Citrus Sinensis ID: 033826

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-
Protein Sequence
MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGKRQYLKT
Secondary Structure (PSIPRED)
cccccEEEEEEcccccccEEEEcccccHHHHHHHHHEEcccEEEEEEEcccccEEEEcccHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEcccHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQkgrlyefsSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEIslgkrqylkt
Flexible Loop (DISEMBL)
mvrgkiqmkkiendtsrqvtfskrrngMLKKAYELSVLCDAEVAVIIFSqkgrlyefsssemqKTLERYYRYTeerqidrngmerYMQVRPLYLNLItfeislgkrqylkt
Low Complexity Region (SEG)
MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGKRQYLKT
Disordered region (IsUnstruct)
**************************GMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGK******
Disordered Region (DISOPRED)
***GKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERY***********************************K******
Disordered Region (DISEMBL)
********KKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGKRQYLKT
Disordered Region (DISPRO)
****KIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGKR*****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGKRQYLKT
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	111	2.2.26 [Sep-21-2011]
O64645	214	MADS-box protein SOC1 OS=	no	no	0.792	0.411	0.693	2e-29
Q9XJ60	230	MADS-box transcription fa	yes	no	0.675	0.326	0.76	1e-28
P0C5B2	233	MADS-box transcription fa	no	no	0.864	0.412	0.587	9e-27
A2Z9Q7	233	MADS-box transcription fa	N/A	no	0.864	0.412	0.587	1e-26
O82743	219	Agamous-like MADS-box pro	no	no	0.675	0.342	0.72	8e-26
Q38838	221	Agamous-like MADS-box pro	no	no	0.639	0.321	0.763	2e-25
Q39295	264	Agamous-like MADS-box pro	N/A	no	0.981	0.412	0.532	8e-25
Q6EU39	250	MADS-box transcription fa	no	no	0.747	0.332	0.626	1e-24
Q6Q9H6	239	MADS-box transcription fa	no	no	0.648	0.301	0.712	2e-24
Q0D4T4	249	MADS-box transcription fa	no	no	0.702	0.313	0.65	3e-24

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

 Score =  127 bits (320), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/88 (69%), Positives = 74/88 (84%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGK QMK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEV++IIFS KG+LYEF+SS
Sbjct: 1  MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSPKGKLYEFASS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
           MQ T++RY R+T++R   +   E  MQ
Sbjct: 61 NMQDTIDRYLRHTKDRVSTKPVSEENMQ 88

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

 Score =  125 bits (313), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 57/75 (76%), Positives = 68/75 (90%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGK QMK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA+I+FS +G+LYEF+S+
Sbjct: 1  MVRGKTQMKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGKLYEFASA 60

Query: 61 EMQKTLERYYRYTEE 75
            QKT+ERY  YT+E
Sbjct: 61 STQKTIERYRTYTKE 75

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

 Score =  118 bits (296), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 57/97 (58%), Positives = 77/97 (79%), Gaps = 1/97 (1%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRG+ ++K+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA+I+FS +GRLYEF+S+
Sbjct: 1  MVRGRTELKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFASA 60

Query: 61 E-MQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNL 96
            +QKT++RY  YT++   ++   +   QV+   L L
Sbjct: 61 PSLQKTIDRYKAYTKDHVNNKTIQQDIQQVKDDTLGL 97

Probable transcription factor.

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 =  118 bits (296), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 57/97 (58%), Positives = 77/97 (79%), Gaps = 1/97 (1%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRG+ ++K+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA+I+FS +GRLYEF+S+
Sbjct: 1  MVRGRTELKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGRLYEFASA 60

Query: 61 E-MQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNL 96
            +QKT++RY  YT++   ++   +   QV+   L L
Sbjct: 61 PSLQKTIDRYKAYTKDHVNNKTIQQDIQQVKDDTLGL 97

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  115 bits (288), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 54/75 (72%), Positives = 65/75 (86%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGK +MK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA++IFS + +LYEFSSS
Sbjct: 1  MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALVIFSPRSKLYEFSSS 60

Query: 61 EMQKTLERYYRYTEE 75
           +  T+ERY R  +E
Sbjct: 61 SIAATIERYQRRIKE 75

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

 Score =  114 bits (284), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/72 (76%), Positives = 65/72 (90%), Gaps = 1/72 (1%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEF-SS 59
          MVRGK +MK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA+IIFS +G+LYEF SS
Sbjct: 1  MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query: 60 SEMQKTLERYYR 71
          S + KT+ERY +
Sbjct: 61 SSIPKTVERYQK 72

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q39295|AGL15_BRANA Agamous-like MADS-box protein AGL15 OS=Brassica napus GN=AGL15 PE=3 SV=1

 Score =  112 bits (279), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 58/109 (53%), Positives = 78/109 (71%)

Query: 1   MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
           M RGKI++K+IEN  SRQVTFSKRR G+LKKA+ELSVLCDAEVAVI+FS+ G+L+EFSS+
Sbjct: 1   MGRGKIEIKRIENANSRQVTFSKRRAGLLKKAHELSVLCDAEVAVIVFSKSGKLFEFSST 60

Query: 61  EMQKTLERYYRYTEERQIDRNGMERYMQVRPLYLNLITFEISLGKRQYL 109
            M+KTL RY  Y     +     +   Q     ++L+  EIS+ + ++L
Sbjct: 61  SMKKTLLRYGNYQISSDVPGINCKTENQEECTEVDLLKDEISMLQEKHL 109

Probable transcription factor.

