Citrus Sinensis ID: 029592

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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-
Protein Sequence
MTGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAPTEGSSVDPNGHEKEPGN
Secondary Structure (PSIPRED)
ccccccccccEEccccccccccccccccccccccHHHHHHHccccEEEEEEcccccEEEcccccHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccEEEEEEEEcccccEEcHHHHHHHHHHHHHHHHHHcccEEEEEEEccccEEEEEccccHHHHHHHHHHccccccccccHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccc
Coil and Loop (DISEMBL)
MTGMGRKKTQMKmnqgndarqvvppirrsglfkkFSEVTTLCALETtffiffpagkaisfahpgdepvitnlartgnpdpgsyqrtlADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRhlwetpvdelNLEELLTLNAMIEDLQEKLQKHLAErsaqtdaptegssvdpnghekepgn
Flexible Loop (DISEMBL)
mtgmgrkktqmkmnqgndarqvvppiRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAErsaqtdaptegssvdpnghekepgn
Low Complexity Region (SEG)
MTGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDelnleelltlnAMIEDLQEKLQKHLAERSAQTDAPTEGSSVDPNGHEKEPGN
Disordered region (IsUnstruct)
*************************IRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITN*****************************YHDL*********************QQSYCRHLWETPVDELNLEELLTLNAMIED************************************
Disordered Region (DISOPRED)
**GMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLART***********************KEYHDLLE**********************YCRHLWETPVDELNLEELLTLNAMIEDL***********************************
Disordered Region (DISEMBL)
*****************DARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQ******************************
Disordered Region (DISPRO)
*****RKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAER************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPGSYQRTxxxxxxxxxxxxxxxxxxxxxxxxxxxxGKILQKRKMMNQQSYCRHLWETPVDELNLEExxxxxxxxxxxxxxxxxxxxxxxxxxxxPTEGSSVDPNGHEKEPGN
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	191	2.2.26 [Sep-21-2011]
Q4PSU4	264	Agamous-like MADS-box pro	yes	no	0.884	0.640	0.305	3e-17
Q9FKK2	299	Agamous-like MADS-box pro	no	no	0.874	0.558	0.348	3e-16
Q9XJ60	230	MADS-box transcription fa	yes	no	0.685	0.569	0.304	8e-08
O64645	214	MADS-box protein SOC1 OS=	no	no	0.560	0.5	0.368	1e-07
Q40702	209	MADS-box transcription fa	no	no	0.785	0.717	0.305	6e-07
Q6VAM4	159	MADS-box transcription fa	no	no	0.685	0.823	0.291	8e-07
Q38847	268	Agamous-like MADS-box pro	no	no	0.434	0.309	0.337	9e-07
Q07474	212	Floral homeotic protein P	N/A	no	0.643	0.580	0.278	2e-06
O82794	220	MADS-box protein AGL24 OS	no	no	0.654	0.568	0.272	3e-06
P29385	246	Agamous-like MADS-box pro	no	no	0.680	0.528	0.274	3e-06

>sp|Q4PSU4|AGL61_ARATH Agamous-like MADS-box protein AGL61 OS=Arabidopsis thaliana GN=AGL61 PE=1 SV=1

 Score = 88.6 bits (218), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/170 (30%), Positives = 88/170 (51%), Gaps = 1/170 (0%)

Query: 3   GMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAH 62
            +GR+K  M   +    RQV    RR+GLFKK SE+ TLC  E    +F PA K  SF H
Sbjct: 61  SIGRQKIPMVKIKKESHRQVTFSKRRAGLFKKASELCTLCGAEIGIIVFSPAKKPFSFGH 120

Query: 63  PGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRK 122
           P  E V+       N      Q+      A+ + LN +   +L ++E EKK+G+ +++ +
Sbjct: 121 PSVESVLDRYVSRNNMSLAQSQQLQGSPAASCE-LNMQLTHILSEVEEEKKKGQAMEEMR 179

Query: 123 MMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTD 172
             + +    + WE PV+E+N+ +L  +   +E+L++ +  ++A  +   D
Sbjct: 180 KESVRRSMINWWEKPVEEMNMVQLQEMKYALEELRKTVVTNMASFNEAKD 229

Probable transcription factor. Controls central cell differentiation during female gametophyte development.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKK2|AGL62_ARATH Agamous-like MADS-box protein AGL62 OS=Arabidopsis thaliana GN=AGL62 PE=1 SV=1

 Score = 85.1 bits (209), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 61/175 (34%), Positives = 82/175 (46%), Gaps = 8/175 (4%)

Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GR+K +M   +     QV    RRSGLFKK SE+ TLC  E    +F P  K  SF HP 
Sbjct: 7   GRQKIEMVKMKNESNLQVTFSKRRSGLFKKASELCTLCGAEVAIVVFSPGRKVFSFGHPN 66

Query: 65  DEPVITNLARTGNPDPGSYQRTLADHE----ATVQALNKEYHDLLEQLEAEKKRGKILQK 120
            + VI       NP P      +   E    + VQ LN     +L QLE EKK+   L  
Sbjct: 67  VDSVIDRFI-NNNPLPPHQHNNMQLRETRRNSIVQDLNNHLTQVLSQLETEKKKYDEL-- 123

Query: 121 RKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAPT 175
           +K+  +     + WE PV+EL L +L      +E+L+ K+    A R  Q + P 
Sbjct: 124 KKIREKTKALGNWWEDPVEELALSQLEGFKGNLENLK-KVVTVEASRFFQANVPN 177

Probable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 57.0 bits (136), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 46/151 (30%), Positives = 66/151 (43%), Gaps = 20/151 (13%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           M R KTQMK  +   +RQV    RR+GL KK  E++ LC  E    +F P GK   FA  
Sbjct: 1   MVRGKTQMKRIENPTSRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSPRGKLYEFASA 60

Query: 64  GDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
             +  I         + G                NK     +EQ++A+      L K K+
Sbjct: 61  STQKTIERYRTYTKENIG----------------NKTVQQDIEQVKAD---ADGLAK-KL 100

Query: 124 MNQQSYCRHLWETPVDELNLEELLTLNAMIE 154
              ++Y R L    +DE ++EEL +L   +E
Sbjct: 101 EALETYKRKLLGEKLDECSIEELHSLEVKLE 131

Probable transcription factor active in flowering time control. May control internode elongation and promote floral transition phase. May act upstream of the floral regulators MADS1, MADS14, MADS15 and MADS18 in the floral induction pathway.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 56.2 bits (134), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 42/114 (36%), Positives = 55/114 (48%), Gaps = 7/114 (6%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           M R KTQMK  +   +RQV    RR+GL KK  E++ LC  E +  IF P GK   FA  
Sbjct: 1   MVRGKTQMKRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVSLIIFSPKGKLYEFASS 60

Query: 64  GDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDL---LEQLEAEKKR 114
             +  I    R    D  S   T    E  +Q L  E  ++   +EQLEA K++
Sbjct: 61  NMQDTIDRYLR-HTKDRVS---TKPVSEENMQHLKYEAANMMKKIEQLEASKRK 110

Transcription activator active in flowering time control. May integrate signals from the photoperiod, vernalization and autonomous floral induction pathways. Can modulates class B and C homeotic genes expression. When associated with AGL24, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40702|MADS2_ORYSJ MADS-box transcription factor 2 OS=Oryza sativa subsp. japonica GN=MADS2 PE=2 SV=1

 Score = 53.9 bits (128), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 54/177 (30%), Positives = 78/177 (44%), Gaps = 27/177 (15%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           MGR K ++K  + +  RQV    RRSG+ KK  E++ LC  E    IF  AGK   +  P
Sbjct: 1   MGRGKIEIKRIENSTNRQVTFSKRRSGILKKAREISVLCDAEVGVVIFSSAGKLYDYCSP 60

Query: 64  GDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
                 T+L+R       +  + L D          E H   + L AE  R     K++ 
Sbjct: 61  K-----TSLSRILEKYQTNSGKILWD----------EKH---KSLSAEIDR----IKKEN 98

Query: 124 MNQQSYCRHLWETPVDELNLEELL----TLNAMIEDLQEKLQKHLAERSAQTDAPTE 176
            N Q   RHL    ++ L  +EL+     L+  I ++ +KL  H  ER  +TD   E
Sbjct: 99  DNMQIELRHLKGEDLNSLQPKELIMIEEALDNGIVNVNDKLMDHW-ERHVRTDKMLE 154

Probable transcription factor involved in the development of floral organs. B-class protein required for normal development of lodicules (whorl 2).

