Citrus Sinensis ID: 031002

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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
MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIKICFSVW
Secondary Structure (PSIPRED)
cccccHHHHHccccccccccccccccccHHHHHHHHHHHHccccEEEEcccccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEcccHHHHHHHHHccccccccccccccHHHccHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mvrgktqmrrIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIifsprgklseFASSSMQETIERYLKHTkdtrnkqqpteQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIKICFSVW
Flexible Loop (DISEMBL)
mvrgktqmrrienatsrqvtfskrrnGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQiaqlkekvsVIKICFSVW
Low Complexity Region (SEG)
MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTleelqqierqleKSVSNIRARKNQVFNEQIAQLKEKVSVIKICFSVW
Disordered region (IsUnstruct)
************************RNGLLKKAFELSVLCDAEVAVIIF*************************************************VKKIELLEVSKRKLLGEGLASCTLEELQQI**********IRARKNQVFNEQIAQLKEKVSVIKICFSV*
Disordered Region (DISOPRED)
MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLK******************LKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSV********
Disordered Region (DISEMBL)
******************VTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIKICFSVW
Disordered Region (DISPRO)
*****TQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNK*QPTE*NMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIKICFSVW
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQQPTEQNxxxxxxxxxxxxxxxxxxxxxKRKLLGEGLASCTxxxxxxxxxxxxxxxxxxxxxxxxVFNEQIAQLKEKVSVIKICFSVW
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	167	2.2.26 [Sep-21-2011]
O64645	214	MADS-box protein SOC1 OS=	yes	no	0.934	0.728	0.782	5e-66
O82743	219	Agamous-like MADS-box pro	no	no	0.916	0.698	0.642	2e-50
Q9XJ60	230	MADS-box transcription fa	yes	no	0.928	0.673	0.621	1e-49
A2Z9Q7	233	MADS-box transcription fa	N/A	no	0.928	0.665	0.598	4e-48
P0C5B2	233	MADS-box transcription fa	no	no	0.928	0.665	0.585	4e-46
Q38838	221	Agamous-like MADS-box pro	no	no	0.868	0.656	0.625	5e-45
Q0D4T4	249	MADS-box transcription fa	no	no	0.964	0.646	0.506	2e-38
A2YNI2	249	MADS-box transcription fa	N/A	no	0.964	0.646	0.506	2e-38
Q38836	230	Agamous-like MADS-box pro	no	no	0.874	0.634	0.5	1e-37
Q40704	236	MADS-box transcription fa	no	no	0.934	0.661	0.471	1e-37

>sp|O64645|SOC1_ARATH MADS-box protein SOC1 OS=Arabidopsis thaliana GN=SOC1 PE=1 SV=1

 Score =  249 bits (636), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 122/156 (78%), Positives = 142/156 (91%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQM+RIENATSRQVTFSKRRNGLLKKAFELSVLCDAEV++IIFSP+GKL EFASS
Sbjct: 1   MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSPKGKLYEFASS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           +MQ+TI+RYL+HTKD  + +  +E+NMQHLK+EAANM+KKIE LE SKRKLLGEG+ +C+
Sbjct: 61  NMQDTIDRYLRHTKDRVSTKPVSEENMQHLKYEAANMMKKIEQLEASKRKLLGEGIGTCS 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           +EELQQIE+QLEKSV  IRARK QVF EQI QLK+K
Sbjct: 121 IEELQQIEQQLEKSVKCIRARKTQVFKEQIEQLKQK 156

Transcription activator active in flowering time control. May integrate signals from the photoperiod, vernalization and autonomous floral induction pathways. Can modulates class B and C homeotic genes expression. When associated with AGL24, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development.
Arabidopsis thaliana (taxid: 3702)

>sp|O82743|AGL19_ARATH Agamous-like MADS-box protein AGL19 OS=Arabidopsis thaliana GN=AGL19 PE=1 SV=1

 Score =  198 bits (503), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 99/154 (64%), Positives = 125/154 (81%), Gaps = 1/154 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKT+M+RIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA++IFSPR KL EF+SS
Sbjct: 1   MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALVIFSPRSKLYEFSSS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           S+  TIERY +  K+  N  +  + N Q  + E + + KKIE LE+SKRKLLGEG+ +C+
Sbjct: 61  SIAATIERYQRRIKEIGNNHKRND-NSQQARDETSGLTKKIEQLEISKRKLLGEGIDACS 119

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLK 154
           +EELQQ+E QL++S+S IRA+K Q+  E+I +LK
Sbjct: 120 IEELQQLENQLDRSLSRIRAKKYQLLREEIEKLK 153

Probable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XJ60|MAD50_ORYSJ MADS-box transcription factor 50 OS=Oryza sativa subsp. japonica GN=MADS50 PE=2 SV=1

 Score =  195 bits (495), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 97/156 (62%), Positives = 125/156 (80%), Gaps = 1/156 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQM+RIEN TSRQVTFSKRRNGLLKKAFELSVLCDAEVA+I+FSPRGKL EFAS+
Sbjct: 1   MVRGKTQMKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGKLYEFASA 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           S Q+TIERY  +TK+    +   +Q+++ +K +A  + KK+E LE  KRKLLGE L  C+
Sbjct: 61  STQKTIERYRTYTKENIGNKT-VQQDIEQVKADADGLAKKLEALETYKRKLLGEKLDECS 119

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           +EEL  +E +LE+S+ +IR RK ++  EQ+A+L+EK
Sbjct: 120 IEELHSLEVKLERSLISIRGRKTKLLEEQVAKLREK 155

Probable transcription factor active in flowering time control. May control internode elongation and promote floral transition phase. May act upstream of the floral regulators MADS1, MADS14, MADS15 and MADS18 in the floral induction pathway.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2Z9Q7|MAD56_ORYSI MADS-box transcription factor 56 OS=Oryza sativa subsp. indica GN=MADS56 PE=2 SV=2

 Score =  190 bits (482), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 94/157 (59%), Positives = 127/157 (80%), Gaps = 2/157 (1%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRG+T+++RIEN TSRQVTFSKRRNGLLKKAFELSVLCDAEVA+I+FSPRG+L EFAS+
Sbjct: 1   MVRGRTELKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFASA 60

Query: 61  -SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
            S+Q+TI+RY  +TKD  N +   +Q++Q +K +   + KK+E L+ S+RK+LGE L  C
Sbjct: 61  PSLQKTIDRYKAYTKDHVNNKT-IQQDIQQVKDDTLGLAKKLEALDESRRKILGENLEGC 119

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           ++EEL+ +E +LEKS+ NIR +K ++   QIA+LKEK
Sbjct: 120 SIEELRGLEMKLEKSLHNIRLKKTELLERQIAKLKEK 156

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

>sp|P0C5B2|MAD56_ORYSJ MADS-box transcription factor 56 OS=Oryza sativa subsp. japonica GN=MADS56 PE=2 SV=1

 Score =  183 bits (465), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 92/157 (58%), Positives = 126/157 (80%), Gaps = 2/157 (1%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRG+T+++RIEN TSRQVTFSKRRNGLLKKAFELSVLCDAEVA+I+FSPRG+L EFAS+
Sbjct: 1   MVRGRTELKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFASA 60

Query: 61  -SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
            S+Q+TI+RY  +TKD  N +   +Q++Q +K +   + KK+E L+ S+RK+LGE L   
Sbjct: 61  PSLQKTIDRYKAYTKDHVNNKT-IQQDIQQVKDDTLGLAKKLEALDESRRKILGENLEGF 119

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           ++EEL+ +E +LEKS+  IR +K ++  +QIA+LKEK
Sbjct: 120 SIEELRGLEMKLEKSLHKIRLKKTELLEQQIAKLKEK 156

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q38838|AGL14_ARATH Agamous-like MADS-box protein AGL14 OS=Arabidopsis thaliana GN=AGL14 PE=1 SV=2

 Score =  179 bits (455), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 92/147 (62%), Positives = 117/147 (79%), Gaps = 2/147 (1%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEF-AS 59
           MVRGKT+M+RIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA+IIFSPRGKL EF +S
Sbjct: 1   MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query: 60  SSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
           SS+ +T+ERY K  +D  +  +  + N Q  K E   + +KIE LE+S RK++GEGL + 
Sbjct: 61  SSIPKTVERYQKRIQDLGSNHKRND-NSQQSKDETYGLARKIEHLEISTRKMMGEGLDAS 119

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVF 146
           ++EELQQ+E QL++S+  IRA+K Q+ 
Sbjct: 120 SIEELQQLENQLDRSLMKIRAKKYQLL 146

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q0D4T4|MAD18_ORYSJ MADS-box transcription factor 18 OS=Oryza sativa subsp. japonica GN=MADS18 PE=1 SV=1

