Citrus Sinensis ID: 025532

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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-
Protein Sequence
MDYRIDSNVNGELVGNSVDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEEQKSCT
Secondary Structure (PSIPRED)
ccccccccccccEEccccccccccccccccccccEEEcccccccccccccccccccccccccccccccccccccccEEccHHHHHHHHHHHHccccEEEEEEEEEEEccccccEEEEEEEEccccccccccHHHccccccccccccEEEEEEEEcccEEEEEEEcccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccccccccEccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccHHHHHHHHHHHHHHcccEEEEEccEcEccccEEEEEEEEEccccccccccccccccccccccccccEEEEEEEcccccEEEEEEEccccccccccccccccHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mdyridsnvngelvgnsvdvgdrvgnedeiYRTSVEVTlhqdqdnkvdpdslaletipegipsvasvqadepyvgqqfeSEAAAHAFYNAYATRVGFVIRVSKlsrsrrdgsaIGRALVcnkegyrlpdkrEKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKehthpltpgkgrkdciydqypneHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEdeeqksct
Flexible Loop (DISEMBL)
mdyridsnvngelvgnsvdvgdrvgNEDEIYRTSVevtlhqdqdnkVDPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSklsrsrrdgsaigralvcnkegyrlpdkrekivrqraetrvgcramilvrkvnsgqwvVTKFVkehthpltpgkgrkdCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEEQKSCT
Low Complexity Region (SEG)
MDYRIDSNVNGELVGNSVDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFESEaaahafynayaTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEEQKSCT
Disordered region (IsUnstruct)
*****************************IYRTSV*************************************YVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSR***DGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPN*****************RAANYKRHLELIVEQIE*****************************
Disordered Region (DISOPRED)
*********************************************************************DEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRL**********RAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGK**************************************************SLAKKIQHVVDSVKNI*********
Disordered Region (DISEMBL)
MDYRIDSNVNGELVGNSVDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNI*********
Disordered Region (DISPRO)
****IDSNVNGELVGNSVDVGDRV*******************************************QADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGY***************TRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEE*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDYRIDSNVNGELVGNSVDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxEQKSCT
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	251	2.2.26 [Sep-21-2011]
Q9SZL8	788	Protein FAR1-RELATED SEQU	no	no	0.414	0.131	0.555	5e-22
Q9M8J3	764	Protein FAR1-RELATED SEQU	no	no	0.386	0.126	0.412	2e-18
Q3E7I5	788	Protein FAR1-RELATED SEQU	no	no	0.358	0.114	0.431	3e-18
Q9SSQ4	703	Protein FAR1-RELATED SEQU	no	no	0.585	0.209	0.315	5e-15
Q5UBY2	687	Protein FAR1-RELATED SEQU	no	no	0.482	0.176	0.304	2e-13
Q9S793	725	Protein FAR1-RELATED SEQU	no	no	0.430	0.148	0.351	7e-13
Q3EBQ3	807	Protein FAR1-RELATED SEQU	no	no	0.382	0.118	0.372	4e-12
Q9LIE5	839	Protein FAR-RED ELONGATED	no	no	0.784	0.234	0.236	3e-10
Q6NQJ7	732	Protein FAR1-RELATED SEQU	no	no	0.374	0.128	0.36	5e-09
Q9SY66	680	Protein FAR1-RELATED SEQU	no	no	0.434	0.160	0.328	8e-09

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

 Score =  104 bits (260), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 60/108 (55%), Positives = 75/108 (69%), Gaps = 4/108 (3%)

Query: 71  EPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYR-LPD 129
           EPY G +FESE AA AFYN+YA R+GF  RVS   RSRRDG+ I R  VC KEG+R + +
Sbjct: 72  EPYDGLEFESEEAAKAFYNSYARRIGFSTRVSSSRRSRRDGAIIQRQFVCAKEGFRNMNE 131

Query: 130 KREK---IVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
           KR K   I R R  TRVGC+A + V+  +SG+W+V+ FVK+H H L P
Sbjct: 132 KRTKDREIKRPRTITRVGCKASLSVKMQDSGKWLVSGFVKDHNHELVP 179

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 = 92.4 bits (228), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 45/109 (41%), Positives = 64/109 (58%), Gaps = 12/109 (11%)

Query: 68  QADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRL 127
           +A EPY G +F S   A  FY AYA  VGF +R+ +L RS+ DGS   R  VC+KEG++ 
Sbjct: 186 KATEPYAGLEFNSANEACQFYQAYAEVVGFRVRIGQLFRSKVDGSITSRRFVCSKEGFQH 245

Query: 128 PDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGK 176
           P            +R+GC A + +++ +SG W+V +  K+H H L PGK
Sbjct: 246 P------------SRMGCGAYMRIKRQDSGGWIVDRLNKDHNHDLEPGK 282

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 = 92.4 bits (228), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 44/102 (43%), Positives = 61/102 (59%), Gaps = 12/102 (11%)

Query: 71  EPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDK 130
           EPYVG +F++   A  FYNAYA R GF +R  +L RSR DG+   R  VC+KEG++L   
Sbjct: 42  EPYVGLEFDTAEEAREFYNAYAARTGFKVRTGQLYRSRTDGTVSSRRFVCSKEGFQL--- 98

Query: 131 REKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPL 172
                     +R GC A I V++ ++G+WV+ +  KEH H L
Sbjct: 99  ---------NSRTGCTAFIRVQRRDTGKWVLDQIQKEHNHEL 131

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SSQ4|FRS6_ARATH Protein FAR1-RELATED SEQUENCE 6 OS=Arabidopsis thaliana GN=FRS6 PE=2 SV=1

 Score = 81.6 bits (200), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 48/152 (31%), Positives = 79/152 (51%), Gaps = 5/152 (3%)

Query: 23  RVGNEDEIYRTS--VEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFES 80
           R+G E  +  +   ++V   Q+++ K + +++       G+      + D P VG +FES
Sbjct: 34  RIGEEALVCSSEHEIDVGFCQNEERKSEEETMGGFDEQSGLLVDERKEFDAPAVGMEFES 93

Query: 81  EAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAE 140
              A+ +YN YA+ VGF +RV      RR     G  L C+ +G++   +   + R R E
Sbjct: 94  YDDAYNYYNCYASEVGFRVRVKNSWFKRRSKEKYGAVLCCSSQGFK---RINDVNRVRKE 150

Query: 141 TRVGCRAMILVRKVNSGQWVVTKFVKEHTHPL 172
           TR GC AMI +R+V+S +W V +   +H H L
Sbjct: 151 TRTGCPAMIRMRQVDSKRWRVVEVTLDHNHLL 182

Putative transcription activator involved in regulating light control of development. May have a role in controlling flowering time.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 76.6 bits (187), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 67/148 (45%), Gaps = 27/148 (18%)

Query: 75  GQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNK------------ 122
           G++FES+  A  FY  YA  VGF   +    RSR  G  I    VC +            
Sbjct: 24  GREFESKEEAFEFYKEYANSVGFTTIIKASRRSRMTGKFIDAKFVCTRYGSKKEDIDTGL 83

Query: 123 --EGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKD 180
             +G+ +P  R++    R+ ++  C+A + V++   G+WVV   VKEH H +  G+    
Sbjct: 84  GTDGFNIPQARKRGRINRSSSKTDCKAFLHVKRRQDGRWVVRSLVKEHNHEIFTGQA--- 140

Query: 181 CIYDQYPNEHDKIRELSQQLALEKKRAA 208
                     D +RELS +  LEK   A
Sbjct: 141 ----------DSLRELSGRRKLEKLNGA 158

