjct: 66  FRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQ 108

>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A Length = 63

 Score = 68.9 bits (169), Expect = 2e-15
 Identities = 24/59 (40%), Positives = 37/59 (62%), Gaps = 3/59 (5%)

Query: 48  KFKGVVPQQNGHWGAQI---YANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFP 103
            ++GV  +  G + A+I     N  R+WLGTF++  +AA+AYD AA ++RG  +  NFP
Sbjct: 2   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60

>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 = 42.1 bits (99), Expect = 2e-05
 Identities = 18/94 (19%), Positives = 27/94 (28%), Gaps = 18/94 (19%)

Query: 172 FQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKF 231
           F K        K   L IP  +   +             +G              R W  
Sbjct: 11  FMKPFISEKSSK--SLEIPLGFNEYFPAPFPITVDLLDYSG--------------RSWTV 54

Query: 232 RYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
           R    +  +    T GW  FVK+  L++   + F
Sbjct: 55  RMK--KRGEKVFLTVGWENFVKDNNLEDGKYLQF 86

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	332
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.96
1gcc_A	63	Ethylene responsive element binding factor 1; tran	99.86
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.72
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.57
3igm_B	77	PF14_0633 protein; AP2 domain, specific transcript	93.2
1na6_A	404	Ecorii, restriction endonuclease ecorii; site-spec	92.89
1u3e_M	174	HNH homing endonuclease; HNH catalytic motif, heli	89.47

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

Probab=99.96  E-value=4.6e-30  Score=217.50  Aligned_cols=114  Identities=46%  Similarity=0.773  Sum_probs=102.7

Q ss_pred             hhhhhhhccccccCCCCCCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCCCcEEEEEEEecCCCeeEEc
Q 046898          166 FAYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFT  245 (332)
Q Consensus       166 ~~~~~lF~K~LT~SDV~~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~gk~W~fr~~~~~~~~~yvLt  245 (332)
                      -++.++|.|+||+|||+++++|+||+++|++|||+++....       ..+++|.++|.+|+.|+|+|+||+++++|+|+
T Consensus         8 ~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~-------~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt   80 (130)
T 1wid_A            8 RSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVS-------VKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLT   80 (130)
T ss_dssp             CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCS-------SCCEEEEEEETTTEEEEEEEEEETTTTEEEEE
T ss_pred             CCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccC-------CCcEEEEEEeCCCCEEEEEEEEECCCCceEEc
Confidence            45788999999999999899999999999999999986422       26789999999999999999999988999999


Q ss_pred             cChHHHhhhcCCCCCCEEEEEeeccCCCcccCcceEEEEEEecCCCc
Q 046898          246 RGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQN  292 (332)
Q Consensus       246 ~GW~~FVk~k~Lk~GD~i~F~r~~~g~~~~~~~~~~~i~~~~~~~~~  292 (332)
                      +||..||++|+|++||+|+|+++++++      .+|+|+|||+..++
T Consensus        81 ~GW~~FV~~~~L~~GD~~~F~~~~~~~------~~l~I~~rr~~~~~  121 (130)
T 1wid_A           81 KGWSRFVKEKNLRAGDVVSFSRSNGQD------QQLYIGWKSRSGSD  121 (130)
T ss_dssp             SSHHHHHHHTTCCTTCEEEEEECCSSS------CCEEEEEECCCSCS
T ss_pred             CChHHHHHHcCCCCCCEEEEEEecCCC------cEEEEEEEECCCCC
Confidence            999999999999999999999988544      37999999998765

>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A

Probab=99.86  E-value=2.1e-22  Score=150.33  Aligned_cols=58  Identities=41%  Similarity=0.807  Sum_probs=55.1

Q ss_pred             ceeeEEECCCCeEEEEEee---CCeEEEEccCCCHHHHHHHHHHHHHHhhCCCCCCCCCCC
Q 046898           48 KFKGVVPQQNGHWGAQIYA---NHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWT  105 (332)
Q Consensus        48 ~yrGV~~~~~gkw~A~I~~---~~k~~~LG~f~t~eeAA~Ayd~aa~~~~g~~a~~NFp~~  105 (332)
                      +|+||+++++|||+|+|+.   +++++|||+|+|+||||+|||.|+++++|..+.+|||++
T Consensus         2 ~yrGV~~r~~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~   62 (63)
T 1gcc_A            2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR   62 (63)
T ss_dssp             CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred             CcccEeeCCCCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence            6999999889999999998   478999999999999999999999999999999999964