 Score =  158 bits (399), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 82/162 (50%), Positives = 120/162 (74%), Gaps = 1/162 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFAS- 59
           M RG  Q+RRIEN  +RQVTFSKRRNGLLKKA E+SVLCDA+VA+I+FS +GKL EF+S 
Sbjct: 1   MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 60  SSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
           SSM+  +ERY +++ D R   +P  ++ ++   E   +  K++ L+ S+R+LLGE L + 
Sbjct: 61  SSMEGILERYQRYSFDERAVLEPNTEDQENWGDEYGILKSKLDALQKSQRQLLGEQLDTL 120

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIK 161
           T++ELQQ+E QLE S+ +IR++KNQ+  E I++L++K   +K
Sbjct: 121 TIKELQQLEHQLEYSLKHIRSKKNQLLFESISELQKKEKSLK 162

Probable transcription factor that may promote floral transition phase and differentiation program of the vegetative shoot.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2YNI2|MAD18_ORYSI MADS-box transcription factor 18 OS=Oryza sativa subsp. indica GN=MADS18 PE=2 SV=2

 Score =  158 bits (399), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 82/162 (50%), Positives = 120/162 (74%), Gaps = 1/162 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFAS- 59
           M RG  Q+RRIEN  +RQVTFSKRRNGLLKKA E+SVLCDA+VA+I+FS +GKL EF+S 
Sbjct: 1   MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 60  SSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
           SSM+  +ERY +++ D R   +P  ++ ++   E   +  K++ L+ S+R+LLGE L + 
Sbjct: 61  SSMEGILERYQRYSFDERAVLEPNTEDQENWGDEYGILKSKLDALQKSQRQLLGEQLDTL 120

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIK 161
           T++ELQQ+E QLE S+ +IR++KNQ+  E I++L++K   +K
Sbjct: 121 TIKELQQLEHQLEYSLKHIRSKKNQLLFESISELQKKEKSLK 162

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q38836|AGL11_ARATH Agamous-like MADS-box protein AGL11 OS=Arabidopsis thaliana GN=AGL11 PE=1 SV=1

 Score =  155 bits (393), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 73/146 (50%), Positives = 114/146 (78%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           M RGK +++RIEN+T+RQVTF KRRNGLLKKA+ELSVLCDAEVA+I+FS RG+L E+A++
Sbjct: 1   MGRGKIEIKRIENSTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYANN 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           +++ TIERY K   D+ N     E N  + + E+A + ++I+ ++ S R L+G+ L+S +
Sbjct: 61  NIRSTIERYKKACSDSTNTSTVQEINAAYYQQESAKLRQQIQTIQNSNRNLMGDSLSSLS 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVF 146
           ++EL+Q+E +LEK++S IR++K+++ 
Sbjct: 121 VKELKQVENRLEKAISRIRSKKHELL 146

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40704|MADS3_ORYSJ MADS-box transcription factor 3 OS=Oryza sativa subsp. japonica GN=MADS3 PE=2 SV=1

 Score =  155 bits (392), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/157 (47%), Positives = 116/157 (73%), Gaps = 1/157 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           M RGK +++RIEN T+RQVTF KRRNGLLKKA+ELSVLCDAEVA+I+FS RG+L E+A++
Sbjct: 1   MGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYANN 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLE-VSKRKLLGEGLASC 119
           S++ T+ERY K   DT N     E N QH + E++ + ++I  L+  + R ++G+ + + 
Sbjct: 61  SVKSTVERYKKANSDTSNSGTVAEVNAQHYQQESSKLRQQISSLQNANSRTIVGDSINTM 120

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           +L +L+Q+E +LEK ++ IRARKN++   ++  ++++
Sbjct: 121 SLRDLKQVENRLEKGIAKIRARKNELLYAEVEYMQKR 157

Probable transcription factor involved in the development of floral organs. Acts as C-class protein in association with MADS58. Involved in the control of lodicule number (whorl 2), stamen specification (whorl 3) and floral meristem determinacy (whorl 4), but not in the regulation of carpel morphogenesis. Plays a more predominant role in controlling lodicule development and in specifying stamen identity than MADS58.

Oryza sativa subsp. japonica (taxid: 39947)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	167
154720967	220	SOC1-like protein 1 [Citrus sinensis]	0.958	0.727	0.981	4e-84
225453843	218	PREDICTED: MADS-box protein SOC1 [Vitis	0.934	0.715	0.847	1e-69
269116072	218	suppressor of overexpression of CO 1 [Vi	0.934	0.715	0.840	1e-68
351726978	209	SOC1 [Glycine max] gi|85720770|gb|ABC758	0.934	0.746	0.814	2e-67
3493647	217	transcription activator [Pimpinella brac	0.934	0.718	0.820	3e-67
346214851	214	SOC1-like protein [Prunus mume]	0.934	0.728	0.816	6e-67
444230588	215	SOC1 [Prunus salicina]	0.934	0.725	0.822	6e-67
308191649	211	suppressor of overexpression of constans	0.934	0.739	0.807	2e-66
226291977	214	SOC1 [Prunus armeniaca] gi|444230590|gb|	0.934	0.728	0.803	2e-66
356532072	211	PREDICTED: MADS-box protein SOC1-like [G	0.934	0.739	0.801	3e-66

>gi|154720967|gb|ABS84659.1| SOC1-like protein 1 [Citrus sinensis]

 Score =  315 bits (807), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 157/160 (98%), Positives = 158/160 (98%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT
Sbjct: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVI 160
           LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK  V+
Sbjct: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKGKVL 160

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453843|ref|XP_002277773.1| PREDICTED: MADS-box protein SOC1 [Vitis vinifera] gi|95116634|gb|ABF56527.1| MADS-box protein [Vitis vinifera] gi|296089122|emb|CBI38825.3| unnamed protein product [Vitis vinifera]

 Score =  267 bits (682), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 133/157 (84%), Positives = 143/157 (91%), Gaps = 1/157 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRRNGL KKAFELSVLCDAEVA+IIFSPRGKL EF+SS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLFKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query: 61  SMQETIERYLKHTKDTR-NKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
           SMQETIERY +HTKD   N  + TE NMQHLKHEAANM KKIELLE+SKRKLLGEGL SC
Sbjct: 61  SMQETIERYQRHTKDVHTNNYKTTEHNMQHLKHEAANMAKKIELLEISKRKLLGEGLGSC 120

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           ++EELQQIE+QLE+SVS+IRARKNQVF EQI QLKEK
Sbjct: 121 SIEELQQIEQQLERSVSSIRARKNQVFKEQIEQLKEK 157

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|269116072|gb|ACZ26527.1| suppressor of overexpression of CO 1 [Vitis vinifera]

 Score =  263 bits (673), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 132/157 (84%), Positives = 142/157 (90%), Gaps = 1/157 (0%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRRNGL KKAFELSVLCDAEVA+IIFSPRGKL EF+SS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLFKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query: 61  SMQETIERYLKHTKDTR-NKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
           SMQETIERY +HTKD   N  + TE NMQ LKHEAANM KKIELLE+SKRKLLGEGL SC
Sbjct: 61  SMQETIERYQRHTKDVHTNNYKTTEHNMQQLKHEAANMAKKIELLEISKRKLLGEGLGSC 120

Query: 120 TLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           ++EELQQIE+QLE+SVS+IRARKNQVF EQI QLKEK
Sbjct: 121 SIEELQQIEQQLERSVSSIRARKNQVFKEQIEQLKEK 157

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351726978|ref|NP_001236377.1| SOC1 [Glycine max] gi|85720770|gb|ABC75835.1| SOC1 [Glycine max]

 Score =  259 bits (662), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 127/156 (81%), Positives = 140/156 (89%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFASS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           SMQ+TIERY +H +  +   +  EQNMQHLK E AN++KKIELLE SKRKLLGEGL SC+
Sbjct: 61  SMQDTIERYRRHNRSAQTVNRSDEQNMQHLKQETANLMKKIELLEASKRKLLGEGLGSCS 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           LEELQQIE+QLE+SVSN+RARKNQV+ EQI QLKEK
Sbjct: 121 LEELQQIEQQLERSVSNVRARKNQVYKEQIDQLKEK 156

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3493647|gb|AAC33475.1| transcription activator [Pimpinella brachycarpa]

 Score =  259 bits (662), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 128/156 (82%), Positives = 138/156 (88%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLHEFASS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           SM ETIERY KHTKD ++   P  QNMQHLKHE A++ KKIELLEVSKRKLLGEGL +C+
Sbjct: 61  SMHETIERYRKHTKDVQSNNTPVVQNMQHLKHETASLAKKIELLEVSKRKLLGEGLGTCS 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           + ELQQIE+QLEKSV  +RARK QVF EQI QLKEK
Sbjct: 121 INELQQIEQQLEKSVCTVRARKMQVFKEQIEQLKEK 156