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S793|FRS8_ARATH Protein FAR1-RELATED SEQUENCE 8 OS=Arabidopsis thaliana GN=FRS8 PE=2 SV=2

 Score = 74.3 bits (181), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 39/111 (35%), Positives = 57/111 (51%), Gaps = 3/111 (2%)

Query: 67  VQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYR 126
           + A  P  G +FES   A++FYN+YA  +GF IRV      R      G  L CN +G++
Sbjct: 90  LMAPPPTPGMEFESYDDAYSFYNSYARELGFAIRVKSSWTKRNSKEKRGAVLCCNCQGFK 149

Query: 127 LPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKG 177
           L         +R ETR GC+AMI +R ++  +W V +   +H H   P + 
Sbjct: 150 LLKDAHS---RRKETRTGCQAMIRLRLIHFDRWKVDQVKLDHNHSFDPQRA 197

Putative transcription activator involved in regulating light control of development. May have a role in controlling flowering time.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 72.0 bits (175), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 56/102 (54%), Gaps = 6/102 (5%)

Query: 75  GQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREK- 133
           G  FES+ AA+ FY  YA  VGF I +    RS+R G  I   + C++ G     KREK 
Sbjct: 41  GMDFESKEAAYYFYREYARSVGFGITIKASRRSKRSGKFIDVKIACSRFG----TKREKA 96

Query: 134 -IVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
             +  R+  + GC+A + +++    +WV+  FVKEH H + P
Sbjct: 97  TAINPRSCPKTGCKAGLHMKRKEDEKWVIYNFVKEHNHEICP 138

Putative transcription activator involved in regulating light control of development.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 65.5 bits (158), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 53/224 (23%), Positives = 97/224 (43%), Gaps = 27/224 (12%)

Query: 21  GDRVGNEDEIYRTSVEVTLHQDQD---NKVDPDSLALET---IPEGIPSVASVQADE--- 71
           GD    +DE     ++  LH ++D    K++  S+ + T   +  G+P+   V+  E   
Sbjct: 10  GDLCKGDDE--DRGLDNVLHNEEDMDIGKIEDVSVEVNTDDSVGMGVPTGELVEYTEGMN 67

Query: 72  --PYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEG----- 124
             P  G +FES   A++FY  Y+  +GF   +    RS+     I     C++ G     
Sbjct: 68  LEPLNGMEFESHGEAYSFYQEYSRAMGFNTAIQNSRRSKTTREFIDAKFACSRYGTKREY 127

Query: 125 ---YRLPDKR------EKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPG 175
              +  P  R      E +  +R   +  C+A + V++   G+WV+  FV+EH H L P 
Sbjct: 128 DKSFNRPRARQSKQDPENMAGRRTCAKTDCKASMHVKRRPDGKWVIHSFVREHNHELLPA 187

Query: 176 KGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVE 219
           +   +     Y     +  E    ++L+    +++++   L VE
Sbjct: 188 QAVSEQTRKIYAAMAKQFAEYKTVISLKSDSKSSFEKGRTLSVE 231

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

 Score = 61.6 bits (148), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 36/100 (36%), Positives = 52/100 (52%), Gaps = 6/100 (6%)

Query: 77  QFESEAAAHAFYNAYATRVGFVIRVSKLS--RSRRDGSAIGRALVCNKEGYRLPDKREKI 134
           +FE+   A+ FY  YA  VGF    +KLS  RSR     I     C + G +   + +  
Sbjct: 2   EFETHEDAYLFYKDYAKSVGF--GTAKLSSRRSRASKEFIDAKFSCIRYGSK--QQSDDA 57

Query: 135 VRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
           +  RA  ++GC+A + V++   G+W V  FVKEH H L P
Sbjct: 58  INPRASPKIGCKASMHVKRRPDGKWYVYSFVKEHNHDLLP 97

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 = 60.8 bits (146), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 65/137 (47%), Gaps = 28/137 (20%)

Query: 48  DPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRS 107
           D ++L+LE +   IP          Y+GQ F +   A+ FY+ +A R GF IR     R 
Sbjct: 34  DDNNLSLEAVHNAIP----------YLGQIFLTHDTAYEFYSTFAKRCGFSIR-----RH 78

Query: 108 RRDGS-AIGRAL-----VCNKEGYRLPDK---REKIVRQRAETRVGCRAMILVRKVN--- 155
           R +G   +G+ L     VC++ G   P K     K  R R  +R GC+A + + K+    
Sbjct: 79  RTEGKDGVGKGLTRRYFVCHRAG-NTPIKTLSEGKPQRNRRSSRCGCQAYLRISKLTELG 137

Query: 156 SGQWVVTKFVKEHTHPL 172
           S +W VT F   H H L
Sbjct: 138 STEWRVTGFANHHNHEL 154

Putative transcription activator involved in regulating light control of 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	251
356557211	252	PREDICTED: protein FAR1-RELATED SEQUENCE	0.984	0.980	0.702	1e-102
225433914	246	PREDICTED: protein FAR1-RELATED SEQUENCE	0.968	0.987	0.728	1e-100
297743804	267	unnamed protein product [Vitis vinifera]	0.968	0.910	0.728	1e-99
449468756	250	PREDICTED: protein FAR1-RELATED SEQUENCE	0.984	0.988	0.716	1e-99
224093126	205	predicted protein [Populus trichocarpa]	0.816	1.0	0.795	8e-97
224133174	205	predicted protein [Populus trichocarpa]	0.816	1.0	0.8	3e-96
356538895	263	PREDICTED: uncharacterized protein LOC10	0.988	0.942	0.661	2e-90
147820520	272	hypothetical protein VITISV_012473 [Viti	0.884	0.816	0.633	3e-90
388510270	259	unknown [Medicago truncatula]	0.992	0.961	0.630	6e-90
357454479	297	FAR1-related protein [Medicago truncatul	0.992	0.838	0.630	7e-90

>gi|356557211|ref|XP_003546911.1| PREDICTED: protein FAR1-RELATED SEQUENCE 12-like [Glycine max]

 Score =  377 bits (967), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 175/249 (70%), Positives = 211/249 (84%), Gaps = 2/249 (0%)

Query: 1   MDYRIDSNVNGELVGNS--VDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIP 58
           M++ ID+++NGE VGN+  V +     + +++  +S      Q  D+ +  DS   +TIP
Sbjct: 1   MEFGIDASINGETVGNATIVQINSSTADGNKVGCSSFNPAYKQGHDDNITQDSSGGDTIP 60

Query: 59  EGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRAL 118
            GIP+V+    DEPYVGQ+FESEAAAHAFYNAYA RVGF+IRVSKLSRSRRDG+AIGRAL
Sbjct: 61  SGIPAVSVASVDEPYVGQEFESEAAAHAFYNAYAKRVGFIIRVSKLSRSRRDGTAIGRAL 120

Query: 119 VCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGR 178
           VCN+EGYR+PDKREKIVRQRAETRVGCRAMILVRKV+SG+WV+TKF+ EHTHPLTPGKGR
Sbjct: 121 VCNREGYRMPDKREKIVRQRAETRVGCRAMILVRKVSSGKWVITKFIMEHTHPLTPGKGR 180

Query: 179 KDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDS 238
           +DCIY+QYPNEHDKIRELSQQLA+E+KR+A YKRHLELI EQIEEHN+SL+KKIQH+VDS
Sbjct: 181 RDCIYEQYPNEHDKIRELSQQLAIERKRSATYKRHLELIFEQIEEHNDSLSKKIQHIVDS 240

Query: 239 VKNIEDEEQ 247
           VK +E +EQ
Sbjct: 241 VKEMETKEQ 249

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225433914|ref|XP_002267960.1| PREDICTED: protein FAR1-RELATED SEQUENCE 6-like [Vitis vinifera]

 Score =  369 bits (946), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 182/250 (72%), Positives = 212/250 (84%), Gaps = 7/250 (2%)

Query: 1   MDYRIDSNVNGELV-GNSVDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPE 59
           MD+ +  + NGE+V  +SVD+  R  +E E+   SVEV     +DNK++ DS   E IP 
Sbjct: 1   MDFGVGGDANGEVVVRSSVDMV-RTSDESEMGGNSVEVAFQSSEDNKLNQDSSGTEIIPV 59

Query: 60  GIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALV 119
             P V     DEPYVGQ+FESEAAAHAFYNAYATRVGF+IRVSKLSRSRRDGSAIGRALV
Sbjct: 60  VEPYV-----DEPYVGQEFESEAAAHAFYNAYATRVGFIIRVSKLSRSRRDGSAIGRALV 114

Query: 120 CNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRK 179
           CNKEGYR+PDKREKIVRQRAETRVGCRAMILVRKV+SG+WVVTKFVKEHTH LTPGKGR+
Sbjct: 115 CNKEGYRMPDKREKIVRQRAETRVGCRAMILVRKVSSGKWVVTKFVKEHTHTLTPGKGRR 174

Query: 180 DCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSV 239
           D IYDQYPNEHDKIRELSQQLA+EKKRAA YKRHLE++ E IEEHNESL+KKIQH+VDSV
Sbjct: 175 DLIYDQYPNEHDKIRELSQQLAVEKKRAATYKRHLEMVFEYIEEHNESLSKKIQHIVDSV 234

Query: 240 KNIEDEEQKS 249
           +++E++E+++
Sbjct: 235 RDMENKEKQN 244

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297743804|emb|CBI36687.3| unnamed protein product [Vitis vinifera]

 Score =  368 bits (945), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 182/250 (72%), Positives = 212/250 (84%), Gaps = 7/250 (2%)

Query: 1   MDYRIDSNVNGELV-GNSVDVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPE 59
           MD+ +  + NGE+V  +SVD+  R  +E E+   SVEV     +DNK++ DS   E IP 
Sbjct: 22  MDFGVGGDANGEVVVRSSVDMV-RTSDESEMGGNSVEVAFQSSEDNKLNQDSSGTEIIPV 80

Query: 60  GIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALV 119
             P V     DEPYVGQ+FESEAAAHAFYNAYATRVGF+IRVSKLSRSRRDGSAIGRALV
Sbjct: 81  VEPYV-----DEPYVGQEFESEAAAHAFYNAYATRVGFIIRVSKLSRSRRDGSAIGRALV 135

Query: 120 CNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRK 179
           CNKEGYR+PDKREKIVRQRAETRVGCRAMILVRKV+SG+WVVTKFVKEHTH LTPGKGR+
Sbjct: 136 CNKEGYRMPDKREKIVRQRAETRVGCRAMILVRKVSSGKWVVTKFVKEHTHTLTPGKGRR 195

Query: 180 DCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSV 239
           D IYDQYPNEHDKIRELSQQLA+EKKRAA YKRHLE++ E IEEHNESL+KKIQH+VDSV
Sbjct: 196 DLIYDQYPNEHDKIRELSQQLAVEKKRAATYKRHLEMVFEYIEEHNESLSKKIQHIVDSV 255

Query: 240 KNIEDEEQKS 249
           +++E++E+++
Sbjct: 256 RDMENKEKQN 265

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449468756|ref|XP_004152087.1| PREDICTED: protein FAR1-RELATED SEQUENCE 6-like [Cucumis sativus] gi|449502270|ref|XP_004161594.1| PREDICTED: protein FAR1-RELATED SEQUENCE 6-like [Cucumis sativus]

 Score =  368 bits (944), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 179/250 (71%), Positives = 212/250 (84%), Gaps = 3/250 (1%)

Query: 1   MDYRIDSNVNGELVGNSVDVGD-RVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPE 59
           M++ +D +   E+VGNS  V D +  +E+E   +S+E    QDQD K+  DS     I +
Sbjct: 1   MEFGVDGD--SEVVGNSTLVEDSKPLDENETGVSSIERIFDQDQDEKIIQDSTGRNAILD 58

Query: 60  GIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALV 119
            +P +  VQADEPYVGQ+FE+EAAAHAFYN+YATRVGFVIRVSKLSRSRRDG+AIGRALV
Sbjct: 59  SVPGLPIVQADEPYVGQEFENEAAAHAFYNSYATRVGFVIRVSKLSRSRRDGTAIGRALV 118

Query: 120 CNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRK 179
           CNKEGYR+PDKREKIVRQRAETRVGCRAMILVRKVNSG+WVVTKFVKEHTHPL+PGK R+
Sbjct: 119 CNKEGYRMPDKREKIVRQRAETRVGCRAMILVRKVNSGKWVVTKFVKEHTHPLSPGKARR 178

Query: 180 DCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSV 239
           DCIYDQYPNEHDKIRELSQQLA+EKKR+A YKRHLE+I E IEEHN+SL++KIQH+VD+V
Sbjct: 179 DCIYDQYPNEHDKIRELSQQLAIEKKRSATYKRHLEVIFEYIEEHNDSLSRKIQHIVDNV 238

Query: 240 KNIEDEEQKS 249
           K +E  EQ++
Sbjct: 239 KELESVEQQN 248

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224093126|ref|XP_002309799.1| predicted protein [Populus trichocarpa] gi|222852702|gb|EEE90249.1| predicted protein [Populus trichocarpa]

 Score =  358 bits (920), Expect = 8e-97,   Method: Compositional matrix adjust.
 Identities = 163/205 (79%), Positives = 193/205 (94%)

Query: 47  VDPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSR 106
           +D ++L ++TI +G P+++ + ADEPY+GQ+F+SEAAAHAFYNAYATR+GFVIRVSKLSR
Sbjct: 1   MDKETLDIDTITDGAPAMSMITADEPYLGQEFDSEAAAHAFYNAYATRIGFVIRVSKLSR 60

Query: 107 SRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVK 166
           SRRDGSAIGRALVCNKEG+R+PDKREKIVRQRAETRVGCRAMILVRK++SG+WVVTKFVK
Sbjct: 61  SRRDGSAIGRALVCNKEGFRMPDKREKIVRQRAETRVGCRAMILVRKISSGKWVVTKFVK 120

Query: 167 EHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNE 226
           EHTH LTPGKGR+DCIY+QYPNEHDKIRELSQQLA+EKKR+A YKRHLELI E IEEHNE
Sbjct: 121 EHTHTLTPGKGRRDCIYEQYPNEHDKIRELSQQLAIEKKRSATYKRHLELIFEHIEEHNE 180

Query: 227 SLAKKIQHVVDSVKNIEDEEQKSCT 251
           SL+KKIQH VDSV+++E++EQ+S T
Sbjct: 181 SLSKKIQHTVDSVRDMENKEQQSQT 205

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133174|ref|XP_002327978.1| predicted protein [Populus trichocarpa] gi|222837387|gb|EEE75766.1| predicted protein [Populus trichocarpa]

 Score =  357 bits (916), Expect = 3e-96,   Method: Compositional matrix adjust.
 Identities = 164/205 (80%), Positives = 190/205 (92%)

Query: 47  VDPDSLALETIPEGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSR 106
           +D +SLA++ IP+ +P+++ V ADEPY+GQ+F+SEA+AHAFYNAYATR+GFVIRVSKLSR
Sbjct: 1   MDKESLAIDMIPDAVPAMSMVAADEPYMGQEFDSEASAHAFYNAYATRIGFVIRVSKLSR 60