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6VAM4|MAD23_ORYSJ MADS-box transcription factor 23 OS=Oryza sativa subsp. japonica GN=MADS23 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 63/151 (41%), Gaps = 20/151 (13%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           MGR K ++K      +RQV    RRSGLFKK  E++ LC  E    +F    +   FA  
Sbjct: 1   MGRGKIEIKRIDNATSRQVTFSKRRSGLFKKARELSILCDAEVGLLVFSSTSRLYDFASS 60

Query: 64  GDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
             + +I     T   DP              Q +N      L Q EA   R      +++
Sbjct: 61  SMKSIIERYNET-KEDPH-------------QTMNASSEAKLWQQEAASLR------QQL 100

Query: 124 MNQQSYCRHLWETPVDELNLEELLTLNAMIE 154
            N Q Y R L    +  L++E+L  L + +E
Sbjct: 101 HNLQEYHRQLLGQQLSGLDVEDLQNLESKLE 131

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q38847|AGL15_ARATH Agamous-like MADS-box protein AGL15 OS=Arabidopsis thaliana GN=AGL15 PE=1 SV=1

 Score = 53.5 bits (127), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 3/86 (3%)

Query: 4  MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
          MGR K ++K  +  ++RQV    RRSGL KK  E++ LC  E    +F  +GK   ++  
Sbjct: 1  MGRGKIEIKRIENANSRQVTFSKRRSGLLKKARELSVLCDAEVAVIVFSKSGKLFEYSST 60

Query: 64 GDEPVITNLARTGNPDPGSYQRTLAD 89
          G   +   L+R GN    S  +   D
Sbjct: 61 G---MKQTLSRYGNHQSSSASKAEED 83

Transcription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Acts as both an activator and a repressor of transcription. Binds DNA in a sequence-specific manner in large CArG motif 5'-CC (A/T)8 GG-3'. Participates probably in the regulation of programs active during the early stages of embryo development. Prevents premature perianth senescence and abscission, fruits development and seed desiccation. Stimulates the expression of at least DTA4, LEC2, FUS3, ABI3, AT4G38680/CSP2 and GRP2B/CSP4. Can enhance somatic embryo development in vitro.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 52.8 bits (125), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/147 (27%), Positives = 66/147 (44%), Gaps = 24/147 (16%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           MGR K ++K  + +  RQV    RR+G+ KK  E+T LC  + +  IF  +GK   +  P
Sbjct: 1   MGRGKIEIKRIENSSNRQVTYSKRRNGIIKKAKEITVLCDAKVSLIIFGNSGKMHEYCSP 60

Query: 64  GDEPVITNLARTGNPDP-GSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRK 122
                      T  PD    YQ+T     +  +  + ++ +L  +++  KK         
Sbjct: 61  S----------TTLPDMLDGYQKT-----SGRRLWDAKHENLSNEIDRIKKEND------ 99

Query: 123 MMNQQSYCRHLWETPVDELNLEELLTL 149
             N Q   RHL    ++ LN +EL+ L
Sbjct: 100 --NMQVKLRHLKGEDINSLNHKELMVL 124

Transcription factor involved in the genetic control of flower development.

Petunia hybrida (taxid: 4102)

>sp|O82794|AGL24_ARATH MADS-box protein AGL24 OS=Arabidopsis thaliana GN=AGL24 PE=1 SV=1

 Score = 51.6 bits (122), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 43/158 (27%), Positives = 65/158 (41%), Gaps = 33/158 (20%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           M R+K ++K      ARQV    RR G+FKK  E++ LC  +    IF   GK   F+  
Sbjct: 1   MAREKIRIKKIDNITARQVTFSKRRRGIFKKADELSVLCDADVALIIFSATGKLFEFSSS 60

Query: 64  GDEPVI-------TNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGK 116
               ++       +N+ +  +P P ++ R        +  L+KE  D  +QL        
Sbjct: 61  RMRDILGRYSLHASNINKLMDP-PSTHLRL---ENCNLSRLSKEVEDKTKQL-------- 108

Query: 117 ILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIE 154
                         R L    +D LNLEEL  L  ++E
Sbjct: 109 --------------RKLRGEDLDGLNLEELQRLEKLLE 132

Transcription activator that mediates floral transition in response to vernalization. Promotes inflorescence fate in apical meristems. Acts in a dosage-dependent manner. Probably involved in the transduction of RLK-mediated signaling (e.g. IMK3 pathway). Together with AP1 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. When associated with SOC1, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development. Confers inflorescence characteristics to floral primordia and early flowering.

Arabidopsis thaliana (taxid: 3702)

>sp|P29385|AGL5_ARATH Agamous-like MADS-box protein AGL5 OS=Arabidopsis thaliana GN=AGL5 PE=1 SV=1

 Score = 51.6 bits (122), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 42/153 (27%), Positives = 68/153 (44%), Gaps = 23/153 (15%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           +GR K ++K  +    RQV    RR+GL KK  E++ LC  E    IF   G+   +A+ 
Sbjct: 16  IGRGKIEIKRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYANN 75

Query: 64  GDEPVITNLARTGNPDPGSYQRTLAD--HEATVQALNKEYHDLLEQLEAEKKRGKILQKR 121
                I             Y++  +D  +  T+   N +Y+    Q EA K R      R
Sbjct: 76  SVRGTIE-----------RYKKACSDAVNPPTITEANTQYY----QQEASKLR------R 114