Source: Pimpinella brachycarpa

Species: Pimpinella brachycarpa

Genus: Pimpinella

Family: Apiaceae

Order: Apiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|346214851|gb|AEO20229.1| SOC1-like protein [Prunus mume]

 Score =  258 bits (659), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 129/158 (81%), Positives = 144/158 (91%), Gaps = 2/158 (1%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRR+GLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIIFSPRGKLYEFASS 60

Query: 61  SMQETIERYLKHTKD--TRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLAS 118
           SMQ TIERY KHTKD  T NK   T+QNMQHLK E+++M+K+IELLEVSKRKLLGEGL S
Sbjct: 61  SMQTTIERYQKHTKDNLTNNKSVSTDQNMQHLKQESSSMMKQIELLEVSKRKLLGEGLGS 120

Query: 119 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           C++EELQ+IE+QLE+SVSN+RARK QVF EQI QL+EK
Sbjct: 121 CSIEELQEIEQQLERSVSNVRARKTQVFKEQIEQLREK 158

Source: Prunus mume

Species: Prunus mume

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|444230588|gb|AGD88523.1| SOC1 [Prunus salicina]

 Score =  258 bits (659), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 130/158 (82%), Positives = 143/158 (90%), Gaps = 2/158 (1%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRR+GLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIIFSPRGKLYEFASS 60

Query: 61  SMQETIERYLKHTKD--TRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLAS 118
           SMQ TIERY KH KD  T NK   T+QNMQHLK E+++M+K+IELLEVSKRKLLGEGL S
Sbjct: 61  SMQTTIERYQKHAKDNHTNNKPVSTDQNMQHLKQESSSMMKQIELLEVSKRKLLGEGLGS 120

Query: 119 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           CT+EELQ+IE+QLE+SVSN+RARK QVF EQI QLKEK
Sbjct: 121 CTIEELQEIEQQLERSVSNVRARKTQVFKEQIEQLKEK 158

Source: Prunus salicina

Species: Prunus salicina

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|308191649|dbj|BAJ22387.1| suppressor of overexpression of constans 1 [Vigna unguiculata]

 Score =  256 bits (655), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 126/156 (80%), Positives = 140/156 (89%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFASS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           SMQETIERY +H +  +   +  EQNMQHLK E AN++KKIELLE SKRKLLGEGL SC+
Sbjct: 61  SMQETIERYRRHNRSAQTVNRSDEQNMQHLKQETANLMKKIELLEASKRKLLGEGLGSCS 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           LEELQQIE+QLE+SVS++RARKNQV+ +QI QLKEK
Sbjct: 121 LEELQQIEQQLERSVSSVRARKNQVYKDQIEQLKEK 156

Source: Vigna unguiculata

Species: Vigna unguiculata

Genus: Vigna

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226291977|gb|ACO40488.1| SOC1 [Prunus armeniaca] gi|444230590|gb|AGD88524.1| SOC1 [Prunus armeniaca]

 Score =  256 bits (654), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 127/158 (80%), Positives = 143/158 (90%), Gaps = 2/158 (1%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQMRRIENATSRQVTFSKRR+GLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQMRRIENATSRQVTFSKRRSGLLKKAFELSVLCDAEVALIIFSPRGKLYEFASS 60

Query: 61  SMQETIERYLKHTKD--TRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLAS 118
           SMQ TIERY KHTKD  T NK   T+QNMQHLK E+++M+K+IE LE+SKRKLLGEGL S
Sbjct: 61  SMQTTIERYQKHTKDNLTNNKSVSTDQNMQHLKQESSSMMKQIEFLEISKRKLLGEGLGS 120

Query: 119 CTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           C++EELQ+IE+QLE+SVSN+RARK QVF EQI QL+EK
Sbjct: 121 CSIEELQEIEQQLERSVSNVRARKTQVFKEQIEQLREK 158

Source: Prunus armeniaca

Species: Prunus armeniaca

Genus: Prunus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356532072|ref|XP_003534598.1| PREDICTED: MADS-box protein SOC1-like [Glycine max]

 Score =  256 bits (653), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 125/156 (80%), Positives = 140/156 (89%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           MVRGKTQ+RRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA+IIFSPRGKL EFASS
Sbjct: 1   MVRGKTQLRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFASS 60

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
           SMQ+TIERY +H +  +   +  EQNMQHLK E AN++KKIELLE SKRKLLGEGL SC+
Sbjct: 61  SMQDTIERYRRHNRSAQTVNRSDEQNMQHLKQETANLMKKIELLEASKRKLLGEGLGSCS 120

Query: 121 LEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEK 156
           LEELQQIE+QLE+SVS++RARKNQV+ EQI QLKEK
Sbjct: 121 LEELQQIEQQLERSVSSVRARKNQVYKEQIDQLKEK 156

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	167
TAIR|locus:2005522	214	AGL20 "AT2G45660" [Arabidopsis	0.934	0.728	0.717	1.5e-53
UNIPROTKB|Q9ATE3	215	FBP28 "MADS-box transcription	0.958	0.744	0.664	4.1e-49
UNIPROTKB|Q9ATE9	216	FBP20 "MADS-box transcription	0.916	0.708	0.694	1.8e-48
TAIR|locus:505006709	210	AGL42 "AGAMOUS-like 42" [Arabi	0.934	0.742	0.583	1e-43
TAIR|locus:2127213	219	AGL19 "AGAMOUS-like 19" [Arabi	0.958	0.730	0.574	5.2e-42
TAIR|locus:2137070	221	AGL14 "AGAMOUS-like 14" [Arabi	0.928	0.701	0.566	7.8e-39
TAIR|locus:2165386	211	AGL72 "AGAMOUS-like 72" [Arabi	0.964	0.763	0.487	1.9e-35
UNIPROTKB|Q40885	242	AG1 "Floral homeotic protein A	0.922	0.636	0.467	9.8e-32
TAIR|locus:2140578	256	STK "AT4G09960" [Arabidopsis t	0.928	0.605	0.452	3.3e-31
UNIPROTKB|Q0D4T4	249	MADS18 "MADS-box transcription	0.964	0.646	0.456	4.2e-31

TAIR|locus:2005522 AGL20 "AT2G45660" [Arabidopsis thaliana (taxid:3702)]

 Score = 554 (200.1 bits), Expect = 1.5e-53, P = 1.5e-53
 Identities = 112/156 (71%), Positives = 130/156 (83%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGKTQM+RIENATSRQVTFSKRRNGLLKKAFELSVLCDAEV++IIFSP+GKL EFASS
Sbjct:     1 MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSPKGKLYEFASS 60

Query:    61 SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
             +MQ+TI+RYL+HTKD  + +  +E+NMQHLK+EAANM+KKIE LE SKRKLLGEG+ +C+
Sbjct:    61 NMQDTIDRYLRHTKDRVSTKPVSEENMQHLKYEAANMMKKIEQLEASKRKLLGEGIGTCS 120

Query:   121 XXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEK 156
                         KSV  IRARK QVF EQI QLK+K
Sbjct:   121 IEELQQIEQQLEKSVKCIRARKTQVFKEQIEQLKQK 156

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

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

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

GO:0009911 "positive regulation of flower development" evidence=IMP

GO:0009908 "flower development" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0008134 "transcription factor binding" evidence=IPI

GO:0009409 "response to cold" evidence=IEP

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

GO:0000060 "protein import into nucleus, translocation" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0009739 "response to gibberellin stimulus" evidence=IEP

GO:0010077 "maintenance of inflorescence meristem identity" evidence=IGI

GO:0010048 "vernalization response" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

UNIPROTKB|Q9ATE3 FBP28 "MADS-box transcription factor FBP28" [Petunia x hybrida (taxid:4102)]

 Score = 512 (185.3 bits), Expect = 4.1e-49, P = 4.1e-49
 Identities = 107/161 (66%), Positives = 128/161 (79%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEV++IIFS RGKL EF+SS
Sbjct:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSTRGKLYEFSSS 60

Query:    61 SMQETIERYLKHTKDTRNKQQPTEQN-MQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
             SMQE IERY +H++D + ++   EQN MQ+LK +AA+++KKIE+LE SKRKLLGE L SC
Sbjct:    61 SMQEIIERYRRHSEDVQGEKPAVEQNNMQNLKLDAASLMKKIEILETSKRKLLGEDLGSC 120

Query:   120 TXXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEKVSVI 160
             +            +S+S IRARK +VF EQI +LK  V V+
Sbjct:   121 SLEELQQIEKQLERSISTIRARKMEVFREQIERLKGNVKVL 161

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q9ATE9 FBP20 "MADS-box transcription factor FBP20" [Petunia x hybrida (taxid:4102)]

