Citrus Sinensis ID: 028961

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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-
Protein Sequence
MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIFQF
Secondary Structure (PSIPRED)
ccccccHHHHccccccccccccccccccHHHHHHHHHHHcccEEEEEEccccccccccccccHHHHHHHHHccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEcccHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccc
Coil and Loop (DISEMBL)
MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKStqgaqaepvmqtqpldakDEINMLKQEIEILQKGLRymfgggtgtmTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMeenngianfgpittnniecpfaipneifqf
Flexible Loop (DISEMBL)
margkvqmkrienpvhrqvtFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIFQF
Low Complexity Region (SEG)
MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIFQF
Disordered region (IsUnstruct)
**************VHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLK*********************INMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEI***
Disordered Region (DISOPRED)
MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYL********************DEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM******************************
Disordered Region (DISEMBL)
********KRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIFQF
Disordered Region (DISPRO)
*****VQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIFQF
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	201	2.2.26 [Sep-21-2011]
Q38841	211	Agamous-like MADS-box pro	yes	no	0.995	0.947	0.641	1e-64
Q0J8G8	222	MADS-box transcription fa	yes	no	0.950	0.860	0.597	1e-59
A2YQK9	222	MADS-box transcription fa	N/A	no	0.950	0.860	0.597	1e-59
Q2QW55	202	MADS-box transcription fa	no	no	0.855	0.851	0.649	2e-59
Q0D4T4	249	MADS-box transcription fa	no	no	0.980	0.791	0.409	9e-36
A2YNI2	249	MADS-box transcription fa	N/A	no	0.980	0.791	0.409	9e-36
Q40872	242	Floral homeotic protein A	N/A	no	0.860	0.714	0.457	1e-34
Q9SAR1	248	MADS-box transcription fa	no	no	0.870	0.705	0.432	5e-33
Q8RU31	265	MADS-box transcription fa	no	no	0.860	0.652	0.411	3e-32
Q03489	241	Agamous-like MADS-box pro	N/A	no	0.880	0.734	0.413	3e-32

>sp|Q38841|AGL12_ARATH Agamous-like MADS-box protein AGL12 OS=Arabidopsis thaliana GN=AGL12 PE=2 SV=2

 Score =  245 bits (626), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 136/212 (64%), Positives = 161/212 (75%), Gaps = 12/212 (5%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGK+Q+KRIENPVHRQVTFCKRR GLLKKAKELS+LCDA++GV IFS  GKL+ELAT 
Sbjct: 1   MARGKIQLKRIENPVHRQVTFCKRRTGLLKKAKELSVLCDAEIGVVIFSPQGKLFELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQ--------AEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMF 112
           GTM+G+I+KY+K T G +        A+  +Q   LD KDEIN+LKQEIE+LQKG+ YMF
Sbjct: 61  GTMEGMIDKYMKCTGGGRGSSSATFTAQEQLQPPNLDPKDEINVLKQEIEMLQKGISYMF 120

Query: 113 GGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172
           GGG G M L+ELL+LEKHLE WI  IRS KMD+M QEI  LRNKEG+L   NKYL +K+E
Sbjct: 121 GGGDGAMNLEELLLLEKHLEYWISQIRSAKMDVMLQEIQSLRNKEGVLKNTNKYLLEKIE 180

Query: 173 ENNGI---ANFGPITTNNIECPFAIPNEIFQF 201
           ENN     ANF  + T N   P  +P+EIFQF
Sbjct: 181 ENNNSILDANFAVMET-NYSYPLTMPSEIFQF 211

Probable transcription factor.
Arabidopsis thaliana (taxid: 3702)

>sp|Q0J8G8|MAD26_ORYSJ MADS-box transcription factor 26 OS=Oryza sativa subsp. japonica GN=MADS26 PE=2 SV=1

 Score =  229 bits (584), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 116/194 (59%), Positives = 147/194 (75%), Gaps = 3/194 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQ++RIENPVHRQVTFCKRRAGLLKKA+ELSILC+AD+G+ IFS HGKLY+LAT 
Sbjct: 1   MARGKVQLRRIENPVHRQVTFCKRRAGLLKKARELSILCEADIGIIIFSAHGKLYDLATT 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGG-GTGTM 119
           GTM+ LIE+Y KS  G QA      Q +D K E  +LKQEI +LQKGLRY++G      M
Sbjct: 61  GTMEELIERY-KSASGEQANAC-GDQRMDPKQEAMVLKQEINLLQKGLRYIYGNRANEHM 118

Query: 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIAN 179
           T++EL  LE++LE+W+YNIRS KM IM QEI  L++KEG+L AAN+ LQ+K+ E NG+ +
Sbjct: 119 TVEELNALERYLEIWMYNIRSAKMQIMIQEIQALKSKEGMLKAANEILQEKIVEQNGLID 178

Query: 180 FGPITTNNIECPFA 193
            G +  +     F+
Sbjct: 179 VGMMVADQQNGHFS 192

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2YQK9|MAD26_ORYSI MADS-box transcription factor 26 OS=Oryza sativa subsp. indica GN=MADS26 PE=2 SV=2

 Score =  229 bits (584), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 116/194 (59%), Positives = 147/194 (75%), Gaps = 3/194 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQ++RIENPVHRQVTFCKRRAGLLKKA+ELSILC+AD+G+ IFS HGKLY+LAT 
Sbjct: 1   MARGKVQLRRIENPVHRQVTFCKRRAGLLKKARELSILCEADIGIIIFSAHGKLYDLATT 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGG-GTGTM 119
           GTM+ LIE+Y KS  G QA      Q +D K E  +LKQEI +LQKGLRY++G      M
Sbjct: 61  GTMEELIERY-KSASGEQANAC-GDQRMDPKQEAMVLKQEINLLQKGLRYIYGNRANEHM 118

Query: 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIAN 179
           T++EL  LE++LE+W+YNIRS KM IM QEI  L++KEG+L AAN+ LQ+K+ E NG+ +
Sbjct: 119 TVEELNALERYLEIWMYNIRSAKMQIMIQEIQALKSKEGMLKAANEILQEKIVEQNGLID 178

Query: 180 FGPITTNNIECPFA 193
            G +  +     F+
Sbjct: 179 VGMMVADQQNGHFS 192

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q2QW55|MAD33_ORYSJ MADS-box transcription factor 33 OS=Oryza sativa subsp. japonica GN=MADS33 PE=2 SV=2

 Score =  228 bits (581), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 113/174 (64%), Positives = 138/174 (79%), Gaps = 2/174 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           M RGKVQM+RIENPVHRQVTFCKRR GLLKKA+ELS+LCDADVGV IFS+ GKL+ELATN
Sbjct: 1   MVRGKVQMRRIENPVHRQVTFCKRRGGLLKKARELSVLCDADVGVIIFSSQGKLHELATN 60

Query: 61  GTMQGLIEKYLKSTQGAQAEP-VMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTM 119
           G M  L+E+Y  +  G Q EP  +Q Q + A+  I +L++EI++LQ+GLR  +GGG G M
Sbjct: 61  GNMHNLVERYQSNVAGGQMEPGALQRQQV-AEQGIFLLREEIDLLQRGLRSTYGGGAGEM 119

Query: 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173
           TLD+L  LEK LELWIY IR+TKM +M QEI  LRNKEGIL  AN+ LQ+K++E
Sbjct: 120 TLDKLHALEKGLELWIYQIRTTKMQMMQQEIQFLRNKEGILKEANEMLQEKVKE 173

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  149 bits (377), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 86/210 (40%), Positives = 125/210 (59%), Gaps = 13/210 (6%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           M RG VQ++RIEN ++RQVTF KRR GLLKKA E+S+LCDADV + +FS  GKLYE +++
Sbjct: 1   MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 61  GTMQGLIEKYLKSTQGAQA--EPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGT 118
            +M+G++E+Y + +   +A  EP  + Q  +  DE  +LK +++ LQK  R + G    T
Sbjct: 61  SSMEGILERYQRYSFDERAVLEPNTEDQE-NWGDEYGILKSKLDALQKSQRQLLGEQLDT 119

Query: 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM----EEN 174
           +T+ EL  LE  LE  + +IRS K  ++F+ I+ L+ KE  L   N  LQ  M    E+N
Sbjct: 120 LTIKELQQLEHQLEYSLKHIRSKKNQLLFESISELQKKEKSLKNQNNVLQKLMETEKEKN 179

Query: 175 NGIANF------GPITTNNIECPFAIPNEI 198
           N I N       G   + +   P   P+ I
Sbjct: 180 NAIINTNREEQNGATPSTSSPTPVTAPDPI 209

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

Oryza sativa subsp. japonica (taxid: 39947)

>sp|A2YNI2|MAD18_ORYSI MADS-box transcription factor 18 OS=Oryza sativa subsp. indica GN=MADS18 PE=2 SV=2

 Score =  149 bits (377), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 86/210 (40%), Positives = 125/210 (59%), Gaps = 13/210 (6%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           M RG VQ++RIEN ++RQVTF KRR GLLKKA E+S+LCDADV + +FS  GKLYE +++
Sbjct: 1   MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 61  GTMQGLIEKYLKSTQGAQA--EPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGT 118
            +M+G++E+Y + +   +A  EP  + Q  +  DE  +LK +++ LQK  R + G    T
Sbjct: 61  SSMEGILERYQRYSFDERAVLEPNTEDQE-NWGDEYGILKSKLDALQKSQRQLLGEQLDT 119

Query: 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM----EEN 174
           +T+ EL  LE  LE  + +IRS K  ++F+ I+ L+ KE  L   N  LQ  M    E+N
Sbjct: 120 LTIKELQQLEHQLEYSLKHIRSKKNQLLFESISELQKKEKSLKNQNNVLQKLMETEKEKN 179

Query: 175 NGIANF------GPITTNNIECPFAIPNEI 198
           N I N       G   + +   P   P+ I
Sbjct: 180 NAIINTNREEQNGATPSTSSPTPVTAPDPI 209

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q40872|AG_PANGI Floral homeotic protein AGAMOUS OS=Panax ginseng GN=AG2 PE=2 SV=1

 Score =  145 bits (367), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 80/175 (45%), Positives = 112/175 (64%), Gaps = 2/175 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           + RGK+++KRIEN  +RQVTFCKRR GLLKKA ELS+LCDA+V + +FS  G+LYE A N
Sbjct: 17  LGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYANN 76

Query: 61  GTMQGLIEKYLKS-TQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTM 119
            +++G IE+Y K+ T       V +      + E + L+QEI  +QK  R M G   G++
Sbjct: 77  -SVKGTIERYKKACTDSPNTSSVSEANAQFYQQEASKLRQEISSIQKNNRNMMGESLGSL 135

Query: 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174
           T+ +L  LE  LE  I  IRS K +++F EI  ++ KE  L   N+YL+ K+ EN
Sbjct: 136 TVRDLKGLETKLEKGISRIRSKKNELLFAEIEYMQKKEIDLHNNNQYLRAKIAEN 190

Probable transcription factor involved in regulating genes that determines stamen and carpel development in wild-type flowers.

Panax ginseng (taxid: 4054)

>sp|Q9SAR1|MADS8_ORYSJ MADS-box transcription factor 8 OS=Oryza sativa subsp. japonica GN=MADS8 PE=1 SV=1

 Score =  140 bits (353), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 77/178 (43%), Positives = 112/178 (62%), Gaps = 3/178 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           M RG+V++KRIEN ++RQVTF KRR GLLKKA ELS+LCDA+V + IFSN GKLYE  + 
Sbjct: 1   MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSG 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQP---LDAKDEINMLKQEIEILQKGLRYMFGGGTG 117
            +M   +E+Y K + G     +   +      +++E   LK  +E LQ+  R + G   G
Sbjct: 61  QSMTRTLERYQKFSYGGPDTAIQNKENELVQSSRNEYLKLKARVENLQRTQRNLLGEDLG 120

Query: 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175
           T+ + EL  LEK L+  + +IRST+   M  ++  L+ +E +L  ANK L+ K+EE+N
Sbjct: 121 TLGIKELEQLEKQLDSSLRHIRSTRTQHMLDQLTDLQRREQMLCEANKCLRRKLEESN 178

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

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8RU31|MAD21_ORYSJ MADS-box transcription factor 21 OS=Oryza sativa subsp. japonica GN=MADS21 PE=2 SV=1

 Score =  138 bits (347), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 72/175 (41%), Positives = 106/175 (60%), Gaps = 2/175 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           M RGK+++KRIEN   RQVTFCKRR GLLKKA EL+ILCDA++ + +FS+ G+LYE +  
Sbjct: 1   MGRGKIEIKRIENKTSRQVTFCKRRNGLLKKAYELAILCDAEIALIVFSSRGRLYEFSNV 60

Query: 61  GTMQGLIEKYLKSTQGAQ-AEPVMQTQPLDA-KDEINMLKQEIEILQKGLRYMFGGGTGT 118
            + +  IE+Y K++     + PV+        + E   ++ +I+ LQ   R++ G   G 
Sbjct: 61  NSTRSTIERYKKASASTSGSAPVIDVNSHQYFQQEAAKMRHQIQTLQNANRHLIGESIGN 120

Query: 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173
           MT  EL  LE  LE  I  IRS K +++F EI  ++ +E  L   N +L+ K+ E
Sbjct: 121 MTAKELKSLENRLEKGISRIRSKKHELLFSEIEYMQKREADLQNENMFLRAKVAE 175

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q03489|AGL9_PETHY Agamous-like MADS-box protein AGL9 homolog OS=Petunia hybrida GN=FBP2 PE=1 SV=2

 Score =  137 bits (346), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 74/179 (41%), Positives = 110/179 (61%), Gaps = 2/179 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           M RG+V++KRIEN ++RQVTF KRR GLLKKA ELS+LCDA+V + IFSN GKLYE  ++
Sbjct: 1   MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSS 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQPLD--AKDEINMLKQEIEILQKGLRYMFGGGTGT 118
            +M   +E+Y K   GA    +   + L+  ++ E   LK   E LQ+  R + G   G 
Sbjct: 61  SSMLKTLERYQKCNYGAPETNISTREALEISSQQEYLKLKARYEALQRSQRNLLGEDLGP 120

Query: 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177
           +   EL  LE+ L++ +  IRST+  +M  ++  L+ KE  L  AN+ L+ ++ E + +
Sbjct: 121 LNSKELESLERQLDMSLKQIRSTRTQLMLDQLQDLQRKEHALNEANRTLKQRLMEGSTL 179

Probable transcription factor.

Petunia hybrida (taxid: 4102)

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	201
224135731	202	predicted protein [Populus trichocarpa]	0.995	0.990	0.768	3e-84
99907093	202	MADS box transcription factor [Populus t	0.995	0.990	0.748	1e-81
350536997	201	TAGL12 transcription factor [Solanum lyc	0.995	0.995	0.727	1e-80
255570943	205	mads box protein, putative [Ricinus comm	0.990	0.970	0.724	5e-80
225460235	198	PREDICTED: MADS-box transcription factor	0.980	0.994	0.715	3e-79
224146301	202	predicted protein [Populus trichocarpa]	0.985	0.980	0.721	5e-76
363814398	193	uncharacterized protein LOC100783345 [Gl	0.925	0.963	0.711	4e-73
388497098	200	unknown [Lotus japonicus]	0.995	1.0	0.661	3e-72
388510474	200	unknown [Lotus japonicus]	0.995	1.0	0.656	1e-71
421958012	234	MADS-box protein AGL12 [Aquilegia coerul	0.995	0.854	0.591	1e-69

>gi|224135731|ref|XP_002327290.1| predicted protein [Populus trichocarpa] gi|222835660|gb|EEE74095.1| predicted protein [Populus trichocarpa]

 Score =  316 bits (810), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 156/203 (76%), Positives = 174/203 (85%), Gaps = 3/203 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQMKRIEN VHRQVTFCKRR+GLLKKAKELS+LCDA++GVFIFS HGKLYELAT 
Sbjct: 1   MARGKVQMKRIENSVHRQVTFCKRRSGLLKKAKELSVLCDAEIGVFIFSAHGKLYELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPV-MQTQP-LDAKDEINMLKQEIEILQKGLRYMFGGGTGT 118
           GTMQGLIE+Y+KS++G Q EP  ++TQP +D K+EINMLKQEIEILQKGLRYMFGG    
Sbjct: 61  GTMQGLIERYMKSSRGTQPEPAAIETQPDMDVKEEINMLKQEIEILQKGLRYMFGGRAAE 120

Query: 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIA 178
           MTLDEL+ LEKHLE+WIY IRSTKMDIMF+EI  LRNKEGIL AAN+YLQDK+EEN  I 
Sbjct: 121 MTLDELIELEKHLEIWIYQIRSTKMDIMFKEIQQLRNKEGILKAANQYLQDKVEENIVIT 180

Query: 179 NFGPITTNNIECPFAIPNEIFQF 201
           N  PITT NI  P  I NEIFQ+
Sbjct: 181 NSAPITT-NIPYPLTIQNEIFQY 202

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|99907093|gb|ABF68753.1| MADS box transcription factor [Populus tomentosa]

 Score =  307 bits (787), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 152/203 (74%), Positives = 173/203 (85%), Gaps = 3/203 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQM+RIEN VHRQVTFCKRR+GLLKKAKELS+LCDA++GVFIFS HGKLYELAT 
Sbjct: 1   MARGKVQMRRIENSVHRQVTFCKRRSGLLKKAKELSVLCDAEIGVFIFSAHGKLYELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPV-MQTQP-LDAKDEINMLKQEIEILQKGLRYMFGGGTGT 118
           G MQGLIE+Y+KS++G Q EP  ++TQP +DA +EIN LKQEIEILQKGLR+MFGG    
Sbjct: 61  GNMQGLIERYMKSSRGTQPEPATIETQPDMDANEEINKLKQEIEILQKGLRFMFGGCAAE 120

Query: 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIA 178
           MTLDEL+ LEKHLE+WIY IRSTK+DIMF+EI  LRNKEGIL AAN+YLQDK+EEN  I 
Sbjct: 121 MTLDELIGLEKHLEIWIYKIRSTKVDIMFKEIEQLRNKEGILKAANQYLQDKVEENIMIT 180

Query: 179 NFGPITTNNIECPFAIPNEIFQF 201
           NF PITT NI  P  I NEIFQ+
Sbjct: 181 NFAPITT-NIPYPLTIQNEIFQY 202

Source: Populus tomentosa

Species: Populus tomentosa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350536997|ref|NP_001233764.1| TAGL12 transcription factor [Solanum lycopersicum] gi|24967140|gb|AAM33103.2| TAGL12 transcription factor [Solanum lycopersicum]

 Score =  304 bits (778), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 147/202 (72%), Positives = 170/202 (84%), Gaps = 2/202 (0%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELS+LCDA+VG+FIFS HGKLYELAT 
Sbjct: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEVGLFIFSAHGKLYELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQ-AEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTM 119
           G+MQGLIE+Y+KST+G + AE    TQPLD K+EINMLK EI++LQKGL YM+GGG GTM
Sbjct: 61  GSMQGLIERYIKSTKGVEVAEEAKDTQPLDPKEEINMLKNEIDVLQKGLSYMYGGGAGTM 120

Query: 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIAN 179
           TLDEL  LEK+LE+W+Y+IRS KMDIMFQEI LL+NK GIL AANKYLQDK++E   + N
Sbjct: 121 TLDELHSLEKYLEIWMYHIRSAKMDIMFQEIQLLKNKGGILEAANKYLQDKIDEQYTVTN 180

Query: 180 FGPITTNNIECPFAIPNEIFQF 201
                T + +CP  + NEIFQF
Sbjct: 181 MTQNLT-DFQCPLTVQNEIFQF 201

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570943|ref|XP_002526423.1| mads box protein, putative [Ricinus communis] gi|223534285|gb|EEF35999.1| mads box protein, putative [Ricinus communis]

 Score =  302 bits (774), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 150/207 (72%), Positives = 174/207 (84%), Gaps = 8/207 (3%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQMKRIENPVHRQVTFCKRR+GLLKKAKELS+LCDA++G+FIFS HGKLY+LAT 
Sbjct: 1   MARGKVQMKRIENPVHRQVTFCKRRSGLLKKAKELSVLCDAEIGLFIFSAHGKLYDLATK 60

Query: 61  GTMQGLIEKYLKSTQG------AQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGG 114
           GTM GLIE+Y+ +T G       +A+  MQ QPLDAK+EI+MLKQEIEILQKGLR++ GG
Sbjct: 61  GTMSGLIERYMNATGGNSLQAEDKAKETMQ-QPLDAKEEISMLKQEIEILQKGLRHLLGG 119

Query: 115 GTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174
           G   MTLDELL+LEK+LE+WIY+IRSTKM+IM +EI LLRNKEGIL AAN+YLQDK+EEN
Sbjct: 120 GAAEMTLDELLILEKNLEIWIYHIRSTKMEIMAKEIQLLRNKEGILKAANQYLQDKIEEN 179

Query: 175 NGIANFGPITTNNIECPFAIPNEIFQF 201
             I NF P+TT N   P  I NEIFQF
Sbjct: 180 VDITNFAPMTT-NFPYPLTIQNEIFQF 205

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460235|ref|XP_002278239.1| PREDICTED: MADS-box transcription factor 26 [Vitis vinifera] gi|296089407|emb|CBI39226.3| unnamed protein product [Vitis vinifera]

 Score =  300 bits (767), Expect = 3e-79,   Method: Compositional matrix adjust.
 Identities = 143/200 (71%), Positives = 164/200 (82%), Gaps = 3/200 (1%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGK+QMKRIENPVHRQVTFCKRRAGLLKKAKELS+LCDA++G+FIFS HGKLYELAT 
Sbjct: 1   MARGKIQMKRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGIFIFSAHGKLYELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMT 120
           GTMQGLIEKY+KS+ G+Q +   + Q LD K+EINMLK EIE+LQKGLRYM GGG GTMT
Sbjct: 61  GTMQGLIEKYMKSSCGSQDDQAKEAQLLDTKEEINMLKHEIELLQKGLRYMLGGGAGTMT 120

Query: 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANF 180
           LDEL + EKHLE+WIYNIRS KM+IMFQEI LL+NKEGIL AAN YLQ+ +++  GI N 
Sbjct: 121 LDELHIFEKHLEIWIYNIRSAKMEIMFQEIQLLKNKEGILKAANNYLQEMIDDQTGITNI 180

Query: 181 GPITTNNIECPFAIPNEIFQ 200
            P+       P    NEIFQ
Sbjct: 181 APMIN---PYPLTTQNEIFQ 197

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146301|ref|XP_002325956.1| predicted protein [Populus trichocarpa] gi|222862831|gb|EEF00338.1| predicted protein [Populus trichocarpa]

 Score =  289 bits (739), Expect = 5e-76,   Method: Compositional matrix adjust.
 Identities = 148/205 (72%), Positives = 170/205 (82%), Gaps = 7/205 (3%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQ++RIEN VHRQVTFCKRRAGLLKKAKELS+LCDA++GV IFS HGKLYELAT 
Sbjct: 1   MARGKVQLRRIENHVHRQVTFCKRRAGLLKKAKELSVLCDAEIGVVIFSAHGKLYELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEP-VMQTQPLDAKD-EINMLKQEIEILQKGLRYMFGG-GTG 117
           GTMQGLIE+Y+KS++GAQ EP  M+TQP  A D EINMLKQEIE+LQKGLRYMFG     
Sbjct: 61  GTMQGLIERYMKSSRGAQPEPAAMETQP--APDLEINMLKQEIEVLQKGLRYMFGARAAA 118

Query: 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177
            M+LDELLVLEKHLE+WIY IRSTKMDIMF+EI  LRNKE ILTAAN++L +K+EEN  I
Sbjct: 119 EMSLDELLVLEKHLEIWIYQIRSTKMDIMFKEIQQLRNKEEILTAANQHLHNKVEENAEI 178

Query: 178 ANFGPITTNNIECPFAIPNE-IFQF 201
            NF  +T+ +   P  I NE IFQ+
Sbjct: 179 TNFVSVTS-DFPHPLTIQNEIIFQY 202

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814398|ref|NP_001242837.1| uncharacterized protein LOC100783345 [Glycine max] gi|255647720|gb|ACU24321.1| unknown [Glycine max]

 Score =  279 bits (714), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 133/187 (71%), Positives = 157/187 (83%), Gaps = 1/187 (0%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQ+KRIENPVHRQVTFCKRRAGLLKKAKELS+LCDA++G+FIFS HGKLYELAT 
Sbjct: 1   MARGKVQLKRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGLFIFSAHGKLYELATK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQP-LDAKDEINMLKQEIEILQKGLRYMFGGGTGTM 119
           GTMQGLIE+Y+K ++GAQ E   +  P LDAK+E NMLKQEI+ LQKG+R++FGGG  TM
Sbjct: 61  GTMQGLIERYMKFSRGAQPEAAPEAHPLLDAKEETNMLKQEIQTLQKGIRHLFGGGNKTM 120

Query: 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIAN 179
           T+DEL VLEK+LE WIY+IRS KM+IM QEI  L++KEG L AANKYL DK+ EN  I+N
Sbjct: 121 TIDELQVLEKNLETWIYHIRSMKMNIMLQEIQALKDKEGTLKAANKYLHDKIVENTAISN 180

Query: 180 FGPITTN 186
           F    T+
Sbjct: 181 FAQFATD 187

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388497098|gb|AFK36615.1| unknown [Lotus japonicus]

 Score =  276 bits (707), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 133/201 (66%), Positives = 160/201 (79%), Gaps = 1/201 (0%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQ++RIENPVHRQVTFCKRRAGLLKKAKELS+LCDA++G+ IFS  GKLYEL T 
Sbjct: 1   MARGKVQLRRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGLVIFSAQGKLYELTTK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMT 120
           GTMQGLIE+Y+  T+ A+ E V Q +PLDAK+E N+LKQEI+ LQKG+RY+FGGG GTM 
Sbjct: 61  GTMQGLIERYMNYTREAEPEAVTQARPLDAKEETNVLKQEIDKLQKGIRYLFGGGLGTMK 120

Query: 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANF 180
           +DEL VLEK+LE WIY++RS KM+IM QEI  LR+KEG L AANKYL D + EN  + NF
Sbjct: 121 MDELHVLEKNLETWIYHVRSMKMNIMLQEIQALRDKEGTLKAANKYLHDMVVENTSVTNF 180

Query: 181 GPITTNNIECPFAIPNEIFQF 201
            P  T+ +  P  I +  FQF
Sbjct: 181 DPFATDPL-YPLIIQDGGFQF 200

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510474|gb|AFK43303.1| unknown [Lotus japonicus]

 Score =  274 bits (701), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 132/201 (65%), Positives = 159/201 (79%), Gaps = 1/201 (0%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQ++RIENPVHRQVTFCKRRAGLLKKAKELS+LCDA++G+ IFS  GKLYEL T 
Sbjct: 1   MARGKVQLRRIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGLVIFSAQGKLYELTTK 60

Query: 61  GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMT 120
           GTMQGLIE+Y+  T+ A+ E V Q +PLDAK+E N+LKQEI+ LQKG+RY+FGGG GTM 
Sbjct: 61  GTMQGLIERYMNYTREAEPEAVTQARPLDAKEETNVLKQEIDKLQKGIRYLFGGGLGTMK 120

Query: 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANF 180
           +DEL VLEK+LE WIY++RS KM+IM QEI  L +KEG L AANKYL D + EN  + NF
Sbjct: 121 MDELHVLEKNLETWIYHVRSMKMNIMLQEIQALSDKEGTLKAANKYLHDMVVENTSVTNF 180

Query: 181 GPITTNNIECPFAIPNEIFQF 201
            P  T+ +  P  I +  FQF
Sbjct: 181 DPFATDPL-YPLIIQDGGFQF 200

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|421958012|gb|AFX72883.1| MADS-box protein AGL12 [Aquilegia coerulea]

 Score =  268 bits (684), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 139/235 (59%), Positives = 164/235 (69%), Gaps = 35/235 (14%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           MARGKVQMKRIEN VHRQVTFCKRRAGLLKKAKELSILCDADVGV IFSN+GKLY+L+T 
Sbjct: 1   MARGKVQMKRIENLVHRQVTFCKRRAGLLKKAKELSILCDADVGVIIFSNNGKLYDLSTK 60

Query: 61  GT----------------------------------MQGLIEKYLKSTQGAQAEPVMQTQ 86
           G+                                  MQGL+E+Y+KS +GAQ       Q
Sbjct: 61  GSLFQPILSLVFITFSYYYSKLDLIVVFVQLYSQRSMQGLVERYMKSAKGAQVSDEDANQ 120

Query: 87  PLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIM 146
             ++++EI MLKQEI++LQKGLRY FGGG+G MT+DEL +LEKHLE+WI+NIRSTK++IM
Sbjct: 121 SSESEEEIAMLKQEIQLLQKGLRYTFGGGSGNMTVDELDLLEKHLEIWIHNIRSTKIEIM 180

Query: 147 FQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIFQF 201
           FQEI  L+NKEGIL AAN+YLQ K+EE  G+ N  P T         IPNEIF F
Sbjct: 181 FQEIQSLKNKEGILKAANEYLQGKIEEQCGVLNIPP-TVAGCSYQLTIPNEIFNF 234

Source: Aquilegia coerulea

Species: Aquilegia coerulea

Genus: Aquilegia

Family: Ranunculaceae

Order: Ranunculales

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	201
TAIR|locus:2824536	211	AGL12 "AGAMOUS-like 12" [Arabi	0.995	0.947	0.641	2.8e-66
UNIPROTKB|Q0D4T4	249	MADS18 "MADS-box transcription	0.965	0.779	0.429	5.8e-34
UNIPROTKB|Q40882	228	fbp11 "Fbp11 protein" [Petunia	0.850	0.75	0.440	2.3e-32
UNIPROTKB|Q10CQ1	246	MADS14 "MADS-box transcription	0.865	0.707	0.436	6e-32
UNIPROTKB|Q03489	241	FBP2 "Agamous-like MADS-box pr	0.870	0.726	0.418	7.7e-32
UNIPROTKB|D2T2F8	249	grcd4 "GRCD4 protein" [Gerbera	0.865	0.698	0.431	1.3e-31
UNIPROTKB|Q6EUV7	247	grcd2 "MADS domain protein" [G	0.905	0.736	0.420	4.2e-31
TAIR|locus:2005522	214	AGL20 "AT2G45660" [Arabidopsis	0.835	0.785	0.465	4.2e-31
UNIPROTKB|Q0J466	249	MADS7 "MADS-box transcription	0.880	0.710	0.411	5.4e-31
UNIPROTKB|O65874	247	MTF1 "MADS-box transcription f	0.855	0.696	0.414	6.9e-31

TAIR|locus:2824536 AGL12 "AGAMOUS-like 12" [Arabidopsis thaliana (taxid:3702)]

 Score = 674 (242.3 bits), Expect = 2.8e-66, P = 2.8e-66
 Identities = 136/212 (64%), Positives = 161/212 (75%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             MARGK+Q+KRIENPVHRQVTFCKRR GLLKKAKELS+LCDA++GV IFS  GKL+ELAT 
Sbjct:     1 MARGKIQLKRIENPVHRQVTFCKRRTGLLKKAKELSVLCDAEIGVVIFSPQGKLFELATK 60

Query:    61 GTMQGLIEKYLKSTQGAQ--------AEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMF 112
             GTM+G+I+KY+K T G +        A+  +Q   LD KDEIN+LKQEIE+LQKG+ YMF
Sbjct:    61 GTMEGMIDKYMKCTGGGRGSSSATFTAQEQLQPPNLDPKDEINVLKQEIEMLQKGISYMF 120

Query:   113 GGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172
             GGG G M L+ELL+LEKHLE WI  IRS KMD+M QEI  LRNKEG+L   NKYL +K+E
Sbjct:   121 GGGDGAMNLEELLLLEKHLEYWISQIRSAKMDVMLQEIQSLRNKEGVLKNTNKYLLEKIE 180

Query:   173 ENNGI---ANFGPITTNNIECPFAIPNEIFQF 201
             ENN     ANF  + TN    P  +P+EIFQF
Sbjct:   181 ENNNSILDANFAVMETN-YSYPLTMPSEIFQF 211

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:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

GO:0048364 "root development" evidence=IMP

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0048527 "lateral root development" evidence=RCA

GO:0048589 "developmental growth" evidence=RCA

GO:0048765 "root hair cell differentiation" evidence=RCA

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

 Score = 369 (135.0 bits), Expect = 5.8e-34, P = 5.8e-34
 Identities = 85/198 (42%), Positives = 122/198 (61%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RG VQ++RIEN ++RQVTF KRR GLLKKA E+S+LCDADV + +FS  GKLYE +++
Sbjct:     1 MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query:    61 GTMQGLIEKYLKST--QGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGT 118
              +M+G++E+Y + +  + A  EP  + Q  +  DE  +LK +++ LQK  R + G    T
Sbjct:    61 SSMEGILERYQRYSFDERAVLEPNTEDQE-NWGDEYGILKSKLDALQKSQRQLLGEQLDT 119

Query:   119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIA 178
             +T+ EL  LE  LE  + +IRS K  ++F+ I+ L+ KE  L   N  LQ K+ E     
Sbjct:   120 LTIKELQQLEHQLEYSLKHIRSKKNQLLFESISELQKKEKSLKNQNNVLQ-KLMETEKEK 178

Query:   179 NFGPITTNNIECPFAIPN 196
             N   I TN  E   A P+
Sbjct:   179 NNAIINTNREEQNGATPS 196

GO:0005515 "protein binding" evidence=IPI

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

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 78/177 (44%), Positives = 112/177 (63%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RGK+++KRIEN  +RQVTFCKRR GLLKKA ELS+LCDA++ + +FS  G++YE A N
Sbjct:     1 MGRGKIEIKRIENNTNRQVTFCKRRNGLLKKAYELSVLCDAEIALIVFSTRGRVYEYANN 60

Query:    61 GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAK---DEINMLKQEIEILQKGLRYMFGGGTG 117
               ++G IE+Y K+T  A+      TQ L+A+    E   L+Q+I++LQ   R++ G G  
Sbjct:    61 N-IKGTIERYKKAT--AETSNACTTQELNAQFYQQESKKLRQQIQLLQNTNRHLVGEGLS 117

Query:   118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174
              + + EL  LE  LE  I  IRS K +++  E   L+ +E  L   N +L+ K+ EN
Sbjct:   118 ALNVRELKQLENRLERGITRIRSKKHEMILAETENLQKREIQLEQENTFLRSKIAEN 174

GO:0005515 "protein binding" evidence=IPI

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

 Score = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 79/181 (43%), Positives = 113/181 (62%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RGKVQ+KRIEN ++RQVTF KRR+GLLKKA E+S+LCDA+V + IFS  GKLYE AT+
Sbjct:     1 MGRGKVQLKRIENKINRQVTFSKRRSGLLKKANEISVLCDAEVALIIFSTKGKLYEYATD 60

Query:    61 GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKD----EINMLKQEIEILQKGLRYMFGGGT 116
               M  ++E+Y + +    AE V+ +   D +     E   LK ++E +QK  +++ G   
Sbjct:    61 SCMDKILERYERYSY---AEKVLISAESDTQGNWCHEYRKLKAKVETIQKCQKHLMGEDL 117

Query:   117 GTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNG 176
              ++ L EL  LE+ LE  + +IRS K  +M + IN L+ KE  L   NK LQ ++ E   
Sbjct:   118 ESLNLKELQQLEQQLENSLKHIRSRKSQLMLESINELQRKEKSLQEENKVLQKELVEKQK 177

Query:   177 I 177
             +
Sbjct:   178 V 178

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q03489 FBP2 "Agamous-like MADS-box protein AGL9 homolog" [Petunia x hybrida (taxid:4102)]

 Score = 349 (127.9 bits), Expect = 7.7e-32, P = 7.7e-32
 Identities = 74/177 (41%), Positives = 109/177 (61%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RG+V++KRIEN ++RQVTF KRR GLLKKA ELS+LCDA+V + IFSN GKLYE  ++
Sbjct:     1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSS 60

Query:    61 GTMQGLIEKYLKSTQGAQAEPVMQTQPLD--AKDEINMLKQEIEILQKGLRYMFGGGTGT 118
              +M   +E+Y K   GA    +   + L+  ++ E   LK   E LQ+  R + G   G 
Sbjct:    61 SSMLKTLERYQKCNYGAPETNISTREALEISSQQEYLKLKARYEALQRSQRNLLGEDLGP 120

Query:   119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175
             +   EL  LE+ L++ +  IRST+  +M  ++  L+ KE  L  AN+ L+ ++ E +
Sbjct:   121 LNSKELESLERQLDMSLKQIRSTRTQLMLDQLQDLQRKEHALNEANRTLKQRLMEGS 177

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|D2T2F8 grcd4 "GRCD4 protein" [Gerbera hybrid cultivar (taxid:18101)]

 Score = 347 (127.2 bits), Expect = 1.3e-31, P = 1.3e-31
 Identities = 75/174 (43%), Positives = 105/174 (60%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RG+V++KRIEN ++RQVTF KRR GLLKKA ELS+LCDA+V + IFSN GKLYE  ++
Sbjct:     1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCSS 60

Query:    61 GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMT 120
              +M   +EKY   + G+      + +      E   LK  +E+LQ+  R + G     + 
Sbjct:    61 SSMVKTLEKYHSCSYGSLKASQPENESQYNYHEYLRLKARVEVLQRSQRNLLGEDLAPLN 120

Query:   121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174
               EL  LE  LE+ +  IRSTK   M  ++  L+ KE +L   NK L+ K+EE+
Sbjct:   121 TKELEQLEHQLEMSLRKIRSTKTQSMLDQLADLQRKEQVLAETNKALRKKLEES 174

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q6EUV7 grcd2 "MADS domain protein" [Gerbera hybrid cultivar (taxid:18101)]

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 77/183 (42%), Positives = 109/183 (59%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RG+V++KRIEN ++RQVTF KRR GLLKKA ELS+LCDA+V + IFSN GKL+E  + 
Sbjct:     1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLFEFCST 60

Query:    61 GTMQGLIEKYLKSTQGA-QAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTM 119
               M  ++E+Y   T G+ + +         +  E   LK + E LQ+  R +FG   G +
Sbjct:    61 SNMLKMLERYQNCTYGSMEVDRSTPNAEQSSYKEYMKLKAKYESLQQYQRQLFGEDLGPL 120

Query:   120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIAN 179
             +L EL  LE+ L+  +  IRS +   M   ++ L+ KE +   ANK LQ+K+EE      
Sbjct:   121 SLKELEQLERQLDSTLRQIRSIRTQSMLDRLSELQVKERMWVEANKALQNKLEEVYAENQ 180

Query:   180 FGP 182
              GP
Sbjct:   181 AGP 183

GO:0005515 "protein binding" evidence=IPI

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

 Score = 342 (125.4 bits), Expect = 4.2e-31, P = 4.2e-31
 Identities = 80/172 (46%), Positives = 108/172 (62%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RGK QMKRIEN   RQVTF KRR GLLKKA ELS+LCDA+V + IFS  GKLYE A++
Sbjct:     1 MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSPKGKLYEFASS 60

Query:    61 GTMQGLIEKYLKSTQG-AQAEPVMQTQPLDAKDEI-NMLKQEIEILQKGLRYMFGGGTGT 118
               MQ  I++YL+ T+     +PV +      K E  NM+K+ IE L+   R + G G GT
Sbjct:    61 N-MQDTIDRYLRHTKDRVSTKPVSEENMQHLKYEAANMMKK-IEQLEASKRKLLGEGIGT 118

Query:   119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDK 170
              +++EL  +E+ LE  +  IR+ K  +  ++I  L+ KE  L A N+ L +K
Sbjct:   119 CSIEELQQIEQQLEKSVKCIRARKTQVFKEQIEQLKQKEKALAAENEKLSEK 170

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

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

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

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

GO:0009908 "flower development" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

GO:0008134 "transcription factor binding" evidence=IPI

GO:0009409 "response to cold" evidence=IEP

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

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

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0010048 "vernalization response" evidence=RCA

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

GO:0048440 "carpel development" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

UNIPROTKB|Q0J466 MADS7 "MADS-box transcription factor 7" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 341 (125.1 bits), Expect = 5.4e-31, P = 5.4e-31
 Identities = 74/180 (41%), Positives = 115/180 (63%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RG+V++KRIEN ++RQVTF KRR GLLKKA ELS+LCDA+V + IFSN GKLYE  + 
Sbjct:     1 MGRGRVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCST 60

Query:    61 GTMQGLIEKYLKSTQGAQAEPVM--QTQPLDA-KDEINMLKQEIEILQKGLRYMFGGGTG 117
              +M   +EKY K +       V   +++ L A ++E   LK  +E LQ+  R + G    
Sbjct:    61 QSMTKTLEKYQKCSYAGPETAVQNRESEQLKASRNEYLKLKARVENLQRTQRNLLGEDLD 120

Query:   118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177
             ++ + EL  LEK L+  + ++R+T+   +  ++  L+ KE +++ AN+ L+ K+EE+N +
Sbjct:   121 SLGIKELESLEKQLDSSLKHVRTTRTKHLVDQLTELQRKEQMVSEANRCLRRKLEESNHV 180

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|O65874 MTF1 "MADS-box transcription factor 1" [Pisum sativum (taxid:3888)]

 Score = 340 (124.7 bits), Expect = 6.9e-31, P = 6.9e-31
 Identities = 73/176 (41%), Positives = 106/176 (60%)

Query:     1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
             M RG+V++KR+EN ++RQVTF KRR GLLKKA ELS+LCDA+V + +FSN GKLYE  + 
Sbjct:     1 MGRGRVELKRVENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIVFSNRGKLYEFCST 60

Query:    61 GTMQGLIEKYLKSTQGAQAEPVMQTQPL----DAKDEINMLKQEIEILQKGLRYMFGGGT 116
              +M   +E+Y K   GA    V   + L     ++ E   LK   E LQ+  R + G   
Sbjct:    61 SSMLKTLERYQKCNYGAPEGNVTSKEALVLELSSQQEYLKLKARYESLQRSQRNLMGEDL 120

Query:   117 GTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172
             G ++  +L  LE+ L+  +  IRST+   M  ++  L+ KE +L  AN+ L+ +ME
Sbjct:   121 GPLSSKDLETLERQLDSSLKQIRSTRTQFMLDQLGDLQRKEHLLCEANRALRQRME 176

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

GO:0005634 "nucleus" evidence=IC

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

GO:0009888 "tissue development" evidence=NAS

---

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)
A2YQK9	MAD26_ORYSI	No assigned EC number	0.5979	0.9502	0.8603	N/A	no
Q38841	AGL12_ARATH	No assigned EC number	0.6415	0.9950	0.9478	yes	no
Q0J8G8	MAD26_ORYSJ	No assigned EC number	0.5979	0.9502	0.8603	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	201
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	9e-40
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	7e-30
smart00432	59	smart00432, MADS, MADS domain	2e-29
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	2e-24
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	1e-20
pfam01486	100	pfam01486, K-box, K-box region	2e-13
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	4e-08

>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 =  130 bits (329), Expect = 9e-40
 Identities = 43/77 (55%), Positives = 59/77 (76%), Gaps = 1/77 (1%)

Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG 61
           RGK+++KRIEN  +RQVTF KRR GLLKKA ELS+LCDA+V + IFS+ GKLYE ++  
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPS 60

Query: 62 TMQGLIEKYLKSTQGAQ 78
           M+ +IE+Y K++  + 
Sbjct: 61 -MEKIIERYQKTSGSSL 76

Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi. Length = 77

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

 Score =  104 bits (262), Expect = 7e-30
 Identities = 37/58 (63%), Positives = 44/58 (75%)

Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59
           RGK+++KRIEN   RQVTF KRR GL KKA ELS+LCDA+V V +FS  GKLYE  +
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|197721 smart00432, MADS, MADS domain

 Score =  103 bits (259), Expect = 2e-29
 Identities = 36/57 (63%), Positives = 45/57 (78%)

Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59
          R K+++KRIEN  +RQVTF KRR GL KKA ELS+LCDA+V + +FS  GKLYE A+
Sbjct: 2  RRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFAS 58

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 = 91.6 bits (228), Expect = 2e-24
 Identities = 34/71 (47%), Positives = 46/71 (64%)

Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG 61
           R K+++KRIEN   R VTF KRR GL KKA ELS LC A+V V ++S  GKLY    + 
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS 60

Query: 62 TMQGLIEKYLK 72
           ++G+I ++  
Sbjct: 61 EVEGVISRFEV 71

Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi. Length = 83

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

 Score = 80.9 bits (200), Expect = 1e-20
 Identities = 34/51 (66%), Positives = 41/51 (80%)

Query: 9  KRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59
          KRIEN  +RQVTF KRR G+ KKA ELS+LCDA+V V IFS+ GKLYE ++
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYSS 51

Length = 51

>gnl|CDD|216525 pfam01486, K-box, K-box region

 Score = 63.3 bits (155), Expect = 2e-13
 Identities = 30/81 (37%), Positives = 49/81 (60%)

Query: 93  EINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINL 152
           E   LK++ E LQ+  R++ G   G+++L EL  LE+ LE  + +IRS K +++  +I  
Sbjct: 20  EAAKLKKQNENLQREQRHLLGEDLGSLSLKELQQLEQQLENGLKHIRSRKNELLLNQIEE 79

Query: 153 LRNKEGILTAANKYLQDKMEE 173
           L+ KE  L   N+ L+ K+EE
Sbjct: 80  LQKKERELQEENRNLRQKLEE 100

The K-box region is commonly found associated with SRF-type transcription factors see pfam00319. The K-box is a possible coiled-coil structure. Possible role in multimer formation. Length = 100

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

 Score = 51.9 bits (124), Expect = 4e-08
 Identities = 21/59 (35%), Positives = 33/59 (55%)

Query: 1   MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59
           +   K+ +  I N   R VTF KR+ G+ KKA ELS+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	201
KOG0014	195	consensus MADS box transcription factor [Transcrip	100.0
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	100.0
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.97
smart00432	59	MADS MADS domain.	99.97
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.96
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.95
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	99.84
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.82
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.5
PF06005	72	DUF904: Protein of unknown function (DUF904); Inte	94.84
PRK04098	158	sec-independent translocase; Provisional	92.17
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	88.98
cd07429	108	Cby_like Chibby, a nuclear inhibitor of Wnt/beta-c	88.36
PRK15422	79	septal ring assembly protein ZapB; Provisional	88.19
PF06698	59	DUF1192: Protein of unknown function (DUF1192); In	87.62
PF06156	107	DUF972: Protein of unknown function (DUF972); Inte	87.47
PRK13169	110	DNA replication intiation control protein YabA; Re	87.19
COG3074	79	Uncharacterized protein conserved in bacteria [Fun	86.87
PF01166	59	TSC22: TSC-22/dip/bun family; InterPro: IPR000580	85.83
PRK10884	206	SH3 domain-containing protein; Provisional	83.3
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	82.87
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	80.03

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=100.00  E-value=8e-40  Score=261.05  Aligned_cols=164  Identities=38%  Similarity=0.540  Sum_probs=131.4

Q ss_pred             CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccccc-chHHHHHHHHhhccCCCC
Q 028961            1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG-TMQGLIEKYLKSTQGAQA   79 (201)
Q Consensus         1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~-~~~~VleRY~~~~~~~~~   79 (201)
                      |||+||+|++|+|.++|||||+|||.||||||+||||||||+||+|||||+|++|+||+++ +|..|++||...+.....
T Consensus         1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~   80 (195)
T KOG0014|consen    1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK   80 (195)
T ss_pred             CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence            9999999999999999999999999999999999999999999999999999999999433 399999999987776543


Q ss_pred             CCcccCCc---------------------hhHHHHHHHhHHHHHHHHhh---hhhhcCCCCCCCCH-HHHHHHHHHHHHH
Q 028961           80 EPVMQTQP---------------------LDAKDEINMLKQEIEILQKG---LRYMFGGGTGTMTL-DELLVLEKHLELW  134 (201)
Q Consensus        80 ~~~~~~~~---------------------~~l~~e~~kL~~ei~~l~~~---~r~~~Ge~L~~Ls~-~EL~~LE~~Le~~  134 (201)
                      ........                     .........+....+.+...   .+++.|+++.+++. .+|..++.+|+..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~  160 (195)
T KOG0014|consen   81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS  160 (195)
T ss_pred             ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence            32111100                     11233344455555555533   77889999999999 9999999999999


Q ss_pred             HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 028961          135 IYNIRSTKMDIMFQEIN-LLRNKEGILTAAN  164 (201)
Q Consensus       135 l~~IR~RK~~ll~~~i~-~l~~k~~~l~eeN  164 (201)
                      +..++..+...+.+++. .++.++..+.++|
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (195)
T KOG0014|consen  161 LHNSRSSKSKPLSDSNFQVLQEKEKSLEAEN  191 (195)
T ss_pred             hcCCCCCCCcCCcchhhhhhcccchhccccC
Confidence            99999999998888876 6666655555444

>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators

Probab=100.00  E-value=2.1e-34  Score=196.83  Aligned_cols=75  Identities=57%  Similarity=0.971  Sum_probs=71.7

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCC
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGA   77 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~   77 (201)
                      ||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|++|+|+ +|++++||+||.+.++..
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~-s~s~~~vl~ry~~~~~~~   75 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFS-SPSMEKIIERYQKTSGSS   75 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEec-CCCHHHHHHHHHhccccc
Confidence            899999999999999999999999999999999999999999999999999999999 678999999999887653

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=99.97  E-value=2.4e-32  Score=189.39  Aligned_cols=78  Identities=44%  Similarity=0.707  Sum_probs=72.6

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCCCC
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQA   79 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~~   79 (201)
                      ||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+.++||+++++..+|++|...+...+.
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   78 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALERK   78 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhhh
Confidence            899999999999999999999999999999999999999999999999999999998554599999999988776543

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=99.97  E-value=4.6e-31  Score=170.52  Aligned_cols=58  Identities=62%  Similarity=1.013  Sum_probs=56.9

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccc
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT   59 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s   59 (201)
                      ||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|++|.||+
T Consensus         1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~   58 (59)
T smart00432        1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFAS   58 (59)
T ss_pred             CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccC
Confidence            8999999999999999999999999999999999999999999999999999999983

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

Probab=99.96  E-value=2.4e-30  Score=167.33  Aligned_cols=58  Identities=64%  Similarity=1.021  Sum_probs=56.8

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccc
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT   59 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s   59 (201)
                      ||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+++.||+
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~   58 (59)
T cd00120           1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWS   58 (59)
T ss_pred             CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccC
Confidence            7999999999999999999999999999999999999999999999999999999984

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=99.95  E-value=6.1e-29  Score=155.62  Aligned_cols=51  Identities=57%  Similarity=0.931  Sum_probs=46.8

Q ss_pred             eeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccc
Q 028961            9 KRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT   59 (201)
Q Consensus         9 k~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s   59 (201)
                      |+|+|+++|++||+||+.||+|||+|||+||||+||+|||||+|++|.|+|
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            689999999999999999999999999999999999999999999999984

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 ....

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

Probab=99.84  E-value=2.4e-20  Score=133.88  Aligned_cols=90  Identities=36%  Similarity=0.497  Sum_probs=86.5

Q ss_pred             cCCchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961           84 QTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAA  163 (201)
Q Consensus        84 ~~~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~ee  163 (201)
                      ....+.++.++.+|+.+++.|+..+|+++|++|++||++||..||++|+.+|.+||+||++++.++|+.|++|++.|.++
T Consensus        11 ~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~e   90 (100)
T PF01486_consen   11 DSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEE   90 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh
Q 028961          164 NKYLQDKMEE  173 (201)
Q Consensus       164 N~~L~~~~~~  173 (201)
                      |..|+.++.+
T Consensus        91 n~~L~~~~~e  100 (100)
T PF01486_consen   91 NNQLRQKIEE  100 (100)
T ss_pred             HHHHHHHhcC
Confidence            9999999864

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

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

Probab=99.82  E-value=3.3e-21  Score=158.07  Aligned_cols=77  Identities=38%  Similarity=0.560  Sum_probs=68.2

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccc--------cchHHHHHHHHhh
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN--------GTMQGLIEKYLKS   73 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~--------~~~~~VleRY~~~   73 (201)
                      ||+||+|.+|+|+..|.+||||||.||||||+|||||+|.+|-|+|.|++|.+|.|+++        +.=+.+|....+.
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            79999999999999999999999999999999999999999999999999999999942        1336677777777


Q ss_pred             ccCCC
Q 028961           74 TQGAQ   78 (201)
Q Consensus        74 ~~~~~   78 (201)
                      ++...
T Consensus       143 pd~~~  147 (338)
T KOG0015|consen  143 PDTPP  147 (338)
T ss_pred             CCCCC
Confidence            76653

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

Probab=99.50  E-value=1.1e-14  Score=124.94  Aligned_cols=65  Identities=32%  Similarity=0.508  Sum_probs=60.2

Q ss_pred             CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHH
Q 028961            1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGL   66 (201)
Q Consensus         1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~V   66 (201)
                      |||+|+.|.+|+|+.+|.|||+||+.||+|||+||+||.|.+|.++|.|.+|+++.|++ +..+.|
T Consensus        81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~t-p~~e~v  145 (412)
T COG5068          81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTT-PKLESV  145 (412)
T ss_pred             cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecC-Cccccc
Confidence            79999999999999999999999999999999999999999999999999999999984 433333

>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation

Probab=94.84  E-value=0.37  Score=32.23  Aligned_cols=49  Identities=27%  Similarity=0.341  Sum_probs=34.4

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME  172 (201)
Q Consensus       119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~  172 (201)
                      +|++.|.+||..+..++..|.     ++..+++.|+.+...|.++|..|.....
T Consensus         1 M~~E~l~~LE~ki~~aveti~-----~Lq~e~eeLke~n~~L~~e~~~L~~en~   49 (72)
T PF06005_consen    1 MSLELLEQLEEKIQQAVETIA-----LLQMENEELKEKNNELKEENEELKEENE   49 (72)
T ss_dssp             --HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            578999999999999998886     4556677777775555555555555443

It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.

>PRK04098 sec-independent translocase; Provisional

Probab=92.17  E-value=0.07  Score=41.09  Aligned_cols=82  Identities=18%  Similarity=0.174  Sum_probs=48.2

Q ss_pred             ceEEEEeecCCcccccccccchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCH
Q 028961           42 DVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTL  121 (201)
Q Consensus        42 ~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~  121 (201)
                      =||||||+|. ++++.+  ..+...+..|++.....+..-........++.+..+.++.++.....++       ..+++
T Consensus        14 vVaLlvfGP~-KLP~~~--r~lGk~ir~~K~~~~~~k~~l~~Ei~~~elk~e~~k~k~~l~~~~~~l~-------~~~~~   83 (158)
T PRK04098         14 VVAIIFLGPD-KLPQAM--VDIAKFFKAVKKTINDAKSTLDKEINIEEIKEEALKYKKEFESAVESLK-------KKLKF   83 (158)
T ss_pred             HHHHhhcCch-HHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH-------hccCh
Confidence            3789999995 888876  5778888888776554321100011233455555555555555544443       22677


Q ss_pred             HHHHHHHHHHHH
Q 028961          122 DELLVLEKHLEL  133 (201)
Q Consensus       122 ~EL~~LE~~Le~  133 (201)
                      ++|.++-..+..
T Consensus        84 eel~~~~~~~~~   95 (158)
T PRK04098         84 EELDDLKITAEN   95 (158)
T ss_pred             HHHHHHhhhhhh
Confidence            777777544443

>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3

Probab=88.98  E-value=0.065  Score=27.73  Aligned_cols=13  Identities=31%  Similarity=0.756  Sum_probs=10.8

Q ss_pred             EEEEeecCCcccc
Q 028961           44 GVFIFSNHGKLYE   56 (201)
Q Consensus        44 alivfs~~gk~~~   56 (201)
                      .+.+|||.|+++.
T Consensus         4 ~~t~FSp~Grl~Q   16 (23)
T PF10584_consen    4 SITTFSPDGRLFQ   16 (23)
T ss_dssp             STTSBBTTSSBHH
T ss_pred             CceeECCCCeEEe
Confidence            4568999999985

4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....

>cd07429 Cby_like Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins

Probab=88.36  E-value=0.88  Score=32.87  Aligned_cols=22  Identities=32%  Similarity=0.347  Sum_probs=16.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Q 028961          151 NLLRNKEGILTAANKYLQDKME  172 (201)
Q Consensus       151 ~~l~~k~~~l~eeN~~L~~~~~  172 (201)
                      ..|+++.+.|+|||+.|+.|++
T Consensus        75 ~rlkkk~~~LeEENNlLklKie   96 (108)
T cd07429          75 LRLKKKNQQLEEENNLLKLKIE   96 (108)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            3455677888899999888865

Chibby(Cby) is a well-conserved nuclear protein that functions as part of the Wnt/beta-catenin signaling pathway. Specifically, Cby binds directly to beta-catenin by interacting with its central region, which harbors armadillo repeats. Cby-beta-catenin interactions may also involve 14-3-3 proteins. By competing with other binding partners of beta-catenin, the Tcf/Lef transcription factors, Cby inhibits transcriptional activation. Cby has been shown to play a role in adipocyte differentiation. The C-terminal region of Cby appears to contain an alpha-helical coiled-coil motif.

>PRK15422 septal ring assembly protein ZapB; Provisional

Probab=88.19  E-value=4.4  Score=27.46  Aligned_cols=43  Identities=26%  Similarity=0.320  Sum_probs=32.3

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKY  166 (201)
Q Consensus       119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~  166 (201)
                      +|++=|.+||..+..++..|     .++.-+|+.|+.|-..|.+++..
T Consensus         1 MS~EvleqLE~KIqqAvdtI-----~LLqmEieELKekn~~L~~e~~~   43 (79)
T PRK15422          1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQN   43 (79)
T ss_pred             CcHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            57888999999999998877     46667788888776666655443

>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=87.62  E-value=1.1  Score=28.76  Aligned_cols=31  Identities=19%  Similarity=0.147  Sum_probs=26.1

Q ss_pred             hhcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 028961          110 YMFGGGTGTMTLDELLVLEKHLELWIYNIRS  140 (201)
Q Consensus       110 ~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~  140 (201)
                      +..|++|+.||++||..--..|+.-+.++++
T Consensus        12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~   42 (59)
T PF06698_consen   12 HEIGEDLSLLSVEELEERIALLEAEIARLEA   42 (59)
T ss_pred             cccCCCchhcCHHHHHHHHHHHHHHHHHHHH
Confidence            4679999999999999988888877777764

The function of this family is unknown.

>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication

Probab=87.47  E-value=5.7  Score=28.63  Aligned_cols=51  Identities=24%  Similarity=0.332  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961          121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNG  176 (201)
Q Consensus       121 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~  176 (201)
                      ++.+.+||.+|...+..|.+-|.     ++..|-..-..|.-||..|+..+.+...
T Consensus         7 ~~~l~~le~~l~~l~~~~~~LK~-----~~~~l~EEN~~L~~EN~~Lr~~l~~~~~   57 (107)
T PF06156_consen    7 FDRLDQLEQQLGQLLEELEELKK-----QLQELLEENARLRIENEHLRERLEELEQ   57 (107)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45678888888888877766554     4446666778888899999999987644

SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.

>PRK13169 DNA replication intiation control protein YabA; Reviewed

Probab=87.19  E-value=6.1  Score=28.64  Aligned_cols=50  Identities=24%  Similarity=0.338  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961          121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN  175 (201)
Q Consensus       121 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~  175 (201)
                      ++.+.+||++|...+..+.+-|.+     +..|-..-..|.-||..|+..+.+..
T Consensus         7 fd~l~~le~~l~~l~~el~~LK~~-----~~el~EEN~~L~iEN~~Lr~~l~~~~   56 (110)
T PRK13169          7 FDALDDLEQNLGVLLKELGALKKQ-----LAELLEENTALRLENDKLRERLEELE   56 (110)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            466788888888888777766644     44666678889999999999999753

>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.87  E-value=7  Score=25.89  Aligned_cols=46  Identities=26%  Similarity=0.313  Sum_probs=30.9

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQD  169 (201)
Q Consensus       119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~  169 (201)
                      +|++=|..||..+..++..|     .|++-+|+.|+.|...|..|-..++.
T Consensus         1 MSlEv~ekLE~KiqqAvdTI-----~LLQmEieELKEknn~l~~e~q~~q~   46 (79)
T COG3074           1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQNAQH   46 (79)
T ss_pred             CchHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence            57778888888888888766     46666777777666655544443333

>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation

Probab=85.83  E-value=2.3  Score=27.07  Aligned_cols=29  Identities=17%  Similarity=0.387  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          143 MDIMFQEINLLRNKEGILTAANKYLQDKM  171 (201)
Q Consensus       143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~  171 (201)
                      .+.+.++|..|..+...|+.||..|+...
T Consensus        16 VevLK~~I~eL~~~n~~Le~EN~~Lk~~~   44 (59)
T PF01166_consen   16 VEVLKEQIAELEERNSQLEEENNLLKQNA   44 (59)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            35677889999999999999999998764

These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=83.30  E-value=22  Score=28.63  Aligned_cols=77  Identities=8%  Similarity=0.016  Sum_probs=40.7

Q ss_pred             hHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961           89 DAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIR--STKMDIMFQEINLLRNKEGILTAANKY  166 (201)
Q Consensus        89 ~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR--~RK~~ll~~~i~~l~~k~~~l~eeN~~  166 (201)
                      .....+..++++++.++..+..+.++ .    -....++.+.+..+-..|.  ...++-+.+++..++.+...|..+|..
T Consensus        90 ~~~~rlp~le~el~~l~~~l~~~~~~-~----~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~  164 (206)
T PRK10884         90 SLRTRVPDLENQVKTLTDKLNNIDNT-W----NQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDD  164 (206)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHhH-H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566677777777777666555432 1    1333344444333322222  233444456666666666666666666


Q ss_pred             HHHH
Q 028961          167 LQDK  170 (201)
Q Consensus       167 L~~~  170 (201)
                      +.+.
T Consensus       165 ~~~~  168 (206)
T PRK10884        165 KQRT  168 (206)
T ss_pred             HHHH
Confidence            6544

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=82.87  E-value=26  Score=30.09  Aligned_cols=62  Identities=19%  Similarity=0.186  Sum_probs=47.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961          115 GTGTMTLDELLVLEKHLELWIYNIRSTKMDIMF--QEINLLRNKEGILTAANKYLQDKMEENNG  176 (201)
Q Consensus       115 ~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~--~~i~~l~~k~~~l~eeN~~L~~~~~~~~~  176 (201)
                      .++.++.++|..+...|...-..|.++|..+-.  .+.+.+..+...+.++-..+...+.+...
T Consensus       202 e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~  265 (325)
T PF08317_consen  202 EIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEK  265 (325)
T ss_pred             hhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            488999999999999999888888877776644  56666777777777777777777766443

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=80.03  E-value=14  Score=24.16  Aligned_cols=46  Identities=26%  Similarity=0.297  Sum_probs=27.7

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961          123 ELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE  173 (201)
Q Consensus       123 EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~  173 (201)
                      ||+.|+..|+..+.....     +..+-..|+.....+..|+..|..+++.
T Consensus         1 ~L~~Le~kle~Li~~~~~-----L~~EN~~Lr~q~~~~~~ER~~L~ekne~   46 (65)
T TIGR02449         1 ELQALAAQVEHLLEYLER-----LKSENRLLRAQEKTWREERAQLLEKNEQ   46 (65)
T ss_pred             CHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            477788888877654432     3334445555666666666666666553

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	201
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		1e-11
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		2e-11
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		2e-11
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		2e-11
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		4e-11
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		8e-11
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		2e-07
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		2e-06
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		2e-06

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

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 31/79 (39%), Positives = 54/79 (68%), Gaps = 1/79 (1%)
Query: 1  MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
          M R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  +L++ A+ 
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 61 GTMQGLIEKYLKSTQGAQA 79
            M  ++ KY + ++  ++
Sbjct: 61 D-MDRVLLKYTEYSEPHES 78

>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 = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 48/68 (70%), Gaps = 1/68 (1%)
Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGT 62
          R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  KL++ A+   
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD- 60
Query: 63 MQGLIEKY 70
          M  ++ KY
Sbjct: 61 MDKVLLKY 68

>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 = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 48/68 (70%), Gaps = 1/68 (1%)
Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGT 62
          R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  KL++ A+   
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD- 60
Query: 63 MQGLIEKY 70
          M  ++ KY
Sbjct: 61 MDKVLLKY 68

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

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 48/68 (70%), Gaps = 1/68 (1%)
Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGT 62
          R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  KL++ A+   
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD- 60
Query: 63 MQGLIEKY 70
          M  ++ KY
Sbjct: 61 MDKVLLKY 68

>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 = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 31/68 (45%), Positives = 48/68 (70%), Gaps = 1/68 (1%)
Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGT 62
          R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+L DA++ + IF++  KL++ A+   
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD- 60
Query: 63 MQGLIEKY 70
          M  ++ KY
Sbjct: 61 MDKVLLKY 68

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

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 30/78 (38%), Positives = 53/78 (67%), Gaps = 1/78 (1%)
Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG 61
           R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  +L++ A+  
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 62 TMQGLIEKYLKSTQGAQA 79
           M  ++ KY + ++  ++
Sbjct: 61 -MDRVLLKYTEYSEPHES 77

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 25/57 (43%), Positives = 36/57 (63%)
Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59
          R K+++K IEN   R VTF KR+ G++KKA ELS+L    V + + S  G +Y  +T
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST 74

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           R K++M+ I+N + R  TF KR+ G++KKA ELS L    V + + S  G +Y  AT 
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
           R K++M+ I+N + R  TF KR+ G++KKA ELS L    V + + S  G +Y  AT 
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	201
1egw_A	77	MADS box transcription enhancer factor 2, polypept	6e-35
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	1e-34
1hbx_A	92	SRF, serum response factor; gene regulation, trans	4e-34
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	9e-34
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	1e-33

>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 =  117 bits (295), Expect = 6e-35
 Identities = 31/78 (39%), Positives = 52/78 (66%), Gaps = 1/78 (1%)

Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG 61
           R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  KL++ A + 
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-ST 59

Query: 62 TMQGLIEKYLKSTQGAQA 79
           M  ++ KY +  +  ++
Sbjct: 60 DMDKVLLKYTEYNEPHES 77

>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 =  117 bits (294), Expect = 1e-34
 Identities = 31/78 (39%), Positives = 52/78 (66%), Gaps = 1/78 (1%)

Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG 61
           R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  KL++ A+  
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST- 59

Query: 62 TMQGLIEKYLKSTQGAQA 79
           M  ++ KY +  +  ++
Sbjct: 60 DMDKVLLKYTEYNEPHES 77

>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 =  115 bits (290), Expect = 4e-34
 Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 1/74 (1%)

Query: 1  MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
            R K++M+ I+N + R  TF KR+ G++KKA ELS L    V + + S  G +Y  AT 
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 GTMQGLIEKYLKST 74
            +Q +I       
Sbjct: 70 -KLQPMITSETGKA 82

>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 =  115 bits (289), Expect = 9e-34
 Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 1/74 (1%)

Query: 1  MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
            R K++M+ I+N + R  TF KR+ G++KKA ELS L    V + + S  G +Y  AT 
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 GTMQGLIEKYLKST 74
            +Q +I       
Sbjct: 69 -KLQPMITSETGKA 81

>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 =  114 bits (288), Expect = 1e-33
 Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 1/74 (1%)

Query: 1  MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN 60
            R K+++K IEN   R VTF KR+ G++KKA ELS+L    V + + S  G +Y  +T 
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61 GTMQGLIEKYLKST 74
             + ++ +     
Sbjct: 76 -KFEPIVTQQEGRN 88

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	201
1egw_A	77	MADS box transcription enhancer factor 2, polypept	100.0
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	100.0
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	100.0
1hbx_A	92	SRF, serum response factor; gene regulation, trans	100.0
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	100.0
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	87.17
2w6a_A	63	ARF GTPase-activating protein GIT1; PIX, zinc, sig	84.73
1dip_A	78	Delta-sleep-inducing peptide immunoreactive peptid	82.38
3s9g_A	104	Protein hexim1; cyclin T-binding domain (TBD), cyc	81.4
2oqq_A	42	Transcription factor HY5; homodimer leucine zipper	80.59

>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=9.8e-40  Score=220.78  Aligned_cols=74  Identities=42%  Similarity=0.716  Sum_probs=69.4

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG   76 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~   76 (201)
                      ||+||+|++|+|.++|||||+|||+||||||+||||||||+||||||||+|++|+|+ +++|+.||+||+..+++
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~-s~~~~~il~ry~~~~~~   74 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-STDMDKVLLKYTEYNEP   74 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEE-SSCHHHHHHHHHHC---
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCC-CCCHHHHHHHHHhccCC
Confidence            899999999999999999999999999999999999999999999999999999999 57899999999987653