Query: 122 KMMNQQSYCRHLWETPVDELNLEELLTLNAMIE 154
           ++ + Q+  RH+    +  LN +EL  L + +E
Sbjct: 115 QIRDIQNLNRHILGESLGSLNFKELKNLESRLE 147

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

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	191
255582411	197	mads box protein, putative [Ricinus comm	0.884	0.857	0.473	4e-36
255557369	220	mads box protein, putative [Ricinus comm	0.837	0.727	0.371	2e-23
224077620	194	predicted protein [Populus trichocarpa]	0.832	0.819	0.368	3e-23
357462355	207	Agamous-like MADS-box protein AGL62 [Med	0.926	0.855	0.384	2e-22
297745700	203	unnamed protein product [Vitis vinifera]	0.874	0.822	0.393	2e-22
359496666	238	PREDICTED: agamous-like MADS-box protein	0.874	0.701	0.387	3e-22
225429169	212	PREDICTED: agamous-like MADS-box protein	0.869	0.783	0.383	5e-22
255579749	183	mads box protein, putative [Ricinus comm	0.827	0.863	0.436	5e-22
297736394	224	unnamed protein product [Vitis vinifera]	0.811	0.691	0.403	5e-22
356534256	226	PREDICTED: agamous-like MADS-box protein	0.921	0.778	0.361	4e-21

>gi|255582411|ref|XP_002531994.1| mads box protein, putative [Ricinus communis] gi|223528353|gb|EEF30393.1| mads box protein, putative [Ricinus communis]

 Score =  156 bits (395), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 88/186 (47%), Positives = 117/186 (62%), Gaps = 17/186 (9%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           MGRKKTQM + QG  ARQV    RR+G+FKK SE+ TLCA+E    IF P GKA +F HP
Sbjct: 1   MGRKKTQMSLIQGESARQVSFSKRRTGIFKKASELCTLCAVEAAVVIFSPGGKAFTFGHP 60

Query: 64  GDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
             E ++  LA   NPD G +   +A+HEAT++ LNK+Y DLLEQL+AE+KRG+ L  ++M
Sbjct: 61  CFEAIMKKLADPENPDNG-FAEHMAEHEATLRDLNKQYSDLLEQLKAEEKRGEEL--KQM 117

Query: 124 MNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAPTEGSS---- 179
           +        L + P+D+LNL+ELLTL A +E  +  L K L  R  Q   P+  SS    
Sbjct: 118 L--------LLDKPIDDLNLDELLTLQAFMERAKADLLKRLGARPVQNSDPSASSSGNST 169

Query: 180 --VDPN 183
             +DP+
Sbjct: 170 EAIDPS 175

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557369|ref|XP_002519715.1| mads box protein, putative [Ricinus communis] gi|223541132|gb|EEF42688.1| mads box protein, putative [Ricinus communis]

 Score =  114 bits (284), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 61/164 (37%), Positives = 93/164 (56%), Gaps = 4/164 (2%)

Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GR+K  MK  +  + R +    RRSG++KK SE+ TLC  E    +F PAGK  SF HP 
Sbjct: 9   GRQKITMKRIENEEDRLITFSKRRSGIYKKASELITLCGAEVGILVFSPAGKPFSFGHPS 68

Query: 65  DEPVITN-LARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
            E +    L +   P   ++    A  +  +  LNK+Y++LL +LE+EK+RG +L+K   
Sbjct: 69  LESIANRFLGKNVPPSDNTHPLVEAHRKMRINELNKQYNELLNRLESEKERGSMLKKTI- 127

Query: 124 MNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAER 167
             +   C + WE P+D+LN++EL  + AM E+L   L K + E+
Sbjct: 128 --RGKGCNNWWEAPIDDLNMQELEQIYAMFEELHSTLCKKMNEK 169

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077620|ref|XP_002305331.1| predicted protein [Populus trichocarpa] gi|222848295|gb|EEE85842.1| predicted protein [Populus trichocarpa]

 Score =  114 bits (284), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 93/163 (57%), Gaps = 4/163 (2%)

Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GR+K  +K  +  D R +    RRSG++KK SE+ TLC  E    +F PAGKA SF HP 
Sbjct: 8   GRQKIAIKRIENEDDRLITFSKRRSGIYKKASELVTLCGAEVAVLVFSPAGKAFSFGHPS 67

Query: 65  DEPVITN-LARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
            E V    L +   P+  ++    A  +  +  LN+++++LL ++EAE+ RGK+L   K 
Sbjct: 68  IESVANRFLGQNIAPNDNTHPLVEAHRKVRINELNQQHNELLSEMEAERDRGKVL---KE 124

