Citrus Sinensis ID: 042438

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------9
Protein Sequence
MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQLNSADQRSRLVQ
Secondary Structure (PSIPRED)
cccccEEEEEEccccccEEEEEcccccHHHHccEEEEEEccEEEEEEEcccccEEEEccccccHHHHHHHHHHHHcccccccHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEEEcccccEEEEEcccccHHHHHHHHHHHccccccccccccccc
Coil and Loop (DISEMBL)
MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVifspsgkayhyasdHHTMDKIIARYRREVGQLNSADQRSRLVQ
Flexible Loop (DISEMBL)
mgrgkvelkrienktnrqvtfskrkngilKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGqlnsadqrsrlvq
Low Complexity Region (SEG)
MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQLNSADQRSRLVQ
Disordered region (IsUnstruct)
***********************RKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRR****************
Disordered Region (DISOPRED)
**RGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRRE***************
Disordered Region (DISEMBL)
MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQL***********
Disordered Region (DISPRO)
*****VELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQ************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQLNSADQRSRLVQ
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	89	2.2.26 [Sep-21-2011]
Q6Q9I2	267	MADS-box transcription fa	yes	no	0.808	0.269	0.726	1e-25
Q10CQ1	246	MADS-box transcription fa	no	no	0.808	0.292	0.726	1e-24
Q9XGJ4	237	MADS-box protein GGM13 OS	N/A	no	0.853	0.320	0.671	2e-24
Q9ATE5	268	MADS-box protein FBP24 OS	N/A	no	0.977	0.324	0.602	4e-24
P0C5B1	246	MADS-box transcription fa	N/A	no	0.808	0.292	0.712	7e-24
Q38838	221	Agamous-like MADS-box pro	yes	no	0.943	0.380	0.6	1e-23
P29383	258	Agamous-like MADS-box pro	no	no	0.820	0.282	0.684	1e-23
Q41274	241	Agamous-like MADS-box pro	N/A	no	0.808	0.298	0.684	4e-23
Q39685	233	MADS-box protein CMB1 OS=	N/A	no	0.808	0.309	0.671	4e-23
Q0D4T4	249	MADS-box transcription fa	no	no	0.808	0.289	0.643	4e-23

>sp|Q6Q9I2|MAD15_ORYSJ MADS-box transcription factor 15 OS=Oryza sativa subsp. japonica GN=MADS15 PE=1 SV=2

 Score =  114 bits (286), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 53/73 (72%), Positives = 62/73 (84%), Gaps = 1/73 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKV+LKRIENK NRQVTFSKR+NG+LKKA E+SVLCDAE+A ++FSP GK Y YA+D
Sbjct: 1  MGRGKVQLKRIENKINRQVTFSKRRNGLLKKAHEISVLCDAEVAAIVFSPKGKLYEYATD 60

Query: 61 HHTMDKIIARYRR 73
             MDKI+ RY R
Sbjct: 61 SR-MDKILERYER 72

Probable transcription factor.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q10CQ1|MAD14_ORYSJ MADS-box transcription factor 14 OS=Oryza sativa subsp. japonica GN=MADS14 PE=1 SV=2

 Score =  111 bits (278), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 53/73 (72%), Positives = 62/73 (84%), Gaps = 1/73 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKV+LKRIENK NRQVTFSKR++G+LKKA E+SVLCDAE+AL+IFS  GK Y YA+D
Sbjct: 1  MGRGKVQLKRIENKINRQVTFSKRRSGLLKKANEISVLCDAEVALIIFSTKGKLYEYATD 60

Query: 61 HHTMDKIIARYRR 73
             MDKI+ RY R
Sbjct: 61 -SCMDKILERYER 72

Probable transcription factor. May be involved in the control of flowering time.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9XGJ4|GGM13_GNEGN MADS-box protein GGM13 OS=Gnetum gnemon GN=GGM13 PE=2 SV=1

 Score =  110 bits (275), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 51/76 (67%), Positives = 62/76 (81%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGK+E+KRIEN TNRQVTFSKR+ G+LKKA ELSVLCDAE+ L+IFS SGK + Y+S 
Sbjct: 1  MGRGKIEIKRIENTTNRQVTFSKRRGGLLKKAHELSVLCDAELGLIIFSSSGKLFEYSSA 60

Query: 61 HHTMDKIIARYRREVG 76
            +M KII RY++  G
Sbjct: 61 SSSMKKIIERYQKVSG 76

Probable transcription factor.

Gnetum gnemon (taxid: 3382)

>sp|Q9ATE5|FBP24_PETHY MADS-box protein FBP24 OS=Petunia hybrida GN=FBP24 PE=1 SV=1

 Score =  109 bits (273), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 53/88 (60%), Positives = 66/88 (75%), Gaps = 1/88 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGK+E+KRIENKT+RQVTFSKR+ G+LKK  ELSVLCDA+I L+IFS  GK + Y S 
Sbjct: 4  MGRGKIEVKRIENKTSRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSKGKLFEYCSQ 63

Query: 61 HHTMDKIIARYRREVG-QLNSADQRSRL 87
           H+M +II+RY +  G  L   D R +L
Sbjct: 64 PHSMSQIISRYLQTTGASLPVEDNRVQL 91

Probable transcription factor.

