Citrus Sinensis ID: 041581

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-
Protein Sequence
MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMIPYNYDLNPVDNPMMMLMMNGGDQMGSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHYEQQLPLLP
Secondary Structure (PSIPRED)
ccccccEEEEcccccHHHHHHHHHHcHHHHHHHHHHHHccccEEEEEEccccccccccccccccccHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccEEEEEEEcccccccccccccccccHHHHHHHHHHHHHcccHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHccccccccccccccccccccccccccccHEEEccccccccHHHcccccccccccHHHHHHccccEEEEccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFStlcgvptcmiiygprlnnrpvdveiwpkdeKDFMQVVNLYKDkayssvrgvkslslfDFFADRKRKVDENIAKTRKANYeslfstddwdEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQalqmipynydlnpvdnpMMMLMmnggdqmgssmynsmqyarcfdpMMGAMINNRLMmmnnpradvgifgttilqplqhyeqqlpllp
Flexible Loop (DISEMBL)
mgrgkltmqliEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDkayssvrgvkslslfdffadrkrkvdeniaktrkanyeslfstddwdEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMIPYNYDLNPVDNPMMMLMMNGGDQMGSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHYEQQLPLLP
Low Complexity Region (SEG)
MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMIPYNYDLNPVDNPmmmlmmnggdqmgSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHYEQQLPLLP
Disordered region (IsUnstruct)
********************************EEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMIPYNYDLNPVDNPMMMLMM*********MYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHY********
Disordered Region (DISOPRED)
MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKD*********************K*****************LFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKL**************************************************************************************************YE*****L*
Disordered Region (DISEMBL)
MGRGKLTMQLIEKEKARMITYQ*********AEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMIPYNYDLNPVDNPMMMLMMNGGDQMGSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHYEQQLPLLP
Disordered Region (DISPRO)
*****LTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQS*I********QALQMIPYNYDLNPVDNPMMMLMMNGGDQMGSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHYEQQLPLLP
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRGKLTMQLxxxxxxxxxxxxxxxxxxxxxAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMIPYNYDLNPVDNPMMMLMMNGGDQMGSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGIFGTTILQPLQHYEQQLPLLP
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	261	2.2.26 [Sep-21-2011]
Q7XJK8	278	MADS-box transcription fa	no	no	0.540	0.507	0.286	7e-10
Q9C6V3	339	Agamous-like MADS-box pro	no	no	0.532	0.410	0.258	3e-08
Q7XJK5	320	Agamous-like MADS-box pro	no	no	0.222	0.181	0.451	1e-07
Q9C6V4	464	Agamous-like MADS-box pro	no	no	0.597	0.336	0.252	2e-07
Q38840	227	Agamous-like MADS-box pro	no	no	0.187	0.215	0.448	3e-07
Q7XJK6	366	Agamous-like MADS-box pro	no	no	0.222	0.158	0.451	3e-07
O80805	279	MADS-box transcription fa	no	no	0.570	0.534	0.267	4e-07
Q07474	212	Floral homeotic protein P	N/A	no	0.187	0.231	0.448	2e-06
Q03378	215	Floral homeotic protein G	N/A	no	0.187	0.227	0.448	3e-06
Q0DEB8	225	MADS-box transcription fa	yes	no	0.195	0.226	0.450	3e-06

>sp|Q7XJK8|PHE2_ARATH MADS-box transcription factor PHERES 2 OS=Arabidopsis thaliana GN=PHE2 PE=1 SV=1

 Score = 64.7 bits (156), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 23/164 (14%)

Query: 5   KLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPK 64
           K+ + LIE   +R  T+ KRK+G+ KK  E  TLCGV  C ++Y P  N+ P   E WP 
Sbjct: 4   KMKLSLIENSVSRKTTFTKRKKGMTKKLTELVTLCGVEACAVVYSP-FNSIP---EAWPS 59

Query: 65  DE------KDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYES- 117
            E        FM++  L + K        K +    F + R  K  E + K R  N+ S 
Sbjct: 60  REGVEDVVSKFMELSVLDRTK--------KMVDQETFISQRIAKEKEQLQKLRDENHNSQ 111

Query: 118 ----LFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIM 157
               +F     +  +       L+ + +  D+Y++  TR++ I+
Sbjct: 112 IRELMFGCLKGETNVYNLDGRDLQDLSLYIDKYLNGLTRRIEIL 155

Probable transcription factor involved in the development of gametophytes and seeds.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9C6V3|AGL86_ARATH Agamous-like MADS-box protein AGL86 OS=Arabidopsis thaliana GN=AGL86 PE=1 SV=1

 Score = 59.3 bits (142), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 39/151 (25%), Positives = 73/151 (48%), Gaps = 12/151 (7%)

Query: 3   RGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIW 62
           R K+ + LI  + +R  T++KRK G+  K  E +TLCGV  C +I  P  N  PV   +W
Sbjct: 2   RSKIKLSLIANKTSRRTTFRKRKGGITNKLHELTTLCGVKACAVISSPYEN--PV---VW 56

Query: 63  PKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYES----- 117
           P  E    + V+++ ++  ++ +    +S   +  D+  K  + +   R+ N ES     
Sbjct: 57  PSTE-GVQEAVSMFMERP-ATEQSKLMMSHETYLQDKITKETKKLESLRRENRESQLRQF 114

Query: 118 LFSTDDWDEMINRFSIDQLKQMLVVFDEYID 148
           +F   +     +++    L+ + +  D YI+
Sbjct: 115 MFDCVEGKMSEHQYGARDLQDLSLYIDHYIN 145

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XJK5|AGL90_ARATH Agamous-like MADS-box protein AGL90 OS=Arabidopsis thaliana GN=AGL90 PE=1 SV=2

 Score = 57.0 bits (136), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 37/62 (59%), Gaps = 4/62 (6%)

Query: 5  KLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPK 64
          K+ + LI  E++R  ++ KRK G+ KK  E STLCGV  C +IY P +   PV  E WP 
Sbjct: 3  KVKLSLIANERSRKTSFMKRKNGIFKKLHELSTLCGVQACALIYSPFI---PVP-ESWPS 58

Query: 65 DE 66
           E
Sbjct: 59 RE 60

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C6V4|AGL92_ARATH Agamous-like MADS-box protein AGL92 OS=Arabidopsis thaliana GN=AGL92 PE=1 SV=1

 Score = 56.6 bits (135), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 43/170 (25%), Positives = 76/170 (44%), Gaps = 14/170 (8%)

Query: 3   RGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIW 62
           R K  + LI     R  T++KR  G++KK  E +TLC +  C +IY P  N       +W
Sbjct: 2   RTKTKLVLIPDRHFRRATFRKRNAGIRKKLHELTTLCDIKACAVIYSPFENPT-----VW 56

Query: 63  PKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTD 122
           P  E    +V++ + +K  ++ R    +S   F  D+  K    +   R+ N E+     
Sbjct: 57  PSTE-GVQEVISEFMEKP-ATERSKTMMSHETFLRDQITKEQNKLESLRRENRETQLKHF 114

Query: 123 DWDEMINRFSIDQ-----LKQMLVVFDEYIDV--ATRKLTIMRGQQQSCI 165
            +D +  + S  Q     L+ + +  D+Y++   A +K     G+  S +
Sbjct: 115 MFDCVGGKMSEQQYGARDLQDLSLFTDQYLNQLNARKKFLTEYGESSSSV 164

Putative transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38840|AGL17_ARATH Agamous-like MADS-box protein AGL17 OS=Arabidopsis thaliana GN=AGL17 PE=2 SV=2