Query: 124 MNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAE 166
              +   +  WE P+DEL+L+EL  +N M+E+  + L K + E
Sbjct: 125 GTSEKSSQGWWEAPIDELSLQELKQMNVMLEEFHKNLHKTINE 167

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357462355|ref|XP_003601459.1| Agamous-like MADS-box protein AGL62 [Medicago truncatula] gi|355490507|gb|AES71710.1| Agamous-like MADS-box protein AGL62 [Medicago truncatula]

 Score =  111 bits (277), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 70/182 (38%), Positives = 96/182 (52%), Gaps = 5/182 (2%)

Query: 4   MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           +GR+K  ++        QV    RRSGLFKK SE+ TLC +E    +F PA KA SF HP
Sbjct: 8   LGRQKIPIEKIPKKSHLQVTFSKRRSGLFKKASELCTLCGVEIAIVVFSPANKAFSFGHP 67

Query: 64  GDEPVITN-LARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRK 122
             E +I   L+R    +  S+Q   A   A V+ LN +   LL  LE EKK+G+ +   +
Sbjct: 68  EVESIIDRYLSRNPPQESSSHQLVEAHRNANVRDLNVQLTQLLSHLEIEKKQGEEIDHVR 127

Query: 123 MMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAPTEGSSVDP 182
              Q  +    WE+PVDEL L ELL L   IEDL++ L K +A +     +    S++  
Sbjct: 128 KARQMQF---WWESPVDELGLNELLQLKVSIEDLRKNLGK-IASKCMMEQSNVSSSNIGA 183

Query: 183 NG 184
           NG
Sbjct: 184 NG 185

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297745700|emb|CBI41022.3| unnamed protein product [Vitis vinifera]

 Score =  110 bits (276), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 92/173 (53%), Gaps = 6/173 (3%)

Query: 2   TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
           T  GRKK +MK+   +DARQV    RRSGLFKK SE+ TLC  ET    F P GKA SF 
Sbjct: 5   TNAGRKKIEMKLISASDARQVTFSKRRSGLFKKASELATLCDSETAVIAFSPGGKAFSFG 64

Query: 62  HPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKR 121
           HP  E VI              Q    D+   ++ L + Y+ LL+QLE EKKRG+ +   
Sbjct: 65  HPSVEAVINRYDGQSQALDAGDQSVQTDN---LRELIQRYNALLDQLEVEKKRGEAI--- 118

Query: 122 KMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAP 174
           K M  +   +    TPV+ LN  +L  L  ++EDL++++ +   E S +   P
Sbjct: 119 KRMGMEMKAKTWLLTPVENLNPTQLQILKVLMEDLKKRVYQQREELSKKARTP 171

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359496666|ref|XP_002263270.2| PREDICTED: agamous-like MADS-box protein AGL61 [Vitis vinifera]

 Score =  110 bits (275), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 67/173 (38%), Positives = 93/173 (53%), Gaps = 6/173 (3%)

Query: 2   TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
           T  GRKK +MK+   +DARQV    RRSGLFKK SE+ TLC  ET    F P GKA SF 
Sbjct: 40  TNAGRKKIEMKLISASDARQVTFSKRRSGLFKKASELATLCDSETAVIAFSPGGKAFSFG 99

Query: 62  HPGDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKR 121
           HP  E VI              Q    D+   ++ L + Y+ LL+QLE EKKRG+ +++ 
Sbjct: 100 HPSVEAVINRYDGQSQALDAGDQSVQTDN---LRELIQRYNALLDQLEVEKKRGEAIKR- 155

Query: 122 KMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAP 174
             M  +   +    TPV+ LN  +L  L  ++EDL++++ +   E S +   P
Sbjct: 156 --MGMEMKAKTWLLTPVENLNPTQLQILKVLMEDLKKRVYQQREELSKKARTP 206

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429169|ref|XP_002271290.1| PREDICTED: agamous-like MADS-box protein AGL62-like [Vitis vinifera]

 Score =  109 bits (273), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 66/172 (38%), Positives = 89/172 (51%), Gaps = 6/172 (3%)

Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GR+K +M         QV    RRSGLFKK SE+ TLC  E    +F P  K  SF HPG
Sbjct: 9   GRQKVEMTKMTKESNLQVTFSKRRSGLFKKASELCTLCGAEIAIIVFSPGKKMYSFGHPG 68

Query: 65  DEPVITNLARTGNPDP--GSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRK 122
            E +I     TGNP P  G+ Q   A   A V+ LN +   +L QLE EKKRG+ L + K
Sbjct: 69  VESIIDRFL-TGNPLPHSGALQLFEAHRSANVRDLNMQLTQVLNQLEGEKKRGEALTQMK 127