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

Probab=99.72  E-value=1.6e-17  Score=143.10  Aligned_cols=89  Identities=24%  Similarity=0.368  Sum_probs=77.5

Q ss_pred             hhhhhhccccccCCCCCCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCCCcEEEEEEEecCCCeeEEcc
Q 046898          167 AYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTR  246 (332)
Q Consensus       167 ~~~~lF~K~LT~SDV~~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~gk~W~fr~~~~~~~~~yvLt~  246 (332)
                      +..|.|.|+||+|||.+.+.|.||++++++|||....              .+.+.|. |+.|.++|+|+++  ++.|++
T Consensus        44 s~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~~~--------------~i~L~~~-gk~W~v~~~~~~~--~~~ls~  106 (146)
T 4i1k_A           44 PTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGISG--------------FIKVQLA-EKQWPVRCLYKAG--RAKFSQ  106 (146)
T ss_dssp             CSSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTCCS--------------EEEEEET-TEEEEEEEEEETT--EEEECT
T ss_pred             CCCCEEEEEECchhcCCCcEEEeCHHHHHHhCCCCCe--------------EEEEEEC-CcEEEEEEEEeCC--cEEECC
Confidence            3568999999999998877899999999999997543              5556787 6999999999874  699999


Q ss_pred             ChHHHhhhcCCCCCCEEEEEeeccCC
Q 046898          247 GWNRFVKEKKLKEKDIITFYACECAN  272 (332)
Q Consensus       247 GW~~FVk~k~Lk~GD~i~F~r~~~g~  272 (332)
                      ||..||++|+|++||+|+|...++.+
T Consensus       107 GW~~Fv~dn~L~~GD~cvFeli~~~~  132 (146)
T 4i1k_A          107 GWYEFTLENNLGEGDVCVFELLRTRD  132 (146)
T ss_dssp             THHHHHHHTTCCTTCEEEEEECSSSS
T ss_pred             chHHHHHHcCCCCCCEEEEEEecCCc
Confidence            99999999999999999999877543

>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=99.57  E-value=2.6e-15  Score=121.74  Aligned_cols=84  Identities=20%  Similarity=0.314  Sum_probs=70.5

Q ss_pred             hhhhhccccccCCCCCCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCCCcEEEEEEEecCCCeeEEccC
Q 046898          168 YRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRG  247 (332)
Q Consensus       168 ~~~lF~K~LT~SDV~~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~gk~W~fr~~~~~~~~~yvLt~G  247 (332)
                      ..|.|-|+|+++|.  ..+|.||+++++.|.|.+..              .+.++|..|+.|.++++++.  ++++|++|
T Consensus         7 ~~p~F~K~l~~~~~--~~~L~IP~~F~~~~~~~~~~--------------~v~L~~~~G~~W~v~~~~~~--~~~~l~~G   68 (104)
T 1yel_A            7 GEVQFMKPFISEKS--SKSLEIPLGFNEYFPAPFPI--------------TVDLLDYSGRSWTVRMKKRG--EKVFLTVG   68 (104)
T ss_dssp             CCEEEEEECCHHHH--TTCEECCHHHHTTCCCCCCS--------------EEEEEETTSCEEEEEEEEET--TEEEECTT
T ss_pred             CCCCEEEEECCCCc--cceEECCHHHHHhcCccCCC--------------EEEEECCCCCEEEEEEEEEC--CcEEEccC
Confidence            34689999999994  45999999999886554332              56778999999999998764  46899999


Q ss_pred             hHHHhhhcCCCCCCEEEEEeec
Q 046898          248 WNRFVKEKKLKEKDIITFYACE  269 (332)
Q Consensus       248 W~~FVk~k~Lk~GD~i~F~r~~  269 (332)
                      |.+||++|+|++||.|+|...+
T Consensus        69 W~~Fv~~~~L~~GD~lvF~~~~   90 (104)
T 1yel_A           69 WENFVKDNNLEDGKYLQFIYDR   90 (104)
T ss_dssp             HHHHHHHHTCCTTCEEEEEECS
T ss_pred             hHHHHHHcCCCCCCEEEEEEcC
Confidence            9999999999999999998755