 Score = 506 (183.2 bits), Expect = 1.8e-48, P = 1.8e-48
 Identities = 109/157 (69%), Positives = 120/157 (76%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDA+V ++IFSPRGK  EF+SS
Sbjct:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAQVGLVIFSPRGKQYEFSSS 60

Query:    61 SMQETIERYLKHTKD-TRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
             SMQE IERY  HTKD  + + Q  EQN+QH   E A ++KKIE LE SKRKLLGEGL SC
Sbjct:    61 SMQEIIERYKGHTKDKVQTENQAGEQNLQH---ETAGLMKKIEFLETSKRKLLGEGLGSC 117

Query:   120 TXXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEK 156
             T            +SVS IRARK QVF EQI +L EK
Sbjct:   118 TLEELQKIEKQLERSVSIIRARKMQVFKEQIEKLNEK 154

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:505006709 AGL42 "AGAMOUS-like 42" [Arabidopsis thaliana (taxid:3702)]

 Score = 461 (167.3 bits), Expect = 1.0e-43, P = 1.0e-43
 Identities = 91/156 (58%), Positives = 119/156 (76%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGK +M++IENATSRQVTFSKRRNGLLKKA+ELSVLCDA++++IIFS RG+L EF+SS
Sbjct:     1 MVRGKIEMKKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSSS 60

Query:    61 SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
              MQ+TIERY K+TKD       ++ ++Q LK EA++M+ KIELLE  KRKLLG+G+ASC+
Sbjct:    61 DMQKTIERYRKYTKDHETSNHDSQIHLQQLKQEASHMITKIELLEFHKRKLLGQGIASCS 120

Query:   121 XXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEK 156
                         +S+  +R RK Q+F EQ+ +LK K
Sbjct:   121 LEELQEIDSQLQRSLGKVRERKAQLFKEQLEKLKAK 156

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009909 "regulation of flower development" evidence=IMP

GO:0009838 "abscission" evidence=IMP

GO:0010150 "leaf senescence" evidence=IMP

GO:0080187 "floral organ senescence" evidence=IMP

GO:0010048 "vernalization response" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2127213 AGL19 "AGAMOUS-like 19" [Arabidopsis thaliana (taxid:3702)]

 Score = 445 (161.7 bits), Expect = 5.2e-42, P = 5.2e-42
 Identities = 93/162 (57%), Positives = 120/162 (74%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGKT+M+RIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA++IFSPR KL EF+SS
Sbjct:     1 MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALVIFSPRSKLYEFSSS 60

Query:    61 SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
             S+  TIERY +  K+  N  +  + N Q  + E + + KKIE LE+SKRKLLGEG+ +C+
Sbjct:    61 SIAATIERYQRRIKEIGNNHKRND-NSQQARDETSGLTKKIEQLEISKRKLLGEGIDACS 119

Query:   121 XXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLK-EKVSVIK 161
                         +S+S IRA+K Q+  E+I +LK E+ +++K
Sbjct:   120 IEELQQLENQLDRSLSRIRAKKYQLLREEIEKLKAEERNLVK 161

GO:0003677 "DNA binding" evidence=IEA

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

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

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0010048 "vernalization response" evidence=RCA;IMP

GO:0048510 "regulation of timing of transition from vegetative to reproductive phase" evidence=IMP

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

TAIR|locus:2137070 AGL14 "AGAMOUS-like 14" [Arabidopsis thaliana (taxid:3702)]

 Score = 415 (151.1 bits), Expect = 7.8e-39, P = 7.8e-39
 Identities = 89/157 (56%), Positives = 113/157 (71%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGKT+M+RIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVA+IIFSPRGKL EF+SS
Sbjct:     1 MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query:    61 S-MQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
             S + +T+ERY K  +D  +  +  + N Q  K E   + +KIE LE+S RK++GEGL + 
Sbjct:    61 SSIPKTVERYQKRIQDLGSNHKRND-NSQQSKDETYGLARKIEHLEISTRKMMGEGLDAS 119

Query:   120 TXXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEK 156
             +            +S+  IRA+K Q+  E+  +LKEK
Sbjct:   120 SIEELQQLENQLDRSLMKIRAKKYQLLREETEKLKEK 156

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

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0010048 "vernalization response" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2165386 AGL72 "AGAMOUS-like 72" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 79/162 (48%), Positives = 112/162 (69%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             MVRGK ++++IEN TSRQVTFSKRR+GL KKA ELSVLCDA+VA +IFS +G+L EFASS
Sbjct:     1 MVRGKIEIKKIENVTSRQVTFSKRRSGLFKKAHELSVLCDAQVAAMIFSQKGRLYEFASS 60

Query:    61 SMQETIERYLKHTKDTRNKQ-QPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
              ++ TI+RY ++ ++    +  P EQ +Q LK E   MVKKIE+LEV  RK++G+ L SC
Sbjct:    61 DIRNTIKRYAEYKREYFVAETHPIEQYVQGLKKEMVTMVKKIEVLEVHNRKMMGQSLDSC 120

Query:   120 TXXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEKVSVIK 161
             +            KS+  +R RK +++ +++ +LK K   +K
Sbjct:   121 SVKELSEIATQIEKSLHMVRLRKAKLYEDELQKLKAKERELK 162

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009909 "regulation of flower development" evidence=IMP

GO:0010048 "vernalization response" evidence=RCA

GO:0043481 "anthocyanin accumulation in tissues in response to UV light" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

UNIPROTKB|Q40885 AG1 "Floral homeotic protein AGAMOUS" [Petunia x hybrida (taxid:4102)]

 Score = 348 (127.6 bits), Expect = 9.8e-32, P = 9.8e-32
 Identities = 72/154 (46%), Positives = 102/154 (66%)

Query:     3 RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
             RGK +++RIEN T+RQVTF KRRNGLLKKA+ELSVLCDAEVA+I+FS RG+L E+A++S+
Sbjct:    19 RGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYANNSV 78

Query:    63 QETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTXX 122
             + TIERY K   D+ N     E N Q+ + EA+ +  +I  L+   R  LGE LA+    
Sbjct:    79 KATIERYKKACSDSSNTGSIAEANAQYYQQEASKLRAQIGNLQNQNRNFLGESLAALNLR 138

Query:   123 XXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEK 156
                       K +S IRA+KN++   +I  ++++
Sbjct:   139 DLRNLEQKIEKGISKIRAKKNELLFAEIEYMQKR 172

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2140578 STK "AT4G09960" [Arabidopsis thaliana (taxid:3702)]

 Score = 343 (125.8 bits), Expect = 3.3e-31, P = 3.3e-31
 Identities = 71/157 (45%), Positives = 109/157 (69%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             M RGK +++RIEN+T+RQVTF KRRNGLLKKA+ELSVLCDAEVA+I+FS RG+L E+A++
Sbjct:    27 MGRGKIEIKRIENSTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYANN 86

Query:    61 SMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT 120
             +++ TIERY K   D+ N     E N  + + E+A + ++I+ ++ S R L+G+ L+S +
Sbjct:    87 NIRSTIERYKKACSDSTNTSTVQEINAAYYQQESAKLRQQIQTIQNSNRNLMGDSLSSLS 146

Query:   121 XXXXXXXXXXXXKSVSNIRARKNQVFNEQI--AQLKE 155
                         K++S IR++K+++   +I  AQ +E
Sbjct:   147 VKELKQVENRLEKAISRIRSKKHELLLVEIENAQKRE 183

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0048440 "carpel development" evidence=IMP

GO:0048481 "ovule development" evidence=IGI;RCA;IMP

GO:0048316 "seed development" evidence=IGI

GO:0080155 "regulation of double fertilization forming a zygote and endosperm" evidence=IGI

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0009886 "post-embryonic morphogenesis" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

UNIPROTKB|Q0D4T4 MADS18 "MADS-box transcription factor 18" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 74/162 (45%), Positives = 109/162 (67%)

Query:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFAS- 59
             M RG  Q+RRIEN  +RQVTFSKRRNGLLKKA E+SVLCDA+VA+I+FS +GKL EF+S 
Sbjct:     1 MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query:    60 SSMQETIERYLKHTKDTRNKQQPTEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASC 119
             SSM+  +ERY +++ D R   +P  ++ ++   E   +  K++ L+ S+R+LLGE L + 
Sbjct:    61 SSMEGILERYQRYSFDERAVLEPNTEDQENWGDEYGILKSKLDALQKSQRQLLGEQLDTL 120

Query:   120 TXXXXXXXXXXXXKSVSNIRARKNQVFNEQIAQLKEKVSVIK 161
             T             S+ +IR++KNQ+  E I++L++K   +K
Sbjct:   121 TIKELQQLEHQLEYSLKHIRSKKNQLLFESISELQKKEKSLK 162