Query: 123 MMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAP 174
             +Q  Y    W  P++EL+ E+L  L   +E+L+  ++ H  +   +   P
Sbjct: 128 KASQAQYW---WAAPIEELSFEQLELLKVSLENLKRNVEMHADKHMMEASNP 176

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255579749|ref|XP_002530713.1| mads box protein, putative [Ricinus communis] gi|223529727|gb|EEF31667.1| mads box protein, putative [Ricinus communis]

 Score =  109 bits (273), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 72/165 (43%), Positives = 91/165 (55%), Gaps = 7/165 (4%)

Query: 2   TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
             +GR+K  ++        QV    RR+GLFKK SE+ TLC +E    +F PAGKA SF 
Sbjct: 4   CSLGRQKIAIEKISKKSHLQVTFSKRRAGLFKKASELCTLCGVEIAIIVFSPAGKAFSFG 63

Query: 62  HPGDEPVITN-LARTGNP-DPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQ 119
           HP    V+   LAR  NP    S Q   AD  A V+ LN +    L QLEAEKKRG+ L 
Sbjct: 64  HPEVGSVLKRFLAR--NPLGSISCQFIQADRNANVRELNVKLIHALNQLEAEKKRGEALN 121

Query: 120 KRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHL 164
            R   + QS C   WE PVDEL L+EL  L   +EDL++ + K +
Sbjct: 122 -RMRKSSQSMC--WWEAPVDELGLQELEQLRYALEDLKKNVAKEI 163

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736394|emb|CBI25117.3| unnamed protein product [Vitis vinifera]

 Score =  109 bits (273), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 65/161 (40%), Positives = 86/161 (53%), Gaps = 6/161 (3%)

Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GR+K +M         QV    RRSGLFKK SE+ TLC  E    +F P  K  SF HPG
Sbjct: 9   GRQKVEMTKMTKESNLQVTFSKRRSGLFKKASELCTLCGAEIAIIVFSPGKKMYSFGHPG 68

Query: 65  DEPVITNLARTGNPDP--GSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRK 122
            E +I     TGNP P  G+ Q   A   A V+ LN +   +L QLE EKKRG+ L + K
Sbjct: 69  VESIIDRFL-TGNPLPHSGALQLFEAHRSANVRDLNMQLTQVLNQLEGEKKRGEALTQMK 127

Query: 123 MMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKH 163
             +Q  Y    W  P++EL+ E+L  L   +E+L+  ++ H
Sbjct: 128 KASQAQYW---WAAPIEELSFEQLELLKVSLENLKRNVEMH 165

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356534256|ref|XP_003535673.1| PREDICTED: agamous-like MADS-box protein AGL62-like [Glycine max]

 Score =  106 bits (265), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 65/180 (36%), Positives = 92/180 (51%), Gaps = 4/180 (2%)

Query: 2   TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
           + +GR+K  ++        QV    RRSGLFKK SE+ TLC +E    +F PA KA SF 
Sbjct: 7   SSLGRQKIPIEKIPKKSHLQVTFSKRRSGLFKKASELRTLCGVEIAVVVFSPADKAFSFG 66

Query: 62  HPGDEPVITNLARTGNPDPGSYQRTLADHE-ATVQALNKEYHDLLEQLEAEKKRGKILQK 120
           HP  E +I        P   S    +  H  A V+ LN +   +   LE EKKRG  L  
Sbjct: 67  HPEVESLIDRYTTRNPPQESSAHHLVEAHRNANVRDLNMQLSQVFNHLEIEKKRGDDLDH 126

Query: 121 RKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDAPTEGSSV 180
            +   Q+ +    WE+P+DEL L ELL L A IE+L+  ++KH ++   +  +    SS+
Sbjct: 127 ARKARQRQFW---WESPIDELGLNELLQLKASIEELKLNIEKHASKFMIEHSSNIPSSSL 183

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	191
TAIR|locus:2047304	264	AGL61 "AGAMOUS-like 61" [Arabi	0.879	0.636	0.289	9.8e-16
TAIR|locus:2175188	299	AGL62 "AGAMOUS-like 62" [Arabi	0.884	0.565	0.344	1.3e-15
TAIR|locus:2040819	172	AGL29 "AGAMOUS-like 29" [Arabi	0.607	0.674	0.375	7.9e-14
TAIR|locus:2102990	207	AGL57 "AGAMOUS-like 57" [Arabi	0.821	0.758	0.263	1.3e-11
TAIR|locus:2115420	248	AT4G36590 [Arabidopsis thalian	0.832	0.641	0.289	1.8e-11
TAIR|locus:2025386	247	AGL28 "AGAMOUS-like 28" [Arabi	0.816	0.631	0.298	3e-11
TAIR|locus:2206320	226	AGL23 "AGAMOUS-like 23" [Arabi	0.811	0.685	0.284	7.4e-11
TAIR|locus:2103415	178	AGL91 "AGAMOUS-like 91" [Arabi	0.602	0.646	0.322	3.2e-10
TAIR|locus:2032537	182	AGL59 "AGAMOUS-like 59" [Arabi	0.827	0.868	0.254	8.4e-10
TAIR|locus:4010713489	185	AGL64 "AGAMOUS-like 64" [Arabi	0.832	0.859	0.257	1.1e-09