Petunia hybrida (taxid: 4102)

>sp|P0C5B1|MAD14_ORYSI MADS-box transcription factor 14 OS=Oryza sativa subsp. indica GN=MADS14 PE=2 SV=1

 Score =  108 bits (271), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 52/73 (71%), Positives = 61/73 (83%), Gaps = 1/73 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKV+LKRIEN  NRQVTFSKR++G+LKKA E+SVLCDAE+AL+IFS  GK Y YA+D
Sbjct: 1  MGRGKVQLKRIENTINRQVTFSKRRSGLLKKANEISVLCDAEVALIIFSTKGKLYKYATD 60

Query: 61 HHTMDKIIARYRR 73
             MDKI+ RY R
Sbjct: 61 -SCMDKILERYER 72

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

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

 Score =  108 bits (270), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/85 (60%), Positives = 67/85 (78%), Gaps = 1/85 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          M RGK E+KRIEN T+RQVTFSKR+NG+LKKAFELSVLCDAE+AL+IFSP GK Y ++S 
Sbjct: 1  MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQRS 85
            ++ K + RY++ +  L S  +R+
Sbjct: 60 SSSIPKTVERYQKRIQDLGSNHKRN 84

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|P29383|AGL3_ARATH Agamous-like MADS-box protein AGL3 OS=Arabidopsis thaliana GN=AGL3 PE=2 SV=2

 Score =  108 bits (270), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 50/73 (68%), Positives = 60/73 (82%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIENK NRQVTF+KR+NG+LKKA+ELSVLCDAEIAL+IFS  GK Y + S 
Sbjct: 1  MGRGKVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEIALLIFSNRGKLYEFCSS 60

Query: 61 HHTMDKIIARYRR 73
             M + + +YR+
Sbjct: 61 PSGMARTVDKYRK 73

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q41274|AGL8_SINAL Agamous-like MADS-box protein AGL8 homolog OS=Sinapis alba GN=AGL8 PE=2 SV=1

 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 50/73 (68%), Positives = 62/73 (84%), Gaps = 1/73 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRG+V+LKRIENK NRQVTFSKR++G+LKKA E+SVLCDAE+ALVIFS  GK + Y++D
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALVIFSSKGKLFEYSTD 60

Query: 61 HHTMDKIIARYRR 73
             M+KI+ RY R
Sbjct: 61 -SCMEKILERYDR 72

Probable transcription factor.

Sinapis alba (taxid: 3728)

>sp|Q39685|CMB1_DIACA MADS-box protein CMB1 OS=Dianthus caryophyllus GN=CMB1 PE=2 SV=1

 Score =  106 bits (265), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 49/73 (67%), Positives = 61/73 (83%), Gaps = 1/73 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRG+VELKRIENK NRQVTF+KR+NG+LKKA+ELSVLCDAE+AL++FS  GK Y + S 
Sbjct: 1  MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIVFSNRGKLYEFCST 60

Query: 61 HHTMDKIIARYRR 73
             M+K + RY+R
Sbjct: 61 -SCMNKTLERYQR 72

Dianthus caryophyllus (taxid: 3570)

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

 Score =  106 bits (264), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 47/73 (64%), Positives = 62/73 (84%), Gaps = 1/73 (1%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRG V+L+RIENK NRQVTFSKR+NG+LKKA E+SVLCDA++AL++FS  GK Y ++S 
Sbjct: 1  MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSS- 59

Query: 61 HHTMDKIIARYRR 73
          H +M+ I+ RY+R
Sbjct: 60 HSSMEGILERYQR 72

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	89
225456351	194	PREDICTED: MADS-box transcription factor	0.977	0.448	0.733	1e-29
147863574	174	hypothetical protein VITISV_019406 [Viti	0.977	0.5	0.733	2e-29
297734434	235	unnamed protein product [Vitis vinifera]	0.977	0.370	0.733	2e-29
350538827	173	TDR8 protein [Solanum lycopersicum] gi|1	0.977	0.502	0.674	2e-28
113207067	204	deficiens H7 homologue [Misopates oronti	0.910	0.397	0.746	6e-28
14715183	206	putative MADS-domain transcription facto	0.910	0.393	0.746	7e-28
157101710	203	MADS-box protein [Populus deltoides]	0.977	0.428	0.662	1e-27
224133998	203	MIKC mads-box transcription factor [Popu	0.977	0.428	0.662	2e-27
449454816	203	PREDICTED: MADS-box transcription factor	0.943	0.413	0.697	7e-27
224119704	172	predicted protein [Populus trichocarpa]	0.977	0.505	0.640	3e-26

>gi|225456351|ref|XP_002283916.1| PREDICTED: MADS-box transcription factor 6-like [Vitis vinifera]

 Score =  133 bits (334), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 66/90 (73%), Positives = 77/90 (85%), Gaps = 3/90 (3%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN T+RQVTFSKRKNG+LKKAFELS+LCDAE+AL+IFSPSGKAY +AS 
Sbjct: 1  MGRGKVELKRIENSTSRQVTFSKRKNGLLKKAFELSILCDAEVALLIFSPSGKAYQFAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSAD-QRSRLVQ 89
           H MD+ IARYR EVG +   + QRSR ++
Sbjct: 60 -HDMDRSIARYRNEVGLMEFNNYQRSRTIE 88

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147863574|emb|CAN79770.1| hypothetical protein VITISV_019406 [Vitis vinifera]

 Score =  133 bits (334), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/90 (73%), Positives = 77/90 (85%), Gaps = 3/90 (3%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN T+RQVTFSKRKNG+LKKAFELS+LCDAE+AL+IFSPSGKAY +AS 
Sbjct: 1  MGRGKVELKRIENSTSRQVTFSKRKNGLLKKAFELSILCDAEVALLIFSPSGKAYQFAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSAD-QRSRLVQ 89
           H MD+ IARYR EVG +   + QRSR ++
Sbjct: 60 -HDMDRSIARYRNEVGLMEFNNYQRSRTIE 88

