Citrus Sinensis ID: 034367

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90------
Protein Sequence
MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAYF
Secondary Structure (PSIPRED)
cccccEEEEEEcccccccEEEEcccccHHHHHHHHHEEEccEEEEEEEcccccEEEEcccHHHHHHHHHHHcHHHHcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEcccHHHHHHHHHHccccccccccccHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVhsknlervdqpsvelqvsglgfayf
Flexible Loop (DISEMBL)
marekiqikkidnatarqvtfskrrrgifkkaeelsvlcdADVALIIFSATGKLFEYSSSSMKEILEKHRVhsknlervdqpsvelqvsglgfayf
Low Complexity Region (SEG)
MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAYF
Disordered region (IsUnstruct)
*****************QVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEY***************************************
Disordered Region (DISOPRED)
***EKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHR********************L*FAYF
Disordered Region (DISEMBL)
MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAYF
Disordered Region (DISPRO)
*****IQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAYF
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAYF
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	96	2.2.26 [Sep-21-2011]
Q9FVC1	240	MADS-box protein SVP OS=A	yes	no	0.916	0.366	0.840	4e-39
Q9FUY6	265	MADS-box protein JOINTLES	N/A	no	0.916	0.332	0.852	6e-39
O82794	220	MADS-box protein AGL24 OS	no	no	1.0	0.436	0.670	1e-31
Q9XJ66	228	MADS-box transcription fa	yes	no	1.0	0.421	0.625	1e-30
Q5K4R0	246	MADS-box transcription fa	no	no	0.885	0.345	0.611	3e-27
Q69TG5	245	MADS-box transcription fa	no	no	0.770	0.302	0.68	7e-25
Q6EP49	240	MADS-box transcription fa	no	no	0.906	0.362	0.563	2e-23
Q6VAM4	159	MADS-box transcription fa	no	no	0.718	0.433	0.652	2e-22
Q38847	268	Agamous-like MADS-box pro	no	no	0.75	0.268	0.652	4e-22
A2RVQ5	240	Agamous-like MADS-box pro	no	no	0.906	0.362	0.528	9e-22

>sp|Q9FVC1|SVP_ARATH MADS-box protein SVP OS=Arabidopsis thaliana GN=SVP PE=1 SV=1

 Score =  159 bits (403), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 74/88 (84%), Positives = 85/88 (96%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQI+KIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFE+ SS
Sbjct: 1  MAREKIQIRKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEFCSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKE+LE+H + SKNLE++DQPS+ELQ+
Sbjct: 61 SMKEVLERHNLQSKNLEKLDQPSLELQL 88

Transcription repressor that inhibit floral transition in the autonomous flowering pathway, independent of photoperiod and temperature. Acts in a dosage-dependent manner. Together with AGL24 and AP1, controls the identity of the floral meristem and regulates expression of class B, C and E genes.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9FUY6|JOIN_SOLLC MADS-box protein JOINTLESS OS=Solanum lycopersicum GN=J PE=1 SV=1

 Score =  159 bits (401), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 75/88 (85%), Positives = 86/88 (97%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDN+TARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLF+YSSS
Sbjct: 1  MAREKIQIKKIDNSTARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFDYSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMK+ILE+  +HSKNLE++DQPS+ELQ+
Sbjct: 61 SMKQILERRDLHSKNLEKLDQPSLELQL 88

Putative transcription factor that coordinates gene expression underlying the differentiation of the pedicel abscission zone. May also be involved in the maintenance of the inflorescence meristem state.

Solanum lycopersicum (taxid: 4081)

>sp|O82794|AGL24_ARATH MADS-box protein AGL24 OS=Arabidopsis thaliana GN=AGL24 PE=1 SV=1

 Score =  134 bits (338), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 65/97 (67%), Positives = 80/97 (82%), Gaps = 1/97 (1%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKI+IKKIDN TARQVTFSKRRRGIFKKA+ELSVLCDADVALIIFSATGKLFE+SSS
Sbjct: 1  MAREKIRIKKIDNITARQVTFSKRRRGIFKKADELSVLCDADVALIIFSATGKLFEFSSS 60

Query: 61 SMKEILEKHRVHSKNLERV-DQPSVELQVSGLGFAYF 96
           M++IL ++ +H+ N+ ++ D PS  L++     +  
Sbjct: 61 RMRDILGRYSLHASNINKLMDPPSTHLRLENCNLSRL 97

Transcription activator that mediates floral transition in response to vernalization. Promotes inflorescence fate in apical meristems. Acts in a dosage-dependent manner. Probably involved in the transduction of RLK-mediated signaling (e.g. IMK3 pathway). Together with AP1 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. When associated with SOC1, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development. Confers inflorescence characteristics to floral primordia and early flowering.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9XJ66|MAD22_ORYSJ MADS-box transcription factor 22 OS=Oryza sativa subsp. japonica GN=MADS22 PE=2 SV=1

 Score =  131 bits (329), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 60/96 (62%), Positives = 80/96 (83%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MARE+ +IK+I++A ARQVTFSKRRRG+FKKAEELSVLCDADVALI+FS+TGKL  ++SS
Sbjct: 1  MARERREIKRIESAAARQVTFSKRRRGLFKKAEELSVLCDADVALIVFSSTGKLSHFASS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAYF 96
          SM EI++K+  HS NL + +QPS++L +    +A+ 
Sbjct: 61 SMNEIIDKYNTHSNNLGKAEQPSLDLNLEHSKYAHL 96

Probable transcription factor. May be required for spikelet (rice flower) development.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q5K4R0|MAD47_ORYSJ MADS-box transcription factor 47 OS=Oryza sativa subsp. japonica GN=MADS47 PE=1 SV=2

 Score =  120 bits (300), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 52/85 (61%), Positives = 74/85 (87%)