GO:0005515 "protein binding" evidence=IPI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9XJ60	MAD50_ORYSJ	No assigned EC number	0.6217	0.9281	0.6739	yes	no
O64645	SOC1_ARATH	No assigned EC number	0.7820	0.9341	0.7289	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	MADS8	SubName- Full=MADS-box protein (Chromosome chr15 scaffold_37, whole genome shotgun sequence); (218 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	TFL1	SubName- Full=Chromosome undetermined scaffold_87, whole genome shotgun sequence; (173 aa)							•		0.483
	PHYA	SubName- Full=Putative uncharacterized protein (Chromosome chr14 scaffold_27, whole genome shot [...] (1124 aa)							•		0.483
	FT	SubName- Full=Flowering locus T-like protein (FT-like protein) (Putative uncharacterized protei [...] (174 aa)							•		0.483
	PHYB	SubName- Full=Chromosome chr5 scaffold_64, whole genome shotgun sequence; (1130 aa)							•		0.481
	GSVIVG00015048001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (359 aa)							•		0.481
	GSVIVG00038466001	SubName- Full=Chromosome chr16 scaffold_94, whole genome shotgun sequence; (762 aa)							•		0.480

---

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	167
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	9e-43
smart00432	59	smart00432, MADS, MADS domain	6e-31
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	3e-30
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	2e-26
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	4e-22
pfam01486	100	pfam01486, K-box, K-box region	3e-20
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	1e-10

>gnl|CDD|238165 cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators

 Score =  136 bits (345), Expect = 9e-43
 Identities = 52/73 (71%), Positives = 62/73 (84%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          RGK +++RIEN+T+RQVTFSKRRNGLLKKA ELSVLCDAEVA+IIFS  GKL EF+S SM
Sbjct: 2  RGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSM 61

Query: 63 QETIERYLKHTKD 75
          ++ IERY K +  
Sbjct: 62 EKIIERYQKTSGS 74

Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi. Length = 77

>gnl|CDD|197721 smart00432, MADS, MADS domain

 Score =  106 bits (266), Expect = 6e-31
 Identities = 44/58 (75%), Positives = 50/58 (86%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
          R K +++RIEN T+RQVTFSKRRNGL KKA ELSVLCDAEVA+I+FSP GKL EFAS 
Sbjct: 2  RRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59

Length = 59

>gnl|CDD|238067 cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators

 Score =  104 bits (262), Expect = 3e-30
 Identities = 47/58 (81%), Positives = 51/58 (87%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
          RGK +++RIEN TSRQVTFSKRRNGL KKA ELSVLCDAEVAVI+FSP GKL EF SS
Sbjct: 2  RGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59

Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi. Length = 59

>gnl|CDD|238166 cd00266, MADS_SRF_like, SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators

 Score = 95.4 bits (238), Expect = 2e-26
 Identities = 42/78 (53%), Positives = 50/78 (64%), Gaps = 1/78 (1%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K +++RIEN   R VTFSKRR GL KKA ELS LC AEVAVI++SP GKL  F  SS 
Sbjct: 2  RKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSE 61

Query: 63 -QETIERYLKHTKDTRNK 79
           +  I R+   +   R K
Sbjct: 62 VEGVISRFEVLSALERKK 79

Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi. Length = 83

>gnl|CDD|109379 pfam00319, SRF-TF, SRF-type transcription factor (DNA-binding and dimerisation domain)

 Score = 83.6 bits (207), Expect = 4e-22
 Identities = 39/51 (76%), Positives = 45/51 (88%)

Query: 9  RRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFAS 59
          +RIEN ++RQVTFSKRRNG+ KKA ELSVLCDAEVAVIIFS  GKL E++S
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYSS 51

Length = 51

>gnl|CDD|216525 pfam01486, K-box, K-box region

 Score = 79.9 bits (198), Expect = 3e-20
 Identities = 33/73 (45%), Positives = 52/73 (71%)

Query: 84  EQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKN 143
           E   ++L+ EAA + K+ E L+  +R LLGE L S +L+ELQQ+E+QLE  + +IR+RKN
Sbjct: 11  ESKYENLQQEAAKLKKQNENLQREQRHLLGEDLGSLSLKELQQLEQQLENGLKHIRSRKN 70

Query: 144 QVFNEQIAQLKEK 156
           ++   QI +L++K
Sbjct: 71  ELLLNQIEELQKK 83

The K-box region is commonly found associated with SRF-type transcription factors see pfam00319. The K-box is a possible coiled-coil structure. Possible role in multimer formation. Length = 100

>gnl|CDD|227400 COG5068, ARG80, Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]

 Score = 58.5 bits (141), Expect = 1e-10
 Identities = 26/66 (39%), Positives = 39/66 (59%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
           +   K  +  I N T R VTFSKR++G+ KKAFELSVL   EV +++ S  G +  F + 
Sbjct: 81  VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP 140

Query: 61  SMQETI 66
            ++  +
Sbjct: 141 KLESVV 146

Length = 412

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	167
KOG0014	195	consensus MADS box transcription factor [Transcrip	100.0
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	100.0
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.97
smart00432	59	MADS MADS domain.	99.97
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.96
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.94
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.84
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	99.71
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.51
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	89.19
PRK04098	158	sec-independent translocase; Provisional	86.65
PF06698	59	DUF1192: Protein of unknown function (DUF1192); In	86.49
PF05812	118	Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro:	81.37

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=100.00  E-value=6.5e-39  Score=242.58  Aligned_cols=164  Identities=46%  Similarity=0.639  Sum_probs=134.3

Q ss_pred             CCccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCch--hHHHHHHHhhccccccC
Q 031002            1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSS--MQETIERYLKHTKDTRN   78 (167)
Q Consensus         1 M~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~--v~~Vl~RY~~~~~~~~~   78 (167)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||+|||||+|++|+|++|+  +.+|++||...+.....
T Consensus         1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~   80 (195)
T KOG0014|consen    1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK   80 (195)
T ss_pred             CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence            9999999999999999999999999999999999999999999999999999999999985  99999999998776655


Q ss_pred             CCCCchhh---------------H-----HHHHHHHHHHHHHHHHHHH---HHHHhcCCCCCCCCH-HHHHHHHHHHHHH
Q 031002           79 KQQPTEQN---------------M-----QHLKHEAANMVKKIELLEV---SKRKLLGEGLASCTL-EELQQIERQLEKS  134 (167)
Q Consensus        79 ~~~~~~~~---------------~-----e~l~~e~~kl~k~~~~l~~---~~r~~~g~~l~~ls~-~eL~~Le~~Le~~  134 (167)
                      +.......               .     .........+....+.+..   ..+++.++++.+++. .+|..++..|+..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~  160 (195)
T KOG0014|consen   81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS  160 (195)
T ss_pred             ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence            44331111               0     1122334444555555443   367789999999999 9999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHhh
Q 031002          135 VSNIRARKNQVFNEQIA-QLKEKVSVIKICF  164 (167)
Q Consensus       135 L~~Ir~rk~~ll~~~~~-~l~~k~~~l~~~~  164 (167)
                      +..++..+...+.+++. .++.....+..+|
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (195)
T KOG0014|consen  161 LHNSRSSKSKPLSDSNFQVLQEKEKSLEAEN  191 (195)
T ss_pred             hcCCCCCCCcCCcchhhhhhcccchhccccC
Confidence            99999999988888876 7777776666554

>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators

Probab=100.00  E-value=1.4e-35  Score=192.45  Aligned_cols=75  Identities=69%  Similarity=0.992  Sum_probs=72.7

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhccccc
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDT   76 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~~~~~   76 (167)
                      ||+||+|++|+|+.+|++||+||++||||||+|||+||||+||+|||||+|++|+|++|++.+||+||.+.+...
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~~~   75 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSS   75 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhccccc
Confidence            899999999999999999999999999999999999999999999999999999999999999999999987654

Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.

>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators

Probab=99.97  E-value=8.3e-33  Score=181.97  Aligned_cols=79  Identities=53%  Similarity=0.738  Sum_probs=74.0

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCch-hHHHHHHHhhccccccCCC
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSS-MQETIERYLKHTKDTRNKQ   80 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~-v~~Vl~RY~~~~~~~~~~~   80 (167)
                      ||+||+|++|+|+++|++||+||+.||||||+||||||||+||+|||||+|+.+.|++++ +..++++|...+...+...
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   80 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALERKKK   80 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhhhcc
Confidence            799999999999999999999999999999999999999999999999999999987775 9999999999888766544

Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.

>smart00432 MADS MADS domain

Probab=99.97  E-value=9.8e-32  Score=164.95  Aligned_cols=59  Identities=75%  Similarity=1.058  Sum_probs=58.0

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCc
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS   60 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp   60 (167)
                      ||+||+|++|+|+++|++||+||+.||||||+|||+||||+||+|||||+|++|.|++|
T Consensus         1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p   59 (59)
T smart00432        1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP   59 (59)
T ss_pred             CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence            89999999999999999999999999999999999999999999999999999999887

>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators

Probab=99.96  E-value=4.7e-31  Score=162.07  Aligned_cols=59  Identities=80%  Similarity=1.078  Sum_probs=57.7

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCc
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS   60 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp   60 (167)
                      ||+||+|++|+|+..|++||+||++||||||+|||+||||+||+|||||+|+++.|++|
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~   59 (59)
T cd00120           1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS   59 (59)
T ss_pred             CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence            79999999999999999999999999999999999999999999999999999999876

Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.

>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation

Probab=99.94  E-value=2.6e-29  Score=149.41  Aligned_cols=51  Identities=63%  Similarity=0.991  Sum_probs=47.0

Q ss_pred             eeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccC
Q 031002            9 RRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFAS   59 (167)
Q Consensus         9 k~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~s   59 (167)
                      |+|+|++.|++||+||+.||||||.|||+||||+||+|||||+|++|+|||
T Consensus         1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s   51 (51)
T PF00319_consen    1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS   51 (51)
T ss_dssp             S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred             CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence            589999999999999999999999999999999999999999999999986

SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....

>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]

Probab=99.84  E-value=4.8e-22  Score=154.65  Aligned_cols=65  Identities=42%  Similarity=0.618  Sum_probs=61.4

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHH
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETI   66 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl   66 (167)
                      ||+||+|+||+|+..|++||+|||.||||||+|||||+|.+|-|+|.|..|.+|+|+.|.++.||
T Consensus        63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i  127 (338)
T KOG0015|consen   63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMI  127 (338)
T ss_pred             ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccc
Confidence            79999999999999999999999999999999999999999999999999999999998655444

>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development

Probab=99.71  E-value=2e-16  Score=107.75  Aligned_cols=83  Identities=37%  Similarity=0.519  Sum_probs=79.9

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031002           84 EQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIKIC  163 (167)
Q Consensus        84 ~~~~e~l~~e~~kl~k~~~~l~~~~r~~~g~~l~~ls~~eL~~Le~~Le~~L~~Ir~rk~~ll~~~~~~l~~k~~~l~~~  163 (167)
                      ..+.+.++.++.+++.+++.++..+|++.|+++++||++||..||..|+.+|..||+||.+++.+++..|++|++.|.++
T Consensus        11 ~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~e   90 (100)
T PF01486_consen   11 DSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEE   90 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56688899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcc
Q 031002          164 FSV  166 (167)
Q Consensus       164 ~~~  166 (167)
                      |..
T Consensus        91 n~~   93 (100)
T PF01486_consen   91 NNQ   93 (100)
T ss_pred             HHH
Confidence            963

The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus

>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]

Probab=99.51  E-value=4.9e-15  Score=120.40  Aligned_cols=66  Identities=39%  Similarity=0.621  Sum_probs=62.6

Q ss_pred             CCccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHH
Q 031002            1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETI   66 (167)
Q Consensus         1 M~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl   66 (167)
                      |||+|+.|.+|+|+.+|.|||+||+.||+|||.||++|.|.+|.++|.|.+|.++.|+.|..+.|+
T Consensus        81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~  146 (412)
T COG5068          81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVV  146 (412)
T ss_pred             cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCcccccc
Confidence            789999999999999999999999999999999999999999999999999999999998655554

>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3

Probab=89.19  E-value=0.12  Score=25.42  Aligned_cols=14  Identities=36%  Similarity=0.707  Sum_probs=10.9

Q ss_pred             eeeeeecCCCcccc
Q 031002           43 VAVIIFSPRGKLSE   56 (167)
Q Consensus        43 v~livfsp~gk~~~   56 (167)
                      -.+.+|||+|+++.
T Consensus         3 ~~~t~FSp~Grl~Q   16 (23)
T PF10584_consen    3 RSITTFSPDGRLFQ   16 (23)
T ss_dssp             SSTTSBBTTSSBHH
T ss_pred             CCceeECCCCeEEe
Confidence            34668999999873

4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....

>PRK04098 sec-independent translocase; Provisional

Probab=86.65  E-value=0.86  Score=33.37  Aligned_cols=81  Identities=25%  Similarity=0.331  Sum_probs=44.7

Q ss_pred             ceeeeeecCCCccccccCchhHHHHHHHhhccccccCCCCC-chhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 031002           42 EVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQQP-TEQNMQHLKHEAANMVKKIELLEVSKRKLLGEGLASCT  120 (167)
Q Consensus        42 ~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~~~~~~~~~~~-~~~~~e~l~~e~~kl~k~~~~l~~~~r~~~g~~l~~ls  120 (167)
                      =||+|||||. +++..+. .+...+..|++.....+.  .. .+-++..++.+..+.++.++.....++       ..++
T Consensus        14 vVaLlvfGP~-KLP~~~r-~lGk~ir~~K~~~~~~k~--~l~~Ei~~~elk~e~~k~k~~l~~~~~~l~-------~~~~   82 (158)
T PRK04098         14 VVAIIFLGPD-KLPQAMV-DIAKFFKAVKKTINDAKS--TLDKEINIEEIKEEALKYKKEFESAVESLK-------KKLK   82 (158)
T ss_pred             HHHHhhcCch-HHHHHHH-HHHHHHHHHHHHHHHHHH--HHHHHHhhHHHHHHHHHHHHHHHHHHHHHH-------hccC
Confidence            4789999996 4553322 344445555554332211  00 012344566677777766666655554       2267


Q ss_pred             HHHHHHHHHHHHH
Q 031002          121 LEELQQIERQLEK  133 (167)
Q Consensus       121 ~~eL~~Le~~Le~  133 (167)
                      +++|.++...+..
T Consensus        83 ~eel~~~~~~~~~   95 (158)
T PRK04098         83 FEELDDLKITAEN   95 (158)
T ss_pred             hHHHHHHhhhhhh
Confidence            7787777655544

>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length

Probab=86.49  E-value=2  Score=26.21  Aligned_cols=34  Identities=26%  Similarity=0.369  Sum_probs=28.6

Q ss_pred             HhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 031002          110 KLLGEGLASCTLEELQQIERQLEKSVSNIRARKN  143 (167)
Q Consensus       110 ~~~g~~l~~ls~~eL~~Le~~Le~~L~~Ir~rk~  143 (167)
                      +..|.+|+.||++||.+-...|+.-+.+++.-..
T Consensus        12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~   45 (59)
T PF06698_consen   12 HEIGEDLSLLSVEELEERIALLEAEIARLEAAIA   45 (59)
T ss_pred             cccCCCchhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3468899999999999999999988888876543

The function of this family is unknown.

>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins

Probab=81.37  E-value=16  Score=25.50  Aligned_cols=59  Identities=15%  Similarity=0.126  Sum_probs=45.4

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHhcC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 031002           85 QNMQHLKHEAANMVKKIELLEVSKRKLLG----EGLASCTLEELQQIERQLEKSVSNIRARKN  143 (167)
Q Consensus        85 ~~~e~l~~e~~kl~k~~~~l~~~~r~~~g----~~l~~ls~~eL~~Le~~Le~~L~~Ir~rk~  143 (167)
                      ..++.|..++.+|+-++..|+..++.-.|    ++-.-|+..+=+.+....-.+|.+.-.+|-
T Consensus         3 ~t~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~KI   65 (118)
T PF05812_consen    3 MTMEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKKI   65 (118)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHHH
Confidence            35778999999999999999988888777    667779999999999888888887776663

; PDB: 2OA5_B 2H3R_D.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	167
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		2e-15
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		3e-15
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		3e-15
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		5e-15
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		8e-15
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		1e-14
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		3e-09
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		1e-07
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		2e-07

>pdb|3KOV|A Chain A, Structure Of Mef2a Bound To Dna Reveals A Completely Folded Mads-BoxMEF2 DOMAIN THAT RECOGNIZES DNA AND RECRUITS Transcription Co-Factors Length = 90

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 53/70 (75%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
           + + +Y ++
Sbjct: 62 DKVLLKYTEY 71

>pdb|3MU6|A Chain A, Inhibiting The Binding Of Class Iia Histone Deacetylases To Myocyte Enhancer Factor-2 By Small Molecules Length = 71

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 52/70 (74%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
           + + +Y  +
Sbjct: 62 DKVLLKYTAY 71

>pdb|1EGW|A Chain A, Crystal Structure Of Mef2a Core Bound To Dna Length = 77

Iteration: 1
 Score = 77.8 bits (190), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 53/70 (75%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
           + + +Y ++
Sbjct: 62 DKVLLKYTEY 71

>pdb|1TQE|P Chain P, Mechanism Of Recruitment Of Class Ii Histone Deacetylases By Myocyte Enhancer Factor-2 Length = 93

Iteration: 1
 Score = 77.0 bits (188), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 35/74 (47%), Positives = 55/74 (74%)
Query: 1  MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
          M R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   +L ++AS+
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 SMQETIERYLKHTK 74
           M   + +Y ++++
Sbjct: 61 DMDRVLLKYTEYSE 74

>pdb|1C7U|A Chain A, Complex Of The Dna Binding Core Domain Of The Transcription Factor Mef2a With A 20mer Oligonucleotide Length = 85

Iteration: 1
 Score = 76.3 bits (186), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 35/70 (50%), Positives = 53/70 (75%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVL DAE+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTDM 61
Query: 63 QETIERYLKH 72
           + + +Y ++
Sbjct: 62 DKVLLKYTEY 71

>pdb|1N6J|A Chain A, Structural Basis Of Sequence-Specific Recruitment Of Histone Deacetylases By Myocyte Enhancer Factor-2 Length = 93

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 34/72 (47%), Positives = 54/72 (75%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   +L ++AS+ M
Sbjct: 2  RKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDM 61
Query: 63 QETIERYLKHTK 74
             + +Y ++++
Sbjct: 62 DRVLLKYTEYSE 73

>pdb|1MNM|A Chain A, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX Crystal Structure Length = 100

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 43/64 (67%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K +++ IEN T R VTFSKR++G++KKAFELSVL   +V +++ S  G +  F++   
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 QETI 66
          +  +
Sbjct: 78 EPIV 81

>pdb|1SRS|A Chain A, Serum Response Factor (Srf) Core Complexed With Specific Sre Dna Length = 92

Iteration: 1
 Score = 52.4 bits (124), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 39/64 (60%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K +M  I+N   R  TFSKR+ G++KKA+ELS L   +V +++ S  G +  FA+  +
Sbjct: 12 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 71
Query: 63 QETI 66
          Q  I
Sbjct: 72 QPMI 75

>pdb|1K6O|B Chain B, Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dna Complex Length = 103

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/64 (40%), Positives = 39/64 (60%)
Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K +M  I+N   R  TFSKR+ G++KKA+ELS L   +V +++ S  G +  FA+  +
Sbjct: 11 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 70
Query: 63 QETI 66
          Q  I
Sbjct: 71 QPMI 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	167
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	3e-41
1egw_A	77	MADS box transcription enhancer factor 2, polypept	1e-39
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	1e-38
1hbx_A	92	SRF, serum response factor; gene regulation, trans	2e-38
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	1e-37

>3p57_A Myocyte-specific enhancer factor 2A; protein-DNA complex, transcription factor, transcriptional activation, zinc finger; HET: DNA; 2.19A {Homo sapiens} PDB: 3kov_A* 1tqe_P 1n6j_A Length = 90

 Score =  132 bits (335), Expect = 3e-41
 Identities = 36/89 (40%), Positives = 58/89 (65%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 QETIERYLKHTKDTRNKQQPTEQNMQHLK 91
           + + +Y ++ +   ++         + K
Sbjct: 62 DKVLLKYTEYNEPHESRTNSDIVEALNKK 90

>1egw_A MADS box transcription enhancer factor 2, polypeptide A; MADS-box transcription factor, DNA/protein complex, transcription/DNA; HET: DNA; 1.50A {Homo sapiens} SCOP: d.88.1.1 PDB: 1c7u_A 3mu6_A* Length = 77

 Score =  127 bits (322), Expect = 1e-39
 Identities = 35/73 (47%), Positives = 54/73 (73%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 QETIERYLKHTKD 75
           + + +Y ++ + 
Sbjct: 62 DKVLLKYTEYNEP 74

>1mnm_A Protein (MCM1 transcriptional regulator); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: d.88.1.1 Length = 100

 Score =  126 bits (317), Expect = 1e-38
 Identities = 28/85 (32%), Positives = 47/85 (55%)

Query: 1   MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
             R K +++ IEN T R VTFSKR++G++KKAFELSVL   +V +++ S  G +  F++ 
Sbjct: 16  KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61  SMQETIERYLKHTKDTRNKQQPTEQ 85
             +  + +             P ++
Sbjct: 76  KFEPIVTQQEGRNLIQACLNAPDDE 100

>1hbx_A SRF, serum response factor; gene regulation, transcription complex; 3.15A {Homo sapiens} SCOP: d.88.1.1 PDB: 1srs_A* Length = 92

 Score =  125 bits (316), Expect = 2e-38
 Identities = 27/82 (32%), Positives = 40/82 (48%)

Query: 1  MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
            R K +M  I+N   R  TFSKR+ G++KKA+ELS L   +V +++ S  G +  FA+ 
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 SMQETIERYLKHTKDTRNKQQP 82
           +Q  I               P
Sbjct: 70 KLQPMITSETGKALIQTCLNSP 91

>1k6o_B SRF, serum response factor; protein/DNA complex, transcription factor, combinatorial gene regulation, ETS proteins, MADS-box proteins; 3.19A {Homo sapiens} SCOP: d.88.1.1 Length = 103

 Score =  123 bits (311), Expect = 1e-37
 Identities = 27/82 (32%), Positives = 40/82 (48%)

Query: 1  MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASS 60
            R K +M  I+N   R  TFSKR+ G++KKA+ELS L   +V +++ S  G +  FA+ 
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 SMQETIERYLKHTKDTRNKQQP 82
           +Q  I               P
Sbjct: 69 KLQPMITSETGKALIQTCLNSP 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	167
1egw_A	77	MADS box transcription enhancer factor 2, polypept	100.0
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	100.0
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	100.0
1hbx_A	92	SRF, serum response factor; gene regulation, trans	100.0
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	100.0
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	85.41
1j1d_C	133	Troponin I, TNI; THIN filament, muscle regulation,	81.59
2l5g_B	42	Putative uncharacterized protein NCOR2, G protein	80.46

>1egw_A MADS box transcription enhancer factor 2, polypeptide A; MADS-box transcription factor, DNA/protein complex, transcription/DNA; HET: DNA; 1.50A {Homo sapiens} SCOP: d.88.1.1 PDB: 1c7u_A 3mu6_A*

Probab=100.00  E-value=7.7e-40  Score=210.10  Aligned_cols=74  Identities=47%  Similarity=0.760  Sum_probs=70.3

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhcccc
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKD   75 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~~~~   75 (167)
                      ||+||+|++|+|+++|+|||+||++||||||+||||||||+||||||||+|++|+|+||+++.||+||...+++
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~~~~il~ry~~~~~~   74 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEP   74 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC---
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCCHHHHHHHHHhccCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999997754

>3p57_A Myocyte-specific enhancer factor 2A; protein-DNA complex, transcription factor, transcriptional activation, zinc finger; HET: DNA; 2.19A {Homo sapiens} PDB: 3kov_A* 1tqe_P 1n6j_A

Probab=100.00  E-value=1.2e-39  Score=214.10  Aligned_cols=79  Identities=44%  Similarity=0.728  Sum_probs=75.4

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhccccccCCC
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKDTRNKQ   80 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~~~~~~~~~   80 (167)
                      ||+||+|++|+|+++|+|||+||+.||||||+||||||||+||||||||+|++|+|+||+++.||+||...+++.....
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~~~il~rY~~~~~~~~~~~   79 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEPHESRT   79 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHCCSCCCEEC
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCHHHHHHHHHhcCcccccCC
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999887665543

>1mnm_A Protein (MCM1 transcriptional regulator); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: d.88.1.1

Probab=100.00  E-value=8.6e-38  Score=208.59  Aligned_cols=73  Identities=37%  Similarity=0.585  Sum_probs=70.6

Q ss_pred             CCccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhcc
Q 031002            1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHT   73 (167)
Q Consensus         1 M~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~~   73 (167)
                      |||+||+|++|+|+++|+|||+||+.||||||+||||||||+||||||||+|++|+|+||++..|+++|....
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~~~il~r~~G~~   88 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRN   88 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHHH
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCHHHHHHHhhCCc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999997643

>1hbx_A SRF, serum response factor; gene regulation, transcription complex; 3.15A {Homo sapiens} SCOP: d.88.1.1 PDB: 1srs_A*

Probab=100.00  E-value=1.1e-37  Score=205.54  Aligned_cols=71  Identities=37%  Similarity=0.508  Sum_probs=69.0

Q ss_pred             CCccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhh
Q 031002            1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLK   71 (167)
Q Consensus         1 M~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~   71 (167)
                      |||+||+|++|+|+++|+|||+||+.||||||+||||||||+||||||||+|++|+|+||+++.||++|..
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~~~~i~~~~G   80 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   80 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGGGGGTSSHHH
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCHHHHHhhhcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999997754