TAIR|locus:2047304 AGL61 "AGAMOUS-like 61" [Arabidopsis thaliana (taxid:3702)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 49/169 (28%), Positives = 81/169 (47%)

Query:     4 MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
             +GR+K  M   +    RQV    RR+GLFKK SE+ TLC  E    +F PA K  SF HP
Sbjct:    62 IGRQKIPMVKIKKESHRQVTFSKRRAGLFKKASELCTLCGAEIGIIVFSPAKKPFSFGHP 121

Query:    64 GDEPVITNLARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQKRKM 123
               E V+       N      Q+      A+ + LN +   +L ++E EKK+G+ +++ + 
Sbjct:   122 SVESVLDRYVSRNNMSLAQSQQLQGSPAASCE-LNMQLTHILSEVEEEKKKGQAMEEMRK 180

Query:   124 MNQQSYCRHLWETPVDXXXXXXXXXXXAMIEDLQEKLQKHLAERSAQTD 172
              + +    + WE PV+             +E+L++ +  ++A  +   D
Sbjct:   181 ESVRRSMINWWEKPVEEMNMVQLQEMKYALEELRKTVVTNMASFNEAKD 229

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009559 "embryo sac central cell differentiation" evidence=IMP

GO:0043078 "polar nucleus" evidence=IDA

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

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

TAIR|locus:2175188 AGL62 "AGAMOUS-like 62" [Arabidopsis thaliana (taxid:3702)]

 Score = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 63/183 (34%), Positives = 84/183 (45%)

Query:     5 GRKKTQM-KM-NQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAH 62
             GR+K +M KM N+ N   QV    RRSGLFKK SE+ TLC  E    +F P  K  SF H
Sbjct:     7 GRQKIEMVKMKNESN--LQVTFSKRRSGLFKKASELCTLCGAEVAIVVFSPGRKVFSFGH 64

Query:    63 PGDEPVITNLARTGNPDPGSYQRTLADHE----ATVQALNKEYHDLLEQLEAEKKRGKIL 118
             P  + VI       NP P      +   E    + VQ LN     +L QLE EKK  K  
Sbjct:    65 PNVDSVIDRFINN-NPLPPHQHNNMQLRETRRNSIVQDLNNHLTQVLSQLETEKK--KYD 121

Query:   119 QKRKMMNQQSYCRHLWETPVDXXXXXXXXXXXAMIEDLQEKLQKHLAERSAQTDAPT--E 176
             + +K+  +     + WE PV+             +E+L++ +    A R  Q + P    
Sbjct:   122 ELKKIREKTKALGNWWEDPVEELALSQLEGFKGNLENLKKVVTVE-ASRFFQANVPNFYV 180

Query:   177 GSS 179
             GSS
Sbjct:   181 GSS 183

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009960 "endosperm development" evidence=IMP

TAIR|locus:2040819 AGL29 "AGAMOUS-like 29" [Arabidopsis thaliana (taxid:3702)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 45/120 (37%), Positives = 69/120 (57%)

Query:     4 MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
             MGR+K +M+M Q  + RQV    RR+GLFKK SE+ TLC  E    +F P GK  S+  P
Sbjct:     1 MGRRKIKMEMVQDMNTRQVTFSKRRTGLFKKASELATLCNAELGIVVFSPGGKPFSYGKP 60

Query:    64 GDEPVITNLART-GNPDPGSYQRTLADHEATVQALNKEYHDLLEQ-LEAEKKRGKILQKR 121
               + V     R   + D G  +++  ++   ++ L++   DLL Q +EAEK+RG+  Q++
Sbjct:    61 NLDSVAERFMREYDDSDSGDEEKS-GNYRPKLKRLSERL-DLLNQEVEAEKERGEKSQEK 118

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2102990 AGL57 "AGAMOUS-like 57" [Arabidopsis thaliana (taxid:3702)]

 Score = 158 (60.7 bits), Expect = 1.3e-11, P = 1.3e-11
 Identities = 44/167 (26%), Positives = 80/167 (47%)