Query: 107 SRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVK 166
           SRRDGSAIGRALVCNKEG+R+PDKREKIVRQRAETRVGCRAMILVRK +SG+W VTKFVK
Sbjct: 61  SRRDGSAIGRALVCNKEGFRMPDKREKIVRQRAETRVGCRAMILVRKASSGKWEVTKFVK 120

Query: 167 EHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNE 226
           EHTH LTPGK R+DCIYDQYPNEHDKIRELSQQLALEKKRAA YKRHLELI EQIEEHNE
Sbjct: 121 EHTHSLTPGKARRDCIYDQYPNEHDKIRELSQQLALEKKRAATYKRHLELIFEQIEEHNE 180

Query: 227 SLAKKIQHVVDSVKNIEDEEQKSCT 251
           SL+KKIQH+V SV+ +E++ Q+S T
Sbjct: 181 SLSKKIQHIVHSVRGMENKPQQSQT 205

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356538895|ref|XP_003537936.1| PREDICTED: uncharacterized protein LOC100780613 isoform 1 [Glycine max]

 Score =  337 bits (865), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 166/251 (66%), Positives = 201/251 (80%), Gaps = 3/251 (1%)

Query: 1   MDYRIDSNVNGELVGNSVDVGD--RVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIP 58
           M+  ID +V  E VGN+  +G+   + +++    +SVE   +QDQ +    DS    TIP
Sbjct: 1   MEVEIDGSVTVETVGNTA-IGEVSSIADDNREGGSSVEPNDNQDQHDNGTQDSSGGITIP 59

Query: 59  EGIPSVASVQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRAL 118
             IP+V+ V  +EPYVGQ+F SEAAAHAFYNAYAT VGF++RVSKLSRSRRDG+AIGR L
Sbjct: 60  SAIPTVSVVSVEEPYVGQEFGSEAAAHAFYNAYATEVGFIVRVSKLSRSRRDGTAIGRTL 119

Query: 119 VCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGR 178
           VCNKEG+R+ DKREKIVRQRAETRVGCRAMI+VRK++SG+WVV KFVKEHTHPLTPGKGR
Sbjct: 120 VCNKEGFRMADKREKIVRQRAETRVGCRAMIMVRKLSSGKWVVAKFVKEHTHPLTPGKGR 179

Query: 179 KDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDS 238
           +D  Y+QYP E DKIRELSQQLA EKKR+A YKRHLELI EQIEE N++L+KKIQH+VD 
Sbjct: 180 RDFYYEQYPTEQDKIRELSQQLATEKKRSAAYKRHLELIFEQIEEQNDNLSKKIQHIVDC 239

Query: 239 VKNIEDEEQKS 249
           VK +E +E+ S
Sbjct: 240 VKEMEAKEEHS 250

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147820520|emb|CAN67657.1| hypothetical protein VITISV_012473 [Vitis vinifera]

 Score =  337 bits (863), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 173/273 (63%), Positives = 197/273 (72%), Gaps = 51/273 (18%)

Query: 23  RVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFESEA 82
           R  +E E+   SVEV     +DNK++ DS   E IP   P V     DEPYVGQ+FESEA
Sbjct: 3   RTSDESEMGGNSVEVAFQSSEDNKLNQDSSGTEIIPVVEPYV-----DEPYVGQEFESEA 57

Query: 83  AAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETR 142
           AAHAFYNAYATRVGF+IRVSKLSRSRRDGSAIGRALVCNKEGYR+PDKREKIVRQRAETR
Sbjct: 58  AAHAFYNAYATRVGFIIRVSKLSRSRRDGSAIGRALVCNKEGYRMPDKREKIVRQRAETR 117

Query: 143 VGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYP--------------- 187
           VGCRAMILVRKV+SG+WVVTKFVKEHTH LTPGKGR+D IYDQYP               
Sbjct: 118 VGCRAMILVRKVSSGKWVVTKFVKEHTHTLTPGKGRRDLIYDQYPLMCYYIGNFFVWSFS 177

Query: 188 -------------------------------NEHDKIRELSQQLALEKKRAANYKRHLEL 216
                                          NEHDKIRELSQQLA+EKKRAA YKRHLE+
Sbjct: 178 ALQEFDLVKIQLVGYPFLLLIRKYDQIMAYVNEHDKIRELSQQLAVEKKRAATYKRHLEM 237

Query: 217 IVEQIEEHNESLAKKIQHVVDSVKNIEDEEQKS 249
           + E IEEHNESL+KKIQH+VDSV+++E++E+++
Sbjct: 238 VFEYIEEHNESLSKKIQHIVDSVRDMENKEKQN 270

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510270|gb|AFK43201.1| unknown [Medicago truncatula]

 Score =  336 bits (861), Expect = 6e-90,   Method: Compositional matrix adjust.
 Identities = 159/252 (63%), Positives = 206/252 (81%), Gaps = 3/252 (1%)

Query: 1   MDYRIDSNVNGELVGNSV--DVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIP 58
           M+  I  + NGE +GN+   +VG  + N++ +  +S + T  QDQD+ +  DS  ++ I 
Sbjct: 1   MEIEIYDSGNGEALGNATIGEVGSSIANKEIVECSSFDPTDEQDQDDTMTQDSSGVDQIA 60

Query: 59  EGIPSVASVQA-DEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRA 117
             +P  + ++  DEPY+GQ+F SEA AHAFYN+YATRVGFVIRVSKLSRSRRDGS IGRA
Sbjct: 61  SAVPVTSVMRTIDEPYIGQEFVSEAEAHAFYNSYATRVGFVIRVSKLSRSRRDGSVIGRA 120

Query: 118 LVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKG 177
           LVCNKEG+R+PDKREKIVRQRAETRVGCRAMI+VRK+NSG W +TKFVKEHTHPLTPG+G
Sbjct: 121 LVCNKEGFRMPDKREKIVRQRAETRVGCRAMIMVRKLNSGLWSITKFVKEHTHPLTPGRG 180

Query: 178 RKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVD 237
           R+D +Y+QYP+ HD++REL+QQLA+EKKRA  YKR+L+L+ E IEEHNE+++KKIQH+V+
Sbjct: 181 RRDFVYEQYPSGHDRVRELTQQLAIEKKRAETYKRNLDLLYECIEEHNEAVSKKIQHIVE 240

Query: 238 SVKNIEDEEQKS 249
           SVK +E +EQ+S
Sbjct: 241 SVKEMEAKEQES 252

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357454479|ref|XP_003597520.1| FAR1-related protein [Medicago truncatula] gi|355486568|gb|AES67771.1| FAR1-related protein [Medicago truncatula]

 Score =  335 bits (860), Expect = 7e-90,   Method: Compositional matrix adjust.
 Identities = 159/252 (63%), Positives = 206/252 (81%), Gaps = 3/252 (1%)

Query: 1   MDYRIDSNVNGELVGNSV--DVGDRVGNEDEIYRTSVEVTLHQDQDNKVDPDSLALETIP 58
           M+  I  + NGE +GN+   +VG  + N++ +  +S + T  QDQD+ +  DS  ++ I 
Sbjct: 39  MEIEIYDSGNGEALGNATIGEVGSSIANKEIVECSSFDPTDEQDQDDTMTQDSSGVDQIA 98

Query: 59  EGIPSVASVQA-DEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRA 117
             +P  + ++  DEPY+GQ+F SEA AHAFYN+YATRVGFVIRVSKLSRSRRDGS IGRA
Sbjct: 99  SAVPVTSVMRTIDEPYIGQEFVSEAEAHAFYNSYATRVGFVIRVSKLSRSRRDGSVIGRA 158

Query: 118 LVCNKEGYRLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKG 177
           LVCNKEG+R+PDKREKIVRQRAETRVGCRAMI+VRK+NSG W +TKFVKEHTHPLTPG+G
Sbjct: 159 LVCNKEGFRMPDKREKIVRQRAETRVGCRAMIMVRKLNSGLWSITKFVKEHTHPLTPGRG 218

Query: 178 RKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVD 237
           R+D +Y+QYP+ HD++REL+QQLA+EKKRA  YKR+L+L+ E IEEHNE+++KKIQH+V+
Sbjct: 219 RRDFVYEQYPSGHDRVRELTQQLAIEKKRAETYKRNLDLLYECIEEHNEAVSKKIQHIVE 278

Query: 238 SVKNIEDEEQKS 249
           SVK +E +EQ+S
Sbjct: 279 SVKEMEAKEQES 290

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	251
TAIR|locus:2097543	251	AT3G59470 [Arabidopsis thalian	0.896	0.896	0.600	1.7e-73
TAIR|locus:2079651	217	AT3G07500 "AT3G07500" [Arabido	0.780	0.903	0.400	2.8e-34
TAIR|locus:2041041	206	AT2G43280 [Arabidopsis thalian	0.685	0.834	0.398	1.3e-27
TAIR|locus:2135738	183	AT4G12850 "AT4G12850" [Arabido	0.701	0.961	0.348	5.7e-27
TAIR|locus:2121060	788	FRS5 "FAR1-related sequence 5"	0.414	0.131	0.481	6.3e-25
TAIR|locus:2082420	764	FRS7 "FAR1-related sequence 7"	0.386	0.126	0.357	9.7e-13
TAIR|locus:2144930	788	FRS12 "FAR1-related sequence 1	0.442	0.140	0.322	2.1e-12
TAIR|locus:2035144	703	FRS6 "FAR1-related sequence 6"	0.585	0.209	0.282	5.5e-11
TAIR|locus:2016259	725	FRS8 "FAR1-related sequence 8"	0.418	0.144	0.305	8.6e-07
TAIR|locus:2062606	807	FRS2 "FAR1-related sequence 2"	0.382	0.118	0.313	1.7e-06

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

 Score = 742 (266.3 bits), Expect = 1.7e-73, P = 1.7e-73
 Identities = 140/233 (60%), Positives = 175/233 (75%)

Query:    24 VGNEDEIYRTSVEVTLHQDQDNKVD--------PDSLALETIPEGIPSVASVQADEPYVG 75
             V N +E+  +S +  + QD DN  +         + + L++IP  +  +   Q DEPYVG
Sbjct:    14 VENHNEMGESSGQAMIEQDDDNHNELGENSGEQDEKVDLDSIPLAVADMTEAQGDEPYVG 73

Query:    76 QQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIV 135
             Q+FESE           T+VGFVIRVSKLSRSR DGS IGR LVCNKEGYRLP KR+K++
Sbjct:    74 QEFESEAAAHGFYNAYATKVGFVIRVSKLSRSRHDGSPIGRQLVCNKEGYRLPSKRDKVI 133

Query:   136 RQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRE 195
             RQRAETRVGC+AMIL+RK NSG+WV+TKFVKEH H L PG+ R+ CIYDQYPNEHDKI+E
Sbjct:   134 RQRAETRVGCKAMILIRKENSGKWVITKFVKEHNHSLMPGRVRRGCIYDQYPNEHDKIQE 193

Query:   196 LSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEEQK 248
             L QQLA EKKRAA YKRHLE++ EQIE+HNESL+K+IQH+VD+V+N+E  + +
Sbjct:   194 LMQQLAAEKKRAATYKRHLEMLFEQIEQHNESLSKRIQHIVDNVRNLEQRDHQ 246

GO:0005634 "nucleus" evidence=ISM

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

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

 Score = 372 (136.0 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 83/207 (40%), Positives = 126/207 (60%)

Query:    42 DQDNKVDPDSLALETIP-EGIPSVASVQADEPYVGQQFESEXXXXXXXXXXXTRVGFVIR 100
             ++D ++  +S  ++T+  E  P V      EP++G +FESE           T +GFV+R
Sbjct:     8 EEDVEMMENSDVMKTVTDEASPMV------EPFIGMEFESEEAAKSFYDNYATCMGFVMR 61

Query:   101 VSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQ-RAETRVGCRAMILVRKVNSGQW 159
             V    RS RDG+ + R LVCNKEG+R    R    R+ RA TR GC+A+I+V++  SG W
Sbjct:    62 VDAFRRSMRDGTVVWRRLVCNKEGFRRSRPRRSESRKPRAITREGCKALIVVKREKSGTW 121

Query:   160 VVTKFVKEHTHPLTP--GKGRKDCIYDQYPNEHD-KIRELSQQLALEKKRAANYKRHLEL 216
             +VTKF KEH HPL P     R++    Q P+E D KIRELS +L+ E++R    ++ L++
Sbjct:   122 LVTKFEKEHNHPLLPLSPNVRRNFQLPQTPDEKDAKIRELSAELSRERRRCTALQQQLDM 181

Query:   217 IVEQIEEHNESLAKKIQHVVDSVKNIE 243
             +++++EEH+  L   I  V+ SV++IE
Sbjct:   182 VLKEMEEHSNHLTININSVIQSVRDIE 208

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 = 309 (113.8 bits), Expect = 1.3e-27, P = 1.3e-27
 Identities = 73/183 (39%), Positives = 104/183 (56%)

Query:    69 ADEPYVGQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGY--R 126
             A EP  G  FESE            R+GFV+RV    RS +DG  + R   CNKEG+   
Sbjct:    19 AIEPREGIIFESEDAAKMFYDDYSRRLGFVMRVMSCRRSEKDGRILARRFGCNKEGHCVS 78

Query:   127 LPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPL--TPGKGRKDCIYD 184
             +  K   + + R  TR GC+AMI V+   SG+WV+TKFVKEH HPL  +P + R      
Sbjct:    79 IRGKFGSVRKPRPSTREGCKAMIHVKYDRSGKWVITKFVKEHNHPLVVSPREARHTL--- 135

Query:   185 QYPNEHDK-IRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIE 243
                +E DK I+EL+ +L  +K+  A YK  L+   + +EEH+  +AKK+++VV+++K  E
Sbjct:   136 ---DEKDKRIQELTIELRNKKRLCAAYKEQLDAFAKIVEEHSNQIAKKVENVVNNLKEFE 192

Query:   244 DEE 246
               E
Sbjct:   193 HLE 195

GO:0005634 "nucleus" evidence=ISM

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

GO:0006301 "postreplication repair" evidence=RCA

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

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 63/181 (34%), Positives = 105/181 (58%)

Query:    67 VQADEPYVGQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYR 126
             ++ DEPYVG +FESE            R+GFV+R+ +  RS  DG  + R L CNK+G+ 
Sbjct:     5 LKLDEPYVGLKFESEEEAKDFYVEYSKRLGFVVRMMQRRRSGIDGRTLARRLGCNKQGFG 64

Query:   127 LPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQY 186
               ++R       + +R GC+A ILV+   SG+WVVT+F+KEH H L    G     YD +
Sbjct:    65 PNNQRSS--SSSSSSREGCKATILVKMEKSGKWVVTRFIKEHNHSLQ-FIGSSS--YDSF 119