>1k6o_B SRF, serum response factor; protein/DNA complex, transcription factor, combinatorial gene regulation, ETS proteins, MADS-box proteins; 3.19A {Homo sapiens} SCOP: d.88.1.1

Probab=100.00  E-value=6.1e-37  Score=205.75  Aligned_cols=69  Identities=38%  Similarity=0.535  Sum_probs=67.7

Q ss_pred             CCccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHH
Q 031002            1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERY   69 (167)
Q Consensus         1 M~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY   69 (167)
                      |||+||+|++|+|+++|+|||+||+.||||||+||||||||+||||||||+|++|+|++|++..||+++
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~   77 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSE   77 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSH
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhh
Confidence            999999999999999999999999999999999999999999999999999999999999999999874

>2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus}

Probab=85.41  E-value=3.9  Score=23.92  Aligned_cols=48  Identities=15%  Similarity=0.340  Sum_probs=35.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhhc
Q 031002          118 SCTLEELQQIERQLEKSVSNIRA--RKNQVFNEQIAQLKEKVSVIKICFS  165 (167)
Q Consensus       118 ~ls~~eL~~Le~~Le~~L~~Ir~--rk~~ll~~~~~~l~~k~~~l~~~~~  165 (167)
                      ..+++|..++...|..+=.+|..  +-+.=+.+++.-+|++.+.|+.||+
T Consensus         9 pit~qeylevK~ALaaSeAkiQQLmkVN~~ls~Elr~mQ~~lq~LQsen~   58 (63)
T 2w6a_A            9 AVTLQEYLELKKALATSEAKVQQLMKVNSSLSDELRKLQREIHKLQAENL   58 (63)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHhhhh
Confidence            47888888888877776655543  2233456788889999999999996

>1j1d_C Troponin I, TNI; THIN filament, muscle regulation, Ca2+ binding protein, EF- hand, coiled-coil, contractIle protein; 2.61A {Homo sapiens} SCOP: h.1.25.2

Probab=81.59  E-value=10  Score=25.95  Aligned_cols=50  Identities=26%  Similarity=0.373  Sum_probs=41.1

Q ss_pred             cCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH
Q 031002          112 LGEGLASCTLEELQQIERQLEKSVSNIRARKNQVFNE------QIAQLKEKVSVIK  161 (167)
Q Consensus       112 ~g~~l~~ls~~eL~~Le~~Le~~L~~Ir~rk~~ll~~------~~~~l~~k~~~l~  161 (167)
                      -.-+++++|.++|+++-..|...+..+.+-+..+-..      +|+.|..++..|+
T Consensus        51 ~pL~id~ls~~~L~e~~keLh~~I~~LEeEKYDlE~kvkkq~yEI~dL~~rV~Dl~  106 (133)
T 1j1d_C           51 QPLELAGLGFAELQDLARQLHARVDKVDEERYDIEAKVTKNITEIADLTQKIFDLR  106 (133)
T ss_dssp             CCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHcchHHHHHHHHHHHHH
Confidence            3457999999999999999999999999998776432      5788888887764

>2l5g_B Putative uncharacterized protein NCOR2, G protein pathway suppressor 2; GPS2, SMRT, TBL1, CO-repressor, transcription regulator; NMR {Homo sapiens}

Probab=80.46  E-value=5.2  Score=21.71  Aligned_cols=38  Identities=21%  Similarity=0.309  Sum_probs=25.8

Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031002          118 SCTLEELQQIERQLEKSVSNIRARKNQVFNEQIAQLKEKVSVIKIC  163 (167)
Q Consensus       118 ~ls~~eL~~Le~~Le~~L~~Ir~rk~~ll~~~~~~l~~k~~~l~~~  163 (167)
                      ++|-+||.+-.+.++.-+..++++        |..||.+.+.|.+.
T Consensus         1 ~~tk~~l~qkI~kVdrEI~Kte~k--------I~~lqkKlkeLee~   38 (42)
T 2l5g_B            1 GLSKEELIQNMDRVDREITMVEQQ--------ISKLKKKQQQLEEE   38 (42)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHh
Confidence            356677777777777766666554        57778888777654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	167
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	2e-34
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	1e-32
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	1e-32

>d1egwa_ d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {Human (Homo sapiens) [TaxId: 9606]} Length = 71

class: Alpha and beta proteins (a+b)
fold: SRF-like
superfamily: SRF-like
family: SRF-like
domain: Myocyte enhancer factor Mef2a core
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (284), Expect = 2e-34
 Identities = 35/70 (50%), Positives = 53/70 (75%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K Q+ RI +  +RQVTF+KR+ GL+KKA+ELSVLCD E+A+IIF+   KL ++AS+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 QETIERYLKH 72
           + + +Y ++
Sbjct: 62 DKVLLKYTEY 71

>d1srsa_ d.88.1.1 (A:) Serum response factor (SRF) core {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: SRF-like
superfamily: SRF-like
family: SRF-like
domain: Serum response factor (SRF) core
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  109 bits (275), Expect = 1e-32
 Identities = 27/80 (33%), Positives = 40/80 (50%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K +M  I+N   R  TFSKR+ G++KKA+ELS L   +V +++ S  G +  FA+  +
Sbjct: 4  RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 63

Query: 63 QETIERYLKHTKDTRNKQQP 82
          Q  I               P
Sbjct: 64 QPMITSETGKALIQTCLNSP 83

>d1mnma_ d.88.1.1 (A:) MCM1 transcriptional regulator {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 85

class: Alpha and beta proteins (a+b)
fold: SRF-like
superfamily: SRF-like
family: SRF-like
domain: MCM1 transcriptional regulator
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  109 bits (275), Expect = 1e-32
 Identities = 28/82 (34%), Positives = 46/82 (56%)

Query: 3  RGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSM 62
          R K +++ IEN T R VTFSKR++G++KKAFELSVL   +V +++ S  G +  F++   
Sbjct: 4  RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 63

Query: 63 QETIERYLKHTKDTRNKQQPTE 84
          +  + +             P +
Sbjct: 64 EPIVTQQEGRNLIQACLNAPDD 85

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	167
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	100.0
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	100.0
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	100.0

>d1egwa_ d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: SRF-like
superfamily: SRF-like
family: SRF-like
domain: Myocyte enhancer factor Mef2a core
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.9e-40  Score=206.03  Aligned_cols=71  Identities=49%  Similarity=0.788  Sum_probs=69.5

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhc
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKH   72 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~   72 (167)
                      ||+||+|++|+|+.+|+|||+||+.||||||.|||+||||+||+|||||+|++|+|+||++++|++||..+
T Consensus         1 GR~Ki~ik~Ie~~~~R~vTFsKRk~GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~s~~~~~vl~ry~~~   71 (71)
T d1egwa_           1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEY   71 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHhcC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999863

>d1srsa_ d.88.1.1 (A:) Serum response factor (SRF) core {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: SRF-like
superfamily: SRF-like
family: SRF-like
domain: Serum response factor (SRF) core
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.4e-38  Score=201.52  Aligned_cols=72  Identities=36%  Similarity=0.504  Sum_probs=70.0

Q ss_pred             CCccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhc
Q 031002            1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKH   72 (167)
Q Consensus         1 M~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~   72 (167)
                      +||+||+|++|+|+.+|+|||+||+.||||||+|||+||||+||+|||||+|++|+|+||+++.|+++|...
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~~~vi~~~~~~   73 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETGK   73 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGGHHHHSSHHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHHHH
Confidence            699999999999999999999999999999999999999999999999999999999999999999999763

>d1mnma_ d.88.1.1 (A:) MCM1 transcriptional regulator {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: SRF-like
superfamily: SRF-like
family: SRF-like
domain: MCM1 transcriptional regulator
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.2e-37  Score=201.16  Aligned_cols=74  Identities=36%  Similarity=0.557  Sum_probs=71.3

Q ss_pred             CccccceeeecCCCCccccccccccchhhhhhhhhccCCcceeeeeecCCCccccccCchhHHHHHHHhhcccc
Q 031002            2 VRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVAVIIFSPRGKLSEFASSSMQETIERYLKHTKD   75 (167)
Q Consensus         2 ~r~Ki~ik~I~n~~~R~~tf~kR~~gl~KKa~ELs~LC~~~v~livfsp~gk~~~f~sp~v~~Vl~RY~~~~~~   75 (167)
                      ||+||+|++|+|+.+|+|||+||+.||||||+|||+||||+||||||||+|++|+|+||+++.|++||...+..
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~~~~~   76 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRNLI   76 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHHHHH
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhcccHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999985543