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734434|emb|CBI15681.3| unnamed protein product [Vitis vinifera]

 Score =  133 bits (334), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 66/90 (73%), Positives = 77/90 (85%), Gaps = 3/90 (3%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN T+RQVTFSKRKNG+LKKAFELS+LCDAE+AL+IFSPSGKAY +AS 
Sbjct: 1  MGRGKVELKRIENSTSRQVTFSKRKNGLLKKAFELSILCDAEVALLIFSPSGKAYQFAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSAD-QRSRLVQ 89
           H MD+ IARYR EVG +   + QRSR ++
Sbjct: 60 -HDMDRSIARYRNEVGLMEFNNYQRSRTIE 88

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350538827|ref|NP_001234105.1| TDR8 protein [Solanum lycopersicum] gi|19388|emb|CAA43172.1| TDR8 [Solanum lycopersicum]

 Score =  129 bits (325), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 60/89 (67%), Positives = 77/89 (86%), Gaps = 2/89 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN+TNRQVTFSKR+NG+LKKA+ELS+LCDAE+AL++FSPSGKAYH+AS 
Sbjct: 1  MGRGKVELKRIENQTNRQVTFSKRRNGLLKKAYELSILCDAEVALLLFSPSGKAYHFAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQRSRLVQ 89
           H +++ I RY+ EVG   ++DQ  R ++
Sbjct: 60 -HDIERTILRYKNEVGLSKNSDQGPRAME 87

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|113207067|emb|CAL36573.1| deficiens H7 homologue [Misopates orontium]

 Score =  127 bits (320), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 62/83 (74%), Positives = 69/83 (83%), Gaps = 2/83 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN TNRQVTFSKR+NG+LKKAFELSVLCDAE+A++IFSPSGKAY YAS 
Sbjct: 1  MGRGKVELKRIENPTNRQVTFSKRRNGLLKKAFELSVLCDAEVAVLIFSPSGKAYQYAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQ 83
           H   + IARY+ EVG     DQ
Sbjct: 60 -HDTHRTIARYKSEVGLAKPGDQ 81

Source: Misopates orontium

Species: Misopates orontium

Genus: Misopates

Family: Plantaginaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|14715183|emb|CAC44080.1| putative MADS-domain transcription factor DEFH7 [Antirrhinum majus]

 Score =  127 bits (320), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 62/83 (74%), Positives = 69/83 (83%), Gaps = 2/83 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN TNRQVTFSKR+NG+LKKAFELSVLCDAE+A++IFSPSGKAY YAS 
Sbjct: 1  MGRGKVELKRIENPTNRQVTFSKRRNGLLKKAFELSVLCDAEVAVLIFSPSGKAYQYAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQ 83
           H   + IARY+ EVG     DQ
Sbjct: 60 -HDTHRTIARYKSEVGITKPGDQ 81

Source: Antirrhinum majus

Species: Antirrhinum majus

Genus: Antirrhinum

Family: Plantaginaceae

Order: Lamiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|157101710|gb|ABV23568.1| MADS-box protein [Populus deltoides]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 59/89 (66%), Positives = 75/89 (84%), Gaps = 2/89 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN  +RQVTFSKR+NG+LKKAFELS+LC+AE++L+IFSPSGK Y ++S 
Sbjct: 1  MGRGKVELKRIENSASRQVTFSKRRNGLLKKAFELSILCEAEVSLIIFSPSGKFYQFSS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQRSRLVQ 89
           H M++ +ARYR EVG   + DQRSR ++
Sbjct: 60 -HDMERSVARYRSEVGLPGTNDQRSRSLE 87

Source: Populus deltoides

Species: Populus deltoides

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224133998|ref|XP_002321711.1| MIKC mads-box transcription factor [Populus trichocarpa] gi|118482604|gb|ABK93222.1| unknown [Populus trichocarpa] gi|222868707|gb|EEF05838.1| MIKC mads-box transcription factor [Populus trichocarpa]

 Score =  126 bits (317), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 59/89 (66%), Positives = 75/89 (84%), Gaps = 2/89 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN  +RQVTFSKR+NG+LKKAFELS+LC+AE++L+IFSPSGK Y ++S 
Sbjct: 1  MGRGKVELKRIENSASRQVTFSKRRNGLLKKAFELSILCEAEVSLIIFSPSGKFYQFSS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQRSRLVQ 89
           H M++ +ARYR EVG   + DQRSR ++
Sbjct: 60 -HDMERSVARYRSEVGLPGTNDQRSRSLE 87

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449454816|ref|XP_004145150.1| PREDICTED: MADS-box transcription factor 6-like [Cucumis sativus] gi|449474274|ref|XP_004154125.1| PREDICTED: MADS-box transcription factor 6-like [Cucumis sativus] gi|12597207|dbj|BAB21509.1| putative MADS-box protein [Cucumis sativus]

 Score =  124 bits (311), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 60/86 (69%), Positives = 71/86 (82%), Gaps = 2/86 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN T+RQVTFSKR+NG+LKKA+ELSVLCDA++AL+IFSPSGKAY ++S 
Sbjct: 1  MGRGKVELKRIENPTSRQVTFSKRRNGLLKKAYELSVLCDAQVALLIFSPSGKAYQFSS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQRSR 86
           H MD  +ARYR +VG   S    SR
Sbjct: 60 -HDMDGTLARYRTDVGLPQSNHPHSR 84

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119704|ref|XP_002318140.1| predicted protein [Populus trichocarpa] gi|222858813|gb|EEE96360.1| predicted protein [Populus trichocarpa]

 Score =  122 bits (306), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 57/89 (64%), Positives = 71/89 (79%), Gaps = 2/89 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGRGKVELKRIEN T RQVTFSKR+NG+LKKAFELS+LCDAE++L++FSP+GK Y +AS 
Sbjct: 1  MGRGKVELKRIENPTRRQVTFSKRRNGLLKKAFELSILCDAEVSLIVFSPTGKFYQFAS- 59

Query: 61 HHTMDKIIARYRREVGQLNSADQRSRLVQ 89
           H M++ IARYR E G     D  +R ++
Sbjct: 60 -HEMERTIARYRSEAGLSGPNDSHTRSLE 87

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	89
UNIPROTKB|Q6Q9I2	267	MADS15 "MADS-box transcription	0.808	0.269	0.726	2e-24
UNIPROTKB|Q10CQ1	246	MADS14 "MADS-box transcription	0.808	0.292	0.726	2.3e-23
UNIPROTKB|Q9ATE5	268	FBP24 "MADS-box protein FBP24"	0.977	0.324	0.602	7.8e-23
TAIR|locus:2137070	221	AGL14 "AGAMOUS-like 14" [Arabi	0.943	0.380	0.6	1e-22
UNIPROTKB|Q7XUN2	249	MADS17 "MADS-box transcription	0.741	0.265	0.705	2.3e-22
TAIR|locus:2044259	258	SEP4 "SEPALLATA 4" [Arabidopsi	0.820	0.282	0.684	4.3e-22
UNIPROTKB|Q40882	228	fbp11 "Fbp11 protein" [Petunia	0.887	0.346	0.592	7e-22
UNIPROTKB|Q0D4T4	249	MADS18 "MADS-box transcription	0.808	0.289	0.643	1.1e-21
TAIR|locus:2033273	256	AP1 "AT1G69120" [Arabidopsis t	0.808	0.281	0.671	1.1e-21
UNIPROTKB|D2T2F9	252	grcd5 "GRCD5 protein" [Gerbera	0.808	0.285	0.671	1.9e-21

UNIPROTKB|Q6Q9I2 MADS15 "MADS-box transcription factor 15" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 279 (103.3 bits), Expect = 2.0e-24, P = 2.0e-24
 Identities = 53/73 (72%), Positives = 62/73 (84%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRGKV+LKRIENK NRQVTFSKR+NG+LKKA E+SVLCDAE+A ++FSP GK Y YA+D
Sbjct:     1 MGRGKVQLKRIENKINRQVTFSKRRNGLLKKAHEISVLCDAEVAAIVFSPKGKLYEYATD 60

Query:    61 HHTMDKIIARYRR 73
                MDKI+ RY R
Sbjct:    61 SR-MDKILERYER 72

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q10CQ1 MADS14 "MADS-box transcription factor 14" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 53/73 (72%), Positives = 62/73 (84%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRGKV+LKRIENK NRQVTFSKR++G+LKKA E+SVLCDAE+AL+IFS  GK Y YA+D
Sbjct:     1 MGRGKVQLKRIENKINRQVTFSKRRSGLLKKANEISVLCDAEVALIIFSTKGKLYEYATD 60

Query:    61 HHTMDKIIARYRR 73
                MDKI+ RY R
Sbjct:    61 S-CMDKILERYER 72

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q9ATE5 FBP24 "MADS-box protein FBP24" [Petunia x hybrida (taxid:4102)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 53/88 (60%), Positives = 66/88 (75%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRGK+E+KRIENKT+RQVTFSKR+ G+LKK  ELSVLCDA+I L+IFS  GK + Y S 
Sbjct:     4 MGRGKIEVKRIENKTSRQVTFSKRRAGLLKKTHELSVLCDAQIGLIIFSSKGKLFEYCSQ 63

Query:    61 HHTMDKIIARYRREVG-QLNSADQRSRL 87
              H+M +II+RY +  G  L   D R +L
Sbjct:    64 PHSMSQIISRYLQTTGASLPVEDNRVQL 91

GO:0005515 "protein binding" evidence=IPI

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

 Score = 263 (97.6 bits), Expect = 1.0e-22, P = 1.0e-22
 Identities = 51/85 (60%), Positives = 67/85 (78%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             M RGK E+KRIEN T+RQVTFSKR+NG+LKKAFELSVLCDAE+AL+IFSP GK Y ++S 
Sbjct:     1 MVRGKTEMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSSS 60

Query:    61 HHTMDKIIARYRREVGQLNSADQRS 85
               ++ K + RY++ +  L S  +R+
Sbjct:    61 S-SIPKTVERYQKRIQDLGSNHKRN 84

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|Q7XUN2 MADS17 "MADS-box transcription factor 17" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 244 (91.0 bits), Expect = 2.3e-22, Sum P(2) = 2.3e-22
 Identities = 48/68 (70%), Positives = 58/68 (85%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRG+VELKRIENK NRQVTFSKR+NG+LKKA+ELSVLCDAE+AL+IFS  GK Y + S 
Sbjct:     1 MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEFGSA 60

Query:    61 --HHTMDK 66
               + T++K
Sbjct:    61 GINKTLEK 68

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

TAIR|locus:2044259 SEP4 "SEPALLATA 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 257 (95.5 bits), Expect = 4.3e-22, P = 4.3e-22
 Identities = 50/73 (68%), Positives = 60/73 (82%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRGKVELKRIENK NRQVTF+KR+NG+LKKA+ELSVLCDAEIAL+IFS  GK Y + S 
Sbjct:     1 MGRGKVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEIALLIFSNRGKLYEFCSS 60

Query:    61 HHTMDKIIARYRR 73
                M + + +YR+
Sbjct:    61 PSGMARTVDKYRK 73

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

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:0010076 "maintenance of floral meristem identity" evidence=IMP

GO:0048440 "carpel development" evidence=RCA;IMP

GO:0048441 "petal development" evidence=IMP

GO:0048442 "sepal development" evidence=IMP

GO:0048443 "stamen development" evidence=IMP

GO:0010048 "vernalization response" evidence=RCA

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

UNIPROTKB|Q40882 fbp11 "Fbp11 protein" [Petunia x hybrida (taxid:4102)]

 Score = 255 (94.8 bits), Expect = 7.0e-22, P = 7.0e-22
 Identities = 48/81 (59%), Positives = 65/81 (80%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRGK+E+KRIEN TNRQVTF KR+NG+LKKA+ELSVLCDAEIAL++FS  G+ Y YA++
Sbjct:     1 MGRGKIEIKRIENNTNRQVTFCKRRNGLLKKAYELSVLCDAEIALIVFSTRGRVYEYANN 60

Query:    61 HHTMDKIIARYRREVGQLNSA 81
             +  +   I RY++   + ++A
Sbjct:    61 N--IKGTIERYKKATAETSNA 79

GO:0005515 "protein binding" evidence=IPI

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

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 47/73 (64%), Positives = 62/73 (84%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRG V+L+RIENK NRQVTFSKR+NG+LKKA E+SVLCDA++AL++FS  GK Y ++S 
Sbjct:     1 MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSS- 59

Query:    61 HHTMDKIIARYRR 73
             H +M+ I+ RY+R
Sbjct:    60 HSSMEGILERYQR 72

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2033273 AP1 "AT1G69120" [Arabidopsis thaliana (taxid:3702)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 49/73 (67%), Positives = 61/73 (83%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRG+V+LKRIENK NRQVTFSKR+ G+LKKA E+SVLCDAE+ALV+FS  GK + Y++D
Sbjct:     1 MGRGRVQLKRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALVVFSHKGKLFEYSTD 60

Query:    61 HHTMDKIIARYRR 73
                M+KI+ RY R
Sbjct:    61 S-CMEKILERYER 72

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

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

GO:0009933 "meristem structural organization" evidence=IMP

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

GO:0009908 "flower development" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0046982 "protein heterodimerization activity" evidence=IPI

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

GO:0010582 "floral meristem determinacy" evidence=IGI

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009556 "microsporogenesis" evidence=RCA

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:0010093 "specification of floral organ identity" evidence=RCA

GO:0048440 "carpel development" evidence=RCA

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

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

UNIPROTKB|D2T2F9 grcd5 "GRCD5 protein" [Gerbera hybrid cultivar (taxid:18101)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 49/73 (67%), Positives = 61/73 (83%)

Query:     1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
             MGRG+VELKRIENK NRQVTF+KR+NG+LKKA+ELSVLCDAE+AL+IFS  GK Y + S 
Sbjct:     1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSS 60

Query:    61 HHTMDKIIARYRR 73
               +M K + RY++
Sbjct:    61 S-SMLKTLERYQK 72

GO:0005515 "protein binding" evidence=IPI

GO:0042802 "identical 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)
Q6Q9I2	MAD15_ORYSJ	No assigned EC number	0.7260	0.8089	0.2696	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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00017956001 SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (211 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	89
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	3e-40
smart00432	59	smart00432, MADS, MADS domain	2e-34
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	8e-33
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	4e-28
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	6e-25
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	1e-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 (320), Expect = 3e-40
 Identities = 51/71 (71%), Positives = 61/71 (85%), Gaps = 2/71 (2%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GRGK+E+KRIEN TNRQVTFSKR+NG+LKKA ELSVLCDAE+AL+IFS SGK Y ++S  
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPS 60

Query: 62 HTMDKIIARYR 72
            M+KII RY+
Sbjct: 61 --MEKIIERYQ 69

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 =  111 bits (280), Expect = 2e-34
 Identities = 44/59 (74%), Positives = 53/59 (89%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          GR K+E+KRIENKTNRQVTFSKR+NG+ KKA ELSVLCDAE+AL++FSP+GK Y +AS 
Sbjct: 1  GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59

Length = 59

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

 Score =  107 bits (270), Expect = 8e-33
 Identities = 43/58 (74%), Positives = 53/58 (91%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYAS 59
          GRGK+E+KRIENKT+RQVTFSKR+NG+ KKA ELSVLCDAE+A+++FSPSGK Y + S
Sbjct: 1  GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWS 58

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 = 96.6 bits (241), Expect = 4e-28
 Identities = 35/66 (53%), Positives = 46/66 (69%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++KRIENK  R VTFSKR+ G+ KKA ELS LC AE+A++++SPSGK Y +    
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS 60

Query: 62 HTMDKI 67
               I
Sbjct: 61 EVEGVI 66

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 = 87.4 bits (217), Expect = 6e-25
 Identities = 39/51 (76%), Positives = 46/51 (90%)

Query: 9  KRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYAS 59
          KRIENK+NRQVTFSKR+NGI KKA ELSVLCDAE+A++IFS +GK Y Y+S
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 = 1e-13
 Identities = 28/62 (45%), Positives = 39/62 (62%)

Query: 1   MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
           +   K+ +  I NKT R VTFSKRK+GI KKAFELSVL   E+ L++ S +G  + + + 
Sbjct: 81  VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTP 140

Query: 61  HH 62
             
Sbjct: 141 KL 142

Length = 412

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	89
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	100.0
KOG0014	195	consensus MADS box transcription factor [Transcrip	100.0
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	99.81
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=100.00  E-value=4.8e-34  Score=176.46  Aligned_cols=77  Identities=68%  Similarity=1.042  Sum_probs=74.2

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhhhCCCCC
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQLNS   80 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~~~~~l~   80 (89)
                      ||+||+|++|+|+.+|++||+||+.||||||.|||+||||+||+|||+|+|++++|++  +++++||+||++.++.++|
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s--~s~~~vl~ry~~~~~~~~~   77 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSS--PSMEKIIERYQKTSGSSLW   77 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecC--CCHHHHHHHHHhccccccC
Confidence            8999999999999999999999999999999999999999999999999999999988  4579999999999999887

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=100.00  E-value=1.8e-33  Score=195.32  Aligned_cols=80  Identities=56%  Similarity=0.943  Sum_probs=75.3

Q ss_pred             CCcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhhhCCCCC
Q 042438            1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQLNS   80 (89)
Q Consensus         1 MgR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~~~~~l~   80 (89)
                      |||+||+|++|+|+++|++||+|||.||||||+||||||||+||+|||+|+|++|+||+|+.++++++++|.+.......
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            99999999999999999999999999999999999999999999999999999999988766699999999998766543

>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=4e-31  Score=165.35  Aligned_cols=76  Identities=47%  Similarity=0.803  Sum_probs=71.3

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhhhCCC
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQL   78 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~~~~~   78 (89)
                      ||+||+|++|+|+.+|++||+||+.||+|||+|||+||||+||+|||+|+|..+.|++++. +.+++++|...+...
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~-~~~~l~~~~~~~~~~   76 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSE-VEGVISRFEVLSALE   76 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHH-HHHHHHHHhhcCHhh
Confidence            8999999999999999999999999999999999999999999999999999999977554 999999999887654

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=5e-30  Score=151.72  Aligned_cols=59  Identities=75%  Similarity=1.174  Sum_probs=57.7

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecC
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD   60 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~   60 (89)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||+|+|.+++|++|
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            89999999999999999999999999999999999999999999999999999999875

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

Probab=99.95  E-value=4.5e-29  Score=147.62  Aligned_cols=59  Identities=73%  Similarity=1.149  Sum_probs=57.2

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecC
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD   60 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~   60 (89)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|||+|+|.+++|++|
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            79999999999999999999999999999999999999999999999999999999763

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=7.7e-27  Score=134.52  Aligned_cols=51  Identities=63%  Similarity=1.043  Sum_probs=46.4

Q ss_pred             EEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeec
Q 042438            9 KRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYAS   59 (89)
Q Consensus         9 k~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~   59 (89)
                      ++|+|+..|++||+||+.||+|||+|||+||||+||+|||+|+|++++|++
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            579999999999999999999999999999999999999999999999964

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=99.81  E-value=2.1e-20  Score=139.31  Aligned_cols=80  Identities=38%  Similarity=0.556  Sum_probs=72.8

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCC-------CHHHHHHHHHhh
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHH-------TMDKIIARYRRE   74 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~-------~~~~vl~ry~~~   74 (89)
                      ||.||+|+||+|+..|.+||+|||.|+||||+||++|+|.+|-|+|.+++|.+|+|..|.-       .=+.+|..-.+.
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            7999999999999999999999999999999999999999999999999999999988653       237888888888


Q ss_pred             hCCCCCc
Q 042438           75 VGQLNSA   81 (89)
Q Consensus        75 ~~~~l~~   81 (89)
                      ++.....
T Consensus       143 pd~~~~~  149 (338)
T KOG0015|consen  143 PDTPPND  149 (338)
T ss_pred             CCCCCcc
Confidence            8777665

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

Probab=99.52  E-value=7.5e-15  Score=113.12  Aligned_cols=61  Identities=46%  Similarity=0.654  Sum_probs=59.2

Q ss_pred             CCcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCC
Q 042438            1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH   61 (89)
Q Consensus         1 MgR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~   61 (89)
                      |||+|+.|.+|+|+.+|.+||.||+.||+|||+||++|.|.+|.|+|.+++|.+++|+.|.
T Consensus        81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~  141 (412)
T COG5068          81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPK  141 (412)
T ss_pred             cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCc
Confidence            7899999999999999999999999999999999999999999999999999999998854

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	89
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		2e-18
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		3e-18
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		3e-18
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		6e-18
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		1e-17
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		4e-17
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		9e-13
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		3e-10
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		4e-10

>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 = 87.0 bits (214), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 40/70 (57%), Positives = 55/70 (78%), Gaps = 2/70 (2%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 HTMDKIIARY 71
            MDK++ +Y
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 = 86.7 bits (213), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 40/70 (57%), Positives = 55/70 (78%), Gaps = 2/70 (2%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 HTMDKIIARY 71
            MDK++ +Y
Sbjct: 61 --MDKVLLKY 68

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

Iteration: 1
 Score = 86.7 bits (213), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 40/70 (57%), Positives = 55/70 (78%), Gaps = 2/70 (2%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 HTMDKIIARY 71
            MDK++ +Y
Sbjct: 61 --MDKVLLKY 68

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

Iteration: 1
 Score = 85.9 bits (211), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 38/71 (53%), Positives = 56/71 (78%), Gaps = 2/71 (2%)
Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
          MGR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ + + + YAS 
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 HHTMDKIIARY 71
             MD+++ +Y
Sbjct: 61 D--MDRVLLKY 69

>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 = 84.7 bits (208), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 40/70 (57%), Positives = 55/70 (78%), Gaps = 2/70 (2%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVL DAEIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 HTMDKIIARY 71
            MDK++ +Y
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 = 83.2 bits (204), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 37/70 (52%), Positives = 55/70 (78%), Gaps = 2/70 (2%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ + + + YAS  
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 HTMDKIIARY 71
            MD+++ +Y
Sbjct: 61 --MDRVLLKY 68

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 32/57 (56%), Positives = 44/57 (77%)
Query: 3  RGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYAS 59
          R K+E+K IENKT R VTFSKRK+GI+KKAFELSVL   ++ L++ S +G  Y +++
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST 74

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

Iteration: 1
 Score = 60.1 bits (144), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 35/91 (38%), Positives = 51/91 (56%), Gaps = 11/91 (12%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K++++ I+NK  R  TFSKRK GI+KKA+ELS L   ++ L++ S +G  Y +A+  
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT-- 67
Query: 62 HTMDKIIARYRREVGQ------LNSADQRSR 86
              K+      E G+      LNS D   R
Sbjct: 68 ---RKLQPMITSETGKALIQTCLNSPDSPPR 95

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

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 27/58 (46%), Positives = 41/58 (70%)
Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYAS 59
          GR K++++ I+NK  R  TFSKRK GI+KKA+ELS L   ++ L++ S +G  Y +A+
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	89
1hbx_A	92	SRF, serum response factor; gene regulation, trans	5e-39
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	6e-39
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	1e-38
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	2e-38
1egw_A	77	MADS box transcription enhancer factor 2, polypept	8e-38

>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 =  123 bits (311), Expect = 5e-39
 Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 5/85 (5%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
           GR K++++ I+NK  R  TFSKRK GI+KKA+ELS L   ++ L++ S +G  Y +A+ 
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 HHTMDKIIARYRREVG---QLNSAD 82
             +  +I     +      LNS D
Sbjct: 70 --KLQPMITSETGKALIQTCLNSPD 92

>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 =  123 bits (311), Expect = 6e-39
 Identities = 33/73 (45%), Positives = 48/73 (65%), Gaps = 2/73 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
            R K+E+K IENKT R VTFSKRK+GI+KKAFELSVL   ++ L++ S +G  Y +++ 
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61 HHTMDKIIARYRR 73
              + I+ +   
Sbjct: 76 --KFEPIVTQQEG 86

>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 =  122 bits (308), Expect = 1e-38
 Identities = 40/72 (55%), Positives = 55/72 (76%), Gaps = 2/72 (2%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59

Query: 62 HTMDKIIARYRR 73
            MDK++ +Y  
Sbjct: 60 -DMDKVLLKYTE 70

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

 Score =  123 bits (309), Expect = 2e-38
 Identities = 28/74 (37%), Positives = 45/74 (60%), Gaps = 2/74 (2%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
           GR K++++ I+NK  R  TFSKRK GI+KKA+ELS L   ++ L++ S +G  Y +A+ 
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 HHTMDKIIARYRRE 74
             +  +I     +
Sbjct: 69 --KLQPMITSETGK 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 =  120 bits (302), Expect = 8e-38
 Identities = 40/72 (55%), Positives = 55/72 (76%), Gaps = 2/72 (2%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59

Query: 62 HTMDKIIARYRR 73
            MDK++ +Y  
Sbjct: 60 -DMDKVLLKYTE 70

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	89
1egw_A	77	MADS box transcription enhancer factor 2, polypept	100.0
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	100.0
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	100.0
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.97
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=3.9e-36  Score=185.18  Aligned_cols=74  Identities=54%  Similarity=0.895  Sum_probs=69.2

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhhhCC
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQ   77 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~~~~   77 (89)
                      ||+||+|++|+|+++|++||+||++||+|||+|||+||||+||||||+++|++++|++  +++++||+||+..+++
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s--~~~~~il~ry~~~~~~   74 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS--TDMDKVLLKYTEYNEP   74 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEES--SCHHHHHHHHHHC---
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCC--CCHHHHHHHHHhccCC
Confidence            8999999999999999999999999999999999999999999999999999999987  5799999999987653

>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=1.8e-35  Score=186.73  Aligned_cols=75  Identities=53%  Similarity=0.874  Sum_probs=71.5

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhhhCCC
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQL   78 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~~~~~   78 (89)
                      ||+||+|++|+|+.+|++||+||++||||||+|||+||||+||||||+|+|++++|++  +++++||+||++.++..
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s--~~~~~il~rY~~~~~~~   75 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS--TDMDKVLLKYTEYNEPH   75 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEES--SCHHHHHHHHHHCCSCC
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCC--CCHHHHHHHHHhcCccc
Confidence            8999999999999999999999999999999999999999999999999999999987  68999999999976544

>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=3.7e-34  Score=183.68  Aligned_cols=78  Identities=42%  Similarity=0.632  Sum_probs=70.4

Q ss_pred             CCcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhhhCCCCC
Q 042438            1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRREVGQLNS   80 (89)
Q Consensus         1 MgR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~~~~~l~   80 (89)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||+|+|++|+|++|  ++.+|+++|..   .++|
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sp--s~~~il~r~~G---~~lw   90 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP--KFEPIVTQQEG---RNLI   90 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECT--TTTHHHHSHHH---HHHH
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCC--CHHHHHHHhhC---CcHH
Confidence            899999999999999999999999999999999999999999999999999999999985  56799887754   3555


Q ss_pred             ccc
Q 042438           81 ADQ   83 (89)
Q Consensus        81 ~~~   83 (89)
                      ...
T Consensus        91 ~~c   93 (100)
T 1mnm_A           91 QAC   93 (100)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            443

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

Probab=99.97  E-value=5.8e-34  Score=180.49  Aligned_cols=70  Identities=40%  Similarity=0.666  Sum_probs=66.4

Q ss_pred             CCcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHH
Q 042438            1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYR   72 (89)
Q Consensus         1 MgR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~   72 (89)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||+|+|++|+|++  ++++++|++|.
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s--~~~~~~i~~~~   79 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT--RKLQPMITSET   79 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEEC--GGGGGGTSSHH
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecC--CCHHHHHhhhc
Confidence            99999999999999999999999999999999999999999999999999999999988  56788888664

>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=1.7e-33  Score=181.51  Aligned_cols=77  Identities=36%  Similarity=0.585  Sum_probs=69.5

Q ss_pred             CCcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHH-----HHhhh
Q 042438            1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIAR-----YRREV   75 (89)
Q Consensus         1 MgR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~r-----y~~~~   75 (89)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||+|+|++|+|++  ++++++|++     |...+
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s--~~~~~vi~~~~Gk~l~~~c   86 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT--RKLQPMITSETGKALIQTC   86 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEEC--GGGGGGTSSHHHHHHHHHT
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecC--ccHHHHHHhhhhhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999988  467888886     55555


Q ss_pred             CCCC
Q 042438           76 GQLN   79 (89)
Q Consensus        76 ~~~l   79 (89)
                      ....
T Consensus        87 ~~~~   90 (103)
T 1k6o_B           87 LNSP   90 (103)
T ss_dssp             TCC-
T ss_pred             hcCC
Confidence            4443

---

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	89
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	3e-34
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	2e-33
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	4e-33

>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 =  110 bits (276), Expect = 3e-34
 Identities = 40/72 (55%), Positives = 55/72 (76%), Gaps = 2/72 (2%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
          GR K+++ RI ++ NRQVTF+KRK G++KKA+ELSVLCD EIAL+IF+ S K + YAS  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-- 58

Query: 62 HTMDKIIARYRR 73
            MDK++ +Y  
Sbjct: 59 TDMDKVLLKYTE 70

>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 =  108 bits (272), Expect = 2e-33
 Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 5/85 (5%)

Query: 1  MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASD 60
           GR K++++ I+NK  R  TFSKRK GI+KKA+ELS L   ++ L++ S +G  Y +A+ 
Sbjct: 2  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT- 60

Query: 61 HHTMDKIIARYRREVGQ---LNSAD 82
             +  +I     +      LNS D
Sbjct: 61 -RKLQPMITSETGKALIQTCLNSPD 84

>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 =  107 bits (269), Expect = 4e-33
 Identities = 33/72 (45%), Positives = 48/72 (66%), Gaps = 2/72 (2%)

Query: 2  GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDH 61
           R K+E+K IENKT R VTFSKRK+GI+KKAFELSVL   ++ L++ S +G  Y +++  
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP- 61

Query: 62 HTMDKIIARYRR 73
             + I+ +   
Sbjct: 62 -KFEPIVTQQEG 72

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	89
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	99.98

>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=5e-36  Score=180.79  Aligned_cols=70  Identities=57%  Similarity=0.973  Sum_probs=67.8

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHh
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRR   73 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~   73 (89)
                      ||+||+|++|+|+..|++||+||++||||||+|||+||||+||||||+|+|++++|++  +++++++++|+.
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 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS--TDMDKVLLKYTE   70 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEES--SCHHHHHHHHHH
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeC--CCHHHHHHHHhc
Confidence            8999999999999999999999999999999999999999999999999999999987  579999999985

>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=3.2e-34  Score=177.46  Aligned_cols=72  Identities=39%  Similarity=0.649  Sum_probs=68.9

Q ss_pred             CCcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhh
Q 042438            1 MGRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRRE   74 (89)
Q Consensus         1 MgR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~   74 (89)
                      +||+||+|++|+|+..|++||+|||.||||||+|||+||||+||||||+|+|++|+|++  +++++++++|+..
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s--~~~~~vi~~~~~~   73 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT--RKLQPMITSETGK   73 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEEC--GGGHHHHSSHHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeC--CCHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999999988  6789999999754

>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=99.98  E-value=4.7e-34  Score=177.21  Aligned_cols=71  Identities=46%  Similarity=0.744  Sum_probs=68.4

Q ss_pred             CcccceeEEecCCCccchhhhhhhhhHHHhhHhhhccccccEEEEEeCCCCCceeeecCCCCHHHHHHHHHhh
Q 042438            2 GRGKVELKRIENKTNRQVTFSKRKNGILKKAFELSVLCDAEIALVIFSPSGKAYHYASDHHTMDKIIARYRRE   74 (89)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KRk~GL~KKa~ELs~LC~~~v~~iv~~~~g~~~~~~~~~~~~~~vl~ry~~~   74 (89)
                      ||+||+|++|+|+..|++||+||+.||||||+|||+||||+||||||+|+|++|+|++  ++++.++++|+..
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~s--p~v~~vl~r~~~~   73 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST--PKFEPIVTQQEGR   73 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEEC--TTTTHHHHSHHHH
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccC--CCHHHHHHHHhcc
Confidence            8999999999999999999999999999999999999999999999999999999988  5689999999865