Query:   187 PNEHDKIRELSQQLALEKKRAANYKRHLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEE 246
              ++  KI+EL++++  + +    Y+  L   ++ +E + E L+ K++ +V++VK +E + 
Sbjct:   120 ADKERKIKELTEEIECQDRLCDVYRDRLVSFIDNVEHYTEELSLKVRDIVENVKKLECQI 179

Query:   247 Q 247
             Q
Sbjct:   180 Q 180

GO:0003674 "molecular_function" evidence=ND

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 = 243 (90.6 bits), Expect = 6.3e-25, Sum P(2) = 6.3e-25
 Identities = 52/108 (48%), Positives = 66/108 (61%)

Query:    71 EPYVGQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYR-LPD 129
             EPY G +FESE            R+GF  RVS   RSRRDG+ I R  VC KEG+R + +
Sbjct:    72 EPYDGLEFESEEAAKAFYNSYARRIGFSTRVSSSRRSRRDGAIIQRQFVCAKEGFRNMNE 131

Query:   130 KREK---IVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
             KR K   I R R  TRVGC+A + V+  +SG+W+V+ FVK+H H L P
Sbjct:   132 KRTKDREIKRPRTITRVGCKASLSVKMQDSGKWLVSGFVKDHNHELVP 179

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

 Score = 180 (68.4 bits), Expect = 9.7e-13, P = 9.7e-13
 Identities = 39/109 (35%), Positives = 58/109 (53%)

Query:    68 QADEPYVGQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRL 127
             +A EPY G +F S              VGF +R+ +L RS+ DGS   R  VC+KEG++ 
Sbjct:   186 KATEPYAGLEFNSANEACQFYQAYAEVVGFRVRIGQLFRSKVDGSITSRRFVCSKEGFQH 245

Query:   128 PDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGK 176
             P            +R+GC A + +++ +SG W+V +  K+H H L PGK
Sbjct:   246 P------------SRMGCGAYMRIKRQDSGGWIVDRLNKDHNHDLEPGK 282

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 = 177 (67.4 bits), Expect = 2.1e-12, P = 2.1e-12
 Identities = 40/124 (32%), Positives = 64/124 (51%)

Query:    66 SVQADEPYVGQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGY 125
             +V   EPY G +F S              VGF +R+ +L RS+ DGS   R  VC++EG+
Sbjct:   205 AVTGTEPYAGLEFGSANEACQFYQAYAEVVGFRVRIGQLFRSKVDGSITSRRFVCSREGF 264

Query:   126 RLPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQ 185
             + P            +R+GC A + +++ +SG W+V +  K+H H L PGK + D    +
Sbjct:   265 QHP------------SRMGCGAYMRIKRQDSGGWIVDRLNKDHNHDLEPGK-KNDAGMKK 311

Query:   186 YPNE 189
              P++
Sbjct:   312 IPDD 315

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:2035144 FRS6 "FAR1-related sequence 6" [Arabidopsis thaliana (taxid:3702)]

 Score = 166 (63.5 bits), Expect = 5.5e-11, Sum P(2) = 5.5e-11
 Identities = 43/152 (28%), Positives = 72/152 (47%)

Query:    23 RVGNEDEIYRTS--VEVTLHQDQDNKVDPDSLALETIPEGIPSVASVQADEPYVGQQFES 80
             R+G E  +  +   ++V   Q+++ K + +++       G+      + D P VG +FES
Sbjct:    34 RIGEEALVCSSEHEIDVGFCQNEERKSEEETMGGFDEQSGLLVDERKEFDAPAVGMEFES 93

Query:    81 EXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAE 140
                         + VGF +RV      RR     G  L C+ +G++   +   + R R E
Sbjct:    94 YDDAYNYYNCYASEVGFRVRVKNSWFKRRSKEKYGAVLCCSSQGFK---RINDVNRVRKE 150

Query:   141 TRVGCRAMILVRKVNSGQWVVTKFVKEHTHPL 172
             TR GC AMI +R+V+S +W V +   +H H L
Sbjct:   151 TRTGCPAMIRMRQVDSKRWRVVEVTLDHNHLL 182

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:2016259 FRS8 "FAR1-related sequence 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 140 (54.3 bits), Expect = 8.6e-07, P = 8.6e-07
 Identities = 33/108 (30%), Positives = 47/108 (43%)

Query:    67 VQADEPYVGQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYR 126
             + A  P  G +FES              +GF IRV      R      G  L CN +G++
Sbjct:    90 LMAPPPTPGMEFESYDDAYSFYNSYARELGFAIRVKSSWTKRNSKEKRGAVLCCNCQGFK 149

Query:   127 LPDKREKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
             L         +R ETR GC+AMI +R ++  +W V +   +H H   P
Sbjct:   150 LLKDAHS---RRKETRTGCQAMIRLRLIHFDRWKVDQVKLDHNHSFDP 194

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016926 "protein desumoylation" evidence=RCA

GO:0050665 "hydrogen peroxide biosynthetic process" evidence=RCA

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

 Score = 138 (53.6 bits), Expect = 1.7e-06, P = 1.7e-06
 Identities = 32/102 (31%), Positives = 49/102 (48%)

Query:    75 GQQFESEXXXXXXXXXXXTRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKI 134
             G  FES+             VGF I +    RS+R G  I   + C++ G     KREK 
Sbjct:    41 GMDFESKEAAYYFYREYARSVGFGITIKASRRSKRSGKFIDVKIACSRFG----TKREKA 96

Query:   135 --VRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
               +  R+  + GC+A + +++    +WV+  FVKEH H + P
Sbjct:    97 TAINPRSCPKTGCKAGLHMKRKEDEKWVIYNFVKEHNHEICP 138

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00001967001 SubName- Full=Chromosome chr5 scaffold_124, whole genome shotgun sequence; (226 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	251
pfam03101	90	pfam03101, FAR1, FAR1 DNA-binding domain	4e-37
PLN03097	846	PLN03097, FHY3, Protein FAR-RED ELONGATED HYPOCOTY	4e-12

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

 Score =  125 bits (317), Expect = 4e-37
 Identities = 52/89 (58%), Positives = 63/89 (70%), Gaps = 1/89 (1%)

Query: 87  FYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKR-EKIVRQRAETRVGC 145
           FYNAYA RVGF +R SK  RSRRDG  I R  VC+KEG+R   K+  +  R RA TR GC
Sbjct: 2   FYNAYARRVGFSVRKSKSRRSRRDGEIIRRRFVCSKEGFRKERKKSVRKRRPRASTRTGC 61

Query: 146 RAMILVRKVNSGQWVVTKFVKEHTHPLTP 174
           +AM++V+  + G+WVVTKFV EH HPL P
Sbjct: 62  KAMMVVKLRSDGKWVVTKFVLEHNHPLAP 90

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 = 65.4 bits (159), Expect = 4e-12
 Identities = 36/120 (30%), Positives = 55/120 (45%), Gaps = 14/120 (11%)

Query: 71  EPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEG------ 124
           EP  G +FES   A++FY  YA  +GF   +    RS+     I     C++ G      
Sbjct: 73  EPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYD 132

Query: 125 --YRLPDKR------EKIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGK 176
             +  P  R      E    +R+  +  C+A + V++   G+WV+  FVKEH H L P +
Sbjct: 133 KSFNRPRARQTKQDPENGTGRRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELLPAQ 192

Length = 846

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	251
PLN03097	846	FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provis	100.0
PF03101	91	FAR1: FAR1 DNA-binding domain; InterPro: IPR004330	99.94
PF08731	111	AFT: Transcription factor AFT; InterPro: IPR014842	98.7
PF03108	67	DBD_Tnp_Mut: MuDR family transposase; InterPro: IP	97.88
PF04500	62	FLYWCH: FLYWCH zinc finger domain; InterPro: IPR00	88.54
PF03106	60	WRKY: WRKY DNA -binding domain; InterPro: IPR00365	84.35

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

Probab=100.00  E-value=1.9e-34  Score=294.27  Aligned_cols=173  Identities=23%  Similarity=0.387  Sum_probs=120.7

Q ss_pred             CCCCCCccCCccCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcc----h----------
Q 025532           67 VQADEPYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKR----E----------  132 (251)
Q Consensus        67 ~~~~~P~vGM~F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~----~----------  132 (251)
                      ....+|++||+|+|+||||+||+.||+++||+||+++++|++.+|.+++++|||+|+|++..+.+    .          
T Consensus        69 ~~~~~P~vGMeF~S~eeA~~FYn~YA~~~GFsVRi~~srrsk~~~~ii~r~fvCsreG~~~~~~~~~~~~~~~~~k~~~~  148 (846)
T PLN03097         69 DTNLEPLSGMEFESHGEAYSFYQEYARSMGFNTAIQNSRRSKTSREFIDAKFACSRYGTKREYDKSFNRPRARQTKQDPE  148 (846)
T ss_pred             CCCccCcCCCeECCHHHHHHHHHHHHhhcCceEEeeceeccCCCCcEEEEEEEEcCCCCCcccccccccccccccccCcc
Confidence            46678999999999999999999999999999999999999999999999999999998643211    0          


Q ss_pred             hhhccCcccccCCccEEEEEeecCceEEEEEecccCCCCCCCCCCCcccccccCCCchhhHHHHHHHHHHHHHHHHHHHH
Q 025532          133 KIVRQRAETRVGCRAMILVRKVNSGQWVVTKFVKEHTHPLTPGKGRKDCIYDQYPNEHDKIRELSQQLALEKKRAANYKR  212 (251)
Q Consensus       133 ~~~r~R~~tRtGC~A~i~vk~~~~gkW~V~~f~~eHNH~L~p~~~~~~~~~~~~~~shk~I~el~~el~~~~k~~~~~r~  212 (251)
                      ...++|+.+||||+|+|+|++..+|+|+|++|+++|||||.|+....       .+..+.+..+..++.....+. ..+.
T Consensus       149 ~~~~rR~~tRtGC~A~m~Vk~~~~gkW~V~~fv~eHNH~L~p~~~~~-------~~~r~~~~~~~~~~~~~~~v~-~~~~  220 (846)
T PLN03097        149 NGTGRRSCAKTDCKASMHVKRRPDGKWVIHSFVKEHNHELLPAQAVS-------EQTRKMYAAMARQFAEYKNVV-GLKN  220 (846)
T ss_pred             cccccccccCCCCceEEEEEEcCCCeEEEEEEecCCCCCCCCccccc-------hhhhhhHHHHHhhhhcccccc-ccch
Confidence            01235778999999999999988899999999999999999876421       011111111111111111000 0000


Q ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHhhhhhcc
Q 025532          213 HLELIVEQIEEHNESLAKKIQHVVDSVKNIEDEEQK  248 (251)
Q Consensus       213 ~l~~~~k~v~eh~~~ls~~i~~iv~~~k~~E~e~~~  248 (251)
                      .....+...+ ...--..|++.+++||++||.++|.
T Consensus       221 d~~~~~~~~r-~~~~~~gD~~~ll~yf~~~q~~nP~  255 (846)
T PLN03097        221 DSKSSFDKGR-NLGLEAGDTKILLDFFTQMQNMNSN  255 (846)
T ss_pred             hhcchhhHHH-hhhcccchHHHHHHHHHHHHhhCCC
Confidence            0000111000 1111236999999999999999985

>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=99.94  E-value=1.6e-27  Score=181.66  Aligned_cols=89  Identities=40%  Similarity=0.768  Sum_probs=80.5

Q ss_pred             HHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcch--hhhccCcccccCCccEEEEEeecCceEEEEE
Q 025532           86 AFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKRE--KIVRQRAETRVGCRAMILVRKVNSGQWVVTK  163 (251)
Q Consensus        86 ~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~~--~~~r~R~~tRtGC~A~i~vk~~~~gkW~V~~  163 (251)
                      +||+.||+.+||+||+.++++++.+|.+++..|+|+++|+...++..  ...++++++||||||+|.|++..+|+|.|+.
T Consensus         1 ~fy~~yA~~~GF~vr~~~s~~~~~~~~~~~~~~~C~r~G~~~~~~~~~~~~~r~~~s~ktgC~a~i~v~~~~~~~w~v~~   80 (91)
T PF03101_consen    1 DFYNSYARRHGFSVRKSSSRKSKKNGEIKRVTFVCSRGGKYKSKKKNEEKRRRNRPSKKTGCKARINVKRRKDGKWRVTS   80 (91)
T ss_pred             CHHHHhcCcCCeEEEEeeeEeCCCCceEEEEEEEECCcccccccccccccccccccccccCCCEEEEEEEccCCEEEEEE
Confidence            59999999999999999998888899999999999999998765433  3567889999999999999987799999999


Q ss_pred             ecccCCCCCCC
Q 025532          164 FVKEHTHPLTP  174 (251)
Q Consensus       164 f~~eHNH~L~p  174 (251)
                      |.++|||||+|
T Consensus        81 ~~~~HNH~L~P   91 (91)
T PF03101_consen   81 FVLEHNHPLCP   91 (91)
T ss_pred             CcCCcCCCCCC
Confidence            99999999997

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.

>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=98.70  E-value=1.2e-07  Score=76.07  Aligned_cols=88  Identities=17%  Similarity=0.327  Sum_probs=66.6

Q ss_pred             cCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcch---------------------hhhc
Q 025532           78 FESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKRE---------------------KIVR  136 (251)
Q Consensus        78 F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~~---------------------~~~r  136 (251)
                      |.+.+|...|....++..||.|.+.+|..+       ...|.|--.|.....+..                     ....
T Consensus         1 F~~k~~ikpwlq~~~~~~Gi~iVIerSd~~-------ki~FkCk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~   73 (111)
T PF08731_consen    1 FDDKDEIKPWLQKIFYPQGIGIVIERSDKK-------KIVFKCKNGKRYRHKKKKKGQAQAQQKESTSGNKNKSSKKKKK   73 (111)
T ss_pred             CCchHHHHHHHHHHhhhcCceEEEEecCCc-------eEEEEEecCCCcccccccccccccccccccccccccccccccC
Confidence            889999999999999999999999876432       257889776654322110                     0011


Q ss_pred             cC-cccccCCccEEEEEee-cCceEEEEEecccCCCCC
Q 025532          137 QR-AETRVGCRAMILVRKV-NSGQWVVTKFVKEHTHPL  172 (251)
Q Consensus       137 ~R-~~tRtGC~A~i~vk~~-~~gkW~V~~f~~eHNH~L  172 (251)
                      ++ .+..++||++|+.... ...+|.|.-+...|||||
T Consensus        74 k~t~srk~~CPFriRA~yS~k~k~W~lvvvnn~HnH~l  111 (111)
T PF08731_consen   74 KRTKSRKNTCPFRIRANYSKKNKKWTLVVVNNEHNHPL  111 (111)
T ss_pred             CcccccccCCCeEEEEEEEecCCeEEEEEecCCcCCCC
Confidence            22 4567899999998763 678999999999999998

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

>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=97.88  E-value=6.8e-05  Score=54.25  Aligned_cols=63  Identities=25%  Similarity=0.372  Sum_probs=51.1