>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=3.8e-39  Score=223.04  Aligned_cols=76  Identities=41%  Similarity=0.704  Sum_probs=72.5

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCCC
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQ   78 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~   78 (201)
                      ||+||+|++|+|+++|||||+|||+||||||+||||||||+||||||||+|++|+|+| ++|..||+||+..++...
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s-~~~~~il~rY~~~~~~~~   76 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-TDMDKVLLKYTEYNEPHE   76 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEES-SCHHHHHHHHHHCCSCCC
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCC-CCHHHHHHHHHhcCcccc
Confidence            8999999999999999999999999999999999999999999999999999999995 899999999999877543

>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=1.6e-37  Score=218.44  Aligned_cols=71  Identities=34%  Similarity=0.549  Sum_probs=68.8

Q ss_pred             CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHh
Q 028961            1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLK   72 (201)
Q Consensus         1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~   72 (201)
                      |||+||+|++|+|.++|||||+|||+||||||+||||||||+||||||||+|++|+|+ +|++..|+++|..
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~-sps~~~il~r~~G   86 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFS-TPKFEPIVTQQEG   86 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEE-CTTTTHHHHSHHH
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceec-CCCHHHHHHHhhC
Confidence            8999999999999999999999999999999999999999999999999999999999 5799999999964

>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-37  Score=215.18  Aligned_cols=70  Identities=36%  Similarity=0.541  Sum_probs=67.8

Q ss_pred             CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHH
Q 028961            1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYL   71 (201)
Q Consensus         1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~   71 (201)
                      |||+||+|++|+|.++|||||+|||+||||||+||||||||+||||||||+|++|+|+ +|+|..||++|.
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~-s~~~~~~i~~~~   79 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-TRKLQPMITSET   79 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEE-CGGGGGGTSSHH
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEec-CCCHHHHHhhhc
Confidence            9999999999999999999999999999999999999999999999999999999999 589999999774

>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=8.8e-37  Score=216.00  Aligned_cols=69  Identities=36%  Similarity=0.555  Sum_probs=66.9

Q ss_pred             CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHH
Q 028961            1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKY   70 (201)
Q Consensus         1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY   70 (201)
                      |||+||+|++|+|.++|+|||+|||+||||||+||||||||+||||||||+|++|+|+ +++|..||+++
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~-s~~~~~vi~~~   77 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-TRKLQPMITSE   77 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEE-CGGGGGGTSSH
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeec-CccHHHHHHhh
Confidence            9999999999999999999999999999999999999999999999999999999999 67999999873

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=87.17  E-value=4.8  Score=26.58  Aligned_cols=43  Identities=26%  Similarity=0.320  Sum_probs=32.2

Q ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKY  166 (201)
Q Consensus       119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~  166 (201)
                      +|++=|.+||..+..++..|     .++..+|+.|+.+-..|.++|..
T Consensus         3 MS~ElleqLE~KIq~avdtI-----~lLqmEieELKekN~~L~~e~~e   45 (81)
T 2jee_A            3 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQN   45 (81)
T ss_dssp             CCHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence            68888999999999999776     46666777777776665555544

>2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus}

Probab=84.73  E-value=5.1  Score=24.68  Aligned_cols=53  Identities=26%  Similarity=0.276  Sum_probs=40.8

Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          117 GTMTLDELLVLEKHLELWIYNIRS--TKMDIMFQEINLLRNKEGILTAANKYLQD  169 (201)
Q Consensus       117 ~~Ls~~EL~~LE~~Le~~l~~IR~--RK~~ll~~~i~~l~~k~~~l~eeN~~L~~  169 (201)
                      +..++.|.-++...|..+=.+|..  +-+.-+++++..++++.+.|+.||..|+.
T Consensus         8 gpit~qeylevK~ALaaSeAkiQQLmkVN~~ls~Elr~mQ~~lq~LQsen~~Lr~   62 (63)
T 2w6a_A            8 GAVTLQEYLELKKALATSEAKVQQLMKVNSSLSDELRKLQREIHKLQAENLQLRQ   62 (63)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CcchHHHHHHHHHHHHhhHHHHHHHHHHhHhhhHHHHHHHHHHHHHHhhhhhhcc
Confidence            457899988888888766655542  23445678888899999999999999874

>1dip_A Delta-sleep-inducing peptide immunoreactive peptide; structure, leucine zipper, PIG, acetylation; NMR {Sus scrofa} SCOP: h.1.12.1

Probab=82.38  E-value=2.3  Score=27.43  Aligned_cols=29  Identities=24%  Similarity=0.308  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          144 DIMFQEINLLRNKEGILTAANKYLQDKME  172 (201)
Q Consensus       144 ~ll~~~i~~l~~k~~~l~eeN~~L~~~~~  172 (201)
                      +.+.++|..|..+...|+.||..|+.-..
T Consensus        18 evLKe~I~EL~e~~~qLE~EN~~Lk~~as   46 (78)
T 1dip_A           18 EILKEQIRELVEKNSQLERENTLLKTLAS   46 (78)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            56778999999999999999999987654

>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A

Probab=81.40  E-value=6.7  Score=26.75  Aligned_cols=57  Identities=21%  Similarity=0.105  Sum_probs=33.2

Q ss_pred             CCCCCCHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          115 GTGTMTLDELLVLEKHLELWIYNI-------RSTKMDIMFQEINLLRNKEGILTAANKYLQDKME  172 (201)
Q Consensus       115 ~L~~Ls~~EL~~LE~~Le~~l~~I-------R~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~  172 (201)
                      .|.++|-.||.+=--.|+..+.++       |.. ..-...+|..|..+...|..||..|...-+
T Consensus        26 rL~~mSKqELIqEYl~LE~~~s~le~e~~rlr~~-~~~~~~~v~eLe~everL~~ENq~L~~e~~   89 (104)
T 3s9g_A           26 SLQNMSKQELIKEYLELEKSLSRMEDENNRLRLE-SKRLDARVRELELELDRLRAENLQLLTENE   89 (104)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345566666554444444444333       211 111235778888888888888888887644

>2oqq_A Transcription factor HY5; homodimer leucine zipper; 2.00A {Arabidopsis thaliana}

Probab=80.59  E-value=6  Score=22.56  Aligned_cols=27  Identities=15%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961          146 MFQEINLLRNKEGILTAANKYLQDKME  172 (201)
Q Consensus       146 l~~~i~~l~~k~~~l~eeN~~L~~~~~  172 (201)
                      +......|..+...|+.||..|++.+.
T Consensus        15 le~~naeLEervstLq~EN~mLRqvl~   41 (42)
T 2oqq_A           15 LENKNSELEERLSTLQNENQMLRHILK   41 (42)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHHHHHHHhc
Confidence            455667888889999999999998653

---

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	201
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	3e-29
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	6e-29
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	3e-28

>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 =  101 bits (254), Expect = 3e-29
 Identities = 31/70 (44%), Positives = 49/70 (70%), Gaps = 1/70 (1%)

Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGT 62
          R K+Q+ RI +  +RQVTF KR+ GL+KKA ELS+LCD ++ + IF++  KL++ A+   
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAST-D 60

Query: 63 MQGLIEKYLK 72
          M  ++ KY +
Sbjct: 61 MDKVLLKYTE 70

>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 =  101 bits (253), Expect = 6e-29
 Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 1/71 (1%)

Query: 2  ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG 61
           R K+++K IEN   R VTF KR+ G++KKA ELS+L    V + + S  G +Y  +T  
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP- 61

Query: 62 TMQGLIEKYLK 72
            + ++ +   
Sbjct: 62 KFEPIVTQQEG 72

>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 = 99.4 bits (248), Expect = 3e-28
 Identities = 26/68 (38%), Positives = 39/68 (57%), Gaps = 1/68 (1%)

Query: 3  RGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGT 62
          R K++M+ I+N + R  TF KR+ G++KKA ELS L    V + + S  G +Y  AT   
Sbjct: 4  RVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR-K 62

Query: 63 MQGLIEKY 70
          +Q +I   
Sbjct: 63 LQPMITSE 70

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	201
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	100.0
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	100.0
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	100.0

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

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

Probab=100.00  E-value=3.9e-39  Score=212.59  Aligned_cols=71  Identities=44%  Similarity=0.743  Sum_probs=68.7

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhh
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKS   73 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~   73 (201)
                      ||+||+|++|+|+.+|+|||+|||+||||||+||||||||+||+|||||+|++|+|+ +|++++|++||..+
T Consensus         1 GR~Ki~ik~Ie~~~~R~vTFsKRk~GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~-s~~~~~vl~ry~~~   71 (71)
T d1egwa_           1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-STDMDKVLLKYTEY   71 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEE-SSCHHHHHHHHHHC
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEee-CCCHHHHHHHHhcC
Confidence            899999999999999999999999999999999999999999999999999999999 57999999999863

>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=4.4e-37  Score=207.79  Aligned_cols=71  Identities=35%  Similarity=0.528  Sum_probs=68.9

Q ss_pred             CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHh
Q 028961            1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLK   72 (201)
Q Consensus         1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~   72 (201)
                      +||+||+|++|+|+.+|+|||+|||.||||||+||||||||+||+|||||+|++|+|+ +|+++.|+++|..
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~-s~~~~~vi~~~~~   72 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-TRKLQPMITSETG   72 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEE-CGGGHHHHSSHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEee-CCCHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999999 6899999999975

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

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

Probab=100.00  E-value=1.2e-36  Score=207.05  Aligned_cols=73  Identities=33%  Similarity=0.535  Sum_probs=69.8

Q ss_pred             CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhcc
Q 028961            2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQ   75 (201)
Q Consensus         2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~   75 (201)
                      ||+||+|++|+|+.+|+|||+|||.||||||+||||||||+||||||||+|++|+|+ +|+|..||+||...+.
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            899999999999999999999999999999999999999999999999999999999 6899999999986543