Query: 3   REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSM 62
           RE+I I++IDN  ARQVTFSKRRRG+FKKAEELS+LCDA+V L++FSATGKLF+++S+SM
Sbjct: 22  RERIAIRRIDNLAARQVTFSKRRRGLFKKAEELSILCDAEVGLVVFSATGKLFQFASTSM 81

Query: 63  KEILEKHRVHSKNLERVDQPSVELQ 87
           ++I++++  HSK L+R +   ++LQ
Sbjct: 82  EQIIDRYNSHSKTLQRAEPSQLDLQ 106

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q69TG5|MAD55_ORYSJ MADS-box transcription factor 55 OS=Oryza sativa subsp. japonica GN=MADS55 PE=2 SV=2

 Score =  112 bits (280), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 51/75 (68%), Positives = 67/75 (89%), Gaps = 1/75 (1%)

Query: 13 NATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVH 72
          +A ARQVTFSKRRRG+FKKAEEL+VLCDADVAL++FS+TGKL +++SS+M EI++K+  H
Sbjct: 13 SAAARQVTFSKRRRGLFKKAEELAVLCDADVALVVFSSTGKLSQFASSNMNEIIDKYTTH 72

Query: 73 SKNLERVD-QPSVEL 86
          SKNL + D QPS++L
Sbjct: 73 SKNLGKTDKQPSIDL 87

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6EP49|MAD27_ORYSJ MADS-box transcription factor 27 OS=Oryza sativa subsp. japonica GN=MADS27 PE=2 SV=2

 Score =  107 bits (268), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 49/87 (56%), Positives = 70/87 (80%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          M R KI I++IDN+T+RQVTFSKRR GIFKKA+EL++LCDA+V L+IFS+TG+L+EYSS+
Sbjct: 1  MGRGKIVIRRIDNSTSRQVTFSKRRNGIFKKAKELAILCDAEVGLMIFSSTGRLYEYSST 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQ 87
          SMK +++++       + V  P+ EL+
Sbjct: 61 SMKSVIDRYGKSKDEQQAVANPNSELK 87

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6VAM4|MAD23_ORYSJ MADS-box transcription factor 23 OS=Oryza sativa subsp. japonica GN=MADS23 PE=2 SV=1

 Score =  103 bits (258), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 45/69 (65%), Positives = 62/69 (89%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          M R KI+IK+IDNAT+RQVTFSKRR G+FKKA ELS+LCDA+V L++FS+T +L++++SS
Sbjct: 1  MGRGKIEIKRIDNATSRQVTFSKRRSGLFKKARELSILCDAEVGLLVFSSTSRLYDFASS 60

Query: 61 SMKEILEKH 69
          SMK I+E++
Sbjct: 61 SMKSIIERY 69

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q38847|AGL15_ARATH Agamous-like MADS-box protein AGL15 OS=Arabidopsis thaliana GN=AGL15 PE=1 SV=1

 Score =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 47/72 (65%), Positives = 60/72 (83%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          M R KI+IK+I+NA +RQVTFSKRR G+ KKA ELSVLCDA+VA+I+FS +GKLFEYSS+
Sbjct: 1  MGRGKIEIKRIENANSRQVTFSKRRSGLLKKARELSVLCDAEVAVIVFSKSGKLFEYSST 60

Query: 61 SMKEILEKHRVH 72
           MK+ L ++  H
Sbjct: 61 GMKQTLSRYGNH 72

Transcription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Acts as both an activator and a repressor of transcription. Binds DNA in a sequence-specific manner in large CArG motif 5'-CC (A/T)8 GG-3'. Participates probably in the regulation of programs active during the early stages of embryo development. Prevents premature perianth senescence and abscission, fruits development and seed desiccation. Stimulates the expression of at least DTA4, LEC2, FUS3, ABI3, AT4G38680/CSP2 and GRP2B/CSP4. Can enhance somatic embryo development in vitro.

Arabidopsis thaliana (taxid: 3702)

>sp|A2RVQ5|AGL16_ARATH Agamous-like MADS-box protein AGL16 OS=Arabidopsis thaliana GN=AGL16 PE=1 SV=1

 Score =  102 bits (253), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 46/87 (52%), Positives = 68/87 (78%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          M R KI IK+I+N+T+RQVTFSKRR G+ KKA+EL++LCDA+V +IIFS+TG+L+++SSS
Sbjct: 1  MGRGKIAIKRINNSTSRQVTFSKRRNGLLKKAKELAILCDAEVGVIIFSSTGRLYDFSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQ 87
          SMK ++E++          + P+ E+Q
Sbjct: 61 SMKSVIERYSDAKGETSSENDPASEIQ 87

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	96
210148492	218	SVP-like protein [Citrus trifoliata] gi|	0.916	0.403	0.966	5e-41
356497113	227	PREDICTED: MADS-box protein SVP-like [Gl	0.916	0.387	0.886	7e-39
258547202	233	EXTRAPETALS [Petunia x hybrida] gi|26785	0.916	0.377	0.886	7e-39
224094973	227	predicted protein [Populus trichocarpa]	0.916	0.387	0.863	2e-38
225467973	227	PREDICTED: MADS-box protein SVP [Vitis v	0.916	0.387	0.875	3e-38
359806214	227	MADS-box protein SVP-like [Glycine max]	0.916	0.387	0.863	5e-38
122056647	224	JOINTLESS [Malus x domestica] gi|3023988	0.916	0.392	0.840	6e-38
379139431	240	SVP-like MADS-box protein, partial [Viti	0.916	0.366	0.863	1e-37
6652756	227	MADS box protein [Paulownia kawakamii]	0.916	0.387	0.852	2e-37
110741167	240	short vegegative phase protein [Arabidop	0.916	0.366	0.840	2e-37

>gi|210148492|gb|ACJ09169.1| SVP-like protein [Citrus trifoliata] gi|210148494|gb|ACJ09170.1| SVP-like protein [Citrus trifoliata]

 Score =  171 bits (433), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 86/89 (96%), Positives = 87/89 (97%), Gaps = 1/89 (1%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSAT KLFEYSSS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATAKLFEYSSS 60

Query: 61 -SMKEILEKHRVHSKNLERVDQPSVELQV 88
           SMKEILEKHRVHSKNLERVDQPSVELQ+
Sbjct: 61 RSMKEILEKHRVHSKNLERVDQPSVELQL 89

Source: Citrus trifoliata

Species: Citrus trifoliata

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356497113|ref|XP_003517407.1| PREDICTED: MADS-box protein SVP-like [Glycine max]

 Score =  164 bits (415), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 78/88 (88%), Positives = 86/88 (97%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFEYSSS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEYSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILE+H +HSKNL R++QPS+ELQ+
Sbjct: 61 SMKEILERHHLHSKNLARMEQPSLELQL 88

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|258547202|gb|ACV74250.1| EXTRAPETALS [Petunia x hybrida] gi|267850663|gb|ACY82403.1| MADS-box protein 20 [Petunia x hybrida]

 Score =  164 bits (415), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 78/88 (88%), Positives = 86/88 (97%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFEYSSS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEYSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILE+  +HSKNLE++DQPS+ELQ+
Sbjct: 61 SMKEILERRDLHSKNLEKLDQPSLELQL 88

Source: Petunia x hybrida

Species: Petunia x hybrida

Genus: Petunia

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094973|ref|XP_002310310.1| predicted protein [Populus trichocarpa] gi|222853213|gb|EEE90760.1| predicted protein [Populus trichocarpa]

 Score =  162 bits (410), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 76/88 (86%), Positives = 87/88 (98%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MARE+IQIKKIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFE+SSS
Sbjct: 1  MARERIQIKKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEFSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILE+H +HSKNLE+++QPS+ELQ+
Sbjct: 61 SMKEILERHNLHSKNLEKLEQPSLELQL 88

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225467973|ref|XP_002269295.1| PREDICTED: MADS-box protein SVP [Vitis vinifera] gi|297744859|emb|CBI38273.3| unnamed protein product [Vitis vinifera]

 Score =  162 bits (409), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 77/88 (87%), Positives = 86/88 (97%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFE+SSS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEFSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILEKH + SKNLE+++QPS+ELQ+
Sbjct: 61 SMKEILEKHSLQSKNLEKLEQPSLELQL 88

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806214|ref|NP_001240951.1| MADS-box protein SVP-like [Glycine max] gi|166014267|gb|ABY78023.1| short vegetative phase-like protein [Glycine max]

 Score =  161 bits (407), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 76/88 (86%), Positives = 85/88 (96%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          M REKIQIKKIDNATARQVTFSKRRRG+FKKAEELSV+CDADVALIIFS+TGKLFEYSSS
Sbjct: 1  MVREKIQIKKIDNATARQVTFSKRRRGLFKKAEELSVMCDADVALIIFSSTGKLFEYSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILE+H +HSKNL R++QPS+ELQ+
Sbjct: 61 SMKEILERHHLHSKNLARMEQPSLELQL 88

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|122056647|gb|ABD66219.2| JOINTLESS [Malus x domestica] gi|302398887|gb|ADL36738.1| MADS domain class transcription factor [Malus x domestica]

 Score =  161 bits (407), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 74/88 (84%), Positives = 86/88 (97%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRG+ KKAEELSVLCDAD+ALIIFS+TGKLFEY+SS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGLLKKAEELSVLCDADIALIIFSSTGKLFEYASS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILE+H +HSKNLE+++QPS++LQ+
Sbjct: 61 SMKEILERHNLHSKNLEKLEQPSLQLQL 88

Source: Malus x domestica

Species: Malus x domestica

Genus: Malus

Family: Rosaceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|379139431|gb|AFC96914.1| SVP-like MADS-box protein, partial [Vitis vinifera]

 Score =  160 bits (404), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 76/88 (86%), Positives = 86/88 (97%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRG+FKKAEEL+VLCDADVALIIFS+TGKLFE+SSS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGLFKKAEELAVLCDADVALIIFSSTGKLFEFSSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEILEKH + SKNLE+++QPS+ELQ+
Sbjct: 61 SMKEILEKHSLQSKNLEKLEQPSLELQL 88

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|6652756|gb|AAF22455.1| MADS box protein [Paulownia kawakamii]

 Score =  159 bits (403), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 75/88 (85%), Positives = 85/88 (96%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADV LIIFS+TGKLFEY+SS
Sbjct: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVGLIIFSSTGKLFEYASS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKEIL +H +HSKNL++++QPS+ELQ+
Sbjct: 61 SMKEILGRHNLHSKNLDKLEQPSLELQL 88

Source: Paulownia kawakamii

Species: Paulownia kawakamii

Genus: Paulownia

Family: Paulowniaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110741167|dbj|BAE98676.1| short vegegative phase protein [Arabidopsis thaliana]

 Score =  159 bits (403), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 74/88 (84%), Positives = 85/88 (96%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          MAREKIQI+KIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFE+ SS
Sbjct: 1  MAREKIQIRKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEFCSS 60

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
          SMKE+LE+H + SKNLE++DQPS+ELQ+
Sbjct: 61 SMKEVLERHNLQSKNLEKLDQPSLELQL 88

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	96
TAIR|locus:2041233	240	SVP "AT2G22540" [Arabidopsis t	0.916	0.366	0.840	4e-35
TAIR|locus:2121924	220	AGL24 "AT4G24540" [Arabidopsis	0.916	0.4	0.730	2.7e-29
UNIPROTKB|Q9XJ66	228	MADS22 "MADS-box transcription	0.989	0.416	0.631	3.9e-28
UNIPROTKB|Q5K4R0	246	MADS47 "MADS-box transcription	0.885	0.345	0.611	8.4e-26
UNIPROTKB|Q9ATE3	215	FBP28 "MADS-box transcription	0.875	0.390	0.623	1.4e-23
TAIR|locus:2177125	268	AGL15 "AGAMOUS-like 15" [Arabi	0.916	0.328	0.550	1.5e-21
TAIR|locus:505006709	210	AGL42 "AGAMOUS-like 42" [Arabi	0.906	0.414	0.568	3.9e-21
UNIPROTKB|Q9ATE9	216	FBP20 "MADS-box transcription	0.885	0.393	0.564	4.9e-21
TAIR|locus:2082618	240	AGL16 "AGAMOUS-like 16" [Arabi	0.906	0.362	0.528	6.3e-21
UNIPROTKB|D2T2G0	238	gsqua2 "GSQUA2 protein" [Gerbe	0.927	0.373	0.566	1.3e-20

TAIR|locus:2041233 SVP "AT2G22540" [Arabidopsis thaliana (taxid:3702)]

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 74/88 (84%), Positives = 85/88 (96%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             MAREKIQI+KIDNATARQVTFSKRRRG+FKKAEELSVLCDADVALIIFS+TGKLFE+ SS
Sbjct:     1 MAREKIQIRKIDNATARQVTFSKRRRGLFKKAEELSVLCDADVALIIFSSTGKLFEFCSS 60

Query:    61 SMKEILEKHRVHSKNLERVDQPSVELQV 88
             SMKE+LE+H + SKNLE++DQPS+ELQ+
Sbjct:    61 SMKEVLERHNLQSKNLEKLDQPSLELQL 88

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0048438 "floral whorl development" evidence=IGI

GO:0000900 "translation repressor activity, nucleic acid binding" evidence=IDA

GO:0009266 "response to temperature stimulus" evidence=IMP

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

GO:0010076 "maintenance of floral meristem identity" evidence=IGI

GO:0010582 "floral meristem determinacy" evidence=IGI

GO:0000165 "MAPK cascade" evidence=RCA

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

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009556 "microsporogenesis" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0009965 "leaf morphogenesis" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

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

GO:0030154 "cell differentiation" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

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

GO:0048481 "ovule development" evidence=RCA

GO:0052543 "callose deposition in cell wall" evidence=RCA

TAIR|locus:2121924 AGL24 "AT4G24540" [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 2.7e-29, P = 2.7e-29
 Identities = 65/89 (73%), Positives = 79/89 (88%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             MAREKI+IKKIDN TARQVTFSKRRRGIFKKA+ELSVLCDADVALIIFSATGKLFE+SSS
Sbjct:     1 MAREKIRIKKIDNITARQVTFSKRRRGIFKKADELSVLCDADVALIIFSATGKLFEFSSS 60

Query:    61 SMKEILEKHRVHSKNLERV-DQPSVELQV 88
              M++IL ++ +H+ N+ ++ D PS  L++
Sbjct:    61 RMRDILGRYSLHASNINKLMDPPSTHLRL 89

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

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

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

GO:0010220 "positive regulation of vernalization response" evidence=IEP

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

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

GO:0005737 "cytoplasm" evidence=IDA

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

GO:0005515 "protein binding" evidence=IPI

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

GO:0048438 "floral whorl development" evidence=IGI

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

GO:0043565 "sequence-specific DNA binding" evidence=IPI

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

GO:0010076 "maintenance of floral meristem identity" evidence=IGI

GO:0010582 "floral meristem determinacy" evidence=IGI

GO:0048481 "ovule development" evidence=RCA

UNIPROTKB|Q9XJ66 MADS22 "MADS-box transcription factor 22" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 314 (115.6 bits), Expect = 3.9e-28, P = 3.9e-28
 Identities = 60/95 (63%), Positives = 80/95 (84%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             MARE+ +IK+I++A ARQVTFSKRRRG+FKKAEELSVLCDADVALI+FS+TGKL  ++SS
Sbjct:     1 MARERREIKRIESAAARQVTFSKRRRGLFKKAEELSVLCDADVALIVFSSTGKLSHFASS 60

Query:    61 SMKEILEKHRVHSKNLERVDQPSVELQVSGLGFAY 95
             SM EI++K+  HS NL + +QPS++L +    +A+
Sbjct:    61 SMNEIIDKYNTHSNNLGKAEQPSLDLNLEHSKYAH 95

GO:0007275 "multicellular organismal development" evidence=IMP

GO:0009908 "flower development" evidence=IMP

GO:0030154 "cell differentiation" evidence=IMP

UNIPROTKB|Q5K4R0 MADS47 "MADS-box transcription factor 47" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 292 (107.8 bits), Expect = 8.4e-26, P = 8.4e-26
 Identities = 52/85 (61%), Positives = 74/85 (87%)

Query:     3 REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSM 62
             RE+I I++IDN  ARQVTFSKRRRG+FKKAEELS+LCDA+V L++FSATGKLF+++S+SM
Sbjct:    22 RERIAIRRIDNLAARQVTFSKRRRGLFKKAEELSILCDAEVGLVVFSATGKLFQFASTSM 81

Query:    63 KEILEKHRVHSKNLERVDQPSVELQ 87
             ++I++++  HSK L+R +   ++LQ
Sbjct:    82 EQIIDRYNSHSKTLQRAEPSQLDLQ 106

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

GO:0009742 "brassinosteroid mediated signaling pathway" evidence=IMP

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

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 53/85 (62%), Positives = 74/85 (87%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             M R K Q+++I+NAT+RQVTFSKRR G+ KKA ELSVLCDA+V+LIIFS  GKL+E+SSS
Sbjct:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSTRGKLYEFSSS 60

Query:    61 SMKEILEKHRVHSKNLERVDQPSVE 85
             SM+EI+E++R HS++++  ++P+VE
Sbjct:    61 SMQEIIERYRRHSEDVQG-EKPAVE 84

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2177125 AGL15 "AGAMOUS-like 15" [Arabidopsis thaliana (taxid:3702)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 49/89 (55%), Positives = 68/89 (76%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             M R KI+IK+I+NA +RQVTFSKRR G+ KKA ELSVLCDA+VA+I+FS +GKLFEYSS+
Sbjct:     1 MGRGKIEIKRIENANSRQVTFSKRRSGLLKKARELSVLCDAEVAVIVFSKSGKLFEYSST 60

Query:    61 SMKEILEKHRVH-SKNLERVDQPSVELQV 88
              MK+ L ++  H S +  + ++   E+ +
Sbjct:    61 GMKQTLSRYGNHQSSSASKAEEDCAEVDI 89

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

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

GO:0005634 "nucleus" evidence=ISM;IDA;NAS;TAS

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA;TAS

GO:0060862 "negative regulation of floral organ abscission" evidence=IMP

GO:0010047 "fruit dehiscence" evidence=IMP

GO:0060867 "fruit abscission" evidence=IMP

GO:2000692 "negative regulation of seed maturation" evidence=IMP

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

GO:0071365 "cellular response to auxin stimulus" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0042803 "protein homodimerization activity" evidence=IDA

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

GO:0048577 "negative regulation of short-day photoperiodism, flowering" evidence=IMP

GO:0010262 "somatic embryogenesis" evidence=IMP

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

GO:0009793 "embryo development ending in seed dormancy" evidence=IDA;TAS

GO:0045487 "gibberellin catabolic process" evidence=TAS

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009556 "microsporogenesis" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0052543 "callose deposition in cell wall" evidence=RCA

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

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 50/88 (56%), Positives = 70/88 (79%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             M R KI++KKI+NAT+RQVTFSKRR G+ KKA ELSVLCDA ++LIIFS  G+L+E+SSS
Sbjct:     1 MVRGKIEMKKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSSS 60

Query:    61 SMKEILEKHRVHSKNLERVDQPS-VELQ 87
              M++ +E++R ++K+ E  +  S + LQ
Sbjct:    61 DMQKTIERYRKYTKDHETSNHDSQIHLQ 88

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

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

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 48/85 (56%), Positives = 67/85 (78%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             M R K Q+++I+NAT+RQVTFSKRR G+ KKA ELSVLCDA V L+IFS  GK +E+SSS
Sbjct:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAQVGLVIFSPRGKQYEFSSS 60

Query:    61 SMKEILEKHRVHSKNLERVDQPSVE 85
             SM+EI+E+++ H+K+  + +  + E
Sbjct:    61 SMQEIIERYKGHTKDKVQTENQAGE 85

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2082618 AGL16 "AGAMOUS-like 16" [Arabidopsis thaliana (taxid:3702)]

 Score = 246 (91.7 bits), Expect = 6.3e-21, P = 6.3e-21
 Identities = 46/87 (52%), Positives = 68/87 (78%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             M R KI IK+I+N+T+RQVTFSKRR G+ KKA+EL++LCDA+V +IIFS+TG+L+++SSS
Sbjct:     1 MGRGKIAIKRINNSTSRQVTFSKRRNGLLKKAKELAILCDAEVGVIIFSSTGRLYDFSSS 60

Query:    61 SMKEILEKHRVHSKNLERVDQPSVELQ 87
             SMK ++E++          + P+ E+Q
Sbjct:    61 SMKSVIERYSDAKGETSSENDPASEIQ 87

GO:0005634 "nucleus" evidence=ISM;IEA

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0008134 "transcription factor binding" evidence=IPI

GO:0042803 "protein homodimerization activity" evidence=IDA

GO:0010440 "stomatal lineage progression" evidence=IMP

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009556 "microsporogenesis" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0052543 "callose deposition in cell wall" evidence=RCA

UNIPROTKB|D2T2G0 gsqua2 "GSQUA2 protein" [Gerbera hybrid cultivar (taxid:18101)]

 Score = 243 (90.6 bits), Expect = 1.3e-20, P = 1.3e-20
 Identities = 51/90 (56%), Positives = 66/90 (73%)

Query:     1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSS- 59
             M R ++Q+K+I+N  +RQVTFSKRR G+ KKA E+SVLCDADVALI+FS  GKLFEYS+ 
Sbjct:     1 MGRGRVQLKRIENKISRQVTFSKRRTGLLKKAHEISVLCDADVALIVFSTKGKLFEYSTH 60

Query:    60 SSMKEILEKHRVHSKNLERVDQPSVELQVS 89
             SSM  ILE++  +S   + +  P  E Q S
Sbjct:    61 SSMDAILERYERYSYAEKLLTAPETETQGS 90

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)
Q9FVC1	SVP_ARATH	No assigned EC number	0.8409	0.9166	0.3666	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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	96
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	5e-40
smart00432	59	smart00432, MADS, MADS domain	1e-31
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	1e-29
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	1e-25
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	3e-22
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	2e-13

>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 =  126 bits (319), Expect = 5e-40
 Identities = 47/76 (61%), Positives = 64/76 (84%)

Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R KI+IK+I+N+T RQVTFSKRR G+ KKA ELSVLCDA+VALIIFS++GKL+E+SS S
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPS 60

Query: 62 MKEILEKHRVHSKNLE 77
          M++I+E+++  S +  
Sbjct: 61 MEKIIERYQKTSGSSL 76

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 =  104 bits (263), Expect = 1e-31
 Identities = 42/58 (72%), Positives = 51/58 (87%)

Query: 3  REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          R KI+IK+I+N T RQVTFSKRR G+FKKA ELSVLCDA+VALI+FS TGKL+E++S 
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 = 99.9 bits (250), Expect = 1e-29
 Identities = 41/59 (69%), Positives = 52/59 (88%)

Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
           R KI+IK+I+N T+RQVTFSKRR G+FKKA ELSVLCDA+VA+I+FS +GKL+E+ SS
Sbjct: 1  GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 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 = 90.4 bits (225), Expect = 1e-25
 Identities = 37/74 (50%), Positives = 55/74 (74%), Gaps = 1/74 (1%)

Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFE-YSSS 60
           R+KI+IK+I+N   R VTFSKRR+G+FKKA ELS LC A+VA+I++S +GKL+  + SS
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS 60

Query: 61 SMKEILEKHRVHSK 74
           ++ ++ +  V S 
Sbjct: 61 EVEGVISRFEVLSA 74

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 = 80.9 bits (200), Expect = 3e-22
 Identities = 40/51 (78%), Positives = 47/51 (92%)

Query: 9  KKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSS 59
          K+I+N + RQVTFSKRR GIFKKA ELSVLCDA+VA+IIFS+TGKL+EYSS
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYSS 51

Length = 51

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

 Score = 63.9 bits (155), Expect = 2e-13
 Identities = 28/75 (37%), Positives = 42/75 (56%)

Query: 1   MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
           +   KI I  I N T R VTFSKR+ GI KKA ELSVL   +V L++ S  G +  +++ 
Sbjct: 81  VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP 140

Query: 61  SMKEILEKHRVHSKN 75
            ++ +++     S  
Sbjct: 141 KLESVVKSLEGKSLI 155

Length = 412

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	96
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.98
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.98
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.97
smart00432	59	MADS MADS domain.	99.96
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.95
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.93
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.86
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.57

>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=99.98  E-value=1.5e-33  Score=174.74  Aligned_cols=74  Identities=64%  Similarity=0.967  Sum_probs=71.7

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccc
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKN   75 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~   75 (96)
                      ||+||+|++|+|+..|++||+||+.||||||.|||+||||+||||||+|+|++++|+++++++||+||+..+..
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~~   74 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGS   74 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhcccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999988654

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.

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.98  E-value=3.3e-33  Score=195.69  Aligned_cols=86  Identities=48%  Similarity=0.813  Sum_probs=78.1

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCc--hHHHHHHhhhccccccc
Q 034367            1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS--MKEILEKHRVHSKNLER   78 (96)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~--~~~vl~ry~~~s~~~~~   78 (96)
                      |||+||+|++|+|++.|++||+|||.||||||+||||||||+||+|||+|+|++|.|++++  +++++++|.........
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            9999999999999999999999999999999999999999999999999999999998866  99999999998877655


Q ss_pred             CCCCChhh
Q 034367           79 VDQPSVEL   86 (96)
Q Consensus        79 ~~~~~~e~   86 (96)
                      ....+.+.
T Consensus        81 ~~~~~~~~   88 (195)
T KOG0014|consen   81 KKRVNLES   88 (195)
T ss_pred             ccccchhh
Confidence            44444443

>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=8.7e-32  Score=168.92  Aligned_cols=81  Identities=46%  Similarity=0.742  Sum_probs=75.1

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCc-hHHHHHHhhhcccccccCC
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS-MKEILEKHRVHSKNLERVD   80 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~-~~~vl~ry~~~s~~~~~~~   80 (96)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|||+|+|+.++|++++ ++++|++|..++..+++..
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            899999999999999999999999999999999999999999999999999999887755 9999999999998877655


Q ss_pred             CC
Q 034367           81 QP   82 (96)
Q Consensus        81 ~~   82 (96)
                      .+
T Consensus        81 ~~   82 (83)
T cd00266          81 AV   82 (83)
T ss_pred             CC
Confidence            43

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=99.96  E-value=1e-29  Score=150.63  Aligned_cols=59  Identities=71%  Similarity=1.108  Sum_probs=57.3

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCC
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS   60 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~   60 (96)
                      ||+||+|++|+|++.|++||+||+.||+|||+|||+||||+||+|||+|+|++++|++|
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            89999999999999999999999999999999999999999999999999999998764

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

Probab=99.95  E-value=4.6e-29  Score=147.81  Aligned_cols=59  Identities=69%  Similarity=1.076  Sum_probs=57.1

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCC
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS   60 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~   60 (96)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|||+|+|++++|+++
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            79999999999999999999999999999999999999999999999999999998763

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=99.93  E-value=1.7e-27  Score=137.30  Aligned_cols=51  Identities=61%  Similarity=1.045  Sum_probs=46.9

Q ss_pred             EEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccC
Q 034367            9 KKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSS   59 (96)
Q Consensus         9 ~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s   59 (96)
                      ++|+|+..|++||+||+.||+|||.|||+|||++||||||+|+|++++|+|
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=99.86  E-value=8.9e-23  Score=152.19  Aligned_cols=84  Identities=32%  Similarity=0.520  Sum_probs=70.9

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccccccCCC
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQ   81 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~~~~~~~   81 (96)
                      ||+||+|++|+|+.+|.+||+|||.||||||+|||+|+|.+|.|+|.+++|.+|+|..+.++.||..-....-...+.+.
T Consensus        63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq~cLn~  142 (338)
T KOG0015|consen   63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQACLNA  142 (338)
T ss_pred             ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHHHHhcC
Confidence            79999999999999999999999999999999999999999999999999999999999888887654322222334444


Q ss_pred             CChh
Q 034367           82 PSVE   85 (96)
Q Consensus        82 ~~~e   85 (96)
                      |+.+
T Consensus       143 pd~~  146 (338)
T KOG0015|consen  143 PDTP  146 (338)
T ss_pred             CCCC
Confidence            4433

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

Probab=99.57  E-value=1.2e-15  Score=117.92  Aligned_cols=69  Identities=39%  Similarity=0.590  Sum_probs=64.8

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHh
Q 034367            1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKH   69 (96)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry   69 (96)
                      |||+||.|.+|+|+.+|.+||+||+.||+|||.||++|.|.+|.|+|.+.+|.+++|..++.+.|+..-
T Consensus        81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~~~  149 (412)
T COG5068          81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVKSL  149 (412)
T ss_pred             cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCccccccccc
Confidence            789999999999999999999999999999999999999999999999999999999998777776443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	96
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		1e-16
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		1e-16
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		2e-16
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		2e-16
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		4e-16
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		1e-15
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		5e-11
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		3e-08
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		3e-08

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

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/74 (51%), Positives = 56/74 (75%)
Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
          M R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF++  +LF+Y+S+
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 SMKEILEKHRVHSK 74
           M  +L K+  +S+
Sbjct: 61 DMDRVLLKYTEYSE 74

>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 = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 37/71 (52%), Positives = 55/71 (77%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+ 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKHRVH 72
          M ++L K+  +
Sbjct: 61 MDKVLLKYTAY 71

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 37/68 (54%), Positives = 54/68 (79%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+ 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKH 69
          M ++L K+
Sbjct: 61 MDKVLLKY 68

>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 = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 37/68 (54%), Positives = 54/68 (79%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+ 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKH 69
          M ++L K+
Sbjct: 61 MDKVLLKY 68

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

Iteration: 1
 Score = 79.7 bits (195), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 43/93 (46%), Positives = 65/93 (69%), Gaps = 2/93 (2%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF++  +LF+Y+S+ 
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 MKEILEKHRVHSKNLE-RVDQPSVE-LQVSGLG 92
          M  +L K+  +S+  E R +   +E L+  G+G
Sbjct: 61 MDRVLLKYTEYSEPHESRTNTDILETLKRRGIG 93

>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 = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 37/68 (54%), Positives = 54/68 (79%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVL DA++ALIIF+++ KLF+Y+S+ 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 MKEILEKH 69
          M ++L K+
Sbjct: 61 MDKVLLKY 68

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

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 32/64 (50%), Positives = 43/64 (67%)
Query: 3  REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSM 62
          R KI+IK I+N T R VTFSKR+ GI KKA ELSVL    V L++ S TG ++ +S+   
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 KEIL 66
          + I+
Sbjct: 78 EPIV 81

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/65 (40%), Positives = 41/65 (63%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R KI+++ IDN   R  TFSKR+ GI KKA ELS L    V L++ S TG ++ +++  
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 70
Query: 62 MKEIL 66
          ++ ++
Sbjct: 71 LQPMI 75

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/65 (40%), Positives = 41/65 (63%)
Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R KI+++ IDN   R  TFSKR+ GI KKA ELS L    V L++ S TG ++ +++  
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 69
Query: 62 MKEIL 66
          ++ ++
Sbjct: 70 LQPMI 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	96
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	1e-40
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	2e-40
1egw_A	77	MADS box transcription enhancer factor 2, polypept	4e-40
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	2e-39
1hbx_A	92	SRF, serum response factor; gene regulation, trans	2e-38

>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 =  128 bits (323), Expect = 1e-40
 Identities = 38/87 (43%), Positives = 60/87 (68%)

Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+ 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

Query: 62 MKEILEKHRVHSKNLERVDQPSVELQV 88
          M ++L K+  +++  E      +   +
Sbjct: 61 MDKVLLKYTEYNEPHESRTNSDIVEAL 87

>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 =  128 bits (322), Expect = 2e-40
 Identities = 34/85 (40%), Positives = 49/85 (57%)

Query: 1   MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
             R KI+IK I+N T R VTFSKR+ GI KKA ELSVL    V L++ S TG ++ +S+ 
Sbjct: 16  KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61  SMKEILEKHRVHSKNLERVDQPSVE 85
             + I+ +    +     ++ P  E
Sbjct: 76  KFEPIVTQQEGRNLIQACLNAPDDE 100

>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 =  126 bits (318), Expect = 4e-40
 Identities = 38/76 (50%), Positives = 58/76 (76%)

Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+ 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

Query: 62 MKEILEKHRVHSKNLE 77
          M ++L K+  +++  E
Sbjct: 61 MDKVLLKYTEYNEPHE 76

>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 =  125 bits (316), Expect = 2e-39
 Identities = 27/89 (30%), Positives = 46/89 (51%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
            R KI+++ IDN   R  TFSKR+ GI KKA ELS L    V L++ S TG ++ +++ 
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 SMKEILEKHRVHSKNLERVDQPSVELQVS 89
           ++ ++      +     ++ P    +  
Sbjct: 69 KLQPMITSETGKALIQTCLNSPDSPPRSD 97

>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 =  122 bits (309), Expect = 2e-38
 Identities = 27/82 (32%), Positives = 45/82 (54%)

Query: 1  MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSS 60
            R KI+++ IDN   R  TFSKR+ GI KKA ELS L    V L++ S TG ++ +++ 
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 SMKEILEKHRVHSKNLERVDQP 82
           ++ ++      +     ++ P
Sbjct: 70 KLQPMITSETGKALIQTCLNSP 91

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	96
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	100.0
1egw_A	77	MADS box transcription enhancer factor 2, polypept	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

>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-37  Score=197.03  Aligned_cols=79  Identities=48%  Similarity=0.733  Sum_probs=75.3

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccccccCC
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVD   80 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~~~~~~   80 (96)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||||||+|+|++|+|+|+++++||+||+..++......
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            8999999999999999999999999999999999999999999999999999999999999999999999987765543

>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=2.8e-37  Score=190.64  Aligned_cols=74  Identities=50%  Similarity=0.785  Sum_probs=70.3

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccc
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKN   75 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~   75 (96)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||||||+|+|++|+|+|+++++||+||+..+++
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            89999999999999999999999999999999999999999999999999999999999999999999998754

>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=2.4e-37  Score=198.77  Aligned_cols=85  Identities=40%  Similarity=0.576  Sum_probs=80.1

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccccccCC
Q 034367            1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVD   80 (96)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~~~~~~   80 (96)
                      |||+||+|++|+|+..|++||+||+.||||||+|||+||||+||||||+|+|++|+|+|++++.||++|...+....+.+
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~~~il~r~~G~~lw~~cl~   95 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRNLIQACLN   95 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHHHHHHHHHT
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCHHHHHHHhhCCcHHHHhcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998888777777


Q ss_pred             CCChh
Q 034367           81 QPSVE   85 (96)
Q Consensus        81 ~~~~e   85 (96)
                      .|++|
T Consensus        96 ~~~~~  100 (100)
T 1mnm_A           96 APDDE  100 (100)
T ss_dssp             SCCC-
T ss_pred             CCCCC
Confidence            77654

>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=2.1e-36  Score=192.02  Aligned_cols=78  Identities=33%  Similarity=0.489  Sum_probs=72.0

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhccccccc
Q 034367            1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLER   78 (96)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~~~~   78 (96)
                      |||+||+|++|+|+..|++||+||+.||||||+|||+||||+||||||+|+|++|+|+|++++++|++|........+
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~~~~i~~~~Gk~Li~~c   87 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETGKALIQTC   87 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGGGGGTSSHHHHHHHHHH
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCHHHHHhhhcccHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999977654443333

>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=1.1e-35  Score=191.97  Aligned_cols=71  Identities=37%  Similarity=0.570  Sum_probs=68.4

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhh
Q 034367            1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRV   71 (96)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~   71 (96)
                      |||+||+|++|+|+..|++||+||+.||||||+|||+||||+||||||+|+|++|+|++++++.+|+++..
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~~G   79 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   79 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSHHH
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999987543

---

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	96
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	2e-34
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	1e-33
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	1e-33

>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 =  110 bits (278), Expect = 2e-34
 Identities = 27/80 (33%), Positives = 45/80 (56%)

Query: 3  REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSM 62
          R KI+++ IDN   R  TFSKR+ GI KKA ELS L    V L++ S TG ++ +++  +
Sbjct: 4  RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 63

Query: 63 KEILEKHRVHSKNLERVDQP 82
          + ++      +     ++ P
Sbjct: 64 QPMITSETGKALIQTCLNSP 83

>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 =  108 bits (273), Expect = 1e-33
 Identities = 37/70 (52%), Positives = 55/70 (78%)

Query: 3  REKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSM 62
          R+KIQI +I +   RQVTF+KR+ G+ KKA ELSVLCD ++ALIIF+++ KLF+Y+S+ M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 KEILEKHRVH 72
           ++L K+  +
Sbjct: 62 DKVLLKYTEY 71

>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 (273), Expect = 1e-33
 Identities = 33/81 (40%), Positives = 48/81 (59%)

Query: 2  AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSS 61
           R KI+IK I+N T R VTFSKR+ GI KKA ELSVL    V L++ S TG ++ +S+  
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPK 62

Query: 62 MKEILEKHRVHSKNLERVDQP 82
           + I+ +    +     ++ P
Sbjct: 63 FEPIVTQQEGRNLIQACLNAP 83

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	96
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=1.6e-37  Score=187.63  Aligned_cols=71  Identities=52%  Similarity=0.812  Sum_probs=69.3

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhc
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVH   72 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~   72 (96)
                      ||+||+|++|+|+..|++||+||+.||+|||.|||+||||+||||||+|+|++++|+|+++++||++|++.
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=6.3e-37  Score=189.87  Aligned_cols=82  Identities=33%  Similarity=0.513  Sum_probs=75.3

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccccccCC
Q 034367            1 MAREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVD   80 (96)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~~~~~~   80 (96)
                      +||+||+|++|+|+..|++||+||+.||||||+|||+||||+||||||+|+|++|+|+|++++++|++|..........+
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~~~vi~~~~~~~l~~~~l~   81 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETGKALIQTCLN   81 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGGHHHHSSHHHHHHHHHHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHHHHHHHHhccC
Confidence            69999999999999999999999999999999999999999999999999999999999999999999987765554443


Q ss_pred             CC
Q 034367           81 QP   82 (96)
Q Consensus        81 ~~   82 (96)
                      .|
T Consensus        82 ~~   83 (84)
T d1srsa_          82 SP   83 (84)
T ss_dssp             SC
T ss_pred             CC
Confidence            33

>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=1.4e-36  Score=188.94  Aligned_cols=82  Identities=40%  Similarity=0.600  Sum_probs=77.0

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhHhhhhccccceEEEEecCCCceeeccCCchHHHHHHhhhcccccccCCC
Q 034367            2 AREKIQIKKIDNATARQVTFSKRRRGIFKKAEELSVLCDADVALIIFSATGKLFEYSSSSMKEILEKHRVHSKNLERVDQ   81 (96)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~gL~kKa~Els~LC~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~s~~~~~~~~   81 (96)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||||||+|+|++|+|+||+++.||++|+..+..+...+.
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~~~~~~~~~~~   82 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRNLIQACLNA   82 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHHHHHHHHHTS
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhcccHHHHcccC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999988877766555


Q ss_pred             CC
Q 034367           82 PS   83 (96)
Q Consensus        82 ~~   83 (96)
                      ++
T Consensus        83 ~d   84 (85)
T d1mnma_          83 PD   84 (85)
T ss_dssp             CC
T ss_pred             CC
Confidence            43