Brassica napus (taxid: 3708)

>sp|Q6EU39|MADS6_ORYSJ MADS-box transcription factor 6 OS=Oryza sativa subsp. japonica GN=MADS6 PE=1 SV=1

 Score =  111 bits (277), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 52/83 (62%), Positives = 65/83 (78%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          M RG++++K+IEN  +RQVTFSKRRNG+LKKAYELSVLCDAEVA+IIFS +G+LYEF S+
Sbjct: 1  MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSA 60

Query: 61 EMQKTLERYYRYTEERQIDRNGM 83
           + KTLERY       Q   N +
Sbjct: 61 GITKTLERYQHCCYNAQDSNNAL 83

Probable transcription factor. Regulates floral organ identity and floral meristem determinacy. May be involved in the control of flowering time.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6Q9H6|MAD34_ORYSJ MADS-box transcription factor 34 OS=Oryza sativa subsp. japonica GN=MADS34 PE=2 SV=2

 Score =  110 bits (275), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 52/73 (71%), Positives = 63/73 (86%), Gaps = 1/73 (1%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEF-SS 59
          M RGK+ +++IEN  SRQVTF+KRRNG+LKKAYELS+LCDAEVA+++FS  GRLY+F SS
Sbjct: 1  MGRGKVVLQRIENKISRQVTFAKRRNGLLKKAYELSILCDAEVALVLFSHAGRLYQFSSS 60

Query: 60 SEMQKTLERYYRY 72
          S M KTLERY RY
Sbjct: 61 SNMLKTLERYQRY 73

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  110 bits (275), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 52/80 (65%), Positives = 68/80 (85%), Gaps = 2/80 (2%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSS- 59
          M RG +Q+++IEN  +RQVTFSKRRNG+LKKA+E+SVLCDA+VA+I+FS KG+LYEFSS 
Sbjct: 1  MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 60 SEMQKTLERYYRYT-EERQI 78
          S M+  LERY RY+ +ER +
Sbjct: 61 SSMEGILERYQRYSFDERAV 80

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

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	111
154720969	212	SOC1-like protein 2 [Citrus sinensis]	0.792	0.415	1.0	3e-44
225455667	210	PREDICTED: MADS-box protein SOC1-like [V	0.792	0.419	0.738	1e-30
162424637	212	SOC1-like protein 1 [Sinningia speciosa]	0.792	0.415	0.727	1e-30
449506490	218	PREDICTED: MADS-box protein SOC1-like [C	0.792	0.403	0.75	2e-30
449451791	233	PREDICTED: MADS-box protein SOC1-like [C	0.792	0.377	0.75	2e-30
110736687	153	hypothetical protein [Arabidopsis thalia	0.792	0.575	0.704	4e-30
18424559	210	protein agamous-like 42 [Arabidopsis tha	0.792	0.419	0.704	4e-30
334188566	196	protein agamous-like 42 [Arabidopsis tha	0.792	0.448	0.704	5e-30
255539603	213	mads box protein, putative [Ricinus comm	0.693	0.361	0.818	1e-29
327492437	217	suppressor of overexpression of constans	0.792	0.405	0.693	1e-29

>gi|154720969|gb|ABS84660.1| SOC1-like protein 2 [Citrus sinensis]

 Score =  181 bits (460), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 88/88 (100%), Positives = 88/88 (100%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS
Sbjct: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
          EMQKTLERYYRYTEERQIDRNGMERYMQ
Sbjct: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88

Source: Citrus sinensis

Species: Citrus sinensis

Genus: Citrus

Family: Rutaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455667|ref|XP_002263450.1| PREDICTED: MADS-box protein SOC1-like [Vitis vinifera]

 Score =  137 bits (344), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 65/88 (73%), Positives = 76/88 (86%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGKIQM++IEN TSRQVTFSKRRNG+LKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS
Sbjct: 1  MVRGKIQMRRIENATSRQVTFSKRRNGLLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
           MQ  +ERY  + ++ + +   +E+YMQ
Sbjct: 61 NMQSAIERYREHAKQVETNNPELEQYMQ 88

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|162424637|gb|ABX90014.1| SOC1-like protein 1 [Sinningia speciosa]

 Score =  136 bits (343), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 64/88 (72%), Positives = 79/88 (89%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGK+QMK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA+I+FSQKGRLYEFSSS
Sbjct: 1  MVRGKVQMKRIENATSRQVTFSKRRNGLLKKAHELSVLCDAEVALIVFSQKGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
          +MQKT+ RY+ +T+E +     +E++MQ
Sbjct: 61 DMQKTIRRYFEHTKEDRSANVRVEQHMQ 88

Source: Sinningia speciosa

Species: Sinningia speciosa

Genus: Sinningia

Family: Gesneriaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449506490|ref|XP_004162764.1| PREDICTED: MADS-box protein SOC1-like [Cucumis sativus]

 Score =  136 bits (342), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 66/88 (75%), Positives = 78/88 (88%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGK++MK+IEN TSRQVTFSKRRNG+LKKAYELSVLCDAEV+VIIFSQKGRLYEFSSS
Sbjct: 1  MVRGKVEMKRIENSTSRQVTFSKRRNGLLKKAYELSVLCDAEVSVIIFSQKGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
          +MQKT+ERY ++ ++ Q +    E YMQ
Sbjct: 61 DMQKTIERYRKHGKDGQSNPFRSEGYMQ 88

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449451791|ref|XP_004143644.1| PREDICTED: MADS-box protein SOC1-like [Cucumis sativus]

 Score =  135 bits (341), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 66/88 (75%), Positives = 78/88 (88%)

Query: 1   MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
           MVRGK++MK+IEN TSRQVTFSKRRNG+LKKAYELSVLCDAEV+VIIFSQKGRLYEFSSS
Sbjct: 16  MVRGKVEMKRIENSTSRQVTFSKRRNGLLKKAYELSVLCDAEVSVIIFSQKGRLYEFSSS 75

Query: 61  EMQKTLERYYRYTEERQIDRNGMERYMQ 88
           +MQKT+ERY ++ ++ Q +    E YMQ
Sbjct: 76  DMQKTIERYRKHGKDGQSNPFRSEGYMQ 103

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110736687|dbj|BAF00307.1| hypothetical protein [Arabidopsis thaliana]

 Score =  135 bits (339), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 62/88 (70%), Positives = 79/88 (89%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGKI+MKKIEN TSRQVTFSKRRNG+LKKAYELSVLCDA++++IIFSQ+GRLYEFSSS
Sbjct: 1  MVRGKIEMKKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
          +MQKT+ERY +YT++ +   +  + ++Q
Sbjct: 61 DMQKTIERYRKYTKDHETSNHDSQIHLQ 88

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18424559|ref|NP_568952.1| protein agamous-like 42 [Arabidopsis thaliana] gi|30697641|ref|NP_851247.1| protein agamous-like 42 [Arabidopsis thaliana] gi|79331885|ref|NP_001032123.1| protein agamous-like 42 [Arabidopsis thaliana] gi|10176935|dbj|BAB10179.1| MADS box protein-like [Arabidopsis thaliana] gi|15809905|gb|AAL06880.1| At2g45660/F17K2.19 [Arabidopsis thaliana] gi|17528944|gb|AAL38682.1| unknown protein [Arabidopsis thaliana] gi|17978861|gb|AAL47402.1| At2g45660/F17K2.19 [Arabidopsis thaliana] gi|20465947|gb|AAM20159.1| unknown protein [Arabidopsis thaliana] gi|32402390|gb|AAN52777.1| MADS-box protein AGL42 [Arabidopsis thaliana] gi|332010189|gb|AED97572.1| protein agamous-like 42 [Arabidopsis thaliana] gi|332010190|gb|AED97573.1| protein agamous-like 42 [Arabidopsis thaliana] gi|332010191|gb|AED97574.1| protein agamous-like 42 [Arabidopsis thaliana]

 Score =  135 bits (339), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 62/88 (70%), Positives = 79/88 (89%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGKI+MKKIEN TSRQVTFSKRRNG+LKKAYELSVLCDA++++IIFSQ+GRLYEFSSS
Sbjct: 1  MVRGKIEMKKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
          +MQKT+ERY +YT++ +   +  + ++Q
Sbjct: 61 DMQKTIERYRKYTKDHETSNHDSQIHLQ 88

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334188566|ref|NP_001190593.1| protein agamous-like 42 [Arabidopsis thaliana] gi|227202618|dbj|BAH56782.1| AT5G62165 [Arabidopsis thaliana] gi|332010192|gb|AED97575.1| protein agamous-like 42 [Arabidopsis thaliana]

 Score =  134 bits (338), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 62/88 (70%), Positives = 79/88 (89%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGKI+MKKIEN TSRQVTFSKRRNG+LKKAYELSVLCDA++++IIFSQ+GRLYEFSSS
Sbjct: 1  MVRGKIEMKKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
          +MQKT+ERY +YT++ +   +  + ++Q
Sbjct: 61 DMQKTIERYRKYTKDHETSNHDSQIHLQ 88

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539603|ref|XP_002510866.1| mads box protein, putative [Ricinus communis] gi|223549981|gb|EEF51468.1| mads box protein, putative [Ricinus communis]