Q ss_pred             CccCCccCCHHHHHHHHHHHhhhcCeeEEEeeeeeecCCCCeEeeeeeeccCCccCCCcchhhhccCcccccCCccEEEE
Q 025532           72 PYVGQQFESEAAAHAFYNAYATRVGFVIRVSKLSRSRRDGSAIGRALVCNKEGYRLPDKREKIVRQRAETRVGCRAMILV  151 (251)
Q Consensus        72 P~vGM~F~S~eeA~~FYn~YA~~~GF~iR~~~~~rs~~dG~i~~r~fvCsreG~r~~~k~~~~~r~R~~tRtGC~A~i~v  151 (251)
                      -.+||.|+|.++++.....||-..||.+++.++.+       .+..++|.  +                  .|||++|+.
T Consensus         4 l~~G~~F~~~~e~k~av~~yai~~~~~~~v~ksd~-------~r~~~~C~--~------------------~~C~Wrv~a   56 (67)
T PF03108_consen    4 LEVGQTFPSKEEFKEAVREYAIKNGFEFKVKKSDK-------KRYRAKCK--D------------------KGCPWRVRA   56 (67)
T ss_pred             cccCCEECCHHHHHHHHHHHHHhcCcEEEEeccCC-------EEEEEEEc--C------------------CCCCEEEEE
Confidence            36899999999999999999999999999876532       25678885  1                  179999999


Q ss_pred             Eee-cCceEEE
Q 025532          152 RKV-NSGQWVV  161 (251)
Q Consensus       152 k~~-~~gkW~V  161 (251)
                      ... .++.|.|
T Consensus        57 s~~~~~~~~~I   67 (67)
T PF03108_consen   57 SKRKRSDTFQI   67 (67)
T ss_pred             EEcCCCCEEEC
Confidence            865 4578875

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

>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=88.54  E-value=1  Score=30.82  Aligned_cols=25  Identities=36%  Similarity=0.615  Sum_probs=10.0

Q ss_pred             cCCccEEEEEeecCceEEEEEecccCCC
Q 025532          143 VGCRAMILVRKVNSGQWVVTKFVKEHTH  170 (251)
Q Consensus       143 tGC~A~i~vk~~~~gkW~V~~f~~eHNH  170 (251)
                      .+|+|+|.+.   ++.-.|.....+|||
T Consensus        38 ~~C~a~~~~~---~~~~~~~~~~~~HnH   62 (62)
T PF04500_consen   38 HGCRARLITD---AGDGRVVRTNGEHNH   62 (62)
T ss_dssp             S----EEEEE-----TTEEEE-S---SS
T ss_pred             CCCeEEEEEE---CCCCEEEECCCccCC
Confidence            5999999986   233344445589999

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.

>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=84.35  E-value=1.4  Score=31.68  Aligned_cols=28  Identities=32%  Similarity=0.637  Sum_probs=21.0

Q ss_pred             CCccEEEEEee-cCceEEEEEecccCCCC
Q 025532          144 GCRAMILVRKV-NSGQWVVTKFVKEHTHP  171 (251)
Q Consensus       144 GC~A~i~vk~~-~~gkW~V~~f~~eHNH~  171 (251)
                      ||+|+=.|... .++.-+++....+||||
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            89999888764 46778888899999997

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.

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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

ID	Length	Definition	E-value
Query	251
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	1e-04

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 40.9 bits (95), Expect = 1e-04
 Identities = 12/74 (16%), Positives = 27/74 (36%), Gaps = 15/74 (20%)

Query: 183 YDQYPNEHDKIREL--SQQLALEKKRAANYKRHLELIVEQIEE-------HNESLAKKIQ 233
            D+   E + IR+    Q+  L++  AA+     E   +  ++        +E + K   
Sbjct: 77  ADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKI 136

Query: 234 HVVDSVKNIEDEEQ 247
           +      N   ++ 
Sbjct: 137 N------NRIADKA 144

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
2ayd_A	76	WRKY transcription factor 1; beta strands, zinc fi	91.22
2rpr_A	87	Flywch-type zinc finger-containing protein 1; flyw	88.34
1wj2_A	78	Probable WRKY transcription factor 4; DNA-binding	86.17

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

Probab=91.22  E-value=1.2  Score=32.74  Aligned_cols=31  Identities=23%  Similarity=0.553  Sum_probs=25.5

Q ss_pred             CCccEEEEEee-cCceEEEEEecccCCCCCCC
Q 025532          144 GCRAMILVRKV-NSGQWVVTKFVKEHTHPLTP  174 (251)
Q Consensus       144 GC~A~i~vk~~-~~gkW~V~~f~~eHNH~L~p  174 (251)
                      ||+|+=.|.+. ++..-.++-...+|||++.+
T Consensus        44 gC~a~K~Ver~~~d~~~~~~tY~G~H~H~~p~   75 (76)
T 2ayd_A           44 GCPVKKHVERSSHDTKLLITTYEGKHDHDMPP   75 (76)
T ss_dssp             TCCCEEEEEECSSSTTEEEEEEESCCSSCCCC
T ss_pred             CCCceeeEEEECCCCCEEEEEEccCcCCCCCC
Confidence            99999888764 46678888889999999754

>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=88.34  E-value=0.81  Score=33.51  Aligned_cols=23  Identities=22%  Similarity=0.573  Sum_probs=16.3

Q ss_pred             CCccEEEEEeecCceEEEEEecccCCCCC
Q 025532          144 GCRAMILVRKVNSGQWVVTKFVKEHTHPL  172 (251)
Q Consensus       144 GC~A~i~vk~~~~gkW~V~~f~~eHNH~L  172 (251)
                      +|+|++....  .+   |. ....||||.
T Consensus        51 kCrARi~T~~--~~---~~-~~~~HnH~p   73 (87)
T 2rpr_A           51 GCRSRAITQG--HR---IM-VMRSHCHQP   73 (87)
T ss_dssp             CCCCEEEEET--TE---EE-ECSCCSSCC
T ss_pred             CCCEEEEEcC--CC---EE-CCCCcCCCC
Confidence            8999988754  22   32 567899973

>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=86.17  E-value=0.98  Score=33.30  Aligned_cols=31  Identities=29%  Similarity=0.455  Sum_probs=25.3

Q ss_pred             cCCccEEEEEee-cCceEEEEEecccCCCCCC
Q 025532          143 VGCRAMILVRKV-NSGQWVVTKFVKEHTHPLT  173 (251)
Q Consensus       143 tGC~A~i~vk~~-~~gkW~V~~f~~eHNH~L~  173 (251)
                      .||+|+=.|.+. .+..-+++-...+||||+.
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            399999888764 4677888888999999974

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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	251
d1wj2a_	71	WRKY DNA-binding protein 4 {Thale cress (Arabidops	89.14

>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=89.14  E-value=0.51  Score=32.52  Aligned_cols=31  Identities=29%  Similarity=0.455  Sum_probs=24.5

Q ss_pred             cCCccEEEEEee-cCceEEEEEecccCCCCCC
Q 025532          143 VGCRAMILVRKV-NSGQWVVTKFVKEHTHPLT  173 (251)
Q Consensus       143 tGC~A~i~vk~~-~~gkW~V~~f~~eHNH~L~  173 (251)
                      .||+|+=.|-.. .++.-+++-...+||||+.
T Consensus        39 ~~C~a~K~Vqr~~~d~~~~~vtY~G~H~h~~P   70 (71)
T d1wj2a_          39 PGCGVRKHVERAATDPKAVVTTYEGKHNHDLP   70 (71)
T ss_dssp             SSCEEEEEEEEETTTTSEEEEEEESCCSSCCC
T ss_pred             cCCCCcceEEEEcCCCCEEEEEEeeEeCCCCC
Confidence            389999888764 4667777778999999864