 Score = 56.2 bits (134), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 34/49 (69%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYG 49
          MGRGK+ +Q I+   +R +T+ KR++GL KKA+E + LC    C+II+ 
Sbjct: 1  MGRGKIVIQKIDDSTSRQVTFSKRRKGLIKKAKELAILCDAEVCLIIFS 49

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XJK6|AGL36_ARATH Agamous-like MADS-box protein AGL36 OS=Arabidopsis thaliana GN=AGL36 PE=1 SV=1

 Score = 55.8 bits (133), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 37/62 (59%), Gaps = 4/62 (6%)

Query: 5  KLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPK 64
          K+ + LI  E++R  ++ KRK G+ KK  E STLCGV  C +IY P +   PV  E WP 
Sbjct: 3  KVKLSLIANERSRKTSFIKRKDGIFKKLHELSTLCGVQACALIYSPFI---PVP-ESWPS 58

Query: 65 DE 66
           E
Sbjct: 59 RE 60

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|O80805|PHE1_ARATH MADS-box transcription factor PHERES 1 OS=Arabidopsis thaliana GN=PHE1 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 73/172 (42%), Gaps = 23/172 (13%)

Query: 3   RGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIW 62
           RGK+ +  IE +  R  T+ KRK+G+ KK  E  TLCGV  C +I  P  + +    E W
Sbjct: 2   RGKMKLSFIENDSVRKTTFTKRKKGMLKKFNELVTLCGVDACAVIRSPYNSIQ----EPW 57

Query: 63  PKDE------KDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYE 116
           P  E        FM+   L + K        K +    F   R  K  E + K R  N  
Sbjct: 58  PSREGVEEVMSKFMEFSVLDRTK--------KMVDQETFLRQRIAKETERLQKLRDENRN 109

Query: 117 S-----LFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQS 163
           S     +F     +  ++      L  + V  ++Y++   R++ I++   +S
Sbjct: 110 SQIRDLMFGCLKGEVDVSHLHGRDLLDLNVFLNKYLNGVIRRVEILKENGES 161

Probable transcription factor involved in the development of gametophytes and seeds.

Arabidopsis thaliana (taxid: 3702)

>sp|Q07474|MADS2_PETHY Floral homeotic protein PMADS 2 OS=Petunia hybrida GN=PMADS2 PE=2 SV=1

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 32/49 (65%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYG 49
          MGRGK+ ++ IE    R +TY KR+ G+ KKA+E + LC     +II+G
Sbjct: 1  MGRGKIEIKRIENSSNRQVTYSKRRNGIIKKAKEITVLCDAKVSLIIFG 49

Transcription factor involved in the genetic control of flower development.

Petunia hybrida (taxid: 4102)

>sp|Q03378|GLOB_ANTMA Floral homeotic protein GLOBOSA OS=Antirrhinum majus GN=GLO PE=1 SV=1

 Score = 52.4 bits (124), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 31/49 (63%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYG 49
          MGRGK+ ++ IE    R +TY KR+ G+ KKA+E S LC     +II+ 
Sbjct: 1  MGRGKIEIKRIENSSNRQVTYSKRRNGIMKKAKEISVLCDAHVSVIIFA 49

Transcription factor involved in the genetic control of flower development. Acts in conjunction with DEFICIENS (defA).

Antirrhinum majus (taxid: 4151)

>sp|Q0DEB8|MADS5_ORYSJ MADS-box transcription factor 5 OS=Oryza sativa subsp. japonica GN=MADS5 PE=1 SV=1

 Score = 52.4 bits (124), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 23/51 (45%), Positives = 33/51 (64%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          MGRGK+ ++ IE + +R +T+ KR+ GL KKA E S LC     +II+  R
Sbjct: 1  MGRGKVELKRIENKISRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSTR 51

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

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	261
224054438	336	predicted protein [Populus trichocarpa]	0.931	0.723	0.350	2e-37
255546493	338	mads box protein, putative [Ricinus comm	0.708	0.547	0.377	7e-32
147854264	283	hypothetical protein VITISV_016405 [Viti	0.931	0.858	0.307	5e-26
224065525	406	predicted protein [Populus trichocarpa]	0.567	0.364	0.391	5e-25
224122246	390	predicted protein [Populus trichocarpa]	0.593	0.397	0.368	2e-24
255536889	386	conserved hypothetical protein [Ricinus	0.590	0.398	0.368	2e-24
421957996	319	MADS-box protein AGL86, partial [Aquileg	0.678	0.554	0.378	5e-24
357495775	315	MADS-box transcription factor [Medicago	0.597	0.495	0.372	6e-23
357495777	347	Agamous-like MADS-box protein AGL36 [Med	0.697	0.524	0.329	7e-22
357444935	386	MADS-box transcription factor [Medicago	0.808	0.546	0.317	1e-21

>gi|224054438|ref|XP_002298260.1| predicted protein [Populus trichocarpa] gi|222845518|gb|EEE83065.1| predicted protein [Populus trichocarpa]

 Score =  162 bits (409), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 110/314 (35%), Positives = 158/314 (50%), Gaps = 71/314 (22%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVE 60
           MGRGKLTM+LI  E++RMITY KRK+GL KKA EF  LCGV  C+II GP+LNN PVDVE
Sbjct: 1   MGRGKLTMELIRNERSRMITYHKRKKGLTKKAREFQILCGVDACVIILGPKLNNHPVDVE 60

Query: 61  IWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFS 120
            WP D  +  +++N ++ +        K+  L  FF  RK+K+D+ IAK RKA  E+ F 
Sbjct: 61  TWPTDRIEVRRIINRFRSEGTDR---KKTQDLSYFFEARKKKLDDEIAKLRKACMEAKFP 117

Query: 121 TDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQ------QQSCIAAADHHRD- 173
              WD  +N  S++QL+ +  VF+  +DVA   +  ++G        +S I AA    D 
Sbjct: 118 A--WDNRLNLLSLEQLRVLAGVFESKLDVARGWILKLKGNPFLMEDSKSGINAAGSISDK 175

Query: 174 ---------------------------------------------QALQMIPYNYDLNPV 188
                                                        Q  QM+P+N  +NP+
Sbjct: 176 SSFLASSTLANALLPKNIELEALNHQPFSCAKPIDMPLATCYPSHQLQQMLPFN--VNPI 233

Query: 189 DNPMMMLMMN------GGDQMGSSMYNSMQYARCFDPMMGAMINNRLMMMNNPRADVGI- 241
           ++PM+M+M +      GG    S++ +++QY   +DP    MI N  MM NNP  ++   
Sbjct: 234 NSPMLMMMNHEDFGQFGGLSSSSTIKSTVQYN--YDPAT-EMIGN--MMFNNPSWELSAS 288

Query: 242 FGTTILQPLQHYEQ 255
           +     QP+  Y Q
Sbjct: 289 YHGPSRQPIFPYRQ 302

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255546493|ref|XP_002514306.1| mads box protein, putative [Ricinus communis] gi|223546762|gb|EEF48260.1| mads box protein, putative [Ricinus communis]

 Score =  143 bits (360), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 77/204 (37%), Positives = 115/204 (56%), Gaps = 19/204 (9%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVE 60
           MGRGKL M+LI  EK+RMITY KRK+GL KK +EF  LC V  C+II+ P+ NNR  D+E
Sbjct: 1   MGRGKLNMELISNEKSRMITYHKRKKGLTKKVQEFHILCDVDACIIIFSPKFNNRSFDIE 60

Query: 61  IWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFS 120
            WP +  +  +++N Y+ +     R   +  L  FF  RK+K+DE+IAK RKA+ E+ + 
Sbjct: 61  TWPSNRYEMRRIINRYRSQDNDRKR---NQDLSHFFIARKKKIDEDIAKMRKAHMEAKYP 117