 Score =  134 bits (336), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 63/77 (81%), Positives = 72/77 (93%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGKIQM++IEN TSRQVTFSKRRNG+LKKAYELSVLCDAEVAVIIFSQKGRL EF+S+
Sbjct: 1  MVRGKIQMRRIENATSRQVTFSKRRNGLLKKAYELSVLCDAEVAVIIFSQKGRLSEFASN 60

Query: 61 EMQKTLERYYRYTEERQ 77
          EMQKT+ERY ++ +E Q
Sbjct: 61 EMQKTIERYRKHAKEVQ 77

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|327492437|dbj|BAK18559.1| suppressor of overexpression of constans 1-like protein [Eustoma exaltatum subsp. russellianum]

 Score =  133 bits (335), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 61/88 (69%), Positives = 78/88 (88%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          MVRGK QM++IEN TSRQVTFSKRRNG+LKKA+ELSVLCDA+VA+IIFS +G+LYEFSSS
Sbjct: 1  MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAQVALIIFSPRGKLYEFSSS 60

Query: 61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
           MQ+T+ERY+++T++ Q D+  +E  MQ
Sbjct: 61 SMQETIERYHKHTKDVQTDKPLVEENMQ 88

Source: Eustoma exaltatum subsp. russellianum

Species: Eustoma exaltatum

Genus: Eustoma

Family: Gentianaceae

Order: Gentianales

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	111
TAIR|locus:505006709	210	AGL42 "AGAMOUS-like 42" [Arabi	0.792	0.419	0.704	7.9e-30
TAIR|locus:2005522	214	AGL20 "AT2G45660" [Arabidopsis	0.792	0.411	0.693	2.2e-27
UNIPROTKB|Q9ATE3	215	FBP28 "MADS-box transcription	0.765	0.395	0.682	1.2e-26
TAIR|locus:2165386	211	AGL72 "AGAMOUS-like 72" [Arabi	0.792	0.417	0.640	1.1e-25
UNIPROTKB|Q9ATE9	216	FBP20 "MADS-box transcription	0.792	0.407	0.617	9.7e-25
TAIR|locus:2140578	256	STK "AT4G09960" [Arabidopsis t	0.621	0.269	0.695	1.5e-24
UNIPROTKB|Q40885	242	AG1 "Floral homeotic protein A	0.603	0.276	0.701	1.5e-24
TAIR|locus:2127213	219	AGL19 "AGAMOUS-like 19" [Arabi	0.675	0.342	0.72	3.3e-24
TAIR|locus:2137070	221	AGL14 "AGAMOUS-like 14" [Arabi	0.675	0.339	0.723	5.3e-24
UNIPROTKB|Q6EU39	250	MADS6 "MADS-box transcription	0.747	0.332	0.626	3.8e-23

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

 Score = 330 (121.2 bits), Expect = 7.9e-30, P = 7.9e-30
 Identities = 62/88 (70%), Positives = 79/88 (89%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGKI+MKKIEN TSRQVTFSKRRNG+LKKAYELSVLCDA++++IIFSQ+GRLYEFSSS
Sbjct:     1 MVRGKIEMKKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQLSLIIFSQRGRLYEFSSS 60

Query:    61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
             +MQKT+ERY +YT++ +   +  + ++Q
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

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

 Score = 307 (113.1 bits), Expect = 2.2e-27, P = 2.2e-27
 Identities = 61/88 (69%), Positives = 74/88 (84%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGK QMK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEV++IIFS KG+LYEF+SS
Sbjct:     1 MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSPKGKLYEFASS 60

Query:    61 EMQKTLERYYRYTEERQIDRNGMERYMQ 88
              MQ T++RY R+T++R   +   E  MQ
Sbjct:    61 NMQDTIDRYLRHTKDRVSTKPVSEENMQ 88

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 = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 58/85 (68%), Positives = 75/85 (88%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGK QM++IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEV++IIFS +G+LYEFSSS
Sbjct:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSTRGKLYEFSSS 60

Query:    61 EMQKTLERYYRYTEERQIDRNGMER 85
              MQ+ +ERY R++E+ Q ++  +E+
Sbjct:    61 SMQEIIERYRRHSEDVQGEKPAVEQ 85

GO:0005515 "protein binding" evidence=IPI

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

 Score = 291 (107.5 bits), Expect = 1.1e-25, P = 1.1e-25
 Identities = 57/89 (64%), Positives = 76/89 (85%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGKI++KKIEN TSRQVTFSKRR+G+ KKA+ELSVLCDA+VA +IFSQKGRLYEF+SS
Sbjct:     1 MVRGKIEIKKIENVTSRQVTFSKRRSGLFKKAHELSVLCDAQVAAMIFSQKGRLYEFASS 60

Query:    61 EMQKTLERYYRYTEERQI-DRNGMERYMQ 88
             +++ T++RY  Y  E  + + + +E+Y+Q
Sbjct:    61 DIRNTIKRYAEYKREYFVAETHPIEQYVQ 89

