Citrus Sinensis ID: 015743

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-
Protein Sequence
MMNFVQEEKGNSNNNNEEDQDEDHQKERIKLPFSVSSSSSSVSSSKYKAFVPHHHQNSWLLGPIDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDCPTQDDQSPATSSSSTRQAAASEYSSKGKSSLSFDLDL
Secondary Structure (PSIPRED)
cccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEEcccccccccEEEEHHHHHHHcccccccccccEEEEEEEccccEEEEEEEEEcccccEEEcccHHHHHHHcccccccEEEEEEccccccccEEEEEEEEccccccccccccccccccccHHHHHccccccccEEcccccccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccEEEccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEccccccccccccccccccccHccccccEEcccccccccccccEEcccccEEEEEcccHHHHHHHcccccccccccHHHHHHHEHHHHHcccccHHHHHHHccccccccccccccccccccccccEEEEEcccccccccccEEcHHHHHHccccccccccccEEEEEEcccccEEEEEEEEcccccEEEEEcccEEEEEccEcEcccEEEEEEccccccccEEEEEEEEccccccccccccccccHHHHHHHHHHHHcccccEEEEEccccccccEEEEHHHHHHHEHcccccccccccccccccccccEEccccccHccccccccEEEccccEEccccccHHHHHHHHHEccccccccccccccccccccccccccccccccccccEEEEcccc
Coil and Loop (DISEMBL)
mmnfvqeekgnsnnnneedqdedhqkeriklpfsvssssssvssskykafvphhhqnswllgpidsqeaatnfdnredlmdlslgnnnnnnedqphkhsgninnanvangtgssttgessgmYRSIEKEhmfdkvvtpsdvgklnrlvipkqhaekyfpldsssnekglllnfedrngkaWRFRYSYWNSSQSYVMTKgwsrfvkdkkldagdtvsfqrgvgelgkdrlyidwrrrpdvhhvpdpttlAQMQFQNQLRFQQSlrwgtrlyslpqslsnygpfsyntihnpyyqhhqqqqilgfggnasstmpvqyylrpssvsqqiegghmpmvidsvpvvvpgktassTAAKRLRLFgvnmdcptqddqspatsssstRQAAASEYsskgksslsfdldl
Flexible Loop (DISEMBL)
mmnfvqeekgnsnnnneedqdedHQKERIKLpfsvssssssvsSSKYKAFVPHHHQNSWLLGPIDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANvangtgssttgeSSGMYRSIEKEHMfdkvvtpsdvgkLNRLVIPKQHaekyfpldsssnekglllnFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKkldagdtvsfqrgvgelgkdrlyidwrrrpdVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMdcptqddqspatsssstrqaaaseysskgksslsfdldl
Low Complexity Region (SEG)
MMNFVqeekgnsnnnneedqdedhqkeRIKLPFsvssssssvsssKYKAFVPHHHQNSWLLGPIDSQEAATNFDNREDLMDLSLGnnnnnnEDQPHKHSGNINNANVANgtgssttgessgMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAqmqfqnqlrfqqslrWGTRLYSLPQSLSNYGPFSYNTIHNPyyqhhqqqqILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDCPtqddqspatsssstrqaaaseysskgksslsFDLDL
Disordered region (IsUnstruct)
*******************************************************QNSWLLG*********************************************************************FDKVVTPSDVGKLNRLVIPKQHAEKYFPL******KGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQYYLRP******IEGGHMPMVIDSVPVVVPG********KRLRLFGVN****************************************
Disordered Region (DISOPRED)
************************************************AFVPHHHQNSWL***************REDLMDLSLGNNNNNNEDQPHKH*******************************HMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDW**********************************RLYSL***********************************************************************************RLFGVNM********************************LSFDLDL
Disordered Region (DISEMBL)
**************************ERIKLPF**************KAFVPHHHQNSWLLGPIDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANVANGT*********GMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDCP************************************
Disordered Region (DISPRO)
*****************************KLPFSVSSSSSSVSSSKYKAFVPHHHQNSWLLGPIDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANVANG*****************KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDC*************************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMNFVQEEKGNSNNNNEEDQDEDHQKERIKLPFSVSSSSSSVSSSKYKAFVPHHHQNSWLLGPIDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDCPTQDDQSPATSSSSTRQAAASEYSSKGKSSLSFDLDL
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	401	2.2.26 [Sep-21-2011]
Q8LMR9	311	B3 domain-containing prot	yes	no	0.735	0.948	0.488	2e-67
O82799	310	B3 domain-containing tran	yes	no	0.678	0.877	0.458	2e-66
Q9MAN1	358	B3 domain-containing tran	no	no	0.551	0.617	0.538	7e-64
Q6EU30	412	B3 domain-containing prot	no	no	0.531	0.516	0.501	3e-62
Q9M268	299	B3 domain-containing tran	no	no	0.498	0.668	0.542	8e-61
Q7F9W2	316	B3 domain-containing prot	no	no	0.286	0.363	0.852	1e-56
Q8LNN8	312	Putative B3 domain-contai	no	no	0.668	0.858	0.418	2e-52
O82595	333	B3 domain-containing tran	no	no	0.660	0.795	0.406	2e-48
Q8RYD3	267	B3 domain-containing prot	no	no	0.461	0.692	0.428	6e-42
Q9ZWM9	344	AP2/ERF and B3 domain-con	no	no	0.493	0.575	0.459	7e-42

>sp|Q8LMR9|Y3209_ORYSJ B3 domain-containing protein Os03g0120900 OS=Oryza sativa subsp. japonica GN=Os03g0120900 PE=2 SV=1

 Score =  256 bits (654), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 151/309 (48%), Positives = 189/309 (61%), Gaps = 14/309 (4%)

Query: 102 INNANVANGTGSSTTGESSGM-YRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPL 160
           +  A+ A G G     ES G    ++EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPL
Sbjct: 8   VRPASAAAGGGE--VQESGGRSLAAVEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPL 65

Query: 161 DSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRG 220
           D++SNEKGLLL+FEDR GK WRFRYSYWNSSQSYVMTKGWSRFVK+K+LDAGDTVSF RG
Sbjct: 66  DAASNEKGLLLSFEDRTGKPWRFRYSYWNSSQSYVMTKGWSRFVKEKRLDAGDTVSFGRG 125

Query: 221 VGELGKDRLYIDWRRRPD-VHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNY 279
           VGE  + RL+IDWRRRPD V  +  PT        + + F           +   + +  
Sbjct: 126 VGEAARGRLFIDWRRRPDVVAALQPPTHRFAHHLPSSIPFAPWAHHHGHGAAAAAAAAAG 185

Query: 280 GPFSYNTIHNPYYQHHQQQ-QILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSV 338
             F       P Y HH++    +G+   A++T     + RP    QQ    H  +V++SV
Sbjct: 186 ARFLLPPSSTPIYDHHRRHAHAVGYDAYAAATSRQVLFYRPLPPQQQ---HHPAVVLESV 242

Query: 339 PVVVPGKTAS--STAAKRLRLFGVNMDCP-TQDDQSPA---TSSSSTRQAAASEYSSKGK 392
           PV +    A   S  +KR+RLFGVN+DC  ++ D +     T+        +S  SS GK
Sbjct: 243 PVRMTAGHAEPPSAPSKRVRLFGVNLDCANSEQDHAGVVGKTAPPPLPSPPSSSSSSSGK 302

Query: 393 SSLSFDLDL 401
           +  S +LDL
Sbjct: 303 ARCSLNLDL 311

Oryza sativa subsp. japonica (taxid: 39947)

>sp|O82799|NGA1_ARATH B3 domain-containing transcription factor NGA1 OS=Arabidopsis thaliana GN=NGA1 PE=1 SV=1

 Score =  253 bits (646), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 164/358 (45%), Positives = 201/358 (56%), Gaps = 86/358 (24%)

Query: 79  LMDLSLGNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMYRSIEKEHMFDKVVTP 138
           + DLSL  + +  E +P                      E  G     ++EHMFDKVVTP
Sbjct: 2   MTDLSLTRDEDEEEAKP--------------------LAEEEGAREVADREHMFDKVVTP 41

Query: 139 SDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTK 198
           SDVGKLNRLVIPKQHAE++FPLDSSSNEKGLLLNFED  GK+WRFRYSYWNSSQSYVMTK
Sbjct: 42  SDVGKLNRLVIPKQHAERFFPLDSSSNEKGLLLNFEDLTGKSWRFRYSYWNSSQSYVMTK 101

Query: 199 GWSRFVKDKKLDAGDTVSFQRGVGELGKD-RLYIDWRRRPDVHHVPD-PTTLAQMQFQNQ 256
           GWSRFVKDKKLDAGD VSFQR VG+ G+D RL+IDWRRRP    VPD P   A   F   
Sbjct: 102 GWSRFVKDKKLDAGDIVSFQRCVGDSGRDSRLFIDWRRRPK---VPDHPHFAAGAMF--- 155

Query: 257 LRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPY----YQHHQQQQILGFGGNASSTMP 312
                      R YS P   +NY  +++    + +    Y +HQ  +  G+G        
Sbjct: 156 ----------PRFYSFPS--TNYSLYNHQQQRHHHSGGGYNYHQIPREFGYG-------- 195

Query: 313 VQYYLRPSSVSQQ---IEGGHMPMVIDSVPVVVPGKT---ASSTAAKRLRLFGVNMDCPT 366
             Y++R  SV Q+         P+VI+SVPV++ G+       TA KRLRLFGV+M+C  
Sbjct: 196 --YFVR--SVDQRNNPAAAVADPLVIESVPVMMHGRANQELVGTAGKRLRLFGVDMECGE 251

Query: 367 QDDQSPATSSSST---------------------RQAAASE---YSSKGKSSLSFDLD 400
               +     SS+                     R  ++SE   ++ KGKSSLSFDLD
Sbjct: 252 SGMTNSTEEESSSSGGSLPRGGGGGASSSSFFQLRLGSSSEDDHFTKKGKSSLSFDLD 309

Regulates lateral organ growth. Functionally redundant with NGA2, NGA3 and NGA4.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9MAN1|NGA3_ARATH B3 domain-containing transcription factor NGA3 OS=Arabidopsis thaliana GN=NGA3 PE=2 SV=1

 Score =  244 bits (624), Expect = 7e-64,   Method: Compositional matrix adjust.
 Identities = 140/260 (53%), Positives = 168/260 (64%), Gaps = 39/260 (15%)

Query: 127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYS 186
           EKEHMFDKVVTPSDVGKLNRLVIPKQHAE+YFPLDSS+N+ G LLNF+DRNGK WRFRYS
Sbjct: 51  EKEHMFDKVVTPSDVGKLNRLVIPKQHAERYFPLDSSNNQNGTLLNFQDRNGKMWRFRYS 110

Query: 187 YWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVG-ELGKDRLYIDWRRRPDVHHVPDP 245
           YWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRG+G E  + +LYIDWR RPD+  V   
Sbjct: 111 YWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGIGDESERSKLYIDWRHRPDMSLV--- 167

Query: 246 TTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTI----------HNPYYQHH 295
                  F     F  + ++  R + LP+         YN++          H   Y + 
Sbjct: 168 QAHQFGNFGFNFNFPTTSQYSNRFHPLPE---------YNSVPIHRGLNIGNHQRSYYNT 218

Query: 296 QQQQILGFG-GNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTA------- 347
           Q+Q+ +G+G GN +     + Y   S +  +   G  P+VIDSVP VVPG+         
Sbjct: 219 QRQEFVGYGYGNLAG----RCYYTGSPLDHRNIVGSEPLVIDSVP-VVPGRLTPVMLPPL 273

Query: 348 ---SSTAAKRLRLFGVNMDC 364
               STA KRLRLFGVNM+C
Sbjct: 274 PPPPSTAGKRLRLFGVNMEC 293

Regulates lateral organ growth. Functionally redundant with NGA1, NGA2 and NGA4.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6EU30|Y2835_ORYSJ B3 domain-containing protein Os02g0683500 OS=Oryza sativa subsp. japonica GN=Os02g0683500 PE=2 SV=1

 Score =  239 bits (610), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 139/277 (50%), Positives = 168/277 (60%), Gaps = 64/277 (23%)

Query: 126 IEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRY 185
           +EKEHMFDKVVTPSDVGKLNRLVIPKQ+AEKYFPLD+++NEKGLLLNFEDR GK WRFRY
Sbjct: 90  VEKEHMFDKVVTPSDVGKLNRLVIPKQYAEKYFPLDAAANEKGLLLNFEDRAGKPWRFRY 149

Query: 186 SYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVG-ELGKDRLYIDWRRRPDVHHVPD 244
           SYWNSSQSYVMTKGWSRFVK+K+LDAGDTVSF RG+G E  + RL+IDW+RR D      
Sbjct: 150 SYWNSSQSYVMTKGWSRFVKEKRLDAGDTVSFSRGIGDEAARHRLFIDWKRRADT----- 204

Query: 245 PTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSL-SNYGP---------FSYNTIHNPYYQH 294
                    ++ LR  + L        LP  L S+Y P         F   +     Y+H
Sbjct: 205 ---------RDPLRLPRGL-------PLPMPLTSHYAPWGIGGGGGFFVQPSPPATLYEH 248

Query: 295 HQQQ---------------QILGFG-----------GNASSTMPVQYYLRPSSVSQQIEG 328
             +Q               Q+L FG             A S +   Y L+PS    +  G
Sbjct: 249 RLRQGLDFRAFNPAAAMGRQVLLFGSARIPPQAPLLARAPSPLHHHYTLQPSGDGVRAAG 308

Query: 329 GHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDCP 365
              P+V+DSVPV+     + +TAAKR+RLFGVN+D P
Sbjct: 309 S--PVVLDSVPVI----ESPTTAAKRVRLFGVNLDNP 339

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9M268|NGA2_ARATH B3 domain-containing transcription factor NGA2 OS=Arabidopsis thaliana GN=NGA2 PE=2 SV=1

 Score =  234 bits (597), Expect = 8e-61,   Method: Compositional matrix adjust.
 Identities = 135/249 (54%), Positives = 161/249 (64%), Gaps = 49/249 (19%)

Query: 125 SIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSS---NEKGLLLNFEDRNGKAW 181
           S+E+EHMFDKVVTPSDVGKLNRLVIPKQHAE+YFPLD+S+   + KGLLLNFEDR+G +W
Sbjct: 16  SMEREHMFDKVVTPSDVGKLNRLVIPKQHAERYFPLDNSTTNDSNKGLLLNFEDRSGNSW 75

Query: 182 RFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDV-- 239
           RFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGD VSFQR      KD+LYIDWRRRP +  
Sbjct: 76  RFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQR--DSCNKDKLYIDWRRRPKIPD 133

Query: 240 HHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQ 299
           HH          QF   +          R Y+ P       P +Y T HN Y++ HQ+  
Sbjct: 134 HH--------HQQFAGAM--------FPRFYTFPHPQM---PTNYET-HNLYHRFHQRD- 172

Query: 300 ILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAA----KRL 355
            LG G          YY+R       +E  H   VI+SVPV++  +   ++ A    KRL
Sbjct: 173 -LGIG----------YYVR------SMERSHPTAVIESVPVMMQRRAQVASMASRGEKRL 215

Query: 356 RLFGVNMDC 364
           RLFGV+M+C
Sbjct: 216 RLFGVDMEC 224

Regulates lateral organ growth. Functionally redundant with NGA1, NGA3 and NGA4.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7F9W2|Y4814_ORYSJ B3 domain-containing protein Os04g0581400 OS=Oryza sativa subsp. japonica GN=Os04g0581400 PE=2 SV=2

 Score =  220 bits (561), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 98/115 (85%), Positives = 106/115 (92%)

Query: 126 IEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRY 185
           IEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDS++NEKGLLL+FEDR GK WRFRY
Sbjct: 104 IEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSAANEKGLLLSFEDRTGKLWRFRY 163

Query: 186 SYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVH 240
           SYWNSSQSYVMTKGWSRFVK+K+LDAGDTVSF RG  E  +DRL+IDW+RR DV 
Sbjct: 164 SYWNSSQSYVMTKGWSRFVKEKRLDAGDTVSFCRGAAEATRDRLFIDWKRRADVR 218

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8LNN8|Y1071_ORYSJ Putative B3 domain-containing protein Os10g0537100 OS=Oryza sativa subsp. japonica GN=Os10g0537100 PE=3 SV=1

 Score =  207 bits (526), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 138/330 (41%), Positives = 177/330 (53%), Gaps = 62/330 (18%)

Query: 106 NVANGTGSSTTGESSGMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSN 165
            VA G   S  G ++  +  +EKEHMF+KVVTPSDVGKLNRLVIPKQHAE+YFPLD+++ 
Sbjct: 11  RVAGGEEDSERGAAA--WAVVEKEHMFEKVVTPSDVGKLNRLVIPKQHAERYFPLDAAAG 68

Query: 166 E-------------KGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAG 212
                         KGL+L+FEDR GKAWRFRYSYWNSSQSYVMTKGWSRFVK+K+L AG
Sbjct: 69  AGGGGGGGGGGGGGKGLVLSFEDRTGKAWRFRYSYWNSSQSYVMTKGWSRFVKEKRLGAG 128

Query: 213 DTVSFQRGVGELGKDRLYIDW-RRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYS 271
           DTVSF RG+G+  + RL+ID+ RRR D      P T A     +    +        L S
Sbjct: 129 DTVSFGRGLGDAARGRLFIDFRRRRQDAGSFMFPPTAAPPSHSHHHHQRHH----PPLPS 184

Query: 272 LPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGNASSTMPVQ----YYLRPSSVSQQIE 327
           +P                P+  +          G    + P       +LRP     Q+ 
Sbjct: 185 VPLC--------------PWRDYTTAYGGGYGYGYGGGSTPASSRHVLFLRP-----QVP 225

Query: 328 GGHMPMVIDSVPVVVPG-----KTASSTAAKRLRLFGVNMDCPTQDDQSPATSSSSTRQA 382
                +V+ SVPV V       + A++T  KR+RLFGVN+DCP   D     + +++R A
Sbjct: 226 AA---VVLKSVPVHVAATSAVQEAATTTRPKRVRLFGVNLDCPAAMDDDDDIAGAASRTA 282

Query: 383 AAS-----------EYSSKGKSSLSFDLDL 401
           A+S             S+ GK   S DL L
Sbjct: 283 ASSLLQLPSPSSSTSSSTAGKKMCSLDLGL 312

Oryza sativa subsp. japonica (taxid: 39947)

>sp|O82595|NGA4_ARATH B3 domain-containing transcription factor NGA4 OS=Arabidopsis thaliana GN=NGA4 PE=2 SV=2

 Score =  193 bits (491), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 134/330 (40%), Positives = 180/330 (54%), Gaps = 65/330 (19%)

Query: 113 SSTTGESSGMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLN 172
           +S++  ++  Y S  +EHMFDKV+TPSDVGKLNRLVIPKQHAE +FPL+   N+ G +L+
Sbjct: 17  ASSSDHTNYFYSSERREHMFDKVLTPSDVGKLNRLVIPKQHAENFFPLED--NQNGTVLD 74

Query: 173 FEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGV-------GELG 225
           F+D+NGK WRFRYSYWNSSQSYVMTKGWSRFVK+KKL AGDTVSF RG         E  
Sbjct: 75  FQDKNGKMWRFRYSYWNSSQSYVMTKGWSRFVKEKKLFAGDTVSFYRGYIPDDNAQPERR 134

Query: 226 KDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSL-PQSLSNYGPFSY 284
           +  ++IDWR R +++ V +          +   F        R Y + P+    Y  F  
Sbjct: 135 RKIMFIDWRPRAEINFVHNINN-------HNFVFGSPTYPTARFYPVTPEYSMPYRSFP- 186

Query: 285 NTIHNPYYQHH-QQQQILGFG-GNASSTMPVQYYLRPSSVSQQIE---GGHMPMVIDSVP 339
                P+YQ+  Q+++ LG+G G   +   V+YY   S + Q  +   G   P+V DSVP
Sbjct: 187 -----PFYQNQFQEREYLGYGYGRVVNGNGVRYYAG-SPLDQHHQWNLGRSEPLVYDSVP 240

Query: 340 VVVPGKTASS-----TAAKRLRLFGVNMD-----------------------CPTQDDQS 371
           V   G+   S     +  K+LRLFGV+++                           DDQS
Sbjct: 241 VFPAGRVPPSAPPQPSTTKKLRLFGVDVEESSSSGDTRGEMGVAGYSSSSPVVIRDDDQS 300

Query: 372 --------PATSSSSTRQAAASEYSSKGKS 393
                    A+SSS+ + +   EY  KGKS
Sbjct: 301 FWRSPRGEMASSSSAMQLSDDEEYKRKGKS 330

Regulates lateral organ growth. Functionally redundant with NGA1, NGA2 and NGA3.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RYD3|Y3158_ARATH B3 domain-containing protein At3g11580 OS=Arabidopsis thaliana GN=ARF32 PE=2 SV=1

 Score =  172 bits (435), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 108/252 (42%), Positives = 139/252 (55%), Gaps = 67/252 (26%)

Query: 127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPL-----------DSSSNEKGLLLNFED 175
           ++E +F+K +TPSDVGKLNRLVIPKQHAEKYFPL           D ++ EKG+LL+FED
Sbjct: 24  QRESLFEKSLTPSDVGKLNRLVIPKQHAEKYFPLNNNNNNGGSGDDVATTEKGMLLSFED 83

Query: 176 RNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRR 235
            +GK W+FRYSYWNSSQSYV+TKGWSR+VKDK LDAGD V FQR   +L   RL+I WRR
Sbjct: 84  ESGKCWKFRYSYWNSSQSYVLTKGWSRYVKDKHLDAGDVVFFQRHRFDL--HRLFIGWRR 141

Query: 236 RPDVHHVPDPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHH 295
           R +    P  + ++Q    N   +   L                          PY Q H
Sbjct: 142 RGEASSSPAVSVVSQEALVNTTAYWSGLT------------------------TPYRQVH 177

Query: 296 QQQQILGFGGNASSTMPVQYYLRPSSVSQQIEGGHMPMVID---SVPVVVPGKTASSTAA 352
                      AS+T P        ++ Q  E  H   V+D   S+P VV G      ++
Sbjct: 178 -----------ASTTYP--------NIHQ--EYSHYGAVVDHAQSIPPVVAG------SS 210

Query: 353 KRLRLFGVNMDC 364
           + +RLFGVN++C
Sbjct: 211 RTVRLFGVNLEC 222

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 =  171 bits (434), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 113/246 (45%), Positives = 138/246 (56%), Gaps = 48/246 (19%)

Query: 35  VSSSSSSVSSSKYKAFVPH-----------HHQNSWLLGPIDSQEAA------------- 70
           V + S  + SSKYK  VP             HQ  WL    +  EAA             
Sbjct: 50  VEAESRKLPSSKYKGVVPQPNGRWGAQIYEKHQRVWLGTFNEEDEAARAYDVAVHRFRRR 109

Query: 71  ---TNF-DNREDLMDLSLGNNNNNNE--DQPHKHS-------------GNINNANVANGT 111
              TNF D + D  ++   N+++ +E  D   KH+             GN N       +
Sbjct: 110 DAVTNFKDVKMDEDEVDFLNSHSKSEIVDMLRKHTYNEELEQSKRRRNGNGNMTRTLLTS 169

Query: 112 GSSTTGESSGMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSS-NEKGLL 170
           G S  G S+  +RS E   +F+K VTPSDVGKLNRLVIPK HAEK+FPL SS+ + KG+L
Sbjct: 170 GLSNDGVSTTGFRSAEA--LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVL 227

Query: 171 LNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLY 230
           LNFED NGK WRFRYSYWNSSQSYV+TKGWSRFVK+K L AGD VSF R  G+    +LY
Sbjct: 228 LNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQ--DQQLY 285

Query: 231 IDWRRR 236
           I W+ R
Sbjct: 286 IGWKSR 291

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)

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	401
255548087	450	hypothetical protein RCOM_1340820 [Ricin	0.840	0.748	0.520	8e-98
225453662	461	PREDICTED: B3 domain-containing transcri	0.897	0.780	0.481	6e-80
296089028	375	unnamed protein product [Vitis vinifera]	0.573	0.613	0.628	2e-77
225426506	411	PREDICTED: B3 domain-containing protein	0.658	0.642	0.503	4e-70
147768788	505	hypothetical protein VITISV_009603 [Viti	0.618	0.491	0.556	5e-70
356504205	420	PREDICTED: B3 domain-containing transcri	0.733	0.7	0.478	8e-70
297742476	380	unnamed protein product [Vitis vinifera]	0.561	0.592	0.576	2e-69
356571279	413	PREDICTED: B3 domain-containing transcri	0.735	0.714	0.469	4e-69
255555825	406	transcription factor, putative [Ricinus	0.643	0.635	0.5	3e-68
358347636	624	Maturase K [Medicago truncatula] gi|3555	0.613	0.394	0.537	2e-66

>gi|255548087|ref|XP_002515100.1| hypothetical protein RCOM_1340820 [Ricinus communis] gi|223545580|gb|EEF47084.1| hypothetical protein RCOM_1340820 [Ricinus communis]

 Score =  363 bits (932), Expect = 8e-98,   Method: Compositional matrix adjust.
 Identities = 232/446 (52%), Positives = 268/446 (60%), Gaps = 109/446 (24%)

Query: 31  LPFSVSSSSSSVSSSKYKAFVPHHHQNSWLLGPIDSQ------EAATNFDNREDLMDLSL 84
           LPF   SS SS +++KY+ F+P HH + WL     SQ      E++ NFD + DLMDLSL
Sbjct: 39  LPFPSPSSPSSSATAKYRNFLPQHHNSLWLASSDHSQQDNKTQESSLNFDKKLDLMDLSL 98

Query: 85  GNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMYRSIEKEHMFDKVVTPSDVGKL 144
           GN+N             +N       T +ST G SSG   SIE+EHMFDKVVTPSDVGKL
Sbjct: 99  GNDNRT-----------LN-------TSTSTAGASSG---SIEREHMFDKVVTPSDVGKL 137

Query: 145 NRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFV 204
           NRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGK WRFRYSYWNSSQSYVMTKGWSRFV
Sbjct: 138 NRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKLWRFRYSYWNSSQSYVMTKGWSRFV 197

Query: 205 KDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRFQQSLR 264
           K+KKLDAGD VSFQRGVGE GK RLYIDWRRRP+    PDPT+   ++ QNQL F QS+R
Sbjct: 198 KEKKLDAGDIVSFQRGVGESGKHRLYIDWRRRPN---APDPTSFTHLELQNQLHFPQSVR 254

Query: 265 WGTRLYSLPQSLS-NYGPFSYNTIHN------PYY---------QHHQQQQILGFGGNAS 308
           WG RLYSLPQ LS    PF  +  H+      PY           H QQQQ+  +G  A+
Sbjct: 255 WG-RLYSLPQPLSVPRVPFEQSQFHHLNYTIQPYIHNHHDHHYHHHQQQQQVTSYGNAAA 313

Query: 309 STMPVQYYLRPSSVSQQIEGGHM----------------------PMVIDSVPVVVPGKT 346
                QYYLRPS        G +                       MVIDS+P+V     
Sbjct: 314 P----QYYLRPSPPPPLPSPGTVRIGAVHHHHHPQQQQEEGGDKGSMVIDSIPIV----- 364

Query: 347 ASSTAAKRLRLFGVNMDCPTQDDQ---------------------------SPATSSSS- 378
              +A KRLRLFGVNM+CPTQDDQ                            P++S +S 
Sbjct: 365 NGRSAGKRLRLFGVNMECPTQDDQYSSSSDNLPHGSTVLSSFFPHLASHSRPPSSSGASM 424

Query: 379 --TRQA-AASEYSSKGKSSLSFDLDL 401
             +RQA A  E+  KGK+SLSFDLD+
Sbjct: 425 PTSRQADAHHEFPKKGKTSLSFDLDI 450

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453662|ref|XP_002268399.1| PREDICTED: B3 domain-containing transcription factor NGA1-like [Vitis vinifera]

 Score =  304 bits (778), Expect = 6e-80,   Method: Compositional matrix adjust.
 Identities = 214/444 (48%), Positives = 253/444 (56%), Gaps = 84/444 (18%)

Query: 27  ERIKLPFSVSSSSSSVSSSKYKAFVPHHHQ-------NSWLLGPIDSQEAATNFDNREDL 79
           E  K+PFS  SSSSS +S  YK   P  ++        +WL      +EAA ++D     
Sbjct: 33  ETCKVPFS--SSSSSCASPMYKGVAPEPYRYEQQQQQRAWLGTSEPEEEAARSYDRAA-- 88

Query: 80  MDLSLGNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMYRSIEKEHMFDKVVTPS 139
             L LG  +   +        N++  N  +G G      S G    +E+EHMFDKVVTPS
Sbjct: 89  --LELGGPDGVTDSSRKLEFVNLSLRNNEDGDGGGGCSSSVGGGVCVEREHMFDKVVTPS 146

Query: 140 DVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKG 199
           DVGKLNRLVIPKQHAEKYFPLDSS+++KGLLLNFEDR+GK WRFRYSYWNSSQSYVMTKG
Sbjct: 147 DVGKLNRLVIPKQHAEKYFPLDSSASDKGLLLNFEDRDGKPWRFRYSYWNSSQSYVMTKG 206

Query: 200 WSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPTTLAQMQFQNQLRF 259
           WSRFVK+KKLDAGD VSF+RGVGE GKDRLYIDWRRRPD    PDPT+L+ +    QL F
Sbjct: 207 WSRFVKEKKLDAGDIVSFERGVGESGKDRLYIDWRRRPD---APDPTSLSHLHLPTQLPF 263

Query: 260 QQSLRWGTRLYSLPQ--SLSNYGPFSYNTIHNPYY---------------------QHHQ 296
            QS+RWG RLYSLPQ  S+S   P  ++ +    Y                      HH 
Sbjct: 264 SQSVRWG-RLYSLPQSPSMSMNMPQGHDHMQQLNYSSIHPYHRHHHHHPHHHHHHHHHHH 322

Query: 297 QQQILGFG----GNASSTMPVQYYLRPSSVSQQI----EGGHMPMVIDSVPVVVPGKTAS 348
           Q+  LG G       +S     YYL  SS S QI    +GG  PMVI+SVPVV       
Sbjct: 323 QRNTLGGGYHDYNAVTSGSGSLYYLSSSSSSHQIGAVQQGGDAPMVINSVPVV-----HG 377

Query: 349 STAAKRLRLFGVNMDCPTQDDQS-----PATS--------------------------SS 377
            T AKRLRLFGVNM+C T DD       P+T+                          + 
Sbjct: 378 KTTAKRLRLFGVNMECSTPDDHPECNILPSTAIPHVTMASLSPHLPSSSLPPLQLRLFNG 437

Query: 378 STRQAAASEYSSKGKSSLSFDLDL 401
           S  QA   E+  KGK+SLSFDLDL
Sbjct: 438 SPLQAVPDEFPKKGKTSLSFDLDL 461

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089028|emb|CBI38731.3| unnamed protein product [Vitis vinifera]

 Score =  295 bits (756), Expect = 2e-77,   Method: Compositional matrix adjust.
 Identities = 159/253 (62%), Positives = 177/253 (69%), Gaps = 23/253 (9%)

Query: 127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYS 186
           E+EHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSS+++KGLLLNFEDR+GK WRFRYS
Sbjct: 90  EREHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSASDKGLLLNFEDRDGKPWRFRYS 149

Query: 187 YWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVPDPT 246
           YWNSSQSYVMTKGWSRFVK+KKLDAGD VSF+RGVGE GKDRLYIDWRRRPD    PDPT
Sbjct: 150 YWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFERGVGESGKDRLYIDWRRRPD---APDPT 206

Query: 247 TLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGFGGN 306
           +L+ +    QL F QS+RWG RLYSLPQ        S NT+   Y   H    +    G+
Sbjct: 207 SLSHLHLPTQLPFSQSVRWG-RLYSLPQ--------SPNTLGGGY---HDYNAVTSGSGS 254

Query: 307 ASSTMPVQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTASSTAAKRLRLFGVNMDCPT 366
                      +  +V Q   GG  PMVI+SVPVV        T AKRLRLFGVNM+C T
Sbjct: 255 LYYLSSSSSSHQIGAVQQ---GGDAPMVINSVPVV-----HGKTTAKRLRLFGVNMECST 306

Query: 367 QDDQSPATSSSST 379
            DD        ST
Sbjct: 307 PDDHPECNILPST 319

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225426506|ref|XP_002271695.1| PREDICTED: B3 domain-containing protein Os03g0120900-like [Vitis vinifera]

 Score =  271 bits (693), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 162/322 (50%), Positives = 193/322 (59%), Gaps = 58/322 (18%)

Query: 124 RSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRF 183
           +++E+EHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSS+NEKGLLLNFEDR+GK WRF
Sbjct: 104 QALEREHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSANEKGLLLNFEDRSGKPWRF 163

Query: 184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVP 243
           RYSYWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRGVGE GKDRLYIDWRRRPD    P
Sbjct: 164 RYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGVGESGKDRLYIDWRRRPD---AP 220

Query: 244 DPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQS--LSNYGPFSYNTIHNPYYQHHQQQQIL 301
           +P++LA   F     F +S+ W       P +    + G          Y  H   +   
Sbjct: 221 EPSSLAH-HF-----FHRSVPWSPLFLQAPVAGGAVSMGRQQVQLAQPNYMSHLGGRNPY 274

Query: 302 GFGGNA--SSTMPVQ---YYLRPSSVSQQIEGGHM-----PMVIDSVPVVVPGKTASSTA 351
           G G  +  ++  P     +YLRP++  Q            PMV +SVPVV         A
Sbjct: 275 GSGAYSYNNAVNPCSGSVFYLRPTAPQQVGMVQVQQGGVEPMVFNSVPVV-----HGKAA 329

Query: 352 AKRLRLFGVNMDCP-TQDDQSPATSSSSTRQAAASEYS---------------------- 388
           AKRLRLFGVNM+CP ++ D+    SS+S   AA +                         
Sbjct: 330 AKRLRLFGVNMECPISESDECDILSSTSIPHAAVASQPPHLSSPSSHHHPLQLRLYNGTP 389

Query: 389 ---------SKGKSSLSFDLDL 401
                    +KGK S+SFDLD+
Sbjct: 390 LPTLPTNLLNKGKESMSFDLDI 411

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147768788|emb|CAN73636.1| hypothetical protein VITISV_009603 [Vitis vinifera]

 Score =  271 bits (693), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 153/275 (55%), Positives = 181/275 (65%), Gaps = 27/275 (9%)

Query: 124 RSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRF 183
           +++E+EHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSS+NEKGLLLNFEDR+GK WRF
Sbjct: 104 QALEREHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSANEKGLLLNFEDRSGKPWRF 163

Query: 184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVP 243
           RYSYWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRGVGE GKDRLYIDWRRRPD    P
Sbjct: 164 RYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGVGESGKDRLYIDWRRRPD---AP 220

Query: 244 DPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQS--LSNYGPFSYNTIHNPYYQHHQQQQIL 301
           +P++LA   F     F +S+ W       P +    + G          Y  H   +   
Sbjct: 221 EPSSLAH-HF-----FHRSVPWSPLFLQAPVAGGAVSMGRQQVQLAQPNYMSHLGGRNPY 274

Query: 302 GFGGNA--SSTMPVQ---YYLRPSSVSQQIEGGHM-----PMVIDSVPVVVPGKTASSTA 351
           G G  +  ++  P     +YLRP++  Q            PMV +SVPVV         A
Sbjct: 275 GSGAYSYNNAVNPCSGSVFYLRPTAPQQVGMVQVQQGGVEPMVFNSVPVV-----HGKAA 329

Query: 352 AKRLRLFGVNMDCP-TQDDQSPATSSSSTRQAAAS 385
           AKRLRLFGVNM+CP ++ D+    SS+S   AA +
Sbjct: 330 AKRLRLFGVNMECPISESDECDILSSTSIPHAAVA 364

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356504205|ref|XP_003520889.1| PREDICTED: B3 domain-containing transcription factor NGA1-like [Glycine max]

 Score =  270 bits (691), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 174/364 (47%), Positives = 215/364 (59%), Gaps = 70/364 (19%)

Query: 64  IDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMY 123
           +  Q+ A+NF  + DLMDLSLG++    E             N+  G G    G     +
Sbjct: 35  LHQQDTASNFGKKLDLMDLSLGSSKEEEE-----------EGNLQQGGG----GVVHHAH 79

Query: 124 RSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRF 183
           + +EKEHMF+KV TPSDVGKLNRLVIPKQHAEKYFPLDSS+NEKGLLLNFEDRNGK WRF
Sbjct: 80  QVVEKEHMFEKVATPSDVGKLNRLVIPKQHAEKYFPLDSSTNEKGLLLNFEDRNGKVWRF 139

Query: 184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVP 243
           RYSYWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRG+G+L + RLYIDW+RRPD  H  
Sbjct: 140 RYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGLGDLYRHRLYIDWKRRPDHAHAH 199

Query: 244 DPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSL--------SNYGPFSYNTIHNPYYQHH 295
            P     +       F  S+    RLYSLP ++          +   +YN +    +Q H
Sbjct: 200 PPHHHDPL-------FLPSI----RLYSLPPTMPPRYHHDHHFHHHLNYNNLFT--FQQH 246

Query: 296 QQQQI----------LGFGGNASSTMPVQYYLRPSSVS-----QQIEG---GHMPMVIDS 337
           Q QQ+           G+  + S ++   YYLR SS+S     Q ++G     +PM+IDS
Sbjct: 247 QYQQLGAATTTHHNNYGYQNSGSGSL---YYLR-SSMSMGGGDQNLQGRGSNIVPMIIDS 302

Query: 338 VPVVVP----------GKTASST--AAKRLRLFGVNMDCPTQDDQSPATSSSSTRQAAAS 385
           VPV V           G T+  T  + KRLRLFGVNM+C +  + S   SS S      +
Sbjct: 303 VPVNVAHHNNNRHGNGGITSGGTNCSGKRLRLFGVNMECASSAEDSKELSSGSAAHVTTA 362

Query: 386 EYSS 389
             SS
Sbjct: 363 ASSS 366

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742476|emb|CBI34625.3| unnamed protein product [Vitis vinifera]

 Score =  269 bits (687), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 154/267 (57%), Positives = 175/267 (65%), Gaps = 42/267 (15%)

Query: 124 RSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRF 183
           +++E+EHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSS+NEKGLLLNFEDR+GK WRF
Sbjct: 149 QALEREHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSANEKGLLLNFEDRSGKPWRF 208

Query: 184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVP 243
           RYSYWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRGVGE GKDRLYIDWRRRPD    P
Sbjct: 209 RYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGVGESGKDRLYIDWRRRPD---AP 265

Query: 244 DPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNPYYQHHQQQQILGF 303
           +P++LA   F     +   L  G R      +    G +SYN   NP             
Sbjct: 266 EPSSLAHHFFHRSPNYMSHL--GGR------NPYGSGAYSYNNAVNP------------- 304

Query: 304 GGNASSTMPVQYYLRPSSVSQQIEGGHM-----PMVIDSVPVVVPGKTASSTAAKRLRLF 358
               S ++   +YLRP++  Q            PMV +SVPVV         AAKRLRLF
Sbjct: 305 ---CSGSV---FYLRPTAPQQVGMVQVQQGGVEPMVFNSVPVV-----HGKAAAKRLRLF 353

Query: 359 GVNMDCPT--QDDQSPATSSSSTRQAA 383
           GVNM+CP    D+ S   SS ST  A 
Sbjct: 354 GVNMECPISESDELSNKLSSLSTLLAT 380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571279|ref|XP_003553806.1| PREDICTED: B3 domain-containing transcription factor NGA1-like [Glycine max]

 Score =  268 bits (685), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 170/362 (46%), Positives = 211/362 (58%), Gaps = 67/362 (18%)

Query: 64  IDSQEAATNFDNREDLMDLSLGNNNNNNEDQPHKHSGNINNANVANGTGSSTTGESSGMY 123
           +  Q+AA+NF  + DLMDLSLG++    E +  +  G     + A              +
Sbjct: 36  LHQQDAASNFGKKLDLMDLSLGSSKEEEEGKLQQGGGGGGVVHHA--------------H 81

Query: 124 RSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRF 183
             +EKE+MF+KVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGK WRF
Sbjct: 82  EIVEKENMFEKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKVWRF 141

Query: 184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDVHHVP 243
           RYSYWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRG+G+L + RLYIDWR+R       
Sbjct: 142 RYSYWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGLGDLYRHRLYIDWRKR------- 194

Query: 244 DPTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSL--------SNYGPFSYNTIHNPYYQHH 295
                          F  S+RW    YSLP ++          +   +YN +    +Q H
Sbjct: 195 -SAHPHAHHHAPDPLFLPSIRW----YSLPPTMPPRYHHDHHFHHHLNYNNLFT--FQQH 247

Query: 296 QQQQILGFG---------GNASSTMPVQYYLRPSSVS-----QQIEG---GHMPMVIDSV 338
           Q Q  LG           G+ +S     YYLR SS+S     Q ++G     +PM+IDSV
Sbjct: 248 QYQ--LGAATAAATAAHHGDQNSGSGSLYYLR-SSMSMGGGDQNLQGRGNNIVPMIIDSV 304

Query: 339 PVVV---------PGKTA--SSTAAKRLRLFGVNMDCPTQDDQSPATSSSSTRQAAASEY 387
           PV V          G T+  ++++ KRLRLFGVNM+C +  + S   SS S      +  
Sbjct: 305 PVSVGHHNNRHGNGGITSGGATSSGKRLRLFGVNMECASSAEDSKGLSSGSAAHVTTAAS 364

Query: 388 SS 389
           SS
Sbjct: 365 SS 366

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255555825|ref|XP_002518948.1| transcription factor, putative [Ricinus communis] gi|223541935|gb|EEF43481.1| transcription factor, putative [Ricinus communis]

 Score =  265 bits (677), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 164/328 (50%), Positives = 184/328 (56%), Gaps = 70/328 (21%)

Query: 126 IEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRY 185
           I+KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSS+N+KGLLLNFED+ GKAWRFRY
Sbjct: 97  IQKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSTNDKGLLLNFEDKTGKAWRFRY 156

Query: 186 SYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPD-VHHVPD 244
           SYWNSSQSYVMTKGWSRFVKDKKLDAGD VSFQRGVGE  KDRLYIDWRRRPD  HH P 
Sbjct: 157 SYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQRGVGEAAKDRLYIDWRRRPDGPHHQP- 215

Query: 245 PTTLAQMQFQNQLRFQQSLRWGTRLYSLPQSLSNYGPFSYNTIHNP------YYQHHQQQ 298
                    ++Q     S+ W   L   P       P  +  + NP              
Sbjct: 216 -------THRHQQHHLSSIPWSPLLMRPPPV-----PRDHFHLSNPNYYNSSGGGGGASA 263

Query: 299 QILGFGGN-----------ASSTMPVQYYLRPSSVSQQIE--------GGHM-PMVIDSV 338
              G+G N            SS      Y+R    +  ++        GG M PMV +SV
Sbjct: 264 YGFGYGYNSSNNYNYNSNVGSSNSGTIIYMRSPQQAGMVQWQQAAASSGGFMEPMVFESV 323

Query: 339 PVVVPGKTASSTAAKRLRLFGVNMDCPTQDDQSPA----TSSSSTRQAAA---------- 384
           PVV         AAKRLRLFGVNMDCP  D         TS+     AAA          
Sbjct: 324 PVV-----QGKAAAKRLRLFGVNMDCPISDSDHECDKLSTSTPIPAMAAALQQPSHHPLQ 378

Query: 385 -----------SEYSSKGKSSLSFDLDL 401
                       ++  KGKSS+S DLD+
Sbjct: 379 LRLYNGTPLPSPQFLHKGKSSMSLDLDI 406

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|358347636|ref|XP_003637862.1| Maturase K [Medicago truncatula] gi|355503797|gb|AES85000.1| Maturase K [Medicago truncatula]

 Score =  259 bits (661), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 163/303 (53%), Positives = 187/303 (61%), Gaps = 57/303 (18%)

Query: 127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYS 186
           EKEHMFDK VTPSDVGKLNRLVIPKQHAEKYFPLDS+SNEKGLLLNFEDRNGK WRFRYS
Sbjct: 167 EKEHMFDKAVTPSDVGKLNRLVIPKQHAEKYFPLDSTSNEKGLLLNFEDRNGKLWRFRYS 226

Query: 187 YWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDV-HHVPDP 245
           YWNSSQSYVMTKGWSRFVK+KKLDAGD VSFQRGVGEL + RL+IDWRRR +  HH  DP
Sbjct: 227 YWNSSQSYVMTKGWSRFVKEKKLDAGDIVSFQRGVGELFRHRLFIDWRRRSNHNHHTIDP 286

Query: 246 ---TTLAQMQFQNQLRFQQSLRWG---TRLYSL----PQSLSNYGPFSYNTIHN------ 289
              T        NQ ++  S+RWG   +R YSL    PQ L +     ++ +HN      
Sbjct: 287 SSATLFTPFFLPNQQQY--SIRWGGANSRFYSLPYPTPQRLQHQQQNHHDPLHNQMNFNH 344

Query: 290 ---PYYQ-------------HHQQQQILGFGGNASSTMPV-QYYLRPSSVSQQIEGGHMP 332
              P++Q             HH    +      A S+M + Q  L  S+ SQQ EGG   
Sbjct: 345 NMFPFHQYGGGNVNHQYNFHHHDPSSVFYMRSLAPSSMSMPQGSL--STRSQQQEGGGGS 402

Query: 333 ----MVIDSVPV------------VVPGKTASSTAAKRLRLFGVNMDC---PTQDDQSPA 373
               M+IDSVPV                 T ++ AAKRLRLFGVNM+C    T DD   +
Sbjct: 403 NVSNMIIDSVPVSHYHHHHGNLTSNATTSTTTNGAAKRLRLFGVNMECGGSSTSDDNLAS 462

Query: 374 TSS 376
            SS
Sbjct: 463 PSS 465

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	401
TAIR|locus:2041404	310	NGA1 "NGATHA1" [Arabidopsis th	0.291	0.377	0.847	9.9e-60
TAIR|locus:2200950	358	NGA3 "NGATHA3" [Arabidopsis th	0.688	0.770	0.476	2.7e-59
TAIR|locus:2079537	299	NGA2 "NGATHA2" [Arabidopsis th	0.286	0.384	0.803	4.8e-56
TAIR|locus:2117007	333	NGA4 "NGATHA4" [Arabidopsis th	0.568	0.684	0.453	5.6e-45
TAIR|locus:2205319	344	RAV1 "related to ABI3/VP1 1" [	0.401	0.468	0.520	4.4e-44
TAIR|locus:2164215	282	DPA4 "DEVELOPMENT-RELATED PcG	0.381	0.542	0.545	8.5e-43
TAIR|locus:2080782	267	AT3G11580 [Arabidopsis thalian	0.286	0.430	0.625	1.4e-42
TAIR|locus:2039165	244	ABS2 "ABNORMAL SHOOT 2" [Arabi	0.274	0.450	0.686	9.5e-42
TAIR|locus:2031185	361	TEM1 "TEMPRANILLO 1" [Arabidop	0.264	0.293	0.652	4.7e-41
TAIR|locus:2012438	352	RAV2 "related to ABI3/VP1 2" [	0.266	0.303	0.711	6.6e-41

TAIR|locus:2041404 NGA1 "NGATHA1" [Arabidopsis thaliana (taxid:3702)]

 Score = 534 (193.0 bits), Expect = 9.9e-60, Sum P(2) = 9.9e-60
 Identities = 100/118 (84%), Positives = 108/118 (91%)

Query:   127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYS 186
             ++EHMFDKVVTPSDVGKLNRLVIPKQHAE++FPLDSSSNEKGLLLNFED  GK+WRFRYS
Sbjct:    30 DREHMFDKVVTPSDVGKLNRLVIPKQHAERFFPLDSSSNEKGLLLNFEDLTGKSWRFRYS 89

Query:   187 YWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKD-RLYIDWRRRPDVHHVP 243
             YWNSSQSYVMTKGWSRFVKDKKLDAGD VSFQR VG+ G+D RL+IDWRRRP V   P
Sbjct:    90 YWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQRCVGDSGRDSRLFIDWRRRPKVPDHP 147

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 = 608 (219.1 bits), Expect = 2.7e-59, P = 2.7e-59
 Identities = 144/302 (47%), Positives = 171/302 (56%)

Query:    80 MDLSLGXXXXXXEDQPHKHSGNINN---ANVANXXXXXXXXXXXXMYRSIEKEHMFDKVV 136
             MDLSL        DQ       + +   A+ ++            M    EKEHMFDKVV
Sbjct:     1 MDLSLAPTTTTSSDQEQDRDQELTSNIGASSSSGPSGNNNNLPMMMIPPPEKEHMFDKVV 60

Query:   137 TPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVM 196
             TPSDVGKLNRLVIPKQHAE+YFPLDSS+N+ G LLNF+DRNGK WRFRYSYWNSSQSYVM
Sbjct:    61 TPSDVGKLNRLVIPKQHAERYFPLDSSNNQNGTLLNFQDRNGKMWRFRYSYWNSSQSYVM 120

Query:   197 TKGWSRFVKDKKLDAGDTVSFQRGVG-ELGKDRLYIDWRRRPDVHHVPDPTTLAXXXXXX 255
             TKGWSRFVK+KKLDAGD VSFQRG+G E  + +LYIDWR RPD+  V             
Sbjct:   121 TKGWSRFVKEKKLDAGDIVSFQRGIGDESERSKLYIDWRHRPDMSLVQ---AHQFGNFGF 177

Query:   256 XXXXXXXXXWGTRLYSLPQ--SLSNYGPFSYNTIHNPXXXXXXXXXILGFG-GNASSTMP 312
                      +  R + LP+  S+  +   +    H            +G+G GN +    
Sbjct:   178 NFNFPTTSQYSNRFHPLPEYNSVPIHRGLNIGN-HQRSYYNTQRQEFVGYGYGNLAGRC- 235

Query:   313 VQYYLRPSSVSQQIEGGHMPMVIDSVPVVVPGKTAS----------STAAKRLRLFGVNM 362
               YY       + I G   P+VIDSVPVV PG+             STA KRLRLFGVNM
Sbjct:   236 --YYTGSPLDHRNIVGSE-PLVIDSVPVV-PGRLTPVMLPPLPPPPSTAGKRLRLFGVNM 291

Query:   363 DC 364
             +C
Sbjct:   292 EC 293

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

 Score = 510 (184.6 bits), Expect = 4.8e-56, Sum P(2) = 4.8e-56
 Identities = 98/122 (80%), Positives = 108/122 (88%)

Query:   125 SIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSS-NE--KGLLLNFEDRNGKAW 181
             S+E+EHMFDKVVTPSDVGKLNRLVIPKQHAE+YFPLD+S+ N+  KGLLLNFEDR+G +W
Sbjct:    16 SMEREHMFDKVVTPSDVGKLNRLVIPKQHAERYFPLDNSTTNDSNKGLLLNFEDRSGNSW 75

Query:   182 RFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDV-- 239
             RFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGD VSFQR      KD+LYIDWRRRP +  
Sbjct:    76 RFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSFQRD--SCNKDKLYIDWRRRPKIPD 133

Query:   240 HH 241
             HH
Sbjct:   134 HH 135

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:2117007 NGA4 "NGATHA4" [Arabidopsis thaliana (taxid:3702)]

 Score = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 116/256 (45%), Positives = 146/256 (57%)

Query:   123 YRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWR 182
             Y S  +EHMFDKV+TPSDVGKLNRLVIPKQHAE +FPL+   N+ G +L+F+D+NGK WR
Sbjct:    27 YSSERREHMFDKVLTPSDVGKLNRLVIPKQHAENFFPLED--NQNGTVLDFQDKNGKMWR 84

Query:   183 FRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGV-------GELGKDRLYIDWRR 235
             FRYSYWNSSQSYVMTKGWSRFVK+KKL AGDTVSF RG         E  +  ++IDWR 
Sbjct:    85 FRYSYWNSSQSYVMTKGWSRFVKEKKLFAGDTVSFYRGYIPDDNAQPERRRKIMFIDWRP 144

Query:   236 RPDVHHVPDPTTLAXXXXXXXXXXXXXXXWGTRLYSLPQSLSNYGPFSYNTIHNPXXXXX 295
             R +++ V +                      T  YS+P    ++ PF  N          
Sbjct:   145 RAEINFVHNINNHNFVFGSPTYPTARFYPV-TPEYSMPYR--SFPPFYQNQFQE------ 195

Query:   296 XXXXILGFG-GNASSTMPVQYYL-RPSSVSQQIEGGHM-PMVIDSVPVVVPGKTASS--- 349
                  LG+G G   +   V+YY   P     Q   G   P+V DSVPV   G+   S   
Sbjct:   196 --REYLGYGYGRVVNGNGVRYYAGSPLDQHHQWNLGRSEPLVYDSVPVFPAGRVPPSAPP 253

Query:   350 --TAAKRLRLFGVNMD 363
               +  K+LRLFGV+++
Sbjct:   254 QPSTTKKLRLFGVDVE 269

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

 Score = 415 (151.1 bits), Expect = 4.4e-44, Sum P(3) = 4.4e-44
 Identities = 87/167 (52%), Positives = 106/167 (63%)

Query:    72 NFDNREDLMD-LSLGXXXXXXEDQPHKHSGNINNANVANXXXXXXXXXXXXMYRSIEKEH 130
             N  ++ +++D L         E    + +GN N                   +RS E   
Sbjct:   129 NSHSKSEIVDMLRKHTYNEELEQSKRRRNGNGNMTRTLLTSGLSNDGVSTTGFRSAEA-- 186

Query:   131 MFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSS-NEKGLLLNFEDRNGKAWRFRYSYWN 189
             +F+K VTPSDVGKLNRLVIPK HAEK+FPL SS+ + KG+LLNFED NGK WRFRYSYWN
Sbjct:   187 LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN 246

Query:   190 SSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRR 236
             SSQSYV+TKGWSRFVK+K L AGD VSF R  G+    +LYI W+ R
Sbjct:   247 SSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQ--DQQLYIGWKSR 291

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

 Score = 421 (153.3 bits), Expect = 8.5e-43, Sum P(2) = 8.5e-43
 Identities = 90/165 (54%), Positives = 105/165 (63%)

Query:   128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPL----------DSSSNEKGLLLNFEDRN 177
             KE +F+K +TPSDVGKLNRLVIPKQHAEKYFPL          D+SS+EKG+LL+FED +
Sbjct:    42 KESLFEKSLTPSDVGKLNRLVIPKQHAEKYFPLNAVLVSSAAADTSSSEKGMLLSFEDES 101

Query:   178 GKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRP 237
             GK+WRFRYSYWNSSQSYV+TKGWSRFVKDK+LD GD V FQR   +    RL+I WRRR 
Sbjct:   102 GKSWRFRYSYWNSSQSYVLTKGWSRFVKDKQLDPGDVVFFQRHRSD--SRRLFIGWRRRG 159

Query:   238 DVHHVPDPTTLAXXXXXXXXXXXXXXXWGTRLYSLPQSLSNYGPF 282
                      T +                 T  YS P S S Y  +
Sbjct:   160 QGSSSSVAATNSAVNTSSMGALSYHQIHATSNYSNPPSHSEYSHY 204

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

TAIR|locus:2080782 AT3G11580 [Arabidopsis thaliana (taxid:3702)]

 Score = 407 (148.3 bits), Expect = 1.4e-42, Sum P(2) = 1.4e-42
 Identities = 80/128 (62%), Positives = 98/128 (76%)

Query:   127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSN-----------EKGLLLNFED 175
             ++E +F+K +TPSDVGKLNRLVIPKQHAEKYFPL++++N           EKG+LL+FED
Sbjct:    24 QRESLFEKSLTPSDVGKLNRLVIPKQHAEKYFPLNNNNNNGGSGDDVATTEKGMLLSFED 83

Query:   176 RNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRR 235
              +GK W+FRYSYWNSSQSYV+TKGWSR+VKDK LDAGD V FQR   +L   RL+I WRR
Sbjct:    84 ESGKCWKFRYSYWNSSQSYVLTKGWSRYVKDKHLDAGDVVFFQRHRFDL--HRLFIGWRR 141

Query:   236 RPDVHHVP 243
             R +    P
Sbjct:   142 RGEASSSP 149

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:0009062 "fatty acid catabolic process" evidence=RCA

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

 Score = 403 (146.9 bits), Expect = 9.5e-42, Sum P(2) = 9.5e-42
 Identities = 79/115 (68%), Positives = 91/115 (79%)

Query:   127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSN---EKGLLLNFEDRNGKAWRF 183
             EKE +F+K +TPSDVGKLNRLVIPKQHAE+YFPL +++    EKGLLL FED  GK WRF
Sbjct:    33 EKEALFEKPLTPSDVGKLNRLVIPKQHAERYFPLAAAAADAVEKGLLLCFEDEEGKPWRF 92

Query:   184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPD 238
             RYSYWNSSQSYV+TKGWSR+VK+K LDAGD V F R   + G  R +I WRRR D
Sbjct:    93 RYSYWNSSQSYVLTKGWSRYVKEKHLDAGDVVLFHRHRSDGG--RFFIGWRRRGD 145

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

 Score = 380 (138.8 bits), Expect = 4.7e-41, Sum P(3) = 4.7e-41
 Identities = 77/118 (65%), Positives = 88/118 (74%)

Query:   128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSS--------SNEKGLLLNFEDRNGK 179
             +E +F+K VTPSDVGKLNRLVIPKQHAEK+FPL +         S  KG+L+N EDR GK
Sbjct:   191 REVLFEKTVTPSDVGKLNRLVIPKQHAEKHFPLPAMTTAMGMNPSPTKGVLINLEDRTGK 250

Query:   180 AWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDR-LYIDWRRR 236
              WRFRYSYWNSSQSYV+TKGWSRFVK+K L AGD V F+R  G    DR LYI W+ R
Sbjct:   251 VWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVCFERSTGP---DRQLYIHWKVR 305

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

 Score = 407 (148.3 bits), Expect = 6.6e-41, Sum P(2) = 6.6e-41
 Identities = 79/111 (71%), Positives = 92/111 (82%)

Query:   128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNE--KGLLLNFEDRNGKAWRFRY 185
             +E +F+K VTPSDVGKLNRLVIPKQHAEK+FPL S S    KG+L+NFED NGK WRFRY
Sbjct:   184 REVLFEKAVTPSDVGKLNRLVIPKQHAEKHFPLPSPSPAVTKGVLINFEDVNGKVWRFRY 243

Query:   186 SYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRR 236
             SYWNSSQSYV+TKGWSRFVK+K L AGD V+F+R  G L + +LYIDW+ R
Sbjct:   244 SYWNSSQSYVLTKGWSRFVKEKNLRAGDVVTFERSTG-LER-QLYIDWKVR 292

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	401
pfam02362	97	pfam02362, B3, B3 DNA binding domain	3e-31
smart01019	96	smart01019, B3, B3 DNA binding domain	3e-25
cd10017	98	cd10017, B3_DNA, Plant-specific B3-DNA binding dom	5e-25
cd10015	109	cd10015, BfiI_C_EcoRII_N_B3, DNA binding domains o	6e-07

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

 Score =  114 bits (287), Expect = 3e-31
 Identities = 39/105 (37%), Positives = 57/105 (54%), Gaps = 9/105 (8%)

Query: 132 FDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSS 191
           F KV+TPSDV K  RLV+PK+ AE+        N+KG  +   D +GK+W  +  Y  S 
Sbjct: 1   FVKVLTPSDVSKDGRLVLPKKFAEENGL-----NKKGQEITLLDPDGKSWTVKLRYRKSG 55

Query: 192 QSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRR 236
           + Y++T GW  FVK   L AGD++ F+      G  +  +   R+
Sbjct: 56  RRYLLTSGWKEFVKANGLKAGDSLVFKLD----GGGKFVVGIFRK 96

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

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

 Score = 98.1 bits (245), Expect = 3e-25
 Identities = 37/105 (35%), Positives = 53/105 (50%), Gaps = 9/105 (8%)

Query: 132 FDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSS 191
           F K +T SDV K  RLV+PKQ AE   P       K   +   D +GK+W+ +  Y  SS
Sbjct: 1   FFKTLTTSDVSKHGRLVLPKQFAESNGP-----PLKPKEITLLDPDGKSWKVKLKYRGSS 55

Query: 192 QSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRR 236
             +++T GW  FVK   L AGD+++F+      G     +   R+
Sbjct: 56  GMFLLTGGWKEFVKANGLKAGDSLTFEL----DGNGEFVVSIFRK 96

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

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

 Score = 97.8 bits (244), Expect = 5e-25
 Identities = 32/90 (35%), Positives = 50/90 (55%), Gaps = 5/90 (5%)

Query: 130 HMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWN 189
            +F KV+TPSDV  L RLV+PK+ A+ + P      ++G+ +  ED +GK W  +     
Sbjct: 1   PLFFKVLTPSDVSSLGRLVLPKKFAKAHLPP-----KEGVEVTLEDPDGKKWTVKLKKRK 55

Query: 190 SSQSYVMTKGWSRFVKDKKLDAGDTVSFQR 219
           +S   V++ GW  FV+   L  GD + F+ 
Sbjct: 56  NSGRMVLSGGWKEFVRANGLKEGDFLVFEL 85

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

 Score = 47.6 bits (113), Expect = 6e-07
 Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 8/96 (8%)

Query: 132 FDKVVTPSDVGK----LNRLVIPKQHAEKYFPLDSSSNEK--GLLLNFED-RNGKAWRFR 184
             K ++ +D G        L IPK   EK+ P  + + E    + L   D  + + W  R
Sbjct: 3   LIKRLSANDTGATGGHQVGLYIPKGIVEKFPPSINHTREANPSIFLTMHDISDCRDWEAR 62

Query: 185 YSYWNSSQSYV-MTKGWSRFVKDKKLDAGDTVSFQR 219
             ++NS+++   +T+G   FVK   L+ GD      
Sbjct: 63  AIFYNSNRNEKRLTRGGRGFVKQNPLNTGDLTLIAF 98

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	401
PF02362	100	B3: B3 DNA binding domain; InterPro: IPR003340 Two	99.8
PF03754	114	DUF313: Domain of unknown function (DUF313) ; Inte	98.56
smart00380	64	AP2 DNA-binding domain in plant proteins such as A	98.19
cd00018	61	AP2 DNA-binding domain found in transcription regu	98.13
PF09217	156	EcoRII-N: Restriction endonuclease EcoRII, N-termi	98.07
PHA00280	121	putative NHN endonuclease	94.38
PF00847	56	AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-	89.08

>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=99.80  E-value=3.7e-19  Score=144.30  Aligned_cols=99  Identities=33%  Similarity=0.564  Sum_probs=75.4

Q ss_pred             EEEecccCCCCCCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhccCCCC
Q 015743          132 FDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDA  211 (401)
Q Consensus       132 F~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK~Lka  211 (401)
                      |.|+|+++|+.+.++|.||++++++|.. .   ...++.+.+.|..|+.|.+++++++++.+++|++||..||++++|++
T Consensus         1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~-~---~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~~   76 (100)
T PF02362_consen    1 FFKVLKPSDVSSSCRLIIPKEFAKKHGG-N---KRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLKE   76 (100)
T ss_dssp             EEEE--TTCCCCTT-EEE-HHHHTTTS------SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--T
T ss_pred             CEEEEEccCcCCCCEEEeCHHHHHHhCC-C---cCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCCC
Confidence            8999999999998999999999999831 1   12478999999999999999999988888999999999999999999


Q ss_pred             CCEEEEEecccCCCCceEEEEEEeC
Q 015743          212 GDTVSFQRGVGELGKDRLYIDWRRR  236 (401)
Q Consensus       212 GDvVvF~R~~~e~~~~~l~IgvRRr  236 (401)
                      ||+|+|+...  +...++.|.+.|+
T Consensus        77 GD~~~F~~~~--~~~~~~~v~i~~~   99 (100)
T PF02362_consen   77 GDVCVFELIG--NSNFTLKVHIFRK   99 (100)
T ss_dssp             T-EEEEEE-S--SSCE-EEEEEE--
T ss_pred             CCEEEEEEec--CCCceEEEEEEEC
Confidence            9999999983  2456678887775

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

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

Probab=98.56  E-value=1.1e-07  Score=82.89  Aligned_cols=81  Identities=23%  Similarity=0.580  Sum_probs=65.5

Q ss_pred             ccccccEEEecccCCCC-CCCcEEeehhhhhh--hC-C-----C----CCCCCCCCeEEEEEeCCCCeEEEEEEEeCC--
Q 015743          126 IEKEHMFDKVVTPSDVG-KLNRLVIPKQHAEK--YF-P-----L----DSSSNEKGLLLNFEDRNGKAWRFRYSYWNS--  190 (401)
Q Consensus       126 ~~~e~lF~KvLT~SDVg-kl~RLvIPK~~Aek--~F-P-----l----~~~~~~~g~~L~v~D~~GK~W~FR~sywns--  190 (401)
                      .+...+|+|+|+.|||. .++||.||......  +| |     +    .......|+.+.+.|..++.|..+++.|+.  
T Consensus        18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~   97 (114)
T PF03754_consen   18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGN   97 (114)
T ss_pred             CCCeEEEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccC
Confidence            34568999999999999 68899999987744  33 2     1    001246799999999999999999999965  


Q ss_pred             -CcceEEccChhhhhhc
Q 015743          191 -SQSYVMTKGWSRFVKD  206 (401)
Q Consensus       191 -s~sYVLTkGWs~FVke  206 (401)
                       .-.|+|+.||..+|++
T Consensus        98 ~~~~YvL~~gWn~VV~~  114 (114)
T PF03754_consen   98 GTSNYVLNSGWNKVVED  114 (114)
T ss_pred             CceEEEEEcChHhhccC
Confidence             5689999999999874

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

Probab=98.19  E-value=1.1e-06  Score=68.17  Aligned_cols=25  Identities=24%  Similarity=0.279  Sum_probs=22.5

Q ss_pred             CCcccccCCCCCHHHHHhcCchhhh
Q 015743           54 HHQNSWLLGPIDSQEAATNFDNRED   78 (401)
Q Consensus        54 ~~~r~WLGtf~t~eeAA~ayD~~~~   78 (401)
                      .+.++|||+|+|+||||+|||.++.
T Consensus        22 ~~k~~~lG~f~t~eeAa~Ayd~a~~   46 (64)
T smart00380       22 KGKRVWLGTFDTAEEAARAYDRAAF   46 (64)
T ss_pred             CCcEEecCCCCCHHHHHHHHHHHHH
Confidence            7789999999999999999998644

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

Probab=98.13  E-value=9.5e-07  Score=67.56  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=21.6

Q ss_pred             CcccccCCCCCHHHHHhcCchhhh
Q 015743           55 HQNSWLLGPIDSQEAATNFDNRED   78 (401)
Q Consensus        55 ~~r~WLGtf~t~eeAA~ayD~~~~   78 (401)
                      +.++|||+|+|+||||+|||.++.
T Consensus        24 gk~~~lG~f~t~eeAa~Ayd~a~~   47 (61)
T cd00018          24 GRRIWLGTFDTAEEAARAYDRAAL   47 (61)
T ss_pred             CceEccCCCCCHHHHHHHHHHHHH
Confidence            789999999999999999998543

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.

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

Probab=98.07  E-value=3.5e-05  Score=70.52  Aligned_cols=88  Identities=20%  Similarity=0.379  Sum_probs=56.9

Q ss_pred             ccEEEecccCCCCC----CCcEEeehhhhhhhCCC-CC-CCCCCCeEEEEEeCCC--CeEEEEEEEeCC------CcceE
Q 015743          130 HMFDKVVTPSDVGK----LNRLVIPKQHAEKYFPL-DS-SSNEKGLLLNFEDRNG--KAWRFRYSYWNS------SQSYV  195 (401)
Q Consensus       130 ~lF~KvLT~SDVgk----l~RLvIPK~~Aek~FPl-~~-~~~~~g~~L~v~D~~G--K~W~FR~sywns------s~sYV  195 (401)
                      .+|.|.|++.|++.    ..++.|||..++.+||. .. ...++.+.|.+.+..+  ..|+||++|+|+      ...|.
T Consensus         8 ~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~R   87 (156)
T PF09217_consen    8 AIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEYR   87 (156)
T ss_dssp             EEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EEE
T ss_pred             EEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCceE
Confidence            57999999999994    45999999999999973 22 3456789999999877  568999999987      57799


Q ss_pred             EccChhhhhhccC-CCCCCEEEEE
Q 015743          196 MTKGWSRFVKDKK-LDAGDTVSFQ  218 (401)
Q Consensus       196 LTkGWs~FVkeK~-LkaGDvVvF~  218 (401)
                      ||. |.+...--+ =..||.++|.
T Consensus        88 IT~-~G~~~~~~~~~~tGaL~vla  110 (156)
T PF09217_consen   88 ITR-FGRGFPLQNPENTGALLVLA  110 (156)
T ss_dssp             EE----TTSGGG-GGGTT-EEEEE
T ss_pred             Eee-ecCCCccCCccccccEEEEE
Confidence            976 876555333 3679998887

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.

>PHA00280 putative NHN endonuclease

Probab=94.38  E-value=0.026  Score=49.95  Aligned_cols=40  Identities=10%  Similarity=0.033  Sum_probs=30.6

Q ss_pred             CCCCCCCceeeec--c----------CCCcccccCCCCCHHHHHhcCchhhh
Q 015743           39 SSSVSSSKYKAFV--P----------HHHQNSWLLGPIDSQEAATNFDNRED   78 (401)
Q Consensus        39 ~s~~~s~kyrgv~--p----------~~~~r~WLGtf~t~eeAA~ayD~~~~   78 (401)
                      .++..++.|+||.  .          ..+.++.||.|+++|+||.||+++.+
T Consensus        61 ~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK~~~lG~f~~~e~A~~a~~~~~~  112 (121)
T PHA00280         61 TPKSNTSGLKGLSWSKEREMWRGTVTAEGKQHNFRSRDLLEVVAWIYRTRRE  112 (121)
T ss_pred             CCCCCCCCCCeeEEecCCCeEEEEEEECCEEEEcCCCCCHHHHHHHHHHHHH
Confidence            3455678889985  2          35667889999999999999985544

>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=89.08  E-value=0.14  Score=38.05  Aligned_cols=25  Identities=8%  Similarity=-0.275  Sum_probs=21.4

Q ss_pred             CcccccCCCCCHHHHHhcCchhhhc
Q 015743           55 HQNSWLLGPIDSQEAATNFDNREDL   79 (401)
Q Consensus        55 ~~r~WLGtf~t~eeAA~ayD~~~~~   79 (401)
                      +.+.+||+|++++||++|||.+...
T Consensus        28 ~k~f~~g~fg~~~eA~~~a~~~r~~   52 (56)
T PF00847_consen   28 RKRFSVGKFGFEEEAKRAAIEARKE   52 (56)
T ss_dssp             EEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             cEEEeCccCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999976543

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.

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	401
1wid_A	130	Solution Structure Of The B3 Dna-Binding Domain Of		2e-38

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

Iteration: 1
 Score =  156 bits (395), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 78/109 (71%), Positives = 89/109 (81%), Gaps = 3/109 (2%)
Query: 129 EHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSS-NEKGLLLNFEDRNGKAWRFRYSY 187
           E +F+K VTPSDVGKLNRLVIPK HAEK+FPL SS+ + KG+LLNFED NGK WRFRYSY
Sbjct: 11  EALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSY 70
Query: 188 WNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRR 236
           WNSSQSYV+TKGWSRFVK+K L AGD VSF R  G+    +LYI W+ R
Sbjct: 71  WNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQ--DQQLYIGWKSR 117

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	401
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	1e-36
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	4e-10

>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 =  129 bits (325), Expect = 1e-36
 Identities = 76/113 (67%), Positives = 86/113 (76%), Gaps = 3/113 (2%)

Query: 127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFP-LDSSSNEKGLLLNFEDRNGKAWRFRY 185
             E +F+K VTPSDVGKLNRLVIPK HAEK+FP   S+ + KG+LLNFED NGK WRFRY
Sbjct: 9   SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRY 68

Query: 186 SYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPD 238
           SYWNSSQSYV+TKGWSRFVK+K L AGD VSF R  G     +LYI W+ R  
Sbjct: 69  SYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNG--QDQQLYIGWKSRSG 119

>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 = 55.6 bits (134), Expect = 4e-10
 Identities = 24/98 (24%), Positives = 35/98 (35%), Gaps = 11/98 (11%)

Query: 121 GMYRSIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKA 180
           G      +   F K        K   L IP     +YFP           ++  D +G++
Sbjct: 1   GSMADTGEVQ-FMKPFISEKSSK--SLEIPLGFN-EYFPAPFPIT-----VDLLDYSGRS 51

Query: 181 WRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQ 218
           W  R       +   +T GW  FVKD  L+ G  + F 
Sbjct: 52  WTVRMKK--RGEKVFLTVGWENFVKDNNLEDGKYLQFI 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	401
1wid_A	130	DNA-binding protein RAV1; DNA-binding domain, stru	99.97
4i1k_A	146	B3 domain-containing transcription factor VRN1; B3	99.78
1yel_A	104	AT1G16640; CESG, protein structure initiative, str	99.66
1gcc_A	63	Ethylene responsive element binding factor 1; tran	98.93
1na6_A	404	Ecorii, restriction endonuclease ecorii; site-spec	94.97

>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=99.97  E-value=8.9e-31  Score=226.56  Aligned_cols=113  Identities=67%  Similarity=1.117  Sum_probs=101.8

Q ss_pred             cccccccEEEecccCCCCCCCcEEeehhhhhhhCCCCC-CCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhh
Q 015743          125 SIEKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDS-SSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRF  203 (401)
Q Consensus       125 ~~~~e~lF~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~-~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~F  203 (401)
                      ...++++|+|+||+|||++++||+||+++|++|||... .+..+++.|.++|.+|++|+|+|+||+++++|+|++||+.|
T Consensus         7 ~~~~~~~F~K~Lt~SDv~~~~rL~iPk~~a~~~lP~~~~~~~~~~~~l~l~D~~Gk~W~fr~~~~~~~~~~~Lt~GW~~F   86 (130)
T 1wid_A            7 GRSAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRF   86 (130)
T ss_dssp             -CCCEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHH
T ss_pred             CCCCcceEEEEEehHHcCCCCEEEeCHHHHHhhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEcCChHHH
Confidence            46677899999999999999999999999999999543 22457899999999999999999999989999999999999


Q ss_pred             hhccCCCCCCEEEEEecccCCCCceEEEEEEeCCCC
Q 015743          204 VKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDV  239 (401)
Q Consensus       204 VkeK~LkaGDvVvF~R~~~e~~~~~l~IgvRRr~~~  239 (401)
                      |++|+|++||+|+|++..  +++.+|+|+|||+...
T Consensus        87 V~~~~L~~GD~~~F~~~~--~~~~~l~I~~rr~~~~  120 (130)
T 1wid_A           87 VKEKNLRAGDVVSFSRSN--GQDQQLYIGWKSRSGS  120 (130)
T ss_dssp             HHHTTCCTTCEEEEEECC--SSSCCEEEEEECCCSC
T ss_pred             HHHcCCCCCCEEEEEEec--CCCcEEEEEEEECCCC
Confidence            999999999999999984  4568999999999876

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

Probab=99.78  E-value=1.4e-18  Score=153.47  Aligned_cols=99  Identities=22%  Similarity=0.302  Sum_probs=84.2

Q ss_pred             cccccEEEecccCCCCCCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhc
Q 015743          127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKD  206 (401)
Q Consensus       127 ~~e~lF~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVke  206 (401)
                      ...+.|.|+||+|||.+.++|.||++++++|||..      ...+.++|. |+.|.++|+|+++  +++|++||..||++
T Consensus        44 s~~P~Fvk~l~~S~v~~~~~L~IP~~Fa~~~lp~~------~~~i~L~~~-gk~W~v~~~~~~~--~~~ls~GW~~Fv~d  114 (146)
T 4i1k_A           44 PTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSGI------SGFIKVQLA-EKQWPVRCLYKAG--RAKFSQGWYEFTLE  114 (146)
T ss_dssp             CSSCEEEEECCGGGSSTTCCEECCHHHHHHHCTTC------CSEEEEEET-TEEEEEEEEEETT--EEEECTTHHHHHHH
T ss_pred             CCCCEEEEEECchhcCCCcEEEeCHHHHHHhCCCC------CeEEEEEEC-CcEEEEEEEEeCC--cEEECCchHHHHHH
Confidence            34589999999999998889999999999999854      357788887 6999999999874  79999999999999


Q ss_pred             cCCCCCCEEEEEecccCCCCceEEEEEEeC
Q 015743          207 KKLDAGDTVSFQRGVGELGKDRLYIDWRRR  236 (401)
Q Consensus       207 K~LkaGDvVvF~R~~~e~~~~~l~IgvRRr  236 (401)
                      |+|++||+|+|....  ..+..|.|.|-|.
T Consensus       115 n~L~~GD~cvFeli~--~~~~~f~V~IfR~  142 (146)
T 4i1k_A          115 NNLGEGDVCVFELLR--TRDFVLKVTAFRV  142 (146)
T ss_dssp             TTCCTTCEEEEEECS--SSSCEEEEEEECC
T ss_pred             cCCCCCCEEEEEEec--CCceEEEEEEEec
Confidence            999999999999984  2334577766654

>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=99.66  E-value=3.3e-16  Score=129.62  Aligned_cols=83  Identities=25%  Similarity=0.422  Sum_probs=72.3

Q ss_pred             ccccEEEecccCCCCCCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhcc
Q 015743          128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDK  207 (401)
Q Consensus       128 ~e~lF~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK  207 (401)
                      ..+.|.|+|+++|.  ..+|.||+++++.|.+..      ...+.++|..|++|+++|++++  .+++|++||.+||++|
T Consensus         7 ~~p~F~K~l~~~~~--~~~L~IP~~F~~~~~~~~------~~~v~L~~~~G~~W~v~~~~~~--~~~~l~~GW~~Fv~~~   76 (104)
T 1yel_A            7 GEVQFMKPFISEKS--SKSLEIPLGFNEYFPAPF------PITVDLLDYSGRSWTVRMKKRG--EKVFLTVGWENFVKDN   76 (104)
T ss_dssp             CCEEEEEECCHHHH--TTCEECCHHHHTTCCCCC------CSEEEEEETTSCEEEEEEEEET--TEEEECTTHHHHHHHH
T ss_pred             CCCCEEEEECCCCc--cceEECCHHHHHhcCccC------CCEEEEECCCCCEEEEEEEEEC--CcEEEccChHHHHHHc
Confidence            34789999999993  459999999998765532      3578899999999999999874  5789999999999999


Q ss_pred             CCCCCCEEEEEec
Q 015743          208 KLDAGDTVSFQRG  220 (401)
Q Consensus       208 ~LkaGDvVvF~R~  220 (401)
                      +|++||+|+|...
T Consensus        77 ~L~~GD~lvF~~~   89 (104)
T 1yel_A           77 NLEDGKYLQFIYD   89 (104)
T ss_dssp             TCCTTCEEEEEEC
T ss_pred             CCCCCCEEEEEEc
Confidence            9999999999987

>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=98.93  E-value=1.3e-10  Score=89.90  Aligned_cols=24  Identities=21%  Similarity=0.246  Sum_probs=21.8

Q ss_pred             CcccccCCCCCHHHHHhcCchhhh
Q 015743           55 HQNSWLLGPIDSQEAATNFDNRED   78 (401)
Q Consensus        55 ~~r~WLGtf~t~eeAA~ayD~~~~   78 (401)
                      +.|+|||||+|+||||+|||.++.
T Consensus        25 g~r~~LGtf~T~eeAA~AyD~Aa~   48 (63)
T 1gcc_A           25 GARVWLGTFETAEDAALAYDRAAF   48 (63)
T ss_dssp             SEEEEEEEESSHHHHHHHHHHHHH
T ss_pred             CeEEEeeeCCCHHHHHHHHHHHHH
Confidence            579999999999999999998654

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

Probab=94.97  E-value=0.069  Score=54.34  Aligned_cols=91  Identities=19%  Similarity=0.260  Sum_probs=65.5

Q ss_pred             cccEEEecccCCCC----CCCcEEeehhhhhhhCCCCC--CCCCCCeEEEEE--eCCCCeEEEEEEEeC------CCcce
Q 015743          129 EHMFDKVVTPSDVG----KLNRLVIPKQHAEKYFPLDS--SSNEKGLLLNFE--DRNGKAWRFRYSYWN------SSQSY  194 (401)
Q Consensus       129 e~lF~KvLT~SDVg----kl~RLvIPK~~Aek~FPl~~--~~~~~g~~L~v~--D~~GK~W~FR~sywn------ss~sY  194 (401)
                      ...|.|.|++.|++    +...+.||+..+..+||-..  .+.+....+.++  |...-.+.++++|++      ....|
T Consensus        18 ~~v~~K~LSAnDtgatgshQ~gi~ipk~~l~~lfp~lg~~~e~~~~~~~~~~l~d~d~p~td~~~twYn~R~~~~tRnEy   97 (404)
T 1na6_A           18 YFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTRNEK   97 (404)
T ss_dssp             EEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCCCEE
T ss_pred             chheeEEcccccCCCCCCcccccCCchHHHHHhcccCCCccccCCcceeEEEeccCCCceEEEEEEEecccccCCCCCce
Confidence            36899999999999    34489999987888997332  233445555544  444455599999997      34679


Q ss_pred             EEccChh-hhhhccCCCCCCEEEEEec
Q 015743          195 VMTKGWS-RFVKDKKLDAGDTVSFQRG  220 (401)
Q Consensus       195 VLTkGWs-~FVkeK~LkaGDvVvF~R~  220 (401)
                      .||. |. .+.--+...+||.++|.+.
T Consensus        98 RLt~-~~~~~~~~~~a~~GDLlvia~~  123 (404)
T 1na6_A           98 RITR-WGRGSPLQDPENTGALTLLAFK  123 (404)
T ss_dssp             EEEC-CCTTSGGGCGGGTTCEEEEEEE
T ss_pred             EEee-cCCCCcccccCCCCCEEEEEEe
Confidence            9986 55 3444577889999999876

---

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	401
d1wida_	117	b.142.1.2 (A:) DNA-binding protein RAV1 {Thale cre	2e-39
d1na6a1	175	b.142.1.1 (A:4-178) Restriction endonuclease EcoRI	4e-35
d1yela1	102	b.142.1.2 (A:1-102) At1g16640 {Thale cress (Arabid	2e-20

>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 =  135 bits (340), Expect = 2e-39
 Identities = 76/113 (67%), Positives = 87/113 (76%), Gaps = 3/113 (2%)

Query: 127 EKEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFP-LDSSSNEKGLLLNFEDRNGKAWRFRY 185
             E +F+K VTPSDVGKLNRLVIPK HAEK+FP   S+ + KG+LLNFED NGK WRFRY
Sbjct: 2   SAEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRY 61

Query: 186 SYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPD 238
           SYWNSSQSYV+TKGWSRFVK+K L AGD VSF R  G+    +LYI W+ R  
Sbjct: 62  SYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQ--DQQLYIGWKSRSG 112

>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 =  125 bits (315), Expect = 4e-35
 Identities = 21/130 (16%), Positives = 40/130 (30%), Gaps = 14/130 (10%)

Query: 124 RSIEKEHMFDKVVTPSDVGKLNR----LVIPKQHAEKYFP-LDSSSNEK---GLLLNFED 175
            + E   ++ K ++ +D G        L IP    EK FP ++ +        L  +   
Sbjct: 10  IACENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSS 69

Query: 176 RNGKAWRFRYSYWNSS------QSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRL 229
            +      R  Y+NS+          +T+           + G        + E G D  
Sbjct: 70  HDCPDSEARAIYYNSAHFGKTRNEKRITRWGRGSPLQDPENTGALTLLAFKLDEQGGDCK 129

Query: 230 YIDWRRRPDV 239
            ++       
Sbjct: 130 EVNIWVCAST 139

>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 = 83.4 bits (206), Expect = 2e-20
 Identities = 22/92 (23%), Positives = 33/92 (35%), Gaps = 10/92 (10%)

Query: 128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSY 187
            E  F K        K   L IP    E +      +      ++  D +G++W  R   
Sbjct: 5   GEVQFMKPFISEKSSK--SLEIPLGFNEYFPAPFPIT------VDLLDYSGRSWTVRM-- 54

Query: 188 WNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQR 219
               +   +T GW  FVKD  L+ G  + F  
Sbjct: 55  KKRGEKVFLTVGWENFVKDNNLEDGKYLQFIY 86

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	401
d1wida_	117	DNA-binding protein RAV1 {Thale cress (Arabidopsis	99.96
d1na6a1	175	Restriction endonuclease EcoRII, N-terminal domain	99.8
d1yela1	102	At1g16640 {Thale cress (Arabidopsis thaliana) [Tax	99.56
d1gcca_	63	GCC-box binding domain {Mouse-ear cress (Arabidops	99.0

>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=4.6e-29  Score=208.24  Aligned_cols=110  Identities=69%  Similarity=1.156  Sum_probs=100.0

Q ss_pred             ccccEEEecccCCCCCCCcEEeehhhhhhhCCC-CCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhc
Q 015743          128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPL-DSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKD  206 (401)
Q Consensus       128 ~e~lF~KvLT~SDVgkl~RLvIPK~~Aek~FPl-~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVke  206 (401)
                      ++.+|+|+||+|||++++||+||++++++|||. ....+.+++.|.+.|.+|++|.|+|++|+++++|+|++||..||++
T Consensus         3 ~~~iF~K~Lt~sDv~~~~rL~iP~~~~~~~lp~~~~~~~~~~~~~~~~d~~g~~W~~~~~~~~~~~~~~l~~GW~~Fv~~   82 (117)
T d1wida_           3 AEALFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKE   82 (117)
T ss_dssp             CEEEEEEECCTTTTSSSCCEEECHHHHTTTSCCCSSCCSSCCEEEEEEETTTEEEEEEEEEETTTTEEEEESSHHHHHHH
T ss_pred             CceEEEEEecchhcCCCCEEEECHHHHHHhCCccccccCCCcEEEEEEeCCCCEEEEEEEEECCCCceEEecCHHHHHHH
Confidence            468999999999999989999999999999984 4334568999999999999999999999988999999999999999


Q ss_pred             cCCCCCCEEEEEecccCCCCceEEEEEEeCCCC
Q 015743          207 KKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDV  239 (401)
Q Consensus       207 K~LkaGDvVvF~R~~~e~~~~~l~IgvRRr~~~  239 (401)
                      |+|++||+|+|++..  .++++|+|++||++..
T Consensus        83 ~~Lk~GD~~~F~~~~--~~~~~~~i~~r~~~~~  113 (117)
T d1wida_          83 KNLRAGDVVSFSRSN--GQDQQLYIGWKSRSGS  113 (117)
T ss_dssp             TTCCTTCEEEEEECC--SSSCCEEEEEECCCSC
T ss_pred             cCCCCCCEEEEEEEe--CCCCEEEEEEEECCCC
Confidence            999999999999974  4567999999999876

>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=99.80  E-value=2.4e-20  Score=167.44  Aligned_cols=114  Identities=18%  Similarity=0.218  Sum_probs=95.6

Q ss_pred             ccccccEEEecccCCCCCCCc----EEeehhhhhhhCC-CCCC-CCCCCeEEE--EEeCCCCeEEEEEEEeCCC------
Q 015743          126 IEKEHMFDKVVTPSDVGKLNR----LVIPKQHAEKYFP-LDSS-SNEKGLLLN--FEDRNGKAWRFRYSYWNSS------  191 (401)
Q Consensus       126 ~~~e~lF~KvLT~SDVgkl~R----LvIPK~~Aek~FP-l~~~-~~~~g~~L~--v~D~~GK~W~FR~sywnss------  191 (401)
                      .+..++|+|+||+|||++++|    |+|||++|+++|| ++.. +.++.+.|.  +.|.+|++|+|||+|||+.      
T Consensus        12 ~~~~~~F~K~LtasD~g~tg~HQaG~~IPK~~ae~~FP~l~~~~e~nP~~~l~~~i~d~~g~~w~fR~iYyn~~~~ggTR   91 (175)
T d1na6a1          12 CENYFVYIKRLSANDTGATGGHQVGLYIPSGIVEKLFPSINHTRELNPSVFLTAHVSSHDCPDSEARAIYYNSAHFGKTR   91 (175)
T ss_dssp             HSSEEEEEEECCHHHHTCC---CCCCCCCHHHHHHHCGGGCCCSSSSCEEEEEEEESSSCCCCEEEEEEEECGGGTTSCC
T ss_pred             CCceEEEEEEcccccccccCCccceeeecHHHHHHhCCCCCcccccCCCceEEEEEecCCCCeeEEEEEEECCccCCCcc
Confidence            355689999999999999987    9999999999998 5543 234555554  5699999999999999874      


Q ss_pred             cceEEccChhhhhhccCCCCCCEEEEEecccCCCCceEEEEEEeCCCC
Q 015743          192 QSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWRRRPDV  239 (401)
Q Consensus       192 ~sYVLTkGWs~FVkeK~LkaGDvVvF~R~~~e~~~~~l~IgvRRr~~~  239 (401)
                      +.|+||++|..|+..+.+.+||+++|.+...+....+.+|+|-.....
T Consensus        92 neyRiT~~g~~~~~~~~~n~G~l~i~af~~~~~~~~~~~~~vwvc~~~  139 (175)
T d1na6a1          92 NEKRITRWGRGSPLQDPENTGALTLLAFKLDEQGGDCKEVNIWVCAST  139 (175)
T ss_dssp             CEEEEECCCTTSGGGCGGGTTCEEEEEEECCTTSCCCCEEEEEECCSH
T ss_pred             ccEEEEeccccccccCccccccEEEEEeecCCCCCceeEEEEEEecCc
Confidence            889999999999999999999999999975667788899988777655

>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=99.56  E-value=6.4e-15  Score=120.50  Aligned_cols=83  Identities=27%  Similarity=0.442  Sum_probs=71.4

Q ss_pred             ccccEEEecccCCCCCCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhcc
Q 015743          128 KEHMFDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDK  207 (401)
Q Consensus       128 ~e~lF~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK  207 (401)
                      .++-|.|+|.++++.+  +|.||+.++..+.+..      ...+.++|..|+.|.+++...  ....+|+.||.+||+++
T Consensus         5 ~~~~Ffkv~~~~~~~~--~L~IP~~F~~~~~~~~------~~~i~L~d~~G~~W~v~~~~~--~~~~~~~~GW~~Fv~~n   74 (102)
T d1yela1           5 GEVQFMKPFISEKSSK--SLEIPLGFNEYFPAPF------PITVDLLDYSGRSWTVRMKKR--GEKVFLTVGWENFVKDN   74 (102)
T ss_dssp             CCEEEEEECCHHHHTT--CEECCHHHHTTCCCCC------CSEEEEEETTSCEEEEEEEEE--TTEEEECTTHHHHHHHH
T ss_pred             CCCeEEEEEcCcccCC--CEECCHHHHHhCCCCC------CCEEEEEcCCCCEEEEEEEEe--CCeEEEccCHHHHHHHc
Confidence            3456999999999876  8999999999876543      357888999999999998764  35678899999999999


Q ss_pred             CCCCCCEEEEEec
Q 015743          208 KLDAGDTVSFQRG  220 (401)
Q Consensus       208 ~LkaGDvVvF~R~  220 (401)
                      +|++||+|+|...
T Consensus        75 ~L~~GD~~vF~~~   87 (102)
T d1yela1          75 NLEDGKYLQFIYD   87 (102)
T ss_dssp             TCCTTCEEEEEEC
T ss_pred             CCCcCCEEEEEEc
Confidence            9999999999987

>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=99.00  E-value=2e-11  Score=93.02  Aligned_cols=26  Identities=19%  Similarity=0.215  Sum_probs=22.4

Q ss_pred             CCcccccCCCCCHHHHHhcCchhhhc
Q 015743           54 HHQNSWLLGPIDSQEAATNFDNREDL   79 (401)
Q Consensus        54 ~~~r~WLGtf~t~eeAA~ayD~~~~~   79 (401)
                      ++.|+|||||+|+||||+|||.++..
T Consensus        24 ~~~r~~LGtf~t~eeAArAYD~aa~~   49 (63)
T d1gcca_          24 NGARVWLGTFETAEDAALAYDRAAFR   49 (63)
T ss_dssp             TSEEEEEEEESSHHHHHHHHHHHHHH
T ss_pred             CCcEeccccccCHHHHHHHHHHHHHH
Confidence            45789999999999999999986543