Query: 121 TDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHH-----RDQA 175
              WD  IN   + +L  +  V    I+VAT ++  +RG+       +DH+     +   
Sbjct: 118 A--WDNRINLLQLHELSVLASVLQSKIEVATARVMKIRGE-------SDHYFMVDSKSGI 168

Query: 176 LQMIPYNYDLNPVDNPMMMLMMNG 199
           +   P ++++ P  NPM     N 
Sbjct: 169 IHGGPISHNIRP--NPMAATFANA 190

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147854264|emb|CAN81313.1| hypothetical protein VITISV_016405 [Vitis vinifera]

 Score =  124 bits (310), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 84/273 (30%), Positives = 140/273 (51%), Gaps = 30/273 (10%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVE 60
           MGR +L ++LI KEK+R IT+QKR  GLKKK  E STLCGV  C+IIY    ++RP++  
Sbjct: 1   MGRSRLPLELIPKEKSRKITFQKRTMGLKKKTYEISTLCGVDACVIIYSWTSDDRPMEPI 60

Query: 61  IWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKT-RKANYESLF 119
            WP + +    ++N YK+ +    RG+K+L L  FF +R +K+ + I+K   +   ++ +
Sbjct: 61  FWPSNPEKVKSIINRYKEHSKEE-RGLKTLDLSGFFEERTKKIQKEISKLGHQGADQTKY 119

Query: 120 STDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHH-------- 171
            T  WD+ +N  S+DQL++++      ++V   ++ +++  Q      A  +        
Sbjct: 120 PT--WDDQLNDLSVDQLRELVNALGTKLEVIKSRVELLKMSQALLEGPASVNLSYPNNAM 177

Query: 172 -RDQALQMIPY--NYDLNP-VDNPMMMLMMNGGDQMGSSMYNS-------MQYARCFDPM 220
              Q+L  +PY    D  P V NPM  +M     +M   M  S       +Q+   +DP 
Sbjct: 178 PSTQSLH-VPYPGTIDSMPLVPNPMTPMM---NPRMTKVMMTSDNQYTPPLQHPFYYDPT 233

Query: 221 MGAMINNRLMMMNNPRADVGIFGTTILQPLQHY 253
            G + N   ++ +NP      +   +L P+  Y
Sbjct: 234 SGLLEN---IVYSNPGPSSCYYPPAMLPPILPY 263

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065525|ref|XP_002301840.1| predicted protein [Populus trichocarpa] gi|222843566|gb|EEE81113.1| predicted protein [Populus trichocarpa]

 Score =  120 bits (301), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 61/156 (39%), Positives = 99/156 (63%), Gaps = 8/156 (5%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRL--NNRPVD 58
           MG+ ++ M+LI KEK+RM+T++KRK GL KKA EFS LCGV  C+II+GP+   +++PV 
Sbjct: 1   MGQKRIKMELIRKEKSRMLTFRKRKAGLLKKASEFSILCGVDACVIIFGPKEKDDHQPVA 60

Query: 59  VEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESL 118
            E WP   ++   ++N YK     S +  +   + D+FAD+K+++D  +A+  K   ++ 
Sbjct: 61  PETWPPSSEEVRCIINRYK----GSDQPRRCYQVSDYFADKKKQIDSELARLHKQIIKAK 116

Query: 119 FSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKL 154
           +    WD+ +NR   DQL+ ++   D  ID+A +KL
Sbjct: 117 YPA--WDDRLNRLYADQLRVIVGHLDAKIDLADKKL 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224122246|ref|XP_002318787.1| predicted protein [Populus trichocarpa] gi|222859460|gb|EEE97007.1| predicted protein [Populus trichocarpa]

 Score =  118 bits (296), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 99/163 (60%), Gaps = 8/163 (4%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRL--NNRPVD 58
           MG+ ++ M+LI KEK+RM+T++KRK GL KKA EFS LCGV  C+II+GP+   +++PV 
Sbjct: 1   MGQKRIKMELIRKEKSRMLTFRKRKAGLLKKASEFSILCGVDACVIIFGPKQKDDHQPVA 60

Query: 59  VEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESL 118
            E WP + ++   ++N YK     S +  +   + D+F D+K+++D  +A+  K   ++ 
Sbjct: 61  PETWPPNSEEVRCIINRYK----GSDQPRRCYQVSDYFVDKKKQIDSELARLHKQIIKAK 116

Query: 119 FSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQ 161
           +    WD+ +N    DQL+ ++   D  ID+A +KL      Q
Sbjct: 117 YPA--WDDRLNSLYADQLRVLVGHLDAKIDLADKKLGSFNANQ 157

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255536889|ref|XP_002509511.1| conserved hypothetical protein [Ricinus communis] gi|223549410|gb|EEF50898.1| conserved hypothetical protein [Ricinus communis]

 Score =  118 bits (296), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 96/163 (58%), Gaps = 9/163 (5%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDV- 59
           MG  ++ M+LIEKE  RM+TYQKRK+ L KK  EFS LCGV  C+II+ P+  ++PV   
Sbjct: 1   MGHSRIKMELIEKESTRMLTYQKRKKSLVKKVSEFSILCGVEACLIIFAPKHKDQPVKKL 60

Query: 60  -EIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESL 118
             +WP +  +   ++N YK    +    V       +F D+K+K+D  I+K +K  YE++
Sbjct: 61  DTVWPPNSDEAKSIINKYKKTDQARCYLVSH-----YFLDKKKKLDVEISKLQKQVYEAI 115

Query: 119 FSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQ 161
           + +  WD  ++ FS D+L+ +L   +  + VA +KL + +  Q
Sbjct: 116 YPS--WDIHLDNFSEDRLRVLLTRLESKLQVADQKLNLFQDNQ 156

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|421957996|gb|AFX72875.1| MADS-box protein AGL86, partial [Aquilegia coerulea]

 Score =  117 bits (293), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 70/185 (37%), Positives = 104/185 (56%), Gaps = 8/185 (4%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPV--D 58
           MGR KL ++LI KE AR  T+ +RK+GL+KK  EF+TLCGV  CMIIYGP   N      
Sbjct: 1   MGRAKLDLRLISKESARNATFVRRKKGLEKKIYEFATLCGVDACMIIYGPNNRNNACMSK 60

Query: 59  VEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESL 118
            E WP++E +  ++++ Y  K Y   +  +SL L D F+ +K+K+ + +AK RK N E  
Sbjct: 61  PETWPRNEDEVYRIIDNY--KKYEKEK--RSLGLADSFSVQKKKLGDELAKLRKKNDE-- 114

Query: 119 FSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQM 178
            S   W++ I   S DQ++Q+L + D  I++   K+  +    Q+ I  A        Q 
Sbjct: 115 ISQQSWEDRIYDLSKDQMEQLLPMIDSKIEMINAKMISIEMMNQNMIQEAGTGMFGNTQA 174

Query: 179 IPYNY 183
            P N+
Sbjct: 175 PPQNH 179

Source: Aquilegia coerulea

Species: Aquilegia coerulea

Genus: Aquilegia

Family: Ranunculaceae

Order: Ranunculales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357495775|ref|XP_003618176.1| MADS-box transcription factor [Medicago truncatula] gi|355493191|gb|AES74394.1| MADS-box transcription factor [Medicago truncatula]

 Score =  114 bits (284), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 60/161 (37%), Positives = 97/161 (60%), Gaps = 5/161 (3%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRP-VDV 59
           MGRG+++M+LI+KE++R IT QKRK GL KKA+EFS LC V  C+I+Y P L  +  ++ 
Sbjct: 1   MGRGRISMELIQKERSRKITLQKRKDGLIKKAKEFSILCDVDVCLILYAPNLEGQGYIEP 60

Query: 60  EIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLF 119
           E WPKD+++  +V+  Y +      R  K+  + ++F +R +KV+  I K RK   +  +
Sbjct: 61  ETWPKDKREVQRVLQKYYETTID--RRPKTYDVQEYFKERMKKVELEIYKVRKERLKMKY 118

Query: 120 STDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQ 160
            T  WDE  N F  +QL+  +   D  +D   +K+ + + +
Sbjct: 119 PT--WDESYNSFGNEQLRSFVRFLDSKLDACDQKMNMRKDE 157

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357495777|ref|XP_003618177.1| Agamous-like MADS-box protein AGL36 [Medicago truncatula] gi|355493192|gb|AES74395.1| Agamous-like MADS-box protein AGL36 [Medicago truncatula]

 Score =  110 bits (275), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 62/188 (32%), Positives = 103/188 (54%), Gaps = 6/188 (3%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVD-V 59
           MGRG+++++ I+KEK+R I+ Q RK GL  K EE S LC V  C+I+Y P    +  D  
Sbjct: 1   MGRGRVSVEFIQKEKSRKISLQTRKIGLMTKVEELSILCDVDACVILYAPNFEGQGYDEP 60

Query: 60  EIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLF 119
           E WPKD K+  +++  Y +      R +K+ ++ ++F +R +KV+  I+K RK  ++  +
Sbjct: 61  ETWPKDTKELQRILQRYYNTTID--RRLKTYNVQEYFKERMKKVEFEISKVRKEKFKMKY 118

Query: 120 STDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMI 179
            T  WDE  N    +QL+    + D  +D    K+ +++G  +    A + ++   L   
Sbjct: 119 QT--WDESFNFLEDEQLRLFASILDFKLDACNLKMNMLKGDLRGKSIALETNKIDNLNSS 176

Query: 180 PYNYDLNP 187
           PY  D NP
Sbjct: 177 PY-LDSNP 183

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357444935|ref|XP_003592745.1| MADS-box transcription factor [Medicago truncatula] gi|355481793|gb|AES62996.1| MADS-box transcription factor [Medicago truncatula]

 Score =  109 bits (273), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 73/230 (31%), Positives = 114/230 (49%), Gaps = 19/230 (8%)

Query: 1   MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRP-VDV 59
           MGRG+++M+LI+KEK+R  T+QKRK GL KK  EFS LC V  C+++Y P    R   + 
Sbjct: 1   MGRGRISMELIQKEKSRKSTFQKRKDGLMKKVNEFSILCDVDVCVVLYAPNFVGRGFAEP 60

Query: 60  EIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLF 119
           E WPKD++   +++  Y +   +S R  K   + ++F +R RK++  I K RK   + ++
Sbjct: 61  ETWPKDKRAVERILQKYYNT--TSDRRPKIYDVQEYFKERIRKLEFEITKVRKEKLKMMY 118

Query: 120 STDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAAADHHRDQALQMI 179
            T  W+E  N    +QL       +  +D   +K  +++   +    A + H+   L   
Sbjct: 119 PT--WNESFNSLGAEQLILFASKLEAKLDACNQKKHMLKEDLKGKTIAHESHKVDKLIST 176

Query: 180 PYNYDLNPVDNPMMMLMMNGGDQMGSSMYNSMQYARCFDPMMGAMINNRL 229
           P    L P  NP     +         M NSM  A+ + PMM     N L
Sbjct: 177 P---SLTP--NPSYYFNL---------MQNSMSQAQTYPPMMNISDKNPL 212

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	261
TAIR|locus:2154588	294	AGL82 "AGAMOUS-like 82" [Arabi	0.536	0.476	0.389	1.5e-19
TAIR|locus:2162137	277	AT5G55690 [Arabidopsis thalian	0.544	0.512	0.354	6.5e-19
TAIR|locus:2146774	218	AT5G26630 [Arabidopsis thalian	0.578	0.692	0.310	1.2e-12
TAIR|locus:2206325	278	AGL38 "AGAMOUS-like 38" [Arabi	0.593	0.557	0.291	1.7e-11
TAIR|locus:2074494	260	AT3G05860 [Arabidopsis thalian	0.429	0.430	0.32	3.3e-10
TAIR|locus:2009457	163	AGL87 "AGAMOUS-like 87" [Arabi	0.452	0.723	0.309	6.3e-10
TAIR|locus:2152511	321	AGL80 "AGAMOUS-like 80" [Arabi	0.582	0.473	0.282	7.9e-10
TAIR|locus:2028601	339	AGL86 "AGAMOUS-like 86" [Arabi	0.532	0.410	0.258	6.9e-08
TAIR|locus:2206280	279	PHE1 "PHERES1" [Arabidopsis th	0.601	0.562	0.270	7.1e-08
TAIR|locus:2143769	320	AGL90 "AGAMOUS-like 90" [Arabi	0.601	0.490	0.261	1.4e-07

TAIR|locus:2154588 AGL82 "AGAMOUS-like 82" [Arabidopsis thaliana (taxid:3702)]

 Score = 233 (87.1 bits), Expect = 1.5e-19, P = 1.5e-19
 Identities = 58/149 (38%), Positives = 85/149 (57%)

Query:     8 MQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPV--DVEIWPKD 65
             +Q I  +K R+ TY+KRK  L KKA+EFSTLCGV TC+I+YGP      V  + EIWPKD
Sbjct:     8 LQRIANDKTRITTYKKRKASLYKKAQEFSTLCGVETCLIVYGPTKATDVVISEPEIWPKD 67

Query:    66 EKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDWD 125
             E     ++  YKD   +S R  K  ++  F  D   K +E + K R    E+ +S+  W+
Sbjct:    68 ETKVRAIIRKYKDTVSTSCR--KETNVETFVND-VGKGNEVVTKKR-VKRENKYSS--WE 121

Query:   126 EMINRFSIDQLKQMLVVFDEYIDVA-TRK 153
             E +++ S +QL  +    D  ++ A TR+
Sbjct:   122 EKLDKCSREQLHGIFCAVDSKLNEAVTRQ 150

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2162137 AT5G55690 [Arabidopsis thaliana (taxid:3702)]

 Score = 227 (85.0 bits), Expect = 6.5e-19, P = 6.5e-19
 Identities = 55/155 (35%), Positives = 86/155 (55%)

Query:     1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP-RLNNRPV-D 58
             MGR  + M  I  EK R+ TY+KRK  L KKA EFSTLCGV TC+I+YGP R  +  V +
Sbjct:     1 MGRKMVKMTRITNEKTRITTYKKRKACLYKKASEFSTLCGVDTCVIVYGPSRAGDEMVME 60

Query:    59 VEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESL 118
              E+WPKD     +++  Y+D A SS    K+ ++       +  +++N  K  K    + 
Sbjct:    61 PELWPKDGSKVREILTKYRDTASSSC--TKTYTV-------QECLEKNNTKVEKPTIATK 111

Query:   119 FSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRK 153
             + T  WD+ +++ S++ L  + +  +  I  AT +
Sbjct:   112 YPT--WDKKLDQCSLNDLYAVFMAVENKIQEATNR 144

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2146774 AT5G26630 [Arabidopsis thaliana (taxid:3702)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 51/164 (31%), Positives = 79/164 (48%)

Query:     1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP-RLNNRPVDV 59
             M R K+ M  IE E AR  T++KRK+GL KKA+E   LCGVP   ++  P  LN  P   
Sbjct:     1 MTRQKVKMTFIENETARKSTFKKRKKGLLKKAQELGILCGVPIFAVVNSPYELN--P--- 55

Query:    60 EIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYES-- 117
             E+WP  E    QVV+ +K  +    +  K ++   F   R  K  E+  K RK N E   
Sbjct:    56 EVWPSREAA-NQVVSQWKTMSVMD-KTKKMVNQETFLQQRITKATESWKKLRKENKELEM 113

Query:   118 ---LFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMR 158
                +F       +++     +L+    V ++ +    R++ I++
Sbjct:   114 KNIMFDCLSGKTLVSSIEKTELRDFGYVIEQQLKDVNRRIEILK 157

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2206325 AGL38 "AGAMOUS-like 38" [Arabidopsis thaliana (taxid:3702)]

 Score = 170 (64.9 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 49/168 (29%), Positives = 82/168 (48%)

Query:     5 KLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPK 64
             K+ + LIE   +R  T+ KRK+G+ KK  E  TLCGV  C ++Y P  N+ P   E WP 
Sbjct:     4 KMKLSLIENSVSRKTTFTKRKKGMTKKLTELVTLCGVEACAVVYSP-FNSIP---EAWPS 59

Query:    65 DEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFSTDDW 124
              E     VV+ + + +    R  K +    F + R  K  E + K R  N+ S      +
Sbjct:    60 RE-GVEDVVSKFMELSVLD-RTKKMVDQETFISQRIAKEKEQLQKLRDENHNSQIRELMF 117

Query:   125 DEM---INRFSID--QLKQMLVVFDEYIDVATRKLTIM--RGQQQSCI 165
               +    N +++D   L+ + +  D+Y++  TR++ I+   G+  S +
Sbjct:   118 GCLKGETNVYNLDGRDLQDLSLYIDKYLNGLTRRIEILIENGESSSSL 165

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

TAIR|locus:2074494 AT3G05860 [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 3.3e-10, P = 3.3e-10
 Identities = 40/125 (32%), Positives = 61/125 (48%)

Query:     1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVE 60
             M R KL +  I  E  R  T+ KRK+GL KK  E S LCG+  C +IY P  N+ P   E
Sbjct:     1 MTRKKLNLSYITNESMRKATFNKRKKGLVKKIHELSVLCGIEACAVIYSP-FNSNP---E 56

Query:    61 IWPKDEK------DFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKAN 114
             +WP + +      +F  +  L ++K   S  G    ++        +K+ +N  +T K  
Sbjct:    57 VWPSNSEVKNVMENFEMLTKLEQEKKMVSHEGFIRQNISKTMESNNKKMIDNAERTMK-- 114

Query:   115 YESLF 119
              E++F
Sbjct:   115 -EAMF 118

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

TAIR|locus:2009457 AGL87 "AGAMOUS-like 87" [Arabidopsis thaliana (taxid:3702)]

 Score = 144 (55.7 bits), Expect = 6.3e-10, P = 6.3e-10
 Identities = 39/126 (30%), Positives = 63/126 (50%)

Query:     1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVE 60
             MGR K+T QLI     R +T++KRK GL KK  E + LCG+P C IIY     + P   E
Sbjct:     1 MGRRKVTHQLISDNATRRVTFRKRKDGLLKKIYELTVLCGLPACAIIYS-EYKDGP---E 56

Query:    61 IWPK--DEKDFM-QVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYES 117
             +WP   + +  + ++  L  +K    +   K L +     D ++K+++    TR      
Sbjct:    57 LWPNLNEVRSILNRLSELPVEKQTKYMMDQKDL-MNKMIQDAEKKLEKEKMHTRAMKLGL 115

Query:   118 LFSTDD 123
             +  ++D
Sbjct:   116 MAGSND 121

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

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

TAIR|locus:2152511 AGL80 "AGAMOUS-like 80" [Arabidopsis thaliana (taxid:3702)]

 Score = 160 (61.4 bits), Expect = 7.9e-10, P = 7.9e-10
 Identities = 46/163 (28%), Positives = 77/163 (47%)

Query:     1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVE 60
             M R K+ +  I  + +R  T++KRK+GL KK  E STLCG+  C IIY P   N P   E
Sbjct:     1 MTRKKVKLAYISNDSSRKATFKKRKKGLMKKVHELSTLCGITACAIIYSPYDTN-P---E 56

Query:    61 IWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYESLFS 120
             +WP +     +VV+ ++       +  K +    F   R  K  E + + RK + E   +
Sbjct:    57 VWPSNS-GVQRVVSEFRTLPEMD-QHKKMVDQEGFLKQRIAKATETLRRQRKDSRELEMT 114

Query:   121 TDDWDEMINRF-----SIDQLKQMLVVFDEYIDVATRKLTIMR 158
                +  +I        +I  L  +  + ++Y+    R++ I+R
Sbjct:   115 EVMFQCLIGNMEMFHLNIVDLNDLGYMIEQYLKDVNRRIEILR 157

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0043078 "polar nucleus" evidence=IDA

GO:0009612 "response to mechanical stimulus" evidence=RCA

GO:0019722 "calcium-mediated signaling" evidence=RCA

TAIR|locus:2028601 AGL86 "AGAMOUS-like 86" [Arabidopsis thaliana (taxid:3702)]

 Score = 145 (56.1 bits), Expect = 6.9e-08, P = 6.9e-08
 Identities = 39/151 (25%), Positives = 73/151 (48%)

Query:     3 RGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIW 62
             R K+ + LI  + +R  T++KRK G+  K  E +TLCGV  C +I  P  N  PV   +W
Sbjct:     2 RSKIKLSLIANKTSRRTTFRKRKGGITNKLHELTTLCGVKACAVISSPYEN--PV---VW 56

Query:    63 PKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYES----- 117
             P  E    + V+++ ++  ++ +    +S   +  D+  K  + +   R+ N ES     
Sbjct:    57 PSTE-GVQEAVSMFMERP-ATEQSKLMMSHETYLQDKITKETKKLESLRRENRESQLRQF 114

Query:   118 LFSTDDWDEMINRFSIDQLKQMLVVFDEYID 148
             +F   +     +++    L+ + +  D YI+
Sbjct:   115 MFDCVEGKMSEHQYGARDLQDLSLYIDHYIN 145

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

TAIR|locus:2206280 PHE1 "PHERES1" [Arabidopsis thaliana (taxid:3702)]

 Score = 143 (55.4 bits), Expect = 7.1e-08, P = 7.1e-08
 Identities = 46/170 (27%), Positives = 77/170 (45%)

Query:     3 RGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIW 62
             RGK+ +  IE +  R  T+ KRK+G+ KK  E  TLCGV  C +I  P  N+     E W
Sbjct:     2 RGKMKLSFIENDSVRKTTFTKRKKGMLKKFNELVTLCGVDACAVIRSP-YNSIQ---EPW 57

Query:    63 PKDEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYES----- 117
             P  E    +V++ + + +    R  K +    F   R  K  E + K R  N  S     
Sbjct:    58 PSRE-GVEEVMSKFMEFSVLD-RTKKMVDQETFLRQRIAKETERLQKLRDENRNSQIRDL 115

Query:   118 LFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIMR--GQQQSCI 165
             +F     +  ++      L  + V  ++Y++   R++ I++  G+  S +
Sbjct:   116 MFGCLKGEVDVSHLHGRDLLDLNVFLNKYLNGVIRRVEILKENGESSSSV 165

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

GO:0005634 "nucleus" evidence=ISM;ISS;NAS

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009793 "embryo development ending in seed dormancy" evidence=IMP

GO:0090406 "pollen tube" evidence=IDA

TAIR|locus:2143769 AGL90 "AGAMOUS-like 90" [Arabidopsis thaliana (taxid:3702)]

 Score = 142 (55.0 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 44/168 (26%), Positives = 79/168 (47%)

Query:     5 KLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPK 64
             K+ + LI  E++R  ++ KRK G+ KK  E STLCGV  C +IY P +   PV  E WP 
Sbjct:     3 KVKLSLIANERSRKTSFMKRKNGIFKKLHELSTLCGVQACALIYSPFI---PVP-ESWPS 58

Query:    65 DEKDFMQVVNLYKDKAYSSVRGVKSLSLFDFFADRKRKVDENIAKTRKANYE---SLFST 121
              E    +V + + +   ++ R  K +       +R  K  E +      N E     F  
Sbjct:    59 RE-GAKKVASKFLEMPRTA-RTRKMMDQETHLMERITKAKEQLKNLAAENRELQVRRFMF 116

Query:   122 DDWDEMINRFSID--QLKQMLVVFDEYIDVATRKLTIMRGQQQSCIAA 167
             D  +  ++++  D   L+ +L   + Y+D    ++  ++   +S +++
Sbjct:   117 DCVEGKMSQYRYDAKDLQDLLSCMNLYLDQLNGRIESIKENGESLLSS 164

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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: fgenesh4_pg.C_LG_I001529 hypothetical protein (336 aa) (Populus trichocarpa)

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	261
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	2e-17
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	4e-17
smart00432	59	smart00432, MADS, MADS domain	1e-14
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	3e-12
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	6e-10

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

 Score = 74.1 bits (183), Expect = 2e-17
 Identities = 21/49 (42%), Positives = 32/49 (65%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          GRGK+ ++ IE + +R +T+ KR+ GL KKA E S LC     +I++ P
Sbjct: 1  GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSP 49

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 = 73.4 bits (181), Expect = 4e-17
 Identities = 24/49 (48%), Positives = 34/49 (69%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          GR K+ ++ IE +K R +T+ KR++GL KKA E STLCG    +I+Y P
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSP 49

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|197721 smart00432, MADS, MADS domain

 Score = 66.0 bits (162), Expect = 1e-14
 Identities = 20/50 (40%), Positives = 30/50 (60%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          GR K+ ++ IE +  R +T+ KR+ GL KKA E S LC     +I++ P 
Sbjct: 1  GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPT 50

Length = 59

>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 = 60.3 bits (147), Expect = 3e-12
 Identities = 21/50 (42%), Positives = 29/50 (58%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          GRGK+ ++ IE    R +T+ KR+ GL KKA E S LC     +II+   
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSS 50

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

 Score = 53.2 bits (128), Expect = 6e-10
 Identities = 16/41 (39%), Positives = 23/41 (56%)

Query: 11 IEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          IE +  R +T+ KR+ G+ KKA E S LC     +II+   
Sbjct: 3  IENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSST 43

Length = 51

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	261
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.98
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.97
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.96
smart00432	59	MADS MADS domain.	99.95
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.94
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.91
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.73
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.37
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	98.82
PRK04098	158	sec-independent translocase; Provisional	87.24
PF06698	59	DUF1192: Protein of unknown function (DUF1192); In	83.84

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.98  E-value=2.8e-33  Score=238.50  Aligned_cols=149  Identities=22%  Similarity=0.342  Sum_probs=101.2

Q ss_pred             CCcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhcc
Q 041581            1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKA   80 (261)
Q Consensus         1 MgR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~   80 (261)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++|+|+    |++ .+|++|+++|....
T Consensus         1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~----~~~-~~~~~v~~~~~~~~   75 (195)
T KOG0014|consen    1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFG----SSD-ESVDAVVDRFLNLT   75 (195)
T ss_pred             CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccC----Ccc-hhHHHHHHHHHhhh
Confidence            9999999999999999999999999999999999999999999999999999998775    443 34999999999876


Q ss_pred             ccccccccccchhhHHHHH-HHHH--------------HHHHHHHHHHHhhccc----cccccCCcCCCCCH-HHHHHHH
Q 041581           81 YSSVRGVKSLSLFDFFADR-KRKV--------------DENIAKTRKANYESLF----STDDWDEMINRFSI-DQLKQML  140 (261)
Q Consensus        81 ~~~~~~~k~~~~~~~~~~~-~~Kl--------------keel~kLrke~~e~~~----~~~~~ge~L~~Ls~-eEL~~Le  140 (261)
                      .... .++..+...+.... ...+              ..+...+.+.......    .....++++.+++. .+|..++
T Consensus        76 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~  154 (195)
T KOG0014|consen   76 EPSR-KKKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLE  154 (195)
T ss_pred             hhhh-cccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchh
Confidence            5432 11222222222111 0011              0111111111110000    11246778888888 7888888


Q ss_pred             HHHHHHHHHHHHHHH
Q 041581          141 VVFDEYIDVATRKLT  155 (261)
Q Consensus       141 ~~LE~~L~~ir~Ri~  155 (261)
                      ..|+..+..++....
T Consensus       155 ~~l~~~~~~~~~~~~  169 (195)
T KOG0014|consen  155 SQLESSLHNSRSSKS  169 (195)
T ss_pred             hHHHHhhcCCCCCCC
Confidence            888877766654433

>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=1.3e-31  Score=195.88  Aligned_cols=74  Identities=31%  Similarity=0.560  Sum_probs=69.7

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhccc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAY   81 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~~   81 (261)
                      ||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||+|++|.|+       ++++++||+||...+.
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~-------s~s~~~vl~ry~~~~~   73 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFS-------SPSMEKIIERYQKTSG   73 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEec-------CCCHHHHHHHHHhccc
Confidence            899999999999999999999999999999999999999999999999999988887       4568999999998765


Q ss_pred             c
Q 041581           82 S   82 (261)
Q Consensus        82 ~   82 (261)
                      .
T Consensus        74 ~   74 (77)
T cd00265          74 S   74 (77)
T ss_pred             c
Confidence            4

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

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

Probab=99.96  E-value=1.5e-29  Score=187.58  Aligned_cols=75  Identities=36%  Similarity=0.646  Sum_probs=68.4

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhccc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAY   81 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~~   81 (261)
                      ||+||+|++|+|+.+|++||+|||.||||||+||||||||+||+|||||+|+.+    .+||+. . +..++++|...+.
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~----~~~~~~-~-~~~~l~~~~~~~~   74 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLY----VFWPSS-E-VEGVISRFEVLSA   74 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcc----eecCcH-H-HHHHHHHHhhcCH
Confidence            899999999999999999999999999999999999999999999999999874    457754 3 9999999998765


Q ss_pred             c
Q 041581           82 S   82 (261)
Q Consensus        82 ~   82 (261)
                      .
T Consensus        75 ~   75 (83)
T cd00266          75 L   75 (83)
T ss_pred             h
Confidence            4

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

>smart00432 MADS MADS domain

Probab=99.95  E-value=5.4e-29  Score=172.13  Aligned_cols=57  Identities=35%  Similarity=0.624  Sum_probs=55.5

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCcc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVD   58 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~   58 (261)
                      ||+||+|++|+|+++|++||+|||.||||||+||||||||+||+|||||+|+.+.|+
T Consensus         1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~   57 (59)
T smart00432        1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFA   57 (59)
T ss_pred             CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeecc
Confidence            899999999999999999999999999999999999999999999999999998775

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

Probab=99.94  E-value=4.8e-28  Score=167.52  Aligned_cols=57  Identities=37%  Similarity=0.640  Sum_probs=54.8

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCcc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVD   58 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~   58 (261)
                      ||+||+|++|+|+..|++||+|||.||||||+||||||||+||+|||||+|+++.|+
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~   57 (59)
T cd00120           1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFW   57 (59)
T ss_pred             CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCccccc
Confidence            899999999999999999999999999999999999999999999999999986654

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

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

Probab=99.91  E-value=5.1e-26  Score=152.43  Aligned_cols=49  Identities=43%  Similarity=0.699  Sum_probs=43.7

Q ss_pred             EEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCc
Q 041581            9 QLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPV   57 (261)
Q Consensus         9 k~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f   57 (261)
                      |+|+|++.|++||+|||.||||||+|||+||||+||||||||+|++|.|
T Consensus         1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f   49 (51)
T PF00319_consen    1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTF   49 (51)
T ss_dssp             S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEE
T ss_pred             CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEe
Confidence            5899999999999999999999999999999999999999999996654

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=99.73  E-value=5.8e-19  Score=155.18  Aligned_cols=81  Identities=26%  Similarity=0.349  Sum_probs=68.3

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCcc-ccccCCC-ChhhHHHHHHhhhc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVD-VEIWPKD-EKDFMQVVNLYKDK   79 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~-p~~wPs~-~~~v~~vieRY~~~   79 (261)
                      ||+||+|++|+|+..|.|||||||.||||||+|||||+|.+|-|+|.|.+|.+|.|. |..=|-- +..=+++|..-.+.
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            799999999999999999999999999999999999999999999999999999999 4332211 23346777777766


Q ss_pred             ccc
Q 041581           80 AYS   82 (261)
Q Consensus        80 ~~~   82 (261)
                      +..
T Consensus       143 pd~  145 (338)
T KOG0015|consen  143 PDT  145 (338)
T ss_pred             CCC
Confidence            543

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

Probab=99.37  E-value=1.9e-13  Score=125.65  Aligned_cols=58  Identities=26%  Similarity=0.392  Sum_probs=57.2

Q ss_pred             CCcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCcc
Q 041581            1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVD   58 (261)
Q Consensus         1 MgR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~   58 (261)
                      |||+||.|..|+|+.+|.|||+||+.||+|||.||+||.|.+|.++|.|.+|+++.|+
T Consensus        81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~  138 (412)
T COG5068          81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFT  138 (412)
T ss_pred             cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeec
Confidence            7899999999999999999999999999999999999999999999999999999998

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

Probab=98.82  E-value=1.8e-08  Score=77.16  Aligned_cols=84  Identities=8%  Similarity=0.066  Sum_probs=64.3

Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhccccccccCCcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhHHHHhhch
Q 041581           93 FDFFADRKRKVDENIAKTRKANYESLFSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLTIM-RGQQQSCIAAADHH  171 (261)
Q Consensus        93 ~~~~~~~~~Klkeel~kLrke~~e~~~~~~~~ge~L~~Ls~eEL~~Le~~LE~~L~~ir~Ri~~l-~~~~~s~~~k~~~~  171 (261)
                      ...+..++.+++.++..|+...+.      +.|++|++||++||..||..|+.++..||.|+..+ ..+.....++... 
T Consensus        14 ~e~~~~e~~~L~~~~~~L~~~~R~------~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~-   86 (100)
T PF01486_consen   14 HEELQQEIAKLRKENESLQKELRH------LMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERE-   86 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhc------cccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            356788889999999999888776      68999999999999999999999999999766655 5555555555443 


Q ss_pred             hHHhhccccccc
Q 041581          172 RDQALQMIPYNY  183 (261)
Q Consensus       172 ~~~~~~~l~~~~  183 (261)
                      ....|..|.-++
T Consensus        87 l~~en~~L~~~~   98 (100)
T PF01486_consen   87 LEEENNQLRQKI   98 (100)
T ss_pred             HHHHHHHHHHHh
Confidence            344455555443

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

>PRK04098 sec-independent translocase; Provisional

Probab=87.24  E-value=0.53  Score=38.89  Aligned_cols=89  Identities=11%  Similarity=0.165  Sum_probs=44.4

Q ss_pred             CeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhccccccccccccchh---hHHHHHHHHHHHHHHHHHHHHhhcc
Q 041581           42 PTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAYSSVRGVKSLSLF---DFFADRKRKVDENIAKTRKANYESL  118 (261)
Q Consensus        42 eValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~~~~~~~~k~~~~~---~~~~~~~~Klkeel~kLrke~~e~~  118 (261)
                      =||||||+|. |+...+        .++-..+..|++....-+   ..++.+   .-+.++..+.++.+.....+.+   
T Consensus        14 vVaLlvfGP~-KLP~~~--------r~lGk~ir~~K~~~~~~k---~~l~~Ei~~~elk~e~~k~k~~l~~~~~~l~---   78 (158)
T PRK04098         14 VVAIIFLGPD-KLPQAM--------VDIAKFFKAVKKTINDAK---STLDKEINIEEIKEEALKYKKEFESAVESLK---   78 (158)
T ss_pred             HHHHhhcCch-HHHHHH--------HHHHHHHHHHHHHHHHHH---HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH---
Confidence            3789999995 543333        456666777776543211   111111   1122233333333333222221   


Q ss_pred             ccccccCCcCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 041581          119 FSTDDWDEMINRFSIDQLKQMLVVFDEYIDVATRKLT  155 (261)
Q Consensus       119 ~~~~~~ge~L~~Ls~eEL~~Le~~LE~~L~~ir~Ri~  155 (261)
                                ..+++++|.++...+....+.+...+.
T Consensus        79 ----------~~~~~eel~~~~~~~~~~~~~~~~~~~  105 (158)
T PRK04098         79 ----------KKLKFEELDDLKITAENEIKSIQDLLQ  105 (158)
T ss_pred             ----------hccChHHHHHHhhhhhhcchhHHHHHh
Confidence                      227888888887777665555544443

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

Probab=83.84  E-value=3.1  Score=28.66  Aligned_cols=33  Identities=12%  Similarity=0.300  Sum_probs=28.8

Q ss_pred             ccCCcCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 041581          123 DWDEMINRFSIDQLKQMLVVFDEYIDVATRKLT  155 (261)
Q Consensus       123 ~~ge~L~~Ls~eEL~~Le~~LE~~L~~ir~Ri~  155 (261)
                      ..|++|+.||++||..-...|+.-+.+++.-+.
T Consensus        13 ~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~   45 (59)
T PF06698_consen   13 EIGEDLSLLSVEELEERIALLEAEIARLEAAIA   45 (59)
T ss_pred             ccCCCchhcCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            578999999999999999999999988875444

The function of this family is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	261
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		1e-04
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		1e-04
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		2e-04
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		2e-04
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		7e-04

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/50 (42%), Positives = 29/50 (58%)
Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          MGR K+ +  I  ++ R +T+ KRK GL KKA E S LC     +II+  
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS 50

>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 = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 28/49 (57%)
Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          GR K+ +  I  E+ R +T+ KRK GL KKA E S LC     +II+  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS 49

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 28/49 (57%)
Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          GR K+ +  I  E+ R +T+ KRK GL KKA E S LC     +II+  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS 49

>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 = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 28/49 (57%)
Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          GR K+ +  I  E+ R +T+ KRK GL KKA E S LC     +II+  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS 49

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 20/49 (40%), Positives = 28/49 (57%)
Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGP 50
          GR K+ +  I  ++ R +T+ KRK GL KKA E S LC     +II+  
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNS 49

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	261
1hbx_A	92	SRF, serum response factor; gene regulation, trans	1e-13
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	2e-13
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	4e-13
1egw_A	77	MADS box transcription enhancer factor 2, polypept	3e-12
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	5e-12

>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 = 64.0 bits (156), Expect = 1e-13
 Identities = 19/51 (37%), Positives = 28/51 (54%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
           GR K+ M+ I+ +  R  T+ KRK G+ KKA E STL G    +++    
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASET 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 = 63.7 bits (155), Expect = 2e-13
 Identities = 19/51 (37%), Positives = 28/51 (54%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
           GR K+ M+ I+ +  R  T+ KRK G+ KKA E STL G    +++    
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASET 59

>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 = 62.9 bits (153), Expect = 4e-13
 Identities = 17/51 (33%), Positives = 27/51 (52%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
            R K+ ++ IE +  R +T+ KRK G+ KKA E S L G    +++    
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSET 66

>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 = 59.7 bits (145), Expect = 3e-12
 Identities = 21/50 (42%), Positives = 28/50 (56%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          GR K+ +  I  E+ R +T+ KRK GL KKA E S LC     +II+   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSS 50

>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 = 59.4 bits (144), Expect = 5e-12
 Identities = 21/50 (42%), Positives = 28/50 (56%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          GR K+ +  I  E+ R +T+ KRK GL KKA E S LC     +II+   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSS 50

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	261
1egw_A	77	MADS box transcription enhancer factor 2, polypept	100.0
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	100.0
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	99.98
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.97
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=2.4e-36  Score=218.49  Aligned_cols=74  Identities=32%  Similarity=0.465  Sum_probs=68.5

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhccc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAY   81 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~~   81 (261)
                      ||+||+|++|+|+++|+|||+|||+||||||+||||||||+||||||||+||+|+|+       +++++.||+||...+.
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~-------s~~~~~il~ry~~~~~   73 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-------STDMDKVLLKYTEYNE   73 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEE-------SSCHHHHHHHHHHC--
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCC-------CCCHHHHHHHHHhccC
Confidence            899999999999999999999999999999999999999999999999999998887       5689999999998764


Q ss_pred             c
Q 041581           82 S   82 (261)
Q Consensus        82 ~   82 (261)
                      +
T Consensus        74 ~   74 (77)
T 1egw_A           74 P   74 (77)
T ss_dssp             -
T ss_pred             C
Confidence            3

>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=4.9e-36  Score=222.14  Aligned_cols=75  Identities=32%  Similarity=0.458  Sum_probs=71.0

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhccc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAY   81 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~~   81 (261)
                      ||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+||+|+|+       +++|+.||+||...+.
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~-------s~~~~~il~rY~~~~~   73 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-------STDMDKVLLKYTEYNE   73 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEE-------SSCHHHHHHHHHHCCS
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeC-------CCCHHHHHHHHHhcCc
Confidence            899999999999999999999999999999999999999999999999999998887       5789999999999776


Q ss_pred             cc
Q 041581           82 SS   83 (261)
Q Consensus        82 ~~   83 (261)
                      ..
T Consensus        74 ~~   75 (90)
T 3p57_A           74 PH   75 (90)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

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

Probab=99.98  E-value=1.2e-34  Score=218.14  Aligned_cols=72  Identities=26%  Similarity=0.402  Sum_probs=68.6

Q ss_pred             CCcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhc
Q 041581            1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDK   79 (261)
Q Consensus         1 MgR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~   79 (261)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+||+|+|+       ++++..|+++|...
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~-------sps~~~il~r~~G~   87 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFS-------TPKFEPIVTQQEGR   87 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEE-------CTTTTHHHHSHHHH
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceec-------CCCHHHHHHHhhCC
Confidence            8999999999999999999999999999999999999999999999999999999998       56889999998754

>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=2.2e-34  Score=214.13  Aligned_cols=71  Identities=27%  Similarity=0.401  Sum_probs=67.0

Q ss_pred             CCcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhh
Q 041581            1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKD   78 (261)
Q Consensus         1 MgR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~   78 (261)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++|+|+       +++++.+|++|..
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~-------s~~~~~~i~~~~G   80 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-------TRKLQPMITSETG   80 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEE-------CGGGGGGTSSHHH
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEec-------CCCHHHHHhhhcc
Confidence            8999999999999999999999999999999999999999999999999999999988       6788888886643

>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=7.8e-34  Score=215.13  Aligned_cols=70  Identities=27%  Similarity=0.406  Sum_probs=66.4

Q ss_pred             CCcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhh
Q 041581            1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYK   77 (261)
Q Consensus         1 MgR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~   77 (261)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+||+|+|+       +++++.||+++.
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~-------s~~~~~vi~~~~   78 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-------TRKLQPMITSET   78 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEE-------CGGGGGGTSSHH
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeec-------CccHHHHHHhhh
Confidence            8999999999999999999999999999999999999999999999999999999998       678888888643

---

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	261
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	5e-17
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	6e-17
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	4e-16

>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 = 71.2 bits (175), Expect = 5e-17
 Identities = 21/50 (42%), Positives = 28/50 (56%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
          GR K+ +  I  E+ R +T+ KRK GL KKA E S LC     +II+   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSS 50

>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 = 71.7 bits (176), Expect = 6e-17
 Identities = 19/51 (37%), Positives = 28/51 (54%)

Query: 1  MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
           GR K+ M+ I+ +  R  T+ KRK G+ KKA E STL G    +++    
Sbjct: 2  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASET 52

>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 = 69.4 bits (170), Expect = 4e-16
 Identities = 17/50 (34%), Positives = 27/50 (54%)

Query: 2  GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPR 51
           R K+ ++ IE +  R +T+ KRK G+ KKA E S L G    +++    
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSET 52

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	261
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	100.0
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	99.98
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	99.97

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

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

Probab=100.00  E-value=5.3e-36  Score=211.41  Aligned_cols=70  Identities=34%  Similarity=0.514  Sum_probs=66.6

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhh
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKD   78 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~   78 (261)
                      ||+||+|++|+|+..|+|||+|||.||||||+||||||||+||||||||+|++|+|+       ++++++|++||..
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 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-------STDMDKVLLKYTE   70 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEE-------SSCHHHHHHHHHH
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEee-------CCCHHHHHHHHhc
Confidence            899999999999999999999999999999999999999999999999999987776       5689999999975

>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=1.2e-34  Score=209.58  Aligned_cols=72  Identities=28%  Similarity=0.410  Sum_probs=69.1

Q ss_pred             CCcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhc
Q 041581            1 MGRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDK   79 (261)
Q Consensus         1 MgR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~   79 (261)
                      +||+||+|++|+|+..|+|||+|||.||||||+||||||||+||||||||+|++|+|+       +++++.|+++|...
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 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-------TRKLQPMITSETGK   73 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEE-------CGGGHHHHSSHHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEee-------CCCHHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999998       78999999999754

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

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

Probab=99.97  E-value=3.1e-34  Score=208.73  Aligned_cols=73  Identities=26%  Similarity=0.401  Sum_probs=69.5

Q ss_pred             CcccceeEEecCcccccchhhhccchhhhhhhhhhcccCCCeeeEEecCCCCCCCccccccCCCChhhHHHHHHhhhccc
Q 041581            2 GRGKLTMQLIEKEKARMITYQKRKRGLKKKAEEFSTLCGVPTCMIIYGPRLNNRPVDVEIWPKDEKDFMQVVNLYKDKAY   81 (261)
Q Consensus         2 gR~KI~ik~I~n~~~R~vTFsKRr~GL~KKA~ELSvLCdaeValIvfSp~gk~~~f~p~~wPs~~~~v~~vieRY~~~~~   81 (261)
                      ||+||+|++|+|++.|+|||+|||.||||||+||||||||+||||||||+|++|+|+       +++|+.|+++|...+.
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~-------sp~v~~vl~r~~~~~~   75 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFS-------TPKFEPIVTQQEGRNL   75 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEE-------CTTTTHHHHSHHHHHH
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEecc-------CCCHHHHHHHHhcccH
Confidence            899999999999999999999999999999999999999999999999999999998       6789999999987543