>3igm_B PF14_0633 protein; AP2 domain, specific transcription FA protein-DNA complex, transcription-DNA complex; 2.20A {Plasmodium falciparum}

Probab=93.20  E-value=0.046  Score=41.45  Aligned_cols=29  Identities=21%  Similarity=0.174  Sum_probs=24.0

Q ss_pred             CCCCceeeEEEC-CCCeEEEEEeeCCeEEE
Q 046898           44 VSLVKFKGVVPQ-QNGHWGAQIYANHQRIW   72 (332)
Q Consensus        44 ~~~S~yrGV~~~-~~gkw~A~I~~~~k~~~   72 (332)
                      ..+|+|.||+|. +.+.|.|+-.++|++..
T Consensus         3 ~~~Sg~pGVsw~kR~~~WlA~W~e~g~rrs   32 (77)
T 3igm_B            3 HMSSGYPGVSWNKRMCAWLAFFYDGASRRS   32 (77)
T ss_dssp             -CCSSSTTEEEETTTTEEEEEEEETTEEEE
T ss_pred             CCCCCCCcEEeecCCceEEEEEecCCeEee
Confidence            357999999995 77899999999987653

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

Probab=92.89  E-value=0.053  Score=53.07  Aligned_cols=93  Identities=18%  Similarity=0.177  Sum_probs=66.4

Q ss_pred             hhhhccccccCCCC----CCceEEeeccchhhcCCCCCccccccccCCCccceEE--EEEeCCCCcEEEEEEEecC----
Q 046898          169 RQLFQKELTPSDVG----KLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMEL--VFFDKLMRPWKFRYCFWRS----  238 (332)
Q Consensus       169 ~~lF~K~LT~SDV~----~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l--~~~D~~gk~W~fr~~~~~~----  238 (332)
                      ..+|.|.|++.|++    ++..+.||+..+..+||.+......      .+...+  .+-|...-.+.++++|.++    
T Consensus        18 ~~v~~K~LSAnDtgatgshQ~gi~ipk~~l~~lfp~lg~~~e~------~~~~~~~~~l~d~d~p~td~~~twYn~R~~~   91 (404)
T 1na6_A           18 YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTREL------NPSVFLTAHVSSHDCPDSEARAIYYNSAHFG   91 (404)
T ss_dssp             EEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSS------SCEEEEEEEESSSCCCCEEEEEEEECGGGTT
T ss_pred             chheeEEcccccCCCCCCcccccCCchHHHHHhcccCCCcccc------CCcceeEEEeccCCCceEEEEEEEecccccC
Confidence            45899999999994    6678999998789999999854321      133333  3344445556999988883    


Q ss_pred             --CCeeEEccChHH-HhhhcCCCCCCEEEEEee
Q 046898          239 --SQSYVFTRGWNR-FVKEKKLKEKDIITFYAC  268 (332)
Q Consensus       239 --~~~yvLt~GW~~-FVk~k~Lk~GD~i~F~r~  268 (332)
                        ..-|-|+ .|.. +.=-....+||.++|-+.
T Consensus        92 ~tRnEyRLt-~~~~~~~~~~~a~~GDLlvia~~  123 (404)
T 1na6_A           92 KTRNEKRIT-RWGRGSPLQDPENTGALTLLAFK  123 (404)
T ss_dssp             SCCCEEEEE-CCCTTSGGGCGGGTTCEEEEEEE
T ss_pred             CCCCceEEe-ecCCCCcccccCCCCCEEEEEEe
Confidence              3569998 4554 444578889999999876

>1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, PR complex, DNA binding protein-DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1

Probab=89.47  E-value=0.0011  Score=57.52  Aligned_cols=63  Identities=11%  Similarity=-0.133  Sum_probs=43.7

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCceeeEEECCCCeEEEEEeeCCeEEEEccCCCHHHHHHHHH
Q 046898           23 DSNNSTSGLQPAPKRMRHDKNVSLVKFKGVVPQQNGHWGAQIYANHQRIWLGTFKSEREAAMAYD   87 (332)
Q Consensus        23 ~~~n~~~~~~~~~~r~~~~~~~~~S~yrGV~~~~~gkw~A~I~~~~k~~~LG~f~t~eeAA~Ayd   87 (332)
                      .-+||+-++...|.+++....... .++||.+...++|.|.|... +.++||.|+|.+|||+||.
T Consensus        84 ~~~NL~~~t~~eN~~~~~~~~~~~-~~~g~~~~~~~k~~~vi~~~-~~~~~~~f~s~~eAa~~~G  146 (174)
T 1u3e_M           84 LSTNLRWVTQKINVENQMSRGTLN-VSKAQQIAKIKNQKPIIVIS-PDGIEKEYPSTKCACEELG  146 (174)
T ss_dssp             CGGGEEEECHHHHHHHHHHHTCCC-CHHHHHHHHHHTCCCEEEEC-TTSCEEEESCHHHHHHHHT
T ss_pred             CHHHcEECCHHHHhhcccccCccc-ceeeeeeccCCCCceEEEEc-CCceEEeeCCHHHHHHHHC
Confidence            334788888877766544333221 24677553335688999888 7778999999999999974

---

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	332
d1wida_	117	b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre	9e-29
d1gcca_	63	d.10.1.2 (A:) GCC-box binding domain {Mouse-ear cr	9e-18
d1na6a1	175	b.142.1.1 (A:4-178) Restriction endonuclease EcoRI	3e-17
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	4e-14

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

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

 Score =  105 bits (263), Expect = 9e-29
 Identities = 50/107 (46%), Positives = 66/107 (61%), Gaps = 7/107 (6%)

Query: 167 AYRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLM 226
           +   LF+K +TPSDVGKLNRLVIPK +A K+FP  S N     +        L F D   
Sbjct: 2   SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGV-------LLNFEDVNG 54

Query: 227 RPWKFRYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITFYACECANG 273
           + W+FRY +W SSQSYV T+GW+RFVKEK L+  D+++F      + 
Sbjct: 55  KVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQ 101

>d1gcca_ d.10.1.2 (A:) GCC-box binding domain {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 63

class: Alpha and beta proteins (a+b)
fold: DNA-binding domain
superfamily: DNA-binding domain
family: GCC-box binding domain
domain: GCC-box binding domain
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

 Score = 74.0 bits (182), Expect = 9e-18
 Identities = 24/59 (40%), Positives = 37/59 (62%), Gaps = 3/59 (5%)

Query: 48  KFKGVVPQQNGHWGAQIY---ANHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFP 103
            ++GV  +  G + A+I     N  R+WLGTF++  +AA+AYD AA ++RG  +  NFP
Sbjct: 2   HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFP 60

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

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

 Score = 76.1 bits (187), Expect = 3e-17
 Identities = 21/151 (13%), Positives = 39/151 (25%), Gaps = 23/151 (15%)

Query: 169 RQLFQKELTPSDVGKLNR----LVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDK 224
             ++ K L+ +D G        L IP     K FP I+     N        +       
Sbjct: 15  YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVF----LTAHVSSH 70

Query: 225 LMRPWKFRYCFWRSS------QSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQ 278
                + R  ++ S+           TR       +       +          G     
Sbjct: 71  DCPDSEARAIYYNSAHFGKTRNEKRITRWGRGSPLQDPENTGALTLLAFKLDEQGGDCK- 129

Query: 279 NFFLVDVIHCEGQNCNVVKKPVQLEQITGKI 309
               V++       C    +   +E   G++
Sbjct: 130 ---EVNIW-----VCASTDEEDVIETAIGEV 152

>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 = 65.3 bits (159), Expect = 4e-14
 Identities = 18/94 (19%), Positives = 26/94 (27%), Gaps = 18/94 (19%)

Query: 172 FQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKF 231
           F K        K   L IP  +   +                         D   R W  
Sbjct: 9   FMKPFISEKSSK--SLEIPLGFNEYFPAPFPITV--------------DLLDYSGRSWTV 52

Query: 232 RYCFWRSSQSYVFTRGWNRFVKEKKLKEKDIITF 265
           R    +  +    T GW  FVK+  L++   + F
Sbjct: 53  RM--KKRGEKVFLTVGWENFVKDNNLEDGKYLQF 84

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	332
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.96
d1gcca_	63	GCC-box binding domain {Mouse-ear cress (Arabidops	99.86
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	99.78
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.47

>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=99.96  E-value=4.2e-29  Score=205.22  Aligned_cols=112  Identities=46%  Similarity=0.788  Sum_probs=102.6