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

 Score = 282 (104.3 bits), Expect = 9.7e-25, P = 9.7e-25
 Identities = 55/89 (61%), Positives = 73/89 (82%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGK QM++IEN TSRQVTFSKRRNG+LKKA+ELSVLCDA+V ++IFS +G+ YEFSSS
Sbjct:     1 MVRGKTQMRRIENATSRQVTFSKRRNGLLKKAFELSVLCDAQVGLVIFSPRGKQYEFSSS 60

Query:    61 EMQKTLERYYRYTEER-QIDRNGMERYMQ 88
              MQ+ +ERY  +T+++ Q +    E+ +Q
Sbjct:    61 SMQEIIERYKGHTKDKVQTENQAGEQNLQ 89

GO:0005515 "protein binding" evidence=IPI

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

 Score = 262 (97.3 bits), Expect = 1.5e-24, Sum P(2) = 1.5e-24
 Identities = 48/69 (69%), Positives = 63/69 (91%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             M RGKI++K+IEN T+RQVTF KRRNG+LKKAYELSVLCDAEVA+I+FS +GRLYE++++
Sbjct:    27 MGRGKIEIKRIENSTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYANN 86

Query:    61 EMQKTLERY 69
              ++ T+ERY
Sbjct:    87 NIRSTIERY 95

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

 Score = 259 (96.2 bits), Expect = 1.5e-24, Sum P(2) = 1.5e-24
 Identities = 47/67 (70%), Positives = 62/67 (92%)

Query:     3 RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
             RGKI++K+IEN T+RQVTF KRRNG+LKKAYELSVLCDAEVA+I+FS +GRLYE++++ +
Sbjct:    19 RGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYANNSV 78

Query:    63 QKTLERY 69
             + T+ERY
Sbjct:    79 KATIERY 85

GO:0005515 "protein binding" evidence=IPI

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

 Score = 277 (102.6 bits), Expect = 3.3e-24, P = 3.3e-24
 Identities = 54/75 (72%), Positives = 65/75 (86%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGK +MK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA++IFS + +LYEFSSS
Sbjct:     1 MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALVIFSPRSKLYEFSSS 60

Query:    61 EMQKTLERYYRYTEE 75
              +  T+ERY R  +E
Sbjct:    61 SIAATIERYQRRIKE 75

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 = 275 (101.9 bits), Expect = 5.3e-24, P = 5.3e-24
 Identities = 55/76 (72%), Positives = 67/76 (88%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             MVRGK +MK+IEN TSRQVTFSKRRNG+LKKA+ELSVLCDAEVA+IIFS +G+LYEFSSS
Sbjct:     1 MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query:    61 E-MQKTLERYYRYTEE 75
               + KT+ERY +  ++
Sbjct:    61 SSIPKTVERYQKRIQD 76

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

UNIPROTKB|Q6EU39 MADS6 "MADS-box transcription factor 6" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 52/83 (62%), Positives = 65/83 (78%)

Query:     1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
             M RG++++K+IEN  +RQVTFSKRRNG+LKKAYELSVLCDAEVA+IIFS +G+LYEF S+
Sbjct:     1 MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSA 60

Query:    61 EMQKTLERYYRYTEERQIDRNGM 83
              + KTLERY       Q   N +
Sbjct:    61 GITKTLERYQHCCYNAQDSNNAL 83

GO:0005515 "protein binding" evidence=IPI

GO:0010022 "meristem determinacy" evidence=IMP

GO:0010093 "specification of floral organ identity" evidence=IMP

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

---

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	0.76	0.6756	0.3260	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: GSVIVG00010608001 SubName- Full=Chromosome chr16 scaffold_271, whole genome shotgun sequence; (194 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	111
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	2e-43
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	1e-33
smart00432	59	smart00432, MADS, MADS domain	1e-33
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	1e-29
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	1e-23
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	9e-15

>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 (344), Expect = 2e-43
 Identities = 51/76 (67%), Positives = 63/76 (82%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          RGKI++K+IEN T+RQVTFSKRRNG+LKKA+ELSVLCDAEVA+IIFS  G+LYEFSS  M
Sbjct: 2  RGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSM 61

Query: 63 QKTLERYYRYTEERQI 78
          +K +ERY + +     
Sbjct: 62 EKIIERYQKTSGSSLW 77

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

 Score =  110 bits (278), Expect = 1e-33
 Identities = 46/58 (79%), Positives = 52/58 (89%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          RGKI++K+IEN TSRQVTFSKRRNG+ KKA ELSVLCDAEVAVI+FS  G+LYEF 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|197721 smart00432, MADS, MADS domain

 Score =  110 bits (277), Expect = 1e-33
 Identities = 42/58 (72%), Positives = 52/58 (89%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          R KI++K+IEN T+RQVTFSKRRNG+ KKA+ELSVLCDAEVA+I+FS  G+LYEF+S 
Sbjct: 2  RRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59

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 =  101 bits (253), Expect = 1e-29
 Identities = 39/70 (55%), Positives = 50/70 (71%), Gaps = 1/70 (1%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEF-SSSE 61
          R KI++K+IEN   R VTFSKRR G+ KKA ELS LC AEVAVI++S  G+LY F  SSE
Sbjct: 2  RKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSE 61

Query: 62 MQKTLERYYR 71
          ++  + R+  
Sbjct: 62 VEGVISRFEV 71

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 = 85.1 bits (211), Expect = 1e-23
 Identities = 40/51 (78%), Positives = 47/51 (92%)

Query: 9  KKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSS 59
          K+IEN ++RQVTFSKRRNG+ KKA+ELSVLCDAEVAVIIFS  G+LYE+SS
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYSS 51

Length = 51

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

 Score = 68.1 bits (166), Expect = 9e-15
 Identities = 26/66 (39%), Positives = 44/66 (66%)

Query: 1   MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
           +   KI +  I N T R VTFSKR++G+ KKA+ELSVL   EV +++ S+ G ++ F++ 
Sbjct: 81  VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP 140

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

Length = 412

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	111
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.97
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.97
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.96
smart00432	59	MADS MADS domain.	99.95
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.95
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.91
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.82
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.52

>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=99.97  E-value=3e-33  Score=177.55  Aligned_cols=76  Identities=67%  Similarity=0.992  Sum_probs=73.1

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHcchhhhh
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQ   77 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~~~~~~   77 (111)
                      ||+||+|++|+|+..|++||+||+.||||||.|||+||||+||+|||+|+|++++|+||++.+||++|...++...
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~~~~   76 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSGSSL   76 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhcccccc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999999877643

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=99.97  E-value=2.9e-32  Score=196.53  Aligned_cols=80  Identities=60%  Similarity=0.970  Sum_probs=75.6

Q ss_pred             CCCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCch--HHHHHHHHHcchhhhhc
Q 033826            1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSE--MQKTLERYYRYTEERQI   78 (111)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~--~~~vl~ry~~~~~~~~~   78 (111)
                      |||+||+|++|+|++.|++||+||+.||||||+||||||||+||+|||||+|++|+|++|+  +.+++++|...+.....
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            9999999999999999999999999999999999999999999999999999999999976  99999999998777655


Q ss_pred             ch
Q 033826           79 DR   80 (111)
Q Consensus        79 ~~   80 (111)
                      +.
T Consensus        81 ~~   82 (195)
T KOG0014|consen   81 KK   82 (195)
T ss_pred             cc
Confidence            44

>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=99.96  E-value=1.5e-30  Score=167.18  Aligned_cols=78  Identities=47%  Similarity=0.729  Sum_probs=73.5

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCch-HHHHHHHHHcchhhhhcc
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSE-MQKTLERYYRYTEERQID   79 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~-~~~vl~ry~~~~~~~~~~   79 (111)
                      ||+||+|++|+|+.+|++||+||+.||+|||+|||+||||+||+|||||+|..+.|++++ +.+++++|..++...+..
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~   79 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALERKK   79 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhhhc
Confidence            899999999999999999999999999999999999999999999999999999998865 999999999988866544

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=99.95  E-value=1.8e-29  Score=152.79  Aligned_cols=59  Identities=71%  Similarity=1.064  Sum_probs=58.0

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCc
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS   60 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~   60 (111)
                      ||+||+|++|+|++.|++||+||+.||+|||.|||+||||+||+|||+|+|.+++|++|
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            89999999999999999999999999999999999999999999999999999999886

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

Probab=99.95  E-value=9.9e-29  Score=149.58  Aligned_cols=59  Identities=78%  Similarity=1.110  Sum_probs=57.7

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCc
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS   60 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~   60 (111)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||||+|.+++|++|
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            79999999999999999999999999999999999999999999999999999999875

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=99.91  E-value=1.1e-26  Score=136.74  Aligned_cols=51  Identities=59%  Similarity=1.000  Sum_probs=46.9

Q ss_pred             eEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccC
Q 033826            9 KKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSS   59 (111)
Q Consensus         9 ~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s   59 (111)
                      ++|+|+..|++||+||+.||+|||+|||+||||+||+|||+|+|++++|+|
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=99.82  E-value=2.1e-21  Score=148.25  Aligned_cols=66  Identities=42%  Similarity=0.705  Sum_probs=62.3

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHH
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLE   67 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~   67 (111)
                      ||+||+|.||+|+.+|.+||+|||.||||||+||++|+|.+|.|+|.|++|.+|+|++|.++.||.
T Consensus        63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~  128 (338)
T KOG0015|consen   63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMIT  128 (338)
T ss_pred             ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEecccccccccc
Confidence            699999999999999999999999999999999999999999999999999999999986665553

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

Probab=99.52  E-value=4.5e-15  Score=117.53  Aligned_cols=69  Identities=38%  Similarity=0.621  Sum_probs=64.7

Q ss_pred             CCCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHH
Q 033826            1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERY   69 (111)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry   69 (111)
                      |||+||.|.+|+|+.+|.+||.||+.||+|||.||++|+|.+|.++|.+.+|..+.|++|..+.|+...
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            789999999999999999999999999999999999999999999999999999999998777766443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	111
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		6e-18
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		9e-18
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		1e-17
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		1e-17
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		4e-17
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		5e-17
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		1e-11
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		1e-09
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		1e-09

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

Iteration: 1
 Score = 85.5 bits (210), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 59/77 (76%)
Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
          M R KIQ+ +I +  +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   RL++++S+
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 EMQKTLERYYRYTEERQ 77
          +M + L +Y  Y+E  +
Sbjct: 61 DMDRVLLKYTEYSEPHE 77

>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 = 85.1 bits (209), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
           K L +Y  Y E  +
Sbjct: 62 DKVLLKYTEYNEPHE 76

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

Iteration: 1
 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
           K L +Y  Y E  +
Sbjct: 62 DKVLLKYTEYNEPHE 76

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

Iteration: 1
 Score = 84.3 bits (207), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I +  +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   RL++++S++M
Sbjct: 2  RKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
           + L +Y  Y+E  +
Sbjct: 62 DRVLLKYTEYSEPHE 76

>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 = 83.2 bits (204), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 37/75 (49%), Positives = 58/75 (77%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVL DAE+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRYTEERQ 77
           K L +Y  Y E  +
Sbjct: 62 DKVLLKYTEYNEPHE 76

>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 = 82.4 bits (202), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 36/70 (51%), Positives = 56/70 (80%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61
Query: 63 QKTLERYYRY 72
           K L +Y  Y
Sbjct: 62 DKVLLKYTAY 71

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

Iteration: 1
 Score = 64.7 bits (156), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 30/61 (49%), Positives = 46/61 (75%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KI++K IEN T R VTFSKR++G++KKA+ELSVL   +V +++ S+ G +Y FS+ + 
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77
Query: 63 Q 63
          +
Sbjct: 78 E 78

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 43/61 (70%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KI+M+ I+N   R  TFSKR+ G++KKAYELS L   +V +++ S+ G +Y F++ ++
Sbjct: 12 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 71
Query: 63 Q 63
          Q
Sbjct: 72 Q 72

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/61 (44%), Positives = 43/61 (70%)
Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KI+M+ I+N   R  TFSKR+ G++KKAYELS L   +V +++ S+ G +Y F++ ++
Sbjct: 11 RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 70
Query: 63 Q 63
          Q
Sbjct: 71 Q 71

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	111
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	5e-41
1egw_A	77	MADS box transcription enhancer factor 2, polypept	2e-40
1hbx_A	92	SRF, serum response factor; gene regulation, trans	1e-39
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	3e-39
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	8e-39

>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 =  129 bits (327), Expect = 5e-41
 Identities = 38/79 (48%), Positives = 59/79 (74%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 QKTLERYYRYTEERQIDRN 81
           K L +Y  Y E  +   N
Sbjct: 62 DKVLLKYTEYNEPHESRTN 80

>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 = 2e-40
 Identities = 37/75 (49%), Positives = 58/75 (77%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 QKTLERYYRYTEERQ 77
           K L +Y  Y E  +
Sbjct: 62 DKVLLKYTEYNEPHE 76

>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 =  126 bits (318), Expect = 1e-39
 Identities = 27/77 (35%), Positives = 45/77 (58%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
            R KI+M+ I+N   R  TFSKR+ G++KKAYELS L   +V +++ S+ G +Y F++ 
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 EMQKTLERYYRYTEERQ 77
          ++Q  +         + 
Sbjct: 70 KLQPMITSETGKALIQT 86

>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 = 3e-39
 Identities = 27/77 (35%), Positives = 45/77 (58%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
            R KI+M+ I+N   R  TFSKR+ G++KKAYELS L   +V +++ S+ G +Y F++ 
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 EMQKTLERYYRYTEERQ 77
          ++Q  +         + 
Sbjct: 69 KLQPMITSETGKALIQT 85

>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 =  124 bits (313), Expect = 8e-39
 Identities = 30/77 (38%), Positives = 49/77 (63%)

Query: 1  MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSS 60
            R KI++K IEN T R VTFSKR++G++KKA+ELSVL   +V +++ S+ G +Y FS+ 
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61 EMQKTLERYYRYTEERQ 77
          + +  + +       + 
Sbjct: 76 KFEPIVTQQEGRNLIQA 92

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	111
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	99.98
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.98
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	99.97

>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=1.1e-36  Score=192.29  Aligned_cols=75  Identities=49%  Similarity=0.885  Sum_probs=70.2

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHcchhhh
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEER   76 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~~~~~   76 (111)
                      ||+||+|++|+|+.+|++||+||+.||+|||+|||+||||+||||||||+|++|+|+||++++||++|+..++++
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~~~~il~ry~~~~~~~   75 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEPH   75 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC----
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCCHHHHHHHHHhccCCC
Confidence            899999999999999999999999999999999999999999999999999999999999999999999877643

>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=2.4e-36  Score=195.32  Aligned_cols=80  Identities=48%  Similarity=0.843  Sum_probs=76.0

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHcchhhhhcchh
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTEERQIDRN   81 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~~~~~~~~~~   81 (111)
                      ||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||||+|++|+|+||++++||++|+..++.+...+.
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~~~il~rY~~~~~~~~~~~~   80 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEPHESRTN   80 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHCCSCCCEECH
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCHHHHHHHHHhcCcccccCCh
Confidence            89999999999999999999999999999999999999999999999999999999999999999999998887665443

>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=99.98  E-value=6.8e-35  Score=191.59  Aligned_cols=73  Identities=41%  Similarity=0.651  Sum_probs=70.3

Q ss_pred             CCCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHcch
Q 033826            1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYT   73 (111)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~~   73 (111)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||||+|++|+|+||++..|+++|....
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            8999999999999999999999999999999999999999999999999999999999999999999887643

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

Probab=99.98  E-value=6.5e-35  Score=189.32  Aligned_cols=71  Identities=38%  Similarity=0.596  Sum_probs=68.7

Q ss_pred             CCCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHc
Q 033826            1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYR   71 (111)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~   71 (111)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||||+|++|+|+||+++++|++|..
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            99999999999999999999999999999999999999999999999999999999999999999987654

>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=99.97  E-value=3.4e-34  Score=189.26  Aligned_cols=70  Identities=39%  Similarity=0.609  Sum_probs=67.8

Q ss_pred             CCCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHH
Q 033826            1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYY   70 (111)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~   70 (111)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||||+|++|+|+||++.++|+++.
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~~   78 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSET   78 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSHH
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhhh
Confidence            9999999999999999999999999999999999999999999999999999999999999999998643

---

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	111
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	9e-35
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	2e-34
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	3e-34

>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 =  112 bits (282), Expect = 9e-35
 Identities = 36/70 (51%), Positives = 56/70 (80%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KIQ+ +I ++ +RQVTF+KR+ G++KKAYELSVLCD E+A+IIF+   +L++++S++M
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 63 QKTLERYYRY 72
           K L +Y  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 =  112 bits (281), Expect = 2e-34
 Identities = 27/75 (36%), Positives = 45/75 (60%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KI+M+ I+N   R  TFSKR+ G++KKAYELS L   +V +++ S+ G +Y F++ ++
Sbjct: 4  RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL 63

Query: 63 QKTLERYYRYTEERQ 77
          Q  +         + 
Sbjct: 64 QPMITSETGKALIQT 78

>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 =  111 bits (279), Expect = 3e-34
 Identities = 30/75 (40%), Positives = 49/75 (65%)

Query: 3  RGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEM 62
          R KI++K IEN T R VTFSKR++G++KKA+ELSVL   +V +++ S+ G +Y FS+ + 
Sbjct: 4  RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 63

Query: 63 QKTLERYYRYTEERQ 77
          +  + +       + 
Sbjct: 64 EPIVTQQEGRNLIQA 78

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	111
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	100.0
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	99.98
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	99.97

>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=1.2e-36  Score=187.76  Aligned_cols=70  Identities=50%  Similarity=0.891  Sum_probs=68.9

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHc
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYR   71 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~   71 (111)
                      ||+||+|++|+|+..|++||+||+.||+|||.|||+||||+||+|||||+|++++|+||++++++++|..
T Consensus         1 GR~Ki~ik~Ie~~~~R~vTFsKRk~GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~s~~~~~vl~ry~~   70 (71)
T d1egwa_           1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTE   70 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHH
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHhc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999975

>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=99.98  E-value=6.6e-35  Score=184.66  Aligned_cols=71  Identities=38%  Similarity=0.596  Sum_probs=69.5

Q ss_pred             CCCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHc
Q 033826            1 MVRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYR   71 (111)
Q Consensus         1 MgR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~   71 (111)
                      +||+||+|++|+|+..|++||+||+.||||||+|||+||||+||||||||+|++|+|+||++++++++|..
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~~~vi~~~~~   72 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   72 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGGHHHHSSHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999975

>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=99.97  E-value=1e-34  Score=184.50  Aligned_cols=73  Identities=41%  Similarity=0.644  Sum_probs=70.5

Q ss_pred             CCcccceeEecCCCCcceeccccccchhhhhhhhhccCCcceeEEEecCCCCcccccCchHHHHHHHHHcchh
Q 033826            2 VRGKIQMKKIENDTSRQVTFSKRRNGMLKKAYELSVLCDAEVAVIIFSQKGRLYEFSSSEMQKTLERYYRYTE   74 (111)
Q Consensus         2 gR~ki~i~~I~~~~~R~~tf~kRk~Gl~KKa~Els~Lc~~~v~liv~~~~g~~~~~~s~~~~~vl~ry~~~~~   74 (111)
                      ||+||+|++|+|+..|++||+||+.||+|||.|||+||||+||||||||+|++|+|+||+++.++++|.....
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~~~~   75 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRNL   75 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHHHH
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhcccH
Confidence            8999999999999999999999999999999999999999999999999999999999999999999987544