Citrus Sinensis ID: 035470

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--
Protein Sequence
MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW
Secondary Structure (PSIPRED)
cccccEEEEEEEcccccEEEEEEcccccccEEEEEEEEEccEEEEEEEccccEEEEEccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEcccc
Coil and Loop (DISEMBL)
MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTkgklfeystdsw
Flexible Loop (DISEMBL)
mgrgrvqlkrienkinrqvtfskrrsgllkkaheisvlCDAEVALIVFSTkgklfeystdsw
Low Complexity Region (SEG)
MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW
Disordered region (IsUnstruct)
******************VTF***RSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY*****
Disordered Region (DISOPRED)
***GRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYS****
Disordered Region (DISEMBL)
MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW
Disordered Region (DISPRO)
****RVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD**
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW
Positional Conservation
no confident homologs detected

---

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	62	2.2.26 [Sep-21-2011]
Q38876	242	Agamous-like MADS-box pro	yes	no	0.983	0.252	0.983	2e-28
O22328	250	Agamous-like MADS-box pro	N/A	no	0.983	0.244	0.967	3e-28
Q41274	241	Agamous-like MADS-box pro	N/A	no	0.983	0.253	0.950	4e-28
Q42429	250	Agamous-like MADS-box pro	N/A	no	0.983	0.244	0.950	1e-27
Q40170	227	Agamous-like MADS-box pro	N/A	no	0.983	0.268	0.950	2e-27
Q10CQ1	246	MADS-box transcription fa	yes	no	0.983	0.247	0.918	9e-27
Q6Q9I2	267	MADS-box transcription fa	no	no	0.983	0.228	0.901	3e-26
A2IB53	256	Floral homeotic protein A	no	no	0.983	0.238	0.950	9e-26
P35631	256	Floral homeotic protein A	no	no	0.983	0.238	0.950	1e-25
Q6R4R9	150	Truncated transcription f	N/A	no	0.983	0.406	0.868	1e-25

>sp|Q38876|AGL8_ARATH Agamous-like MADS-box protein AGL8 OS=Arabidopsis thaliana GN=AGL8 PE=1 SV=1

 Score =  124 bits (310), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 60/61 (98%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFS+KGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSSKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor that promotes early floral meristem identity in synergy with APETALA1 and CAULIFLOWER. Is required subsequently for the transition of an inflorescence meristem into a floral meristem. Seems to be partially redundant to the function of APETALA1 and CAULIFLOWER in the up-regulation of LEAFY. Is also required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique. Probably not required for fruit elongation but instead is required to prevent ectopic activity of IND.
Arabidopsis thaliana (taxid: 3702)

>sp|O22328|AGL8_SOLCO Agamous-like MADS-box protein AGL8 homolog OS=Solanum commersonii GN=SCM1 PE=2 SV=1

 Score =  123 bits (309), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 59/61 (96%), Positives = 60/61 (98%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEV LIVFSTKGKLFEY+TD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVGLIVFSTKGKLFEYATD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor.

Solanum commersonii (taxid: 4109)

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

 Score =  123 bits (308), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 58/61 (95%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVAL++FS+KGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALVIFSSKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor.

Sinapis alba (taxid: 3728)

>sp|Q42429|AGL8_SOLTU Agamous-like MADS-box protein AGL8 homolog OS=Solanum tuberosum PE=2 SV=1

 Score =  122 bits (305), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/61 (95%), Positives = 59/61 (96%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEV LIVFSTKGKLFEY+ D
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVGLIVFSTKGKLFEYAND 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor.

Solanum tuberosum (taxid: 4113)

>sp|Q40170|AGL8_SOLLC Agamous-like MADS-box protein AGL8 homolog OS=Solanum lycopersicum GN=TDR4 PE=2 SV=1

 Score =  121 bits (303), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 58/61 (95%), Positives = 59/61 (96%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEV LIVFSTKGKLFEY+ D
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVGLIVFSTKGKLFEYAND 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor.

Solanum lycopersicum (taxid: 4081)

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

 Score =  118 bits (296), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 56/61 (91%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRG+VQLKRIENKINRQVTFSKRRSGLLKKA+EISVLCDAEVALI+FSTKGKL+EY+TD
Sbjct: 1  MGRGKVQLKRIENKINRQVTFSKRRSGLLKKANEISVLCDAEVALIIFSTKGKLYEYATD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

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

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  117 bits (292), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 55/61 (90%), Positives = 59/61 (96%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRG+VQLKRIENKINRQVTFSKRR+GLLKKAHEISVLCDAEVA IVFS KGKL+EY+TD
Sbjct: 1  MGRGKVQLKRIENKINRQVTFSKRRNGLLKKAHEISVLCDAEVAAIVFSPKGKLYEYATD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2IB53|AP1_CITSI Floral homeotic protein APETALA 1 OS=Citrus sinensis GN=AP1 PE=2 SV=1

 Score =  115 bits (288), Expect = 9e-26,   Method: Composition-based stats.
 Identities = 58/61 (95%), Positives = 60/61 (98%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRR+GLLKKAHEISVLCDAEVAL+VFS KGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALVVFSHKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Transcription factor that promotes early floral meristem identity in synergy with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Required subsequently for the transition of an inflorescence meristem into a floral meristem, and for the normal development of sepals and petals in flowers. Regulates positively B class homeotic proteins.

Citrus sinensis (taxid: 2711)

>sp|P35631|AP1_ARATH Floral homeotic protein APETALA 1 OS=Arabidopsis thaliana GN=AP1 PE=1 SV=2

 Score =  115 bits (287), Expect = 1e-25,   Method: Composition-based stats.
 Identities = 58/61 (95%), Positives = 60/61 (98%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRR+GLLKKAHEISVLCDAEVAL+VFS KGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALVVFSHKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Transcription factor that promotes early floral meristem identity in synergy with LEAFY. Is required subsequently for the transition of an inflorescence meristem into a floral meristem. Is indispensable for normal development of sepals and petals in flowers. Regulates positively the B class homeotic proteins APETALA3 and PISTILLATA with the cooperation of LEAFY and UFO. Interacts with SEPALLATA3 or AP3/PI heterodimer to form complexes that could be involved in genes regulation during floral meristem development. Regulates positively AGAMOUS in cooperation with LEAFY. Displays a redundant function with CAULIFLOWER in the up-regulation of LEAFY. Together with AGL24 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. Represses flowering time genes AGL24, SVP and SOC1 in emerging floral meristems.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6R4R9|CALA_BRAOB Truncated transcription factor CAULIFLOWER A OS=Brassica oleracea var. botrytis GN=CAL-A PE=2 SV=2

 Score =  114 bits (286), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 53/61 (86%), Positives = 60/61 (98%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRV++KRIENKINRQVTFSKRR+GLLKKAHEIS+LCDAEV+LIVFS KGKLFEYS++
Sbjct: 1  MGRGRVEMKRIENKINRQVTFSKRRAGLLKKAHEISILCDAEVSLIVFSHKGKLFEYSSE 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Probable transcription factor that promotes early floral meristem identity in synergy with APETALA1, FRUITFULL and LEAFY. Is required subsequently for the transition of an inflorescence meristem into a floral meristem. Seems to be partially redundant to the function of APETALA1.

Brassica oleracea var. botrytis (taxid: 3715)

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	62
449531683	64	PREDICTED: agamous-like MADS-box protein	1.0	0.968	1.0	6e-28
269314027	239	MADS-box transcription factor 3 [Hevea b	0.983	0.255	1.0	1e-27
421958016	245	MADS-box protein FL1B [Aquilegia coerule	0.983	0.248	0.983	1e-27
421958014	245	MADS-box protein FL1A [Aquilegia coerule	0.983	0.248	0.983	1e-27
110164923	238	FUL-like protein 1 [Euptelea pleiosperma	0.983	0.256	1.0	1e-27
1483232	244	MADS5 protein [Betula pendula]	0.983	0.25	1.0	2e-27
371926958	253	FUL-like protein [Epimedium sagittatum]	0.983	0.241	0.983	2e-27
157674589	238	FRUITFUL-like protein [Carica papaya]	0.983	0.256	1.0	2e-27
148540534	243	MADS-box transcription factor FUL-like 2	0.983	0.251	1.0	2e-27
255547131	244	mads box protein, putative [Ricinus comm	0.983	0.25	0.983	3e-27

>gi|449531683|ref|XP_004172815.1| PREDICTED: agamous-like MADS-box protein AGL8-like [Cucumis sativus]

 Score =  127 bits (320), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 62/62 (100%), Positives = 62/62 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 SW 62
          SW
Sbjct: 61 SW 62

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|269314027|gb|ACZ36916.1| MADS-box transcription factor 3 [Hevea brasiliensis]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|421958016|gb|AFX72885.1| MADS-box protein FL1B [Aquilegia coerulea]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/61 (98%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALI+FSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIIFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Aquilegia coerulea

Species: Aquilegia coerulea

Genus: Aquilegia

Family: Ranunculaceae

Order: Ranunculales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|421958014|gb|AFX72884.1| MADS-box protein FL1A [Aquilegia coerulea]

 Score =  127 bits (318), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 60/61 (98%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEIS+LCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISILCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Aquilegia coerulea

Species: Aquilegia coerulea

Genus: Aquilegia

Family: Ranunculaceae

Order: Ranunculales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|110164923|gb|ABG49518.1| FUL-like protein 1 [Euptelea pleiosperma]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Euptelea pleiosperma

Species: Euptelea pleiosperma

Genus: Euptelea

Family: Eupteleaceae

Order: Ranunculales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1483232|emb|CAA67969.1| MADS5 protein [Betula pendula]

 Score =  126 bits (316), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Betula pendula

Species: Betula pendula

Genus: Betula

Family: Betulaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|371926958|gb|AEX58637.1| FUL-like protein [Epimedium sagittatum]

 Score =  126 bits (316), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 60/61 (98%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY+TD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYATD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Epimedium sagittatum

Species: Epimedium sagittatum

Genus: Epimedium

Family: Berberidaceae

Order: Ranunculales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|157674589|gb|ABV60386.1| FRUITFUL-like protein [Carica papaya]

 Score =  126 bits (316), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Carica papaya

Species: Carica papaya

Genus: Carica

Family: Caricaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148540534|gb|ABQ85945.1| MADS-box transcription factor FUL-like 2 [Trochodendron aralioides]

 Score =  126 bits (316), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 61/61 (100%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Trochodendron aralioides

Species: Trochodendron aralioides

Genus: Trochodendron

Family: Trochodendraceae

Order: Trochodendrales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255547131|ref|XP_002514623.1| mads box protein, putative [Ricinus communis] gi|223546227|gb|EEF47729.1| mads box protein, putative [Ricinus communis]

 Score =  125 bits (315), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 60/61 (98%), Positives = 61/61 (100%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          MGRGRVQLKRIENKINRQVTFSKRR+GLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD
Sbjct: 1  MGRGRVQLKRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60

Query: 61 S 61
          S
Sbjct: 61 S 61

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	62
TAIR|locus:2173522	242	AGL8 "AGAMOUS-like 8" [Arabido	0.983	0.252	0.983	2.5e-26
TAIR|locus:2033273	256	AP1 "AT1G69120" [Arabidopsis t	0.983	0.238	0.950	1.4e-25
UNIPROTKB|Q9ZS25	210	gsqua1 "MADS-box protein, GSQU	0.983	0.290	0.950	1.8e-25
UNIPROTKB|Q10CQ1	246	MADS14 "MADS-box transcription	0.983	0.247	0.918	5.9e-25
UNIPROTKB|D2T2G0	238	gsqua2 "GSQUA2 protein" [Gerbe	0.983	0.256	0.934	7.6e-25
UNIPROTKB|Q6Q9I2	267	MADS15 "MADS-box transcription	0.983	0.228	0.901	2.6e-24
TAIR|locus:2028830	255	CAL "CAULIFLOWER" [Arabidopsis	0.983	0.239	0.885	2.3e-23
UNIPROTKB|Q0D4T4	249	MADS18 "MADS-box transcription	0.983	0.244	0.868	3.8e-23
TAIR|locus:2102871	249	AGL79 "AGAMOUS-like 79" [Arabi	0.983	0.244	0.868	2.1e-22
UNIPROTKB|Q0DEB8	225	MADS5 "MADS-box transcription	0.983	0.271	0.803	2.6e-22

TAIR|locus:2173522 AGL8 "AGAMOUS-like 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 60/61 (98%), Positives = 61/61 (100%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFS+KGKLFEYSTD
Sbjct:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSSKGKLFEYSTD 60

Query:    61 S 61
             S
Sbjct:    61 S 61

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:0005515 "protein binding" evidence=IPI

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

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

GO:0031540 "regulation of anthocyanin biosynthetic process" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0010154 "fruit development" evidence=IMP

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

 Score = 290 (107.1 bits), Expect = 1.4e-25, P = 1.4e-25
 Identities = 58/61 (95%), Positives = 60/61 (98%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRGRVQLKRIENKINRQVTFSKRR+GLLKKAHEISVLCDAEVAL+VFS KGKLFEYSTD
Sbjct:     1 MGRGRVQLKRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALVVFSHKGKLFEYSTD 60

Query:    61 S 61
             S
Sbjct:    61 S 61

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|Q9ZS25 gsqua1 "MADS-box protein, GSQUA1" [Gerbera hybrid cultivar (taxid:18101)]

 Score = 289 (106.8 bits), Expect = 1.8e-25, P = 1.8e-25
 Identities = 58/61 (95%), Positives = 59/61 (96%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRG+VQLKRIENKINRQVTFSKRR GLLKKAHEISVLCDAEVALIVFS KGKLFEYSTD
Sbjct:     1 MGRGKVQLKRIENKINRQVTFSKRRGGLLKKAHEISVLCDAEVALIVFSAKGKLFEYSTD 60

Query:    61 S 61
             S
Sbjct:    61 S 61

GO:0005515 "protein binding" evidence=IPI

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

 Score = 284 (105.0 bits), Expect = 5.9e-25, P = 5.9e-25
 Identities = 56/61 (91%), Positives = 61/61 (100%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRG+VQLKRIENKINRQVTFSKRRSGLLKKA+EISVLCDAEVALI+FSTKGKL+EY+TD
Sbjct:     1 MGRGKVQLKRIENKINRQVTFSKRRSGLLKKANEISVLCDAEVALIIFSTKGKLYEYATD 60

Query:    61 S 61
             S
Sbjct:    61 S 61

GO:0005515 "protein binding" evidence=IPI

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

 Score = 283 (104.7 bits), Expect = 7.6e-25, P = 7.6e-25
 Identities = 57/61 (93%), Positives = 60/61 (98%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRGRVQLKRIENKI+RQVTFSKRR+GLLKKAHEISVLCDA+VALIVFSTKGKLFEYST 
Sbjct:     1 MGRGRVQLKRIENKISRQVTFSKRRTGLLKKAHEISVLCDADVALIVFSTKGKLFEYSTH 60

Query:    61 S 61
             S
Sbjct:    61 S 61

GO:0005515 "protein binding" evidence=IPI

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

 Score = 278 (102.9 bits), Expect = 2.6e-24, P = 2.6e-24
 Identities = 55/61 (90%), Positives = 59/61 (96%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRG+VQLKRIENKINRQVTFSKRR+GLLKKAHEISVLCDAEVA IVFS KGKL+EY+TD
Sbjct:     1 MGRGKVQLKRIENKINRQVTFSKRRNGLLKKAHEISVLCDAEVAAIVFSPKGKLYEYATD 60

Query:    61 S 61
             S
Sbjct:    61 S 61

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2028830 CAL "CAULIFLOWER" [Arabidopsis thaliana (taxid:3702)]

 Score = 269 (99.8 bits), Expect = 2.3e-23, P = 2.3e-23
 Identities = 54/61 (88%), Positives = 59/61 (96%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRGRV+LKRIENKINRQVTFSKRR+GLLKKA EISVLCDAEV+LIVFS KGKLFEYS++
Sbjct:     1 MGRGRVELKRIENKINRQVTFSKRRTGLLKKAQEISVLCDAEVSLIVFSHKGKLFEYSSE 60

Query:    61 S 61
             S
Sbjct:    61 S 61

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

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0010582 "floral meristem determinacy" evidence=IEP

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:0048443 "stamen development" evidence=RCA

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

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 53/61 (86%), Positives = 59/61 (96%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRG VQL+RIENKINRQVTFSKRR+GLLKKAHEISVLCDA+VALIVFSTKGKL+E+S+ 
Sbjct:     1 MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query:    61 S 61
             S
Sbjct:    61 S 61

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2102871 AGL79 "AGAMOUS-like 79" [Arabidopsis thaliana (taxid:3702)]

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 53/61 (86%), Positives = 56/61 (91%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRGRVQL+RIENKI RQVTFSKRR+GL+KKA EISVLCDAEVALIVFS KGKLFEYS  
Sbjct:     1 MGRGRVQLRRIENKIRRQVTFSKRRTGLVKKAQEISVLCDAEVALIVFSPKGKLFEYSAG 60

Query:    61 S 61
             S
Sbjct:    61 S 61

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:0048481 "ovule development" evidence=RCA

UNIPROTKB|Q0DEB8 MADS5 "MADS-box transcription factor 5" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 259 (96.2 bits), Expect = 2.6e-22, P = 2.6e-22
 Identities = 49/61 (80%), Positives = 60/61 (98%)

Query:     1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
             MGRG+V+LKRIENKI+RQVTF+KRR+GLLKKA+E+SVLCDAEVALI+FST+G+LFE+ST 
Sbjct:     1 MGRGKVELKRIENKISRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSTRGRLFEFSTS 60

Query:    61 S 61
             S
Sbjct:    61 S 61

GO:0005515 "protein binding" evidence=IPI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P0DI14	AP1_BRARP	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
Q96356	2AP1_BRAOT	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
B4YPV4	AP1C_BRAOA	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
Q10CQ1	MAD14_ORYSJ	No assigned EC number	0.9180	0.9838	0.2479	yes	no
D7KWY6	AP1_ARALL	No assigned EC number	0.9508	0.9838	0.2382	N/A	no
Q8GTF4	AP1C_BRAOB	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
Q8GTF5	AP1A_BRAOB	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
Q41274	AGL8_SINAL	No assigned EC number	0.9508	0.9838	0.2531	N/A	no
Q41276	AP1_SINAL	No assigned EC number	0.9508	0.9838	0.2401	N/A	no
Q39371	3AP1_BRAOL	No assigned EC number	0.9333	0.9677	0.2343	N/A	no
B4YPW6	AP1A_BRAOA	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
Q96355	1AP1_BRAOT	No assigned EC number	0.9344	0.9838	0.2382	N/A	no
Q38876	AGL8_ARATH	No assigned EC number	0.9836	0.9838	0.2520	yes	no
O22328	AGL8_SOLCO	No assigned EC number	0.9672	0.9838	0.244	N/A	no
Q42429	AGL8_SOLTU	No assigned EC number	0.9508	0.9838	0.244	N/A	no
Q40170	AGL8_SOLLC	No assigned EC number	0.9508	0.9838	0.2687	N/A	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: scaffold_802730.1 annotation not avaliable (242 aa) (Arabidopsis lyrata)

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	62
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	9e-37
smart00432	59	smart00432, MADS, MADS domain	1e-31
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	1e-28
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	4e-25
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	5e-23
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	1e-12

>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 =  116 bits (294), Expect = 9e-37
 Identities = 45/60 (75%), Positives = 56/60 (93%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS 61
          GRG++++KRIEN  NRQVTFSKRR+GLLKKAHE+SVLCDAEVALI+FS+ GKL+E+S+ S
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPS 60

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 =  103 bits (260), Expect = 1e-31
 Identities = 43/59 (72%), Positives = 53/59 (89%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
          GR ++++KRIENK NRQVTFSKRR+GL KKAHE+SVLCDAEVALIVFS  GKL+E+++ 
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 = 95.7 bits (239), Expect = 1e-28
 Identities = 41/58 (70%), Positives = 52/58 (89%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYST 59
          GRG++++KRIENK +RQVTFSKRR+GL KKA E+SVLCDAEVA+IVFS  GKL+E+ +
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|109379 pfam00319, SRF-TF, SRF-type transcription factor (DNA-binding and dimerisation domain)

 Score = 86.7 bits (215), Expect = 4e-25
 Identities = 40/51 (78%), Positives = 48/51 (94%)

Query: 9  KRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYST 59
          KRIENK NRQVTFSKRR+G+ KKAHE+SVLCDAEVA+I+FS+ GKL+EYS+
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYSS 51

Length = 51

>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 = 82.3 bits (204), Expect = 5e-23
 Identities = 36/60 (60%), Positives = 45/60 (75%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS 61
          GR ++++KRIENK  R VTFSKRR GL KKA E+S LC AEVA+IV+S  GKL+ +   S
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS 60

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

 Score = 60.0 bits (145), Expect = 1e-12
 Identities = 25/59 (42%), Positives = 36/59 (61%)

Query: 1   MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYST 59
           +   ++ +  I NK  R VTFSKR+ G+ KKA E+SVL   EV L+V S  G +  ++T
Sbjct: 81  VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTT 139

Length = 412

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	62
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.97
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.97
smart00432	59	MADS MADS domain.	99.97
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.96
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.95
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.94
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.86
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.66

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.97  E-value=3.8e-32  Score=175.33  Aligned_cols=61  Identities=66%  Similarity=1.103  Sum_probs=60.2

Q ss_pred             CCccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCC
Q 035470            1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS   61 (62)
Q Consensus         1 mgR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~   61 (62)
                      |||+||+|++|+|+..|++||+||+.||||||+||||||||+||+|||+|+|++|.|++++
T Consensus         1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~   61 (195)
T KOG0014|consen    1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSD   61 (195)
T ss_pred             CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcc
Confidence            9999999999999999999999999999999999999999999999999999999999986

>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=9.2e-32  Score=156.78  Aligned_cols=61  Identities=74%  Similarity=1.167  Sum_probs=59.7

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      ||+||+|++|+|+.+|++||+||+.||||||.|||+||||+||+++|+|+|++|+|+||++
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~   61 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSM   61 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCH
Confidence            8999999999999999999999999999999999999999999999999999999999974

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.

>smart00432 MADS MADS domain

Probab=99.97  E-value=2.2e-31  Score=149.27  Aligned_cols=59  Identities=73%  Similarity=1.151  Sum_probs=58.2

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD   60 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~   60 (62)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|+|+|+|++++|++|
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            89999999999999999999999999999999999999999999999999999999987

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

Probab=99.96  E-value=3e-30  Score=144.60  Aligned_cols=59  Identities=69%  Similarity=1.112  Sum_probs=57.9

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD   60 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~   60 (62)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+|||++||+|+|+|+|++++|++|
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            79999999999999999999999999999999999999999999999999999999986

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.

>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=99.95  E-value=2.2e-29  Score=148.35  Aligned_cols=60  Identities=60%  Similarity=0.940  Sum_probs=58.7

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS   61 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~   61 (62)
                      ||+||+|++|+|+.+|++||+||+.||+|||+|||+|||++||+|+|+|+|+.+.|.+++
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~   60 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS   60 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcH
Confidence            799999999999999999999999999999999999999999999999999999999875

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.

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

Probab=99.94  E-value=7.9e-29  Score=135.63  Aligned_cols=51  Identities=63%  Similarity=1.006  Sum_probs=47.0

Q ss_pred             EEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecC
Q 035470            9 KRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYST   59 (62)
Q Consensus         9 k~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s   59 (62)
                      ++|+|+..|++||+||++||+|||+|||+|||++||+|+|+|+|++|+|+|
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            579999999999999999999999999999999999999999999999987

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

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

Probab=99.86  E-value=1.1e-22  Score=143.12  Aligned_cols=60  Identities=43%  Similarity=0.739  Sum_probs=58.7

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS   61 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~   61 (62)
                      ||+||+|+||+|+..|.+||+|||.||||||+||++|+|.+|-|+|.+++|.+|+|++|-
T Consensus        63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpK  122 (338)
T KOG0015|consen   63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPK  122 (338)
T ss_pred             ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEecccc
Confidence            799999999999999999999999999999999999999999999999999999999984

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

Probab=99.66  E-value=5.7e-17  Score=117.34  Aligned_cols=61  Identities=41%  Similarity=0.611  Sum_probs=60.0

Q ss_pred             CCccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCC
Q 035470            1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS   61 (62)
Q Consensus         1 mgR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~   61 (62)
                      ||++++.|.+|+|+.+|.+||.||+.||+|||+||++|+|.+|.+++.+++|.+|+|++|+
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            7899999999999999999999999999999999999999999999999999999999986

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	62
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		2e-16
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		3e-16
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		4e-16
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		4e-16
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		9e-16
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		2e-15
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		7e-10
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		3e-09
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		3e-09

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 36/61 (59%), Positives = 52/61 (85%), Gaps = 1/61 (1%)
Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY-ST 59
          MGR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  +LF+Y ST
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 60 D 60
          D
Sbjct: 61 D 61

>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 = 79.7 bits (195), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 36/60 (60%), Positives = 51/60 (85%), Gaps = 1/60 (1%)
Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY-STD 60
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  KLF+Y STD
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

>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 = 79.7 bits (195), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 36/60 (60%), Positives = 51/60 (85%), Gaps = 1/60 (1%)
Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY-STD 60
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  KLF+Y STD
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

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

Iteration: 1
 Score = 79.7 bits (195), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 36/60 (60%), Positives = 51/60 (85%), Gaps = 1/60 (1%)
Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY-STD 60
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  KLF+Y STD
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 36/60 (60%), Positives = 51/60 (85%), Gaps = 1/60 (1%)
Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY-STD 60
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVL DAE+ALI+F++  KLF+Y STD
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60

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

Iteration: 1
 Score = 77.8 bits (190), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 35/60 (58%), Positives = 51/60 (85%), Gaps = 1/60 (1%)
Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEY-STD 60
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  +LF+Y STD
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60

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

Iteration: 1
 Score = 58.9 bits (141), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 28/60 (46%), Positives = 42/60 (70%)
Query: 3  RGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW 62
          R ++++K IENK  R VTFSKR+ G++KKA E+SVL   +V L+V S  G ++ +ST  +
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF 77

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 43/59 (72%), Gaps = 2/59 (3%)
Query: 3  RGRVQLKR--IENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYST 59
          RGRV++K   I+NK+ R  TFSKR++G++KKA+E+S L   +V L+V S  G ++ ++T
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 67

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 43/59 (72%), Gaps = 2/59 (3%)
Query: 3  RGRVQLKR--IENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYST 59
          RGRV++K   I+NK+ R  TFSKR++G++KKA+E+S L   +V L+V S  G ++ ++T
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	62
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	9e-38
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	1e-37
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	2e-37
1hbx_A	92	SRF, serum response factor; gene regulation, trans	3e-37
1egw_A	77	MADS box transcription enhancer factor 2, polypept	6e-36

>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 =  119 bits (300), Expect = 9e-38
 Identities = 28/61 (45%), Positives = 41/61 (67%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
            R ++++K IENK  R VTFSKR+ G++KKA E+SVL   +V L+V S  G ++ +ST 
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61 S 61
           
Sbjct: 76 K 76

>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 =  119 bits (299), Expect = 1e-37
 Identities = 33/60 (55%), Positives = 50/60 (83%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS 61
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  KLF+Y++  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

>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 =  118 bits (298), Expect = 2e-37
 Identities = 24/61 (39%), Positives = 43/61 (70%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
           GR +++++ I+NK+ R  TFSKR++G++KKA+E+S L   +V L+V S  G ++ ++T 
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 S 61
           
Sbjct: 69 K 69

>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 =  118 bits (297), Expect = 3e-37
 Identities = 24/61 (39%), Positives = 43/61 (70%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
           GR +++++ I+NK+ R  TFSKR++G++KKA+E+S L   +V L+V S  G ++ ++T 
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 S 61
           
Sbjct: 70 K 70

>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 =  114 bits (287), Expect = 6e-36
 Identities = 33/60 (55%), Positives = 50/60 (83%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS 61
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  KLF+Y++  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	62
1hbx_A	92	SRF, serum response factor; gene regulation, trans	100.0
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	100.0
1egw_A	77	MADS box transcription enhancer factor 2, polypept	100.0
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	100.0
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	99.98

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

Probab=100.00  E-value=2.1e-35  Score=177.00  Aligned_cols=62  Identities=39%  Similarity=0.674  Sum_probs=60.8

Q ss_pred             CCccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         1 mgR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||+|+|++|+|+||++
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~   71 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL   71 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGG
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999874

>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=3.8e-35  Score=178.11  Aligned_cols=62  Identities=45%  Similarity=0.726  Sum_probs=61.0

Q ss_pred             CCccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         1 mgR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||+|+|++|+|+||++
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~   77 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF   77 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTT
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCH
Confidence            89999999999999999999999999999999999999999999999999999999999975

>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=5.1e-35  Score=170.44  Aligned_cols=60  Identities=55%  Similarity=0.956  Sum_probs=59.2

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS   61 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~   61 (62)
                      ||+||+|++|+|+.+|++||+||++||+|||+|||+||||+||+|||+|+|++|+|+|++
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~   60 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD   60 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSC
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCC
Confidence            899999999999999999999999999999999999999999999999999999999986

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

Probab=100.00  E-value=6.8e-35  Score=177.72  Aligned_cols=62  Identities=39%  Similarity=0.674  Sum_probs=60.7

Q ss_pred             CCccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         1 mgR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      |||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||||||+|+|++|+|+||++
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~   70 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL   70 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGG
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccH
Confidence            99999999999999999999999999999999999999999999999999999999999874

>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=99.98  E-value=1.7e-34  Score=172.51  Aligned_cols=61  Identities=54%  Similarity=0.935  Sum_probs=59.6

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      ||+||+|++|+|+.+|++||+||+.||||||+|||+||||+||+|||+|+|++|+|+||++
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~   61 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM   61 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCH
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCH
Confidence            8999999999999999999999999999999999999999999999999999999999863

---

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	62
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	7e-31
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	8e-31
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	9e-31

>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 =  100 bits (251), Expect = 7e-31
 Identities = 24/61 (39%), Positives = 43/61 (70%)

Query: 1  MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTD 60
           GR +++++ I+NK+ R  TFSKR++G++KKA+E+S L   +V L+V S  G ++ ++T 
Sbjct: 2  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 61

Query: 61 S 61
           
Sbjct: 62 K 62

>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 =  100 bits (250), Expect = 8e-31
 Identities = 33/60 (55%), Positives = 50/60 (83%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS 61
          GR ++Q+ RI ++ NRQVTF+KR+ GL+KKA+E+SVLCD E+ALI+F++  KLF+Y++  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

>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 =  100 bits (251), Expect = 9e-31
 Identities = 28/60 (46%), Positives = 41/60 (68%)

Query: 2  GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDS 61
           R ++++K IENK  R VTFSKR+ G++KKA E+SVL   +V L+V S  G ++ +ST  
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPK 62

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	62
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	100.0
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	100.0
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	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=5.1e-36  Score=171.17  Aligned_cols=61  Identities=54%  Similarity=0.935  Sum_probs=59.8

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||+|||+|+|++|+|+||++
T Consensus         1 GR~Ki~ik~Ie~~~~R~vTFsKRk~GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~s~~~   61 (71)
T d1egwa_           1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM   61 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCH
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeCCCH
Confidence            8999999999999999999999999999999999999999999999999999999999974

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

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

Probab=100.00  E-value=3.2e-35  Score=172.45  Aligned_cols=62  Identities=39%  Similarity=0.674  Sum_probs=60.6

Q ss_pred             CCccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            1 MGRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         1 mgR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      +||+||+|++|+|+..|++||+||+.||||||+|||+||||+||+|||+|+|++|+|+||++
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~   63 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKL   63 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGG
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCH
Confidence            69999999999999999999999999999999999999999999999999999999999975

>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=1.5e-34  Score=169.85  Aligned_cols=61  Identities=46%  Similarity=0.746  Sum_probs=60.1

Q ss_pred             CccceeeEEeccccCcceehhhccchhhhhhhhcceecCceEEEEEEcCCCCeEEecCCCC
Q 035470            2 GRGRVQLKRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALIVFSTKGKLFEYSTDSW   62 (62)
Q Consensus         2 gR~ki~ik~I~~~~~R~~tf~KR~~GL~KKa~ELs~Lc~~~v~~iv~~~~g~~~~~~s~~~   62 (62)
                      ||+||+|++|+|+..|++||+||+.||+|||+|||+||||+||||+|+|+|++|+|+||++
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v   63 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKF   63 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTT
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCH
Confidence            8999999999999999999999999999999999999999999999999999999999985