Q ss_pred             hhhhhccccccCCCCCCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCCCcEEEEEEEecCCCeeEEccC
Q 046898          168 YRQLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRG  247 (332)
Q Consensus       168 ~~~lF~K~LT~SDV~~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~gk~W~fr~~~~~~~~~yvLt~G  247 (332)
                      +.+||+|+||+|||++++||+||+++|++|||+++....       .+++.|.+.|.+|+.|.|+|++|+++++|+|++|
T Consensus         3 ~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~-------~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~G   75 (117)
T d1wida_           3 AEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVS-------VKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKG   75 (117)
T ss_dssp             CEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCS-------SCCEEEEEEETTTEEEEEEEEEETTTTEEEEESS
T ss_pred             CceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccC-------CCcEEEEEEeCCCCEEEEEEEEECCCCceEEecC
Confidence            567999999999999989999999999999999987543       3789999999999999999999998899999999


Q ss_pred             hHHHhhhcCCCCCCEEEEEeeccCCCcccCcceEEEEEEecCCCc
Q 046898          248 WNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQN  292 (332)
Q Consensus       248 W~~FVk~k~Lk~GD~i~F~r~~~g~~~~~~~~~~~i~~~~~~~~~  292 (332)
                      |..||++|+|++||+|+|+|+..++.      +++|++|++++..
T Consensus        76 W~~Fv~~~~Lk~GD~~~F~~~~~~~~------~~~i~~r~~~~~~  114 (117)
T d1wida_          76 WSRFVKEKNLRAGDVVSFSRSNGQDQ------QLYIGWKSRSGSD  114 (117)
T ss_dssp             HHHHHHHTTCCTTCEEEEEECCSSSC------CEEEEEECCCSCS
T ss_pred             HHHHHHHcCCCCCCEEEEEEEeCCCC------EEEEEEEECCCCC
Confidence            99999999999999999999876654      6999999998876

>d1gcca_ d.10.1.2 (A:) GCC-box binding domain {Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Alpha and beta proteins (a+b)
fold: DNA-binding domain
superfamily: DNA-binding domain
family: GCC-box binding domain
domain: GCC-box binding domain
species: Mouse-ear cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=99.86  E-value=1.3e-22  Score=149.49  Aligned_cols=58  Identities=41%  Similarity=0.807  Sum_probs=54.1

Q ss_pred             ceeeEEECCCCeEEEEEee---CCeEEEEccCCCHHHHHHHHHHHHHHhhCCCCCCCCCCC
Q 046898           48 KFKGVVPQQNGHWGAQIYA---NHQRIWLGTFKSEREAAMAYDSAAIKIRGGDSHRNFPWT  105 (332)
Q Consensus        48 ~yrGV~~~~~gkw~A~I~~---~~k~~~LG~f~t~eeAA~Ayd~aa~~~~g~~a~~NFp~~  105 (332)
                      +||||+++++|||+|+|++   .++++|||+|+|+||||+|||.|++.++|.++.+|||..
T Consensus         2 ~yrGVr~r~~gkw~A~Ir~~~~~~~r~~LGtf~t~eeAArAYD~aa~~~~G~~a~~NFP~~   62 (63)
T d1gcca_           2 HYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR   62 (63)
T ss_dssp             CCTTEEEETTTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred             CcceEeECCCCCEEEEEecCCCCCcEeccccccCHHHHHHHHHHHHHHhcCCCcccCCCcc
Confidence            5999999888999999986   468999999999999999999999999999999999953

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

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

Probab=99.78  E-value=3.3e-20  Score=159.72  Aligned_cols=116  Identities=16%  Similarity=0.127  Sum_probs=97.1

Q ss_pred             hhhhhhccccccCCCCCCce----EEeeccchhhcCCCCCccccccccCCCccceEEE--EEeCCCCcEEEEEEEecCC-
Q 046898          167 AYRQLFQKELTPSDVGKLNR----LVIPKKYAVKYFPFISENAGENAINGGVDDMELV--FFDKLMRPWKFRYCFWRSS-  239 (332)
Q Consensus       167 ~~~~lF~K~LT~SDV~~~~r----LvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~--~~D~~gk~W~fr~~~~~~~-  239 (332)
                      +...+|+|.||+|||+++++    |+|||++|++|||+|+..+.      .++++.|.  +.|.+|+.|+|||+||++. 
T Consensus        13 ~~~~~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e------~nP~~~l~~~i~d~~g~~w~fR~iYyn~~~   86 (175)
T d1na6a1          13 ENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRE------LNPSVFLTAHVSSHDCPDSEARAIYYNSAH   86 (175)
T ss_dssp             SSEEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSS------SSCEEEEEEEESSSCCCCEEEEEEEECGGG
T ss_pred             CceEEEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccc------cCCCceEEEEEecCCCCeeEEEEEEECCcc
Confidence            35679999999999998886    99999999999999997543      23566665  5599999999999999984 


Q ss_pred             -----CeeEEccChHHHhhhcCCCCCCEEEEEeeccCCCcccCcceEEEEEEecCCCc
Q 046898          240 -----QSYVFTRGWNRFVKEKKLKEKDIITFYACECANGAKEGQNFFLVDVIHCEGQN  292 (332)
Q Consensus       240 -----~~yvLt~GW~~FVk~k~Lk~GD~i~F~r~~~g~~~~~~~~~~~i~~~~~~~~~  292 (332)
                           +.|.||..|..|+..+.+.+||.++|.+....+.    ..+..||+..+.+..
T Consensus        87 ~ggTRneyRiT~~g~~~~~~~~~n~G~l~i~af~~~~~~----~~~~~~~vwvc~~~~  140 (175)
T d1na6a1          87 FGKTRNEKRITRWGRGSPLQDPENTGALTLLAFKLDEQG----GDCKEVNIWVCASTD  140 (175)
T ss_dssp             TTSCCCEEEEECCCTTSGGGCGGGTTCEEEEEEECCTTS----CCCCEEEEEECCSHH
T ss_pred             CCCccccEEEEeccccccccCccccccEEEEEeecCCCC----CceeEEEEEEecCcc
Confidence                 8899999999999999999999999999655443    667889998887654

>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=99.47  E-value=2.8e-14  Score=113.69  Aligned_cols=82  Identities=22%  Similarity=0.362  Sum_probs=68.9

Q ss_pred             hhhccccccCCCCCCceEEeeccchhhcCCCCCccccccccCCCccceEEEEEeCCCCcEEEEEEEecCCCeeEEccChH
Q 046898          170 QLFQKELTPSDVGKLNRLVIPKKYAVKYFPFISENAGENAINGGVDDMELVFFDKLMRPWKFRYCFWRSSQSYVFTRGWN  249 (332)
Q Consensus       170 ~lF~K~LT~SDV~~~~rLvIPk~~ae~~lP~l~~~~~~~~~~~~~~~~~l~~~D~~gk~W~fr~~~~~~~~~yvLt~GW~  249 (332)
                      +-|-|+|.+++...  +|.||+.++..|.+.+..              ++.++|.+|+.|.+++...  +....|++||.
T Consensus         7 ~~Ffkv~~~~~~~~--~L~IP~~F~~~~~~~~~~--------------~i~L~d~~G~~W~v~~~~~--~~~~~~~~GW~   68 (102)
T d1yela1           7 VQFMKPFISEKSSK--SLEIPLGFNEYFPAPFPI--------------TVDLLDYSGRSWTVRMKKR--GEKVFLTVGWE   68 (102)
T ss_dssp             EEEEEECCHHHHTT--CEECCHHHHTTCCCCCCS--------------EEEEEETTSCEEEEEEEEE--TTEEEECTTHH
T ss_pred             CeEEEEEcCcccCC--CEECCHHHHHhCCCCCCC--------------EEEEEcCCCCEEEEEEEEe--CCeEEEccCHH
Confidence            45789999998765  799999999987765543              5677899999999997654  45678899999


Q ss_pred             HHhhhcCCCCCCEEEEEeec
Q 046898          250 RFVKEKKLKEKDIITFYACE  269 (332)
Q Consensus       250 ~FVk~k~Lk~GD~i~F~r~~  269 (332)
                      +||++|+|++||.|+|..+.
T Consensus        69 ~Fv~~n~L~~GD~~vF~~~~   88 (102)
T d1yela1          69 NFVKDNNLEDGKYLQFIYDR   88 (102)
T ss_dssp             HHHHHHTCCTTCEEEEEECS
T ss_pred             HHHHHcCCCcCCEEEEEEcC
Confidence            99999999999999998665