Query:     5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
             G++K +MK  +    R +    R++G+FKK +E+  +C +E  F IF    K  +FAHP 
Sbjct:    14 GKQKIEMKKVENYGDRMITFSKRKTGIFKKMNELVAMCDVEVAFLIFSQPKKPYTFAHPS 73

Query:    65 DEPVITNLARTGNPDPGSYQRTLADHEATVQALNKE-YHDLLEQLEA-EKKRGKILQKRK 122
              + V   L      +P   +R   D    V+A  K   HDL++++EA E++    L+K K
Sbjct:    74 MKKVADRLKNPSRQEP--LERD--DTRPLVEAYKKRRLHDLVKKMEALEEELAMDLEKLK 129

Query:   123 MM----NQQSYCRHLWETPVDXXXXXXXXXXXAMIEDLQEKLQKHLA 165
             ++    N++   +  W  P +             + +L++ L  ++A
Sbjct:   130 LLKESRNEKKLDKMWWNFPSEGLSAKELQQRYQAMLELRDNLCDNMA 176

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2115420 AT4G36590 [Arabidopsis thaliana (taxid:3702)]

 Score = 157 (60.3 bits), Expect = 1.8e-11, P = 1.8e-11
 Identities = 50/173 (28%), Positives = 80/173 (46%)

Query:     5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
             GR+K +MK  +     QV    RR GLFKK SE+ TL   E    +F P GK  SF HP 
Sbjct:     7 GRQKIEMKKMENESNLQVTFSKRRFGLFKKASELCTLSGAEILLIVFSPGGKVFSFGHPS 66

Query:    65 DEPVITNLARTGNPDPGS----YQRT---LADH--EATVQALNKEYHDLLEQLEAEKKRG 115
              + +I    R  NP+  S    +Q     L +   +  +Q LN    ++L   E EK++ 
Sbjct:    67 VQELIH---RFSNPNHNSAIVHHQNNNLQLVETRPDRNIQYLNNILTEVLANQEKEKQKR 123

Query:   116 KILQKRKMMNQQSYCRHLWETPVDXXXXXXXXXXXAMIEDLQEKLQKHLAERS 168
              +L   K   +Q    + +E  V            + ++D+++KL + +++ S
Sbjct:   124 MVLDLLKESREQ--VGNWYEKDVKDLDMNETNQLISALQDVKKKLVREMSQYS 174

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2025386 AGL28 "AGAMOUS-like 28" [Arabidopsis thaliana (taxid:3702)]

 Score = 155 (59.6 bits), Expect = 3.0e-11, P = 3.0e-11
 Identities = 51/171 (29%), Positives = 87/171 (50%)

Query:     4 MGRKKTQM-KM-NQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
             +GR+K ++ KM N+ N   QV    RRSGLFKK SE+ TLC  E    +F P+GKA SF 
Sbjct:     6 LGRRKIELVKMTNESN--LQVTFSKRRSGLFKKGSELCTLCDAEIAIIVFSPSGKAYSFG 63

Query:    62 HPGDEPVITN-LARTGNPDPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGKILQK 120
             HP    ++ + L R    +  ++  +    +  +Q LN+   +++ + E E++  + + +
Sbjct:    64 HPNVNKLLDHSLGRVIRHNNTNFAESRT--KLRIQMLNESLTEVMAEKEKEQETKQSIVQ 121

Query:   121 RKMMNQQSYCRHLWE-TPVDXXXXXXXXXXXAMIEDLQEKLQKHLAERSAQ 170
              +  N+ +     W  +P +           +M  DL E L+K + E+ AQ
Sbjct:   122 NERENKDA--EKWWRNSPTELNLAQST----SMKCDL-EALKKEVDEKVAQ 165

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

TAIR|locus:2206320 AGL23 "AGAMOUS-like 23" [Arabidopsis thaliana (taxid:3702)]

 Score = 151 (58.2 bits), Expect = 7.4e-11, P = 7.4e-11
 Identities = 49/172 (28%), Positives = 85/172 (49%)

Query:     4 MGRKKTQM-KMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAH 62
             +GR+K ++ KM + ++  QV    R++GLFKK SE  TLC  +    +F PAGK  SF H
Sbjct:     6 LGRRKVEIVKMTKESNL-QVTFSKRKAGLFKKASEFCTLCDAKIAMIVFSPAGKVFSFGH 64

Query:    63 PGDEPVITNLARTGNPDPGSYQRTLADHEAT---VQALNKEYHDLLEQLEAEKKRGKILQ 119
             P  + ++ +           +  T  D   T   VQ LNK Y ++  ++E E+K  +   
Sbjct:    65 PNVDVLLDHFRGC----VVGHNