Citrus Sinensis ID: 031272

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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--
Protein Sequence
MGYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSFLQ
Secondary Structure (PSIPRED)
ccccccccEEEEEEcEEEEcccccEEEEEEEEEcccccccccccccccccccccccccccEEEEEEEEEccEEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHcccEEEEEEEEEEEccccEEEEEEEEEccccccccccccccccccccccccccccEEEEEEEcccccEEEEEEHHHcccccccccccccccccHcHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MGYARRMGFVVRIMQrrrsrtdgttlarrlgcnkqgfspnskgtngpekkprpsaregcKATILVKMEKSGKWVVTRFIkdhnhplvvtangystvgdkdkKIEELTLELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSFLQ
Flexible Loop (DISEMBL)
mgyarrmgfvvrimqrrrsrtdgttlarrlgcnkqgfspnskgtngpekkprpsaregcKATILVKMEKSGKWVVTrfikdhnhplvvtangystvgdkdKKIEELTLELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSFLQ
Low Complexity Region (SEG)
MGYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIeeltlelerqeqlCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSFLQ
Disordered region (IsUnstruct)
*******GFVVRI*********************************************CKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYREKLFNFMNNVE*******SKIQVIVDNIR************
Disordered Region (DISOPRED)
MGYARRMGFVVRIMQRRRSR*DGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANG*****************************EKLFNFMNNVEEQTEELSSKIQVIVDNIRKVES********
Disordered Region (DISEMBL)
MGYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSP******************GCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSFLQ
Disordered Region (DISPRO)
MGYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQ*******************AREGCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSFL*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTxxxxxxxxxxxxxxxxxxxxxxxxxxxxLFNFxxxxxxxxxxxxxxxxxxxxxIRKVESEMLKSFLQ
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	162	2.2.26 [Sep-21-2011]
Q9SZL8	788	Protein FAR1-RELATED SEQU	no	no	0.530	0.109	0.522	4e-15
Q3E7I5	788	Protein FAR1-RELATED SEQU	no	no	0.438	0.090	0.447	9e-12
Q9M8J3	764	Protein FAR1-RELATED SEQU	no	no	0.432	0.091	0.452	9e-12
Q6NQJ7	732	Protein FAR1-RELATED SEQU	no	no	0.537	0.118	0.351	5e-09
Q3EBQ3	807	Protein FAR1-RELATED SEQU	no	no	0.623	0.125	0.311	6e-09
Q9SWG3	827	Protein FAR-RED IMPAIRED	no	no	0.518	0.101	0.329	2e-08
Q9LIE5	839	Protein FAR-RED ELONGATED	no	no	0.524	0.101	0.319	2e-07
Q5UBY2	687	Protein FAR1-RELATED SEQU	no	no	0.518	0.122	0.312	6e-07
Q9SY66	680	Protein FAR1-RELATED SEQU	no	no	0.580	0.138	0.327	4e-05
Q9SZL7	545	Protein FAR1-RELATED SEQU	no	no	0.462	0.137	0.330	0.0001

>sp|Q9SZL8|FRS5_ARATH Protein FAR1-RELATED SEQUENCE 5 OS=Arabidopsis thaliana GN=FRS5 PE=2 SV=1

 Score = 80.5 bits (197), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 46/88 (52%), Positives = 59/88 (67%), Gaps = 2/88 (2%)

Query: 2   GYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGF-SPNSKGTNGPE-KKPRPSAREGC 59
            YARR+GF  R+   RRSR DG  + R+  C K+GF + N K T   E K+PR   R GC
Sbjct: 91  SYARRIGFSTRVSSSRRSRRDGAIIQRQFVCAKEGFRNMNEKRTKDREIKRPRTITRVGC 150

Query: 60  KATILVKMEKSGKWVVTRFIKDHNHPLV 87
           KA++ VKM+ SGKW+V+ F+KDHNH LV
Sbjct: 151 KASLSVKMQDSGKWLVSGFVKDHNHELV 178

Putative transcription activator involved in regulating light control of development.
Arabidopsis thaliana (taxid: 3702)

>sp|Q3E7I5|FRS12_ARATH Protein FAR1-RELATED SEQUENCE 12 OS=Arabidopsis thaliana GN=FRS12 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 38/85 (44%), Positives = 46/85 (54%), Gaps = 14/85 (16%)

Query: 2   GYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKA 61
            YA R GF VR  Q  RSRTDGT  +RR  C+K+GF  NS              R GC A
Sbjct: 61  AYAARTGFKVRTGQLYRSRTDGTVSSRRFVCSKEGFQLNS--------------RTGCTA 106

Query: 62  TILVKMEKSGKWVVTRFIKDHNHPL 86
            I V+   +GKWV+ +  K+HNH L
Sbjct: 107 FIRVQRRDTGKWVLDQIQKEHNHEL 131

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M8J3|FRS7_ARATH Protein FAR1-RELATED SEQUENCE 7 OS=Arabidopsis thaliana GN=FRS7 PE=2 SV=1

 Score = 69.3 bits (168), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 38/84 (45%), Positives = 46/84 (54%), Gaps = 14/84 (16%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YA R GF VR  Q  RSRTDGT  +RR  C+K+GF  NS              R GC A 
Sbjct: 47  YATRTGFKVRTGQLYRSRTDGTVSSRRFVCSKEGFQLNS--------------RTGCPAF 92

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPL 86
           I V+   +GKWV+ +  K+HNH L
Sbjct: 93  IRVQRRDTGKWVLDQIQKEHNHDL 116

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQJ7|FRS4_ARATH Protein FAR1-RELATED SEQUENCE 4 OS=Arabidopsis thaliana GN=FRS4 PE=2 SV=2

 Score = 60.5 bits (145), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 45/91 (49%), Gaps = 4/91 (4%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YA+ +GF    +  RRSR     +  +  C + G    SK  +     PR S + GCKA+
Sbjct: 16  YAKSVGFGTAKLSSRRSRASKEFIDAKFSCIRYG----SKQQSDDAINPRASPKIGCKAS 71

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGY 93
           + VK    GKW V  F+K+HNH L+     Y
Sbjct: 72  MHVKRRPDGKWYVYSFVKEHNHDLLPEQAHY 102

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EBQ3|FRS2_ARATH Protein FAR1-RELATED SEQUENCE 2 OS=Arabidopsis thaliana GN=FRS2 PE=2 SV=1

 Score = 60.1 bits (144), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 33/106 (31%), Positives = 55/106 (51%), Gaps = 5/106 (4%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YAR +GF + I   RRS+  G  +  ++ C++ G    +K        PR   + GCKA 
Sbjct: 57  YARSVGFGITIKASRRSKRSGKFIDVKIACSRFG----TKREKATAINPRSCPKTGCKAG 112

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTL 108
           + +K ++  KWV+  F+K+HNH  +   + Y +V  K+K    L +
Sbjct: 113 LHMKRKEDEKWVIYNFVKEHNHE-ICPDDFYVSVRGKNKPAGALAI 157

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SWG3|FAR1_ARATH Protein FAR-RED IMPAIRED RESPONSE 1 OS=Arabidopsis thaliana GN=FAR1 PE=1 SV=1

 Score = 58.5 bits (140), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 28/85 (32%), Positives = 46/85 (54%), Gaps = 1/85 (1%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YA+ MGF   I   RRS+     +  +  C++ G +P S+ +    ++     +  CKA+
Sbjct: 70  YAKSMGFTTSIKNSRRSKKTKDFIDAKFACSRYGVTPESESSGSSSRR-STVKKTDCKAS 128

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLV 87
           + VK    GKW++  F+KDHNH L+
Sbjct: 129 MHVKRRPDGKWIIHEFVKDHNHELL 153

Transcription activator that recognizes and binds to the DNA consensus sequence 5'-CACGCGC-3'. Activates the expression of FHY1 and FHL involved in light responses.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LIE5|FHY3_ARATH Protein FAR-RED ELONGATED HYPOCOTYL 3 OS=Arabidopsis thaliana GN=FHY3 PE=1 SV=1

 Score = 55.1 bits (131), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/97 (31%), Positives = 46/97 (47%), Gaps = 12/97 (12%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFS-PNSKGTNGPEKKP---------- 51
           Y+R MGF   I   RRS+T    +  +  C++ G      K  N P  +           
Sbjct: 89  YSRAMGFNTAIQNSRRSKTTREFIDAKFACSRYGTKREYDKSFNRPRARQSKQDPENMAG 148

Query: 52  -RPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLV 87
            R  A+  CKA++ VK    GKWV+  F+++HNH L+
Sbjct: 149 RRTCAKTDCKASMHVKRRPDGKWVIHSFVREHNHELL 185

Transcription activator that recognizes and binds to the DNA consensus sequence 5'-CACGCGC-3'. Activates the expression of FHY1 and FHL involved in light responses. When associated with PHYA, protects it from being recognized and degraded by the COP1/SPA complex.

Arabidopsis thaliana (taxid: 3702)

>sp|Q5UBY2|FRS1_ARATH Protein FAR1-RELATED SEQUENCE 1 OS=Arabidopsis thaliana GN=FRS1 PE=1 SV=1

 Score = 53.5 bits (127), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 12/96 (12%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPN-------SKGTNGPEKKPR--- 52
           YA  +GF   I   RRSR  G  +  +  C + G           + G N P+ + R   
Sbjct: 40  YANSVGFTTIIKASRRSRMTGKFIDAKFVCTRYGSKKEDIDTGLGTDGFNIPQARKRGRI 99

Query: 53  --PSAREGCKATILVKMEKSGKWVVTRFIKDHNHPL 86
              S++  CKA + VK  + G+WVV   +K+HNH +
Sbjct: 100 NRSSSKTDCKAFLHVKRRQDGRWVVRSLVKEHNHEI 135

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY66|FRS11_ARATH Protein FAR1-RELATED SEQUENCE 11 OS=Arabidopsis thaliana GN=FRS11 PE=2 SV=1

 Score = 47.4 bits (111), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 37/113 (32%), Positives = 56/113 (49%), Gaps = 19/113 (16%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTT-----LARR-LGCNKQGFSPNSKGTNGPEKKPRPSAR 56
           +A+R GF +R     R RT+G       L RR   C++ G +P    + G  ++ R S+R
Sbjct: 67  FAKRCGFSIR-----RHRTEGKDGVGKGLTRRYFVCHRAGNTPIKTLSEGKPQRNRRSSR 121

Query: 57  EGCKATI-LVKMEKSG--KWVVTRFIKDHNHPL-----VVTANGYSTVGDKDK 101
            GC+A + + K+ + G  +W VT F   HNH L     V     Y ++ D DK
Sbjct: 122 CGCQAYLRISKLTELGSTEWRVTGFANHHNHELLEPNQVRFLPAYRSISDADK 174

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZL7|FRS9_ARATH Protein FAR1-RELATED SEQUENCE 9 OS=Arabidopsis thaliana GN=FRS9 PE=2 SV=2

 Score = 46.2 bits (108), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 35/106 (33%), Positives = 47/106 (44%), Gaps = 31/106 (29%)

Query: 38  SPNSKGTNGPEKKPRPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVG 97
           +P ++  NG E  P   ARE   AT                    NHP           G
Sbjct: 463 TPGTRLPNG-EAYPSEEARETANAT--------------------NHP----------GG 491

Query: 98  DKDKKIEELTLELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQ 143
           +K++ I ELT ELER  Q C  YR  L + + ++EEQ  +LS K+Q
Sbjct: 492 EKERTILELTAELERTGQRCEVYRANLLSILRDMEEQKFQLSLKVQ 537

Putative transcription activator involved in regulating light control of development. May act as a negative regulator specific to phyB signaling.

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	162
356567708	219	PREDICTED: protein FAR1-RELATED SEQUENCE	0.962	0.712	0.801	5e-71
255572674	212	conserved hypothetical protein [Ricinus	0.975	0.745	0.816	3e-70
124360619	657	FAR1; Polynucleotidyl transferase, Ribon	0.969	0.238	0.789	4e-70
449502056	209	PREDICTED: protein FAR1-RELATED SEQUENCE	0.975	0.755	0.797	9e-70
449462447	209	PREDICTED: protein FAR1-RELATED SEQUENCE	0.975	0.755	0.797	1e-69
224069685	195	predicted protein [Populus trichocarpa]	0.950	0.789	0.794	1e-67
388506702	180	unknown [Lotus japonicus]	0.944	0.85	0.777	2e-67
224129362	167	predicted protein [Populus trichocarpa]	0.907	0.880	0.756	2e-61
147864082	240	hypothetical protein VITISV_030389 [Viti	0.944	0.637	0.597	8e-46
359495410	471	PREDICTED: uncharacterized protein LOC10	0.975	0.335	0.584	9e-46

>gi|356567708|ref|XP_003552059.1| PREDICTED: protein FAR1-RELATED SEQUENCE 7-like [Glycine max]

 Score =  271 bits (694), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 125/156 (80%), Positives = 144/156 (92%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YARR+GFVVRIMQRRRS  DG TLARRLGCNKQGFSPN+KG  GPEKKPRPSAREGCKAT
Sbjct: 53  YARRVGFVVRIMQRRRSGIDGRTLARRLGCNKQGFSPNNKGILGPEKKPRPSAREGCKAT 112

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYRE 122
           ILVK EKSGKW+VTRF+KDHNHPL+ TANG+ST GDKDKKI ELT+ELERQ+QLCAAYRE
Sbjct: 113 ILVKFEKSGKWIVTRFVKDHNHPLIATANGFSTAGDKDKKIVELTMELERQDQLCAAYRE 172

Query: 123 KLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLK 158
           KL +F++NVEE+TEELS+KIQ+I++N+R+ ES+M K
Sbjct: 173 KLLSFISNVEEETEELSTKIQLIIENVRRAESDMKK 208

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572674|ref|XP_002527270.1| conserved hypothetical protein [Ricinus communis] gi|223533363|gb|EEF35114.1| conserved hypothetical protein [Ricinus communis]

 Score =  269 bits (688), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 129/158 (81%), Positives = 140/158 (88%)

Query: 1   MGYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCK 60
           + YARR+GFVVRIMQRRRS  DG TLARRLGCNKQGFSPN +    P+KKPR SAREGCK
Sbjct: 50  VDYARRVGFVVRIMQRRRSGIDGKTLARRLGCNKQGFSPNHRNAMRPDKKPRSSAREGCK 109

Query: 61  ATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAY 120
           ATILVKMEKSGKWVVTRF KDHNHPLV+TANG+STVGDKDKKIEEL+ ELE QEQLCA Y
Sbjct: 110 ATILVKMEKSGKWVVTRFEKDHNHPLVITANGFSTVGDKDKKIEELSRELEHQEQLCAVY 169

Query: 121 REKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLK 158
           RE+L  FMN+V EQTEELSSKIQVIVDN+RKVESE+ K
Sbjct: 170 RERLLTFMNDVAEQTEELSSKIQVIVDNVRKVESEVKK 207

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|124360619|gb|ABD33394.2| FAR1; Polynucleotidyl transferase, Ribonuclease H fold [Medicago truncatula]

 Score =  268 bits (686), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 124/157 (78%), Positives = 142/157 (90%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YARR+GFVVR+MQRRRS  DG TLARRLGCNKQGFSPNSKGT G EK+PRPSAREGC AT
Sbjct: 495 YARRVGFVVRVMQRRRSGIDGRTLARRLGCNKQGFSPNSKGTLGKEKRPRPSAREGCMAT 554

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYRE 122
           ILVKMEKSGKWVVTRFIKDHNHPL  TANG+ T  DKDKKI ELT+ELERQ++LCAAYRE
Sbjct: 555 ILVKMEKSGKWVVTRFIKDHNHPLTATANGFRTEDDKDKKIAELTMELERQDELCAAYRE 614

Query: 123 KLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKS 159
           KL +F+NN+EEQTEE+S+++Q+I++NIR+ ESEM KS
Sbjct: 615 KLLSFINNIEEQTEEMSTRVQLIIENIRRAESEMQKS 651

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449502056|ref|XP_004161531.1| PREDICTED: protein FAR1-RELATED SEQUENCE 5-like [Cucumis sativus]

 Score =  267 bits (683), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 126/158 (79%), Positives = 141/158 (89%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YAR+MGFVVRIMQRRRS  DG TLARRLGCNKQGFSPN +G  G +KK RPSAREGCKAT
Sbjct: 48  YARQMGFVVRIMQRRRSGIDGRTLARRLGCNKQGFSPNHRGIYGLDKKSRPSAREGCKAT 107

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYRE 122
           ILVKMEKSGKWVVTRF+KDHNHPLVV +NG+++ GDKDKKIEEL +ELE QEQLC AYRE
Sbjct: 108 ILVKMEKSGKWVVTRFVKDHNHPLVVCSNGFNSSGDKDKKIEELKMELEHQEQLCIAYRE 167

Query: 123 KLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSF 160
           KLFNF++NVEEQTEELSSKIQVI+ N+R+VES M K +
Sbjct: 168 KLFNFISNVEEQTEELSSKIQVIIGNVRQVESGMQKHY 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462447|ref|XP_004148952.1| PREDICTED: protein FAR1-RELATED SEQUENCE 5-like [Cucumis sativus]

 Score =  267 bits (683), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 126/158 (79%), Positives = 141/158 (89%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YAR+MGFVVRIMQRRRS  DG TLARRLGCNKQGFSPN +G  G +KK RPSAREGCKAT
Sbjct: 48  YARQMGFVVRIMQRRRSGIDGRTLARRLGCNKQGFSPNHRGIYGLDKKSRPSAREGCKAT 107

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYRE 122
           ILVKMEKSGKWVVTRF+KDHNHPLVV +NG+++ GDKDKKIEEL +ELE QEQLC AYRE
Sbjct: 108 ILVKMEKSGKWVVTRFVKDHNHPLVVCSNGFNSSGDKDKKIEELKMELEHQEQLCIAYRE 167

Query: 123 KLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSF 160
           KLFNF++NVEEQTEELSSKIQVI+ N+R+VES M K +
Sbjct: 168 KLFNFISNVEEQTEELSSKIQVIIGNVRQVESGMQKHY 205

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224069685|ref|XP_002303021.1| predicted protein [Populus trichocarpa] gi|222844747|gb|EEE82294.1| predicted protein [Populus trichocarpa]

 Score =  261 bits (666), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 124/156 (79%), Positives = 141/156 (90%), Gaps = 2/156 (1%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGT--NGPEKKPRPSAREGCK 60
           YARR+GFVVR+MQRRRS  DG TLARRLGCNKQGFSPN++     GP+KKPRPSAREGCK
Sbjct: 33  YARRLGFVVRVMQRRRSGIDGRTLARRLGCNKQGFSPNNRTIVGPGPDKKPRPSAREGCK 92

Query: 61  ATILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAY 120
           ATILVKM+KSGKWVVTRF KDHNHPLVVTA+G+S+ GDKDKKIEELT ELE Q+ LCA Y
Sbjct: 93  ATILVKMDKSGKWVVTRFEKDHNHPLVVTASGFSSSGDKDKKIEELTKELEHQDHLCATY 152

Query: 121 REKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEM 156
           REKL +FMN++EEQTEEL+SKIQ+IVDN+RKVESE+
Sbjct: 153 REKLVSFMNSIEEQTEELASKIQLIVDNVRKVESEV 188

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388506702|gb|AFK41417.1| unknown [Lotus japonicus]

 Score =  259 bits (663), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 119/153 (77%), Positives = 140/153 (91%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YA+R+GFVVRIMQRRRS  DG TLARRLGCNKQGFS ++KGT GPEKKPRPSAR+GCKAT
Sbjct: 16  YAKRVGFVVRIMQRRRSGVDGKTLARRLGCNKQGFSSHNKGTLGPEKKPRPSARQGCKAT 75

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYRE 122
           +LVK+EKSGKWVVTRF+KDHNHPL+ T NG STVGDKD+KI EL++ELE Q+QLCAAYRE
Sbjct: 76  VLVKLEKSGKWVVTRFVKDHNHPLIPTTNGLSTVGDKDEKIAELSMELEHQDQLCAAYRE 135

Query: 123 KLFNFMNNVEEQTEELSSKIQVIVDNIRKVESE 155
           KL +F+N VE+QTEELS+KIQ+IV+N+R+ ESE
Sbjct: 136 KLLSFINKVEDQTEELSTKIQLIVENVRRAESE 168

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224129362|ref|XP_002320568.1| predicted protein [Populus trichocarpa] gi|222861341|gb|EEE98883.1| predicted protein [Populus trichocarpa]

 Score =  239 bits (611), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 118/156 (75%), Positives = 129/156 (82%), Gaps = 9/156 (5%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YARR+GF VR+MQRRRS  DG TLARRLGCNKQGFSPN +   GP+KKPRP AR+GCKAT
Sbjct: 16  YARRVGFAVRVMQRRRSGIDGRTLARRLGCNKQGFSPNHRTDVGPDKKPRPGARDGCKAT 75

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELTLELERQEQLCAAYRE 122
           ILVKMEKSGKWVVTRF KDHNHPL         VG KDKKIEELT ELE QEQLCA YRE
Sbjct: 76  ILVKMEKSGKWVVTRFEKDHNHPL---------VGGKDKKIEELTQELEHQEQLCATYRE 126

Query: 123 KLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLK 158
           KL +FMNNV E+ EEL+SKIQVIVD++RKVESE+ K
Sbjct: 127 KLLSFMNNVVEEAEELASKIQVIVDSVRKVESEVQK 162

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147864082|emb|CAN81119.1| hypothetical protein VITISV_030389 [Vitis vinifera]

 Score =  188 bits (477), Expect = 8e-46,   Method: Compositional matrix adjust.
 Identities = 92/154 (59%), Positives = 118/154 (76%), Gaps = 1/154 (0%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YARR+GF++RI Q RRS  D   L+RRL CNKQGF    +   GP +KPRPS R+GCKA 
Sbjct: 55  YARRVGFIMRIDQCRRSEVDKRILSRRLSCNKQGFYVKIRDQYGPVRKPRPSTRQGCKAM 114

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVV-TANGYSTVGDKDKKIEELTLELERQEQLCAAYR 121
           +LVK+ KSGKWVVTRF+KDH HPLVV +    S++  KD++I+ELT+E+E Q+QLC  YR
Sbjct: 115 MLVKLNKSGKWVVTRFVKDHTHPLVVSSRPSRSSMDSKDRRIQELTMEVEHQDQLCELYR 174

Query: 122 EKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESE 155
            +L  F+ NVEEQTE LS+KI+V V+++RKVESE
Sbjct: 175 GQLITFLKNVEEQTEVLSTKIEVAVNSVRKVESE 208

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495410|ref|XP_002270370.2| PREDICTED: uncharacterized protein LOC100248330 [Vitis vinifera]

 Score =  187 bits (476), Expect = 9e-46,   Method: Compositional matrix adjust.
 Identities = 93/159 (58%), Positives = 119/159 (74%), Gaps = 1/159 (0%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
           YARR+GF++RI Q RRS  D   L+RRL CNKQGF    +   GP +KPRPS R+GCKA 
Sbjct: 44  YARRVGFIMRIDQCRRSEVDKRILSRRLSCNKQGFYVKIRDQYGPVRKPRPSTRQGCKAM 103

Query: 63  ILVKMEKSGKWVVTRFIKDHNHPLVV-TANGYSTVGDKDKKIEELTLELERQEQLCAAYR 121
           +LVK+ KSGKWVVTRF+KDH HPLVV +    S++  KD++I+ELT+E+E Q+QLC  YR
Sbjct: 104 MLVKLNKSGKWVVTRFVKDHTHPLVVSSRPSRSSMDSKDRRIQELTMEVEHQDQLCELYR 163

Query: 122 EKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEMLKSF 160
            +L  F+ NVEEQTE LS+KI+V V+++RKVESE    F
Sbjct: 164 GQLITFLKNVEEQTEVLSTKIEVAVNSVRKVESEETDHF 202

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	162
TAIR|locus:2135738	183	AT4G12850 "AT4G12850" [Arabido	0.925	0.819	0.541	1.2e-40
TAIR|locus:2041041	206	AT2G43280 [Arabidopsis thalian	0.932	0.733	0.473	1.2e-35
TAIR|locus:2079651	217	AT3G07500 "AT3G07500" [Arabido	0.932	0.695	0.408	1.4e-25
TAIR|locus:2097543	251	AT3G59470 [Arabidopsis thalian	0.919	0.593	0.380	6.8e-24
TAIR|locus:2121060	788	FRS5 "FAR1-related sequence 5"	0.524	0.107	0.528	1.3e-22
TAIR|locus:2129665	827	FAR1 "FAR-RED IMPAIRED RESPONS	0.518	0.101	0.341	2.4e-10
TAIR|locus:2082420	764	FRS7 "FAR1-related sequence 7"	0.432	0.091	0.452	4.6e-10
TAIR|locus:2144930	788	FRS12 "FAR1-related sequence 1	0.432	0.088	0.452	4.8e-10
TAIR|locus:2062606	807	FRS2 "FAR1-related sequence 2"	0.580	0.116	0.333	4.6e-09
TAIR|locus:2090394	839	FHY3 "far-red elongated hypoco	0.524	0.101	0.329	6.5e-09

TAIR|locus:2135738 AT4G12850 "AT4G12850" [Arabidopsis thaliana (taxid:3702)]

 Score = 432 (157.1 bits), Expect = 1.2e-40, P = 1.2e-40
 Identities = 84/155 (54%), Positives = 113/155 (72%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             Y++R+GFVVR+MQRRRS  DG TLARRLGCNKQGF PN++ ++        S+REGCKAT
Sbjct:    29 YSKRLGFVVRMMQRRRSGIDGRTLARRLGCNKQGFGPNNQRSSSSSS----SSREGCKAT 84

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPL-VVTANGYSTVGDKDKKIXXXXXXXXXXXXXCAAYR 121
             ILVKMEKSGKWVVTRFIK+HNH L  + ++ Y +  DK++KI             C  YR
Sbjct:    85 ILVKMEKSGKWVVTRFIKEHNHSLQFIGSSSYDSFADKERKIKELTEEIECQDRLCDVYR 144

Query:   122 EKLFNFMNNVEEQTEELSSKIQVIVDNIRKVESEM 156
             ++L +F++NVE  TEELS K++ IV+N++K+E ++
Sbjct:   145 DRLVSFIDNVEHYTEELSLKVRDIVENVKKLECQI 179

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2041041 AT2G43280 [Arabidopsis thaliana (taxid:3702)]

 Score = 385 (140.6 bits), Expect = 1.2e-35, P = 1.2e-35
 Identities = 72/152 (47%), Positives = 103/152 (67%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             Y+RR+GFV+R+M  RRS  DG  LARR GCNK+G   + +G  G  +KPRPS REGCKA 
Sbjct:    41 YSRRLGFVMRVMSCRRSEKDGRILARRFGCNKEGHCVSIRGKFGSVRKPRPSTREGCKAM 100

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPLVVTAN-GYSTVGDKDKKIXXXXXXXXXXXXXCAAYR 121
             I VK ++SGKWV+T+F+K+HNHPLVV+      T+ +KDK+I             CAAY+
Sbjct:   101 IHVKYDRSGKWVITKFVKEHNHPLVVSPREARHTLDEKDKRIQELTIELRNKKRLCAAYK 160

Query:   122 EKLFNFMNNVEEQTEELSSKIQVIVDNIRKVE 153
             E+L  F   VEE + +++ K++ +V+N+++ E
Sbjct:   161 EQLDAFAKIVEEHSNQIAKKVENVVNNLKEFE 192

GO:0005634 "nucleus" evidence=ISM

GO:0009639 "response to red or far red light" evidence=ISS

GO:0006301 "postreplication repair" evidence=RCA

TAIR|locus:2079651 AT3G07500 "AT3G07500" [Arabidopsis thaliana (taxid:3702)]

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 65/159 (40%), Positives = 89/159 (55%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             YA  MGFV+R+   RRS  DGT + RRL CNK+GF   S+      +KPR   REGCKA 
Sbjct:    52 YATCMGFVMRVDAFRRSMRDGTVVWRRLVCNKEGFR-RSRPRRSESRKPRAITREGCKAL 110

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPLV-----VTANGY--STVGDKDKKIXXXXXXXXXXXX 115
             I+VK EKSG W+VT+F K+HNHPL+     V  N     T  +KD KI            
Sbjct:   111 IVVKREKSGTWLVTKFEKEHNHPLLPLSPNVRRNFQLPQTPDEKDAKIRELSAELSRERR 170

Query:   116 XCAAYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVES 154
              C A +++L   +  +EE +  L+  I  ++ ++R +ES
Sbjct:   171 RCTALQQQLDMVLKEMEEHSNHLTININSVIQSVRDIES 209

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISM

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2097543 AT3G59470 [Arabidopsis thaliana (taxid:3702)]

 Score = 274 (101.5 bits), Expect = 6.8e-24, P = 6.8e-24
 Identities = 59/155 (38%), Positives = 85/155 (54%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             YA ++GFV+R+ +  RSR DG+ + R+L CNK+G+   SK       + R   R GCKA 
Sbjct:    89 YATKVGFVIRVSKLSRSRHDGSPIGRQLVCNKEGYRLPSK--RDKVIRQRAETRVGCKAM 146

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPLVV--TANG--YSTVGDKDKKIXXXXXXXXXXXXXCA 118
             IL++ E SGKWV+T+F+K+HNH L+      G  Y    ++  KI              A
Sbjct:   147 ILIRKENSGKWVITKFVKEHNHSLMPGRVRRGCIYDQYPNEHDKIQELMQQLAAEKKRAA 206

Query:   119 AYREKLFNFMNNVEEQTEELSSKIQVIVDNIRKVE 153
              Y+  L      +E+  E LS +IQ IVDN+R +E
Sbjct:   207 TYKRHLEMLFEQIEQHNESLSKRIQHIVDNVRNLE 241

GO:0005634 "nucleus" evidence=ISM

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2121060 FRS5 "FAR1-related sequence 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 232 (86.7 bits), Expect = 1.3e-22, Sum P(2) = 1.3e-22
 Identities = 46/87 (52%), Positives = 59/87 (67%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGF-SPNSKGTNGPE-KKPRPSAREGCK 60
             YARR+GF  R+   RRSR DG  + R+  C K+GF + N K T   E K+PR   R GCK
Sbjct:    92 YARRIGFSTRVSSSRRSRRDGAIIQRQFVCAKEGFRNMNEKRTKDREIKRPRTITRVGCK 151

Query:    61 ATILVKMEKSGKWVVTRFIKDHNHPLV 87
             A++ VKM+ SGKW+V+ F+KDHNH LV
Sbjct:   152 ASLSVKMQDSGKWLVSGFVKDHNHELV 178

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2129665 FAR1 "FAR-RED IMPAIRED RESPONSE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 2.4e-10, P = 2.4e-10
 Identities = 29/85 (34%), Positives = 47/85 (55%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             YA+ MGF   I   RRS+     +  +  C++ G +P S+ ++G   +     +  CKA+
Sbjct:    70 YAKSMGFTTSIKNSRRSKKTKDFIDAKFACSRYGVTPESE-SSGSSSRRSTVKKTDCKAS 128

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPLV 87
             + VK    GKW++  F+KDHNH L+
Sbjct:   129 MHVKRRPDGKWIIHEFVKDHNHELL 153

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009639 "response to red or far red light" evidence=IMP

GO:0010017 "red or far-red light signaling pathway" evidence=IMP

GO:0010018 "far-red light signaling pathway" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

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

GO:0010218 "response to far red light" evidence=IMP

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

GO:0042753 "positive regulation of circadian rhythm" evidence=IMP

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0000724 "double-strand break repair via homologous recombination" evidence=RCA

GO:0006396 "RNA processing" evidence=RCA

GO:0009410 "response to xenobiotic stimulus" evidence=RCA

GO:0009630 "gravitropism" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0010212 "response to ionizing radiation" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

GO:0016567 "protein ubiquitination" evidence=RCA

GO:0016571 "histone methylation" evidence=RCA

GO:0016579 "protein deubiquitination" evidence=RCA

GO:0048522 "positive regulation of cellular process" evidence=RCA

TAIR|locus:2082420 FRS7 "FAR1-related sequence 7" [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 4.6e-10, P = 4.6e-10
 Identities = 38/84 (45%), Positives = 46/84 (54%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             YA R GF VR  Q  RSRTDGT  +RR  C+K+GF  NS              R GC A 
Sbjct:    47 YATRTGFKVRTGQLYRSRTDGTVSSRRFVCSKEGFQLNS--------------RTGCPAF 92

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPL 86
             I V+   +GKWV+ +  K+HNH L
Sbjct:    93 IRVQRRDTGKWVLDQIQKEHNHDL 116

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2144930 FRS12 "FAR1-related sequence 12" [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 4.8e-10, P = 4.8e-10
 Identities = 38/84 (45%), Positives = 46/84 (54%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             YA R GF VR  Q  RSRTDGT  +RR  C+K+GF  NS              R GC A 
Sbjct:    62 YAARTGFKVRTGQLYRSRTDGTVSSRRFVCSKEGFQLNS--------------RTGCTAF 107

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPL 86
             I V+   +GKWV+ +  K+HNH L
Sbjct:   108 IRVQRRDTGKWVLDQIQKEHNHEL 131

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2062606 FRS2 "FAR1-related sequence 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 146 (56.5 bits), Expect = 4.6e-09, P = 4.6e-09
 Identities = 33/99 (33%), Positives = 54/99 (54%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
             YAR +GF + I   RRS+  G  +  ++ C++ G +   K T      PR   + GCKA 
Sbjct:    57 YARSVGFGITIKASRRSKRSGKFIDVKIACSRFG-TKREKAT---AINPRSCPKTGCKAG 112

Query:    63 ILVKMEKSGKWVVTRFIKDHNHPLVVTANGYSTVGDKDK 101
             + +K ++  KWV+  F+K+HNH  +   + Y +V  K+K
Sbjct:   113 LHMKRKEDEKWVIYNFVKEHNHE-ICPDDFYVSVRGKNK 150

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009639 "response to red or far red light" evidence=ISS

TAIR|locus:2090394 FHY3 "far-red elongated hypocotyls 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 130 (50.8 bits), Expect = 6.5e-09, Sum P(2) = 6.5e-09
 Identities = 32/97 (32%), Positives = 47/97 (48%)

Query:     3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPN-SKGTNGPEKK-----P----- 51
             Y+R MGF   I   RRS+T    +  +  C++ G      K  N P  +     P     
Sbjct:    89 YSRAMGFNTAIQNSRRSKTTREFIDAKFACSRYGTKREYDKSFNRPRARQSKQDPENMAG 148

Query:    52 -RPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLV 87
              R  A+  CKA++ VK    GKWV+  F+++HNH L+
Sbjct:   149 RRTCAKTDCKASMHVKRRPDGKWVIHSFVREHNHELL 185

GO:0004553 "hydrolase activity, hydrolyzing O-glycosyl compounds" evidence=IEA

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0005975 "carbohydrate metabolic process" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0009585 "red, far-red light phototransduction" evidence=IMP

GO:0007623 "circadian rhythm" evidence=IMP

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

GO:0010017 "red or far-red light signaling pathway" evidence=IMP

GO:0010218 "response to far red light" evidence=IMP

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

GO:0042753 "positive regulation of circadian rhythm" evidence=IMP

GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA

GO:0006487 "protein N-linked glycosylation" evidence=RCA

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

GO:0009630 "gravitropism" evidence=RCA

GO:0009639 "response to red or far red light" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	162
pfam03101	90	pfam03101, FAR1, FAR1 DNA-binding domain	5e-34
PLN03097	846	PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTY	2e-10

>gnl|CDD|217369 pfam03101, FAR1, FAR1 DNA-binding domain

 Score =  114 bits (288), Expect = 5e-34
 Identities = 43/85 (50%), Positives = 58/85 (68%), Gaps = 1/85 (1%)

Query: 3  YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKAT 62
          YARR+GF VR  + RRSR DG  + RR  C+K+GF    K +   +++PR S R GCKA 
Sbjct: 6  YARRVGFSVRKSKSRRSRRDGEIIRRRFVCSKEGFRKERKKSV-RKRRPRASTRTGCKAM 64

Query: 63 ILVKMEKSGKWVVTRFIKDHNHPLV 87
          ++VK+   GKWVVT+F+ +HNHPL 
Sbjct: 65 MVVKLRSDGKWVVTKFVLEHNHPLA 89

This domain contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain. Length = 90

>gnl|CDD|178645 PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional

 Score = 57.7 bits (139), Expect = 2e-10
 Identities = 34/97 (35%), Positives = 48/97 (49%), Gaps = 12/97 (12%)

Query: 3   YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFS---------PNSKGT-NGPEKKP- 51
           YAR MGF   I   RRS+T    +  +  C++ G           P ++ T   PE    
Sbjct: 93  YARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPENGTG 152

Query: 52  -RPSAREGCKATILVKMEKSGKWVVTRFIKDHNHPLV 87
            R  A+  CKA++ VK    GKWV+  F+K+HNH L+
Sbjct: 153 RRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELL 189

Length = 846

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	162
PF03101	91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	99.95
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	99.95
PF08731	111	AFT: Transcription factor AFT; InterPro: IPR014842	98.11
PF03106	60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	91.32
PF04500	62	FLYWCH: FLYWCH zinc finger domain; InterPro: IPR00	90.32
PF03108	67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	80.26

>PF03101 FAR1: FAR1 DNA-binding domain; InterPro: IPR004330 Phytochrome A is the primary photoreceptor for mediating various far-red light-induced responses in higher plants

Probab=99.95  E-value=1.4e-27  Score=167.18  Aligned_cols=87  Identities=41%  Similarity=0.718  Sum_probs=78.9

Q ss_pred             ccccccCeEEEEeceeecCCCCceEEEEEEecCCCCCCCCCCCCCCCCCCCCccccCCceEEEEEEeeCCcEEEEEEeec
Q 031272            2 GYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKATILVKMEKSGKWVVTRFIKD   81 (162)
Q Consensus         2 ~YA~~~GF~iR~~~~~rs~~~g~i~~~~~vCsreG~~~~~~~~~~~~~~~r~~tR~gC~A~i~v~~~~~gkW~V~~f~~e   81 (162)
                      +||+.+||+||+.++++++.+|.+++..|+|+++|+...+.......+++++++||||+|+|.|++..+|+|.|+.|+.|
T Consensus         5 ~yA~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~~~~w~v~~~~~~   84 (91)
T PF03101_consen    5 SYARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRKDGKWRVTSFVLE   84 (91)
T ss_pred             HhcCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEccCCEEEEEECcCC
Confidence            59999999999999999889999999999999999997654333456778999999999999999987899999999999


Q ss_pred             CCcCccc
Q 031272           82 HNHPLVV   88 (162)
Q Consensus        82 HNH~L~~   88 (162)
                      |||||+|
T Consensus        85 HNH~L~P   91 (91)
T PF03101_consen   85 HNHPLCP   91 (91)
T ss_pred             cCCCCCC
Confidence            9999987

It has been found that the proteins governing this response, which include FAR-RED ELONGATED HYPOCOTYL3 (FHY3) and FAR-RED-IMPAIRED RESPONSE1 (FAR1), are a pair of homologous proteins sharing significant sequence homology to mutator-like transposases. These proteins appear to be novel transcription factors, which are essential for activating the expression of FHY1 and FHL (for FHY1-like) and related genes, whose products are required for light-induced phytochrome A nuclear accumulation and subsequent light responses in plants. The FRS (FAR1 Related Sequences) family of proteins share a similar domain structure to mutator-like transposases, including an N-terminal C2H2 zinc finger domain, a central putative core transposase domain, and a C-terminal SWIM motif (named after SWI2/SNF and MuDR transposases). It seems plausible that the FRS family represent transcription factors derived from mutator-like transposases [, ]. This entry represents a domain found in FAR1 and FRS proteins. It contains a WRKY like fold and is therefore most likely a zinc binding DNA-binding domain.

>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional

Probab=99.95  E-value=1.5e-27  Score=222.17  Aligned_cols=154  Identities=21%  Similarity=0.394  Sum_probs=103.5

Q ss_pred             ccccccCeEEEEeceeecCCCCceEEEEEEecCCCCCCCCCCCC------------CCCCCCCCccccCCceEEEEEEee
Q 031272            2 GYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTN------------GPEKKPRPSAREGCKATILVKMEK   69 (162)
Q Consensus         2 ~YA~~~GF~iR~~~~~rs~~~g~i~~~~~vCsreG~~~~~~~~~------------~~~~~~r~~tR~gC~A~i~v~~~~   69 (162)
                      +||+++||+||++++++++.+|.|++++|||||||+++.+....            ....++|+.+||||+|+|+|++.+
T Consensus        92 ~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~~~~~~rR~~tRtGC~A~m~Vk~~~  171 (846)
T PLN03097         92 EYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPENGTGRRSCAKTDCKASMHVKRRP  171 (846)
T ss_pred             HHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCcccccccccccCCCCceEEEEEEcC
Confidence            59999999999999999999999999999999999975321100            011235778999999999999988


Q ss_pred             CCcEEEEEEeecCCcCcccCCCcCcccCccccchhHHH-HHHHHHHHHhHHHHHHHHHHHHHHHhchhhhhhhHHHHHHH
Q 031272           70 SGKWVVTRFIKDHNHPLVVTANGYSTVGDKDKKIEELT-LELERQEQLCAAYREKLFNFMNNVEEQTEELSSKIQVIVDN  148 (162)
Q Consensus        70 ~gkW~V~~f~~eHNH~L~~~~~~~~~~~s~~rkI~el~-~el~~~~q~~~~y~~~L~~~l~~meeh~~~ls~kvq~iv~~  148 (162)
                      +|+|+|++|++||||||.|+...    ....++|-... .++.....+. .......+.+... ....--..+++.++++
T Consensus       172 ~gkW~V~~fv~eHNH~L~p~~~~----~~~~r~~~~~~~~~~~~~~~v~-~~~~d~~~~~~~~-r~~~~~~gD~~~ll~y  245 (846)
T PLN03097        172 DGKWVIHSFVKEHNHELLPAQAV----SEQTRKMYAAMARQFAEYKNVV-GLKNDSKSSFDKG-RNLGLEAGDTKILLDF  245 (846)
T ss_pred             CCeEEEEEEecCCCCCCCCcccc----chhhhhhHHHHHhhhhcccccc-ccchhhcchhhHH-HhhhcccchHHHHHHH
Confidence            89999999999999999986531    11123332211 1111100000 0000111112111 0111124689999999


Q ss_pred             HHHHHhhhhhccc
Q 031272          149 IRKVESEMLKSFL  161 (162)
Q Consensus       149 ~k~~e~~~~~~~~  161 (162)
                      |+++..+++.||.
T Consensus       246 f~~~q~~nP~Ffy  258 (846)
T PLN03097        246 FTQMQNMNSNFFY  258 (846)
T ss_pred             HHHHHhhCCCceE
Confidence            9999999999973

>PF08731 AFT: Transcription factor AFT; InterPro: IPR014842 AFT (activator of iron transcription) is an iron regulated transcriptional activator that regulates the expression of genes involved in iron homeostasis

Probab=98.11  E-value=2.1e-05  Score=57.54  Aligned_cols=77  Identities=22%  Similarity=0.348  Sum_probs=53.5

Q ss_pred             cccccCeEEEEeceeecCCCCceEEEEEEecCCCCCCCCCCC--------------------CCCCCCCCCccccCCceE
Q 031272            3 YARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGT--------------------NGPEKKPRPSAREGCKAT   62 (162)
Q Consensus         3 YA~~~GF~iR~~~~~rs~~~g~i~~~~~vCsreG~~~~~~~~--------------------~~~~~~~r~~tR~gC~A~   62 (162)
                      .++..||+|.+.+|..+    .|   .|-|--.|........                    .....+.-.+..++||-+
T Consensus        14 ~~~~~Gi~iVIerSd~~----ki---~FkCk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~k~t~srk~~CPFr   86 (111)
T PF08731_consen   14 IFYPQGIGIVIERSDKK----KI---VFKCKNGKRYRHKKKKKGQAQAQQKESTSGNKNKSSKKKKKKRTKSRKNTCPFR   86 (111)
T ss_pred             HhhhcCceEEEEecCCc----eE---EEEEecCCCcccccccccccccccccccccccccccccccCCcccccccCCCeE
Confidence            35678999999976432    23   5778666655322210                    111122235678999999


Q ss_pred             EEEEEe-eCCcEEEEEEeecCCcCc
Q 031272           63 ILVKME-KSGKWVVTRFIKDHNHPL   86 (162)
Q Consensus        63 i~v~~~-~~gkW~V~~f~~eHNH~L   86 (162)
                      |+.... ...+|-|.-+..+|||||
T Consensus        87 iRA~yS~k~k~W~lvvvnn~HnH~l  111 (111)
T PF08731_consen   87 IRANYSKKNKKWTLVVVNNEHNHPL  111 (111)
T ss_pred             EEEEEEecCCeEEEEEecCCcCCCC
Confidence            999876 578999999999999998

This entry includes the paralogous pair of transcription factors AFT1 and AFT2.

>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif

Probab=91.32  E-value=0.33  Score=31.64  Aligned_cols=28  Identities=32%  Similarity=0.617  Sum_probs=22.3

Q ss_pred             CCceEEEEEEe-eCCcEEEEEEeecCCcC
Q 031272           58 GCKATILVKME-KSGKWVVTRFIKDHNHP   85 (162)
Q Consensus        58 gC~A~i~v~~~-~~gkW~V~~f~~eHNH~   85 (162)
                      ||+|.=.|.+. +++.-+++...-+||||
T Consensus        31 ~C~akK~Vqr~~~d~~~~~vtY~G~H~h~   59 (60)
T PF03106_consen   31 GCPAKKQVQRSADDPNIVIVTYEGEHNHP   59 (60)
T ss_dssp             TEEEEEEEEEETTCCCEEEEEEES--SS-
T ss_pred             ChhheeeEEEecCCCCEEEEEEeeeeCCC
Confidence            99999999886 47888899999999997

The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.

>PF04500 FLYWCH: FLYWCH zinc finger domain; InterPro: IPR007588 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=90.32  E-value=0.2  Score=31.44  Aligned_cols=25  Identities=36%  Similarity=0.682  Sum_probs=10.7

Q ss_pred             cCCceEEEEEEeeCCcEEEEEEeecCCc
Q 031272           57 EGCKATILVKMEKSGKWVVTRFIKDHNH   84 (162)
Q Consensus        57 ~gC~A~i~v~~~~~gkW~V~~f~~eHNH   84 (162)
                      .+|+|.+.+. .  +.-.|.....+|||
T Consensus        38 ~~C~a~~~~~-~--~~~~~~~~~~~HnH   62 (62)
T PF04500_consen   38 HGCRARLITD-A--GDGRVVRTNGEHNH   62 (62)
T ss_dssp             S----EEEEE-----TTEEEE-S---SS
T ss_pred             CCCeEEEEEE-C--CCCEEEECCCccCC
Confidence            6899999998 2  33445555589999

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. C2H2-type (classical) zinc fingers (Znf) were the first class to be characterised. They contain a short beta hairpin and an alpha helix (beta/beta/alpha structure), where a single zinc atom is held in place by Cys(2)His(2) (C2H2) residues in a tetrahedral array. C2H2 Znf's can be divided into three groups based on the number and pattern of fingers: triple-C2H2 (binds single ligand), multiple-adjacent-C2H2 (binds multiple ligands), and separated paired-C2H2 []. C2H2 Znf's are the most common DNA-binding motifs found in eukaryotic transcription factors, and have also been identified in prokaryotes []. Transcription factors usually contain several Znf's (each with a conserved beta/beta/alpha structure) capable of making multiple contacts along the DNA, where the C2H2 Znf motifs recognise DNA sequences by binding to the major groove of DNA via a short alpha-helix in the Znf, the Znf spanning 3-4 bases of the DNA []. C2H2 Znf's can also bind to RNA and protein targets []. This entry represents a potential FLYWCH Zn-finger domain found in a number of eukaryotic proteins. FLYWCH is a C2H2-type zinc finger characterised by five conserved hydrophobic residues, containing the conserved sequence motif: F/Y-X(n)-L-X(n)-F/Y-X(n)-WXCX(6-12)CX(17-22)HXH where X indicates any amino acid. This domain was first characterised in Drosophila Modifier of mdg4 proteins, Mod(mgd4), putative chromatin modulators involved in higher order chromatin domains. Mod(mdg4) proteins share a common N-terminal BTB/POZ domain, but differ in their C-terminal region, most containing C-terminal FLYWCH zinc finger motifs []. The FLYWCH domain in Mod(mdg4) proteins has a putative role in protein-protein interactions; for example, Mod(mdg4)-67.2 interacts with DNA-binding protein Su(Hw) via its FLYWCH domain. FLYWCH domains have been described in other proteins as well, including suppressor of killer of prune, Su(Kpn), which contains 4 terminal FLYWCH zinc finger motifs in a tandem array and a C-terminal glutathione SH-transferase (GST) domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2RPR_A.

>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]

Probab=80.26  E-value=4.3  Score=26.21  Aligned_cols=45  Identities=22%  Similarity=0.468  Sum_probs=33.6

Q ss_pred             ccccccCeEEEEeceeecCCCCceEEEEEEecCCCCCCCCCCCCCCCCCCCCccccCCceEEEEEEee-CCcEEE
Q 031272            2 GYARRMGFVVRIMQRRRSRTDGTTLARRLGCNKQGFSPNSKGTNGPEKKPRPSAREGCKATILVKMEK-SGKWVV   75 (162)
Q Consensus         2 ~YA~~~GF~iR~~~~~rs~~~g~i~~~~~vCsreG~~~~~~~~~~~~~~~r~~tR~gC~A~i~v~~~~-~gkW~V   75 (162)
                      .||-..||.+++..+.+       .+....|.                      -.|||-+|.....+ ++.|.|
T Consensus        22 ~yai~~~~~~~v~ksd~-------~r~~~~C~----------------------~~~C~Wrv~as~~~~~~~~~I   67 (67)
T PF03108_consen   22 EYAIKNGFEFKVKKSDK-------KRYRAKCK----------------------DKGCPWRVRASKRKRSDTFQI   67 (67)
T ss_pred             HHHHhcCcEEEEeccCC-------EEEEEEEc----------------------CCCCCEEEEEEEcCCCCEEEC
Confidence            58899999999886532       25678884                      23599999999874 577865

The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	162
2ayd_A	76	WRKY transcription factor 1; beta strands, zinc fi	92.65
1wj2_A	78	Probable WRKY transcription factor 4; DNA-binding	92.13
2rpr_A	87	Flywch-type zinc finger-containing protein 1; flyw	81.31

>2ayd_A WRKY transcription factor 1; beta strands, zinc finger; 1.60A {Arabidopsis thaliana}

Probab=92.65  E-value=0.19  Score=33.47  Aligned_cols=32  Identities=22%  Similarity=0.423  Sum_probs=27.1

Q ss_pred             cCCceEEEEEEe-eCCcEEEEEEeecCCcCccc
Q 031272           57 EGCKATILVKME-KSGKWVVTRFIKDHNHPLVV   88 (162)
Q Consensus        57 ~gC~A~i~v~~~-~~gkW~V~~f~~eHNH~L~~   88 (162)
                      .||+|+=.|.+. +++.-+++-..-+|||++.+
T Consensus        43 ~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p~   75 (76)
T 2ayd_A           43 PGCPVKKHVERSSHDTKLLITTYEGKHDHDMPP   75 (76)
T ss_dssp             TTCCCEEEEEECSSSTTEEEEEEESCCSSCCCC
T ss_pred             CCCCceeeEEEECCCCCEEEEEEccCcCCCCCC
Confidence            499999999876 46788899999999999843

>1wj2_A Probable WRKY transcription factor 4; DNA-binding domain, zinc-binding, structural genomics; NMR {Arabidopsis thaliana} SCOP: g.79.1.1 PDB: 2lex_A*

Probab=92.13  E-value=0.23  Score=33.30  Aligned_cols=31  Identities=35%  Similarity=0.454  Sum_probs=26.6

Q ss_pred             cCCceEEEEEEe-eCCcEEEEEEeecCCcCcc
Q 031272           57 EGCKATILVKME-KSGKWVVTRFIKDHNHPLV   87 (162)
Q Consensus        57 ~gC~A~i~v~~~-~~gkW~V~~f~~eHNH~L~   87 (162)
                      .||+|+=.|.+. .|+.-+++-..-+||||+.
T Consensus        46 ~gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p   77 (78)
T 1wj2_A           46 PGCGVRKHVERAATDPKAVVTTYEGKHNHDLP   77 (78)
T ss_dssp             SSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred             CCCCcEeeEEEEcCCCCEEEEEEeeEcCCCCC
Confidence            599999999886 4677888899999999974

>2rpr_A Flywch-type zinc finger-containing protein 1; flywch domain, alternative splicing, DNA-binding, metal- binding, nucleus, metal binding protein; NMR {Homo sapiens}

Probab=81.31  E-value=0.87  Score=30.29  Aligned_cols=24  Identities=17%  Similarity=0.477  Sum_probs=16.8

Q ss_pred             cCCceEEEEEEeeCCcEEEEEEeecCCcCc
Q 031272           57 EGCKATILVKMEKSGKWVVTRFIKDHNHPL   86 (162)
Q Consensus        57 ~gC~A~i~v~~~~~gkW~V~~f~~eHNH~L   86 (162)
                      .+|+|++.....  +   |. ...+||||.
T Consensus        50 ~kCrARi~T~~~--~---~~-~~~~HnH~p   73 (87)
T 2rpr_A           50 LGCRSRAITQGH--R---IM-VMRSHCHQP   73 (87)
T ss_dssp             SCCCCEEEEETT--E---EE-ECSCCSSCC
T ss_pred             CCCCEEEEEcCC--C---EE-CCCCcCCCC
Confidence            389999887642  2   22 567899974

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	162
d1wj2a_	71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	92.8

>d1wj2a_ g.79.1.1 (A:) WRKY DNA-binding protein 4 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: Small proteins
fold: WRKY DNA-binding domain
superfamily: WRKY DNA-binding domain
family: WRKY DNA-binding domain
domain: WRKY DNA-binding protein 4
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=92.80  E-value=0.087  Score=33.15  Aligned_cols=32  Identities=34%  Similarity=0.438  Sum_probs=26.5

Q ss_pred             ccCCceEEEEEEe-eCCcEEEEEEeecCCcCcc
Q 031272           56 REGCKATILVKME-KSGKWVVTRFIKDHNHPLV   87 (162)
Q Consensus        56 R~gC~A~i~v~~~-~~gkW~V~~f~~eHNH~L~   87 (162)
                      ..||+|+=.|-.. +++.-+++-..-+||||+.
T Consensus        38 ~~~C~a~K~Vqr~~~d~~~~~vtY~G~H~h~~P   70 (71)
T d1wj2a_          38 TPGCGVRKHVERAATDPKAVVTTYEGKHNHDLP   70 (71)
T ss_dssp             CSSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred             ccCCCCcceEEEEcCCCCEEEEEEeeEeCCCCC
Confidence            3599999999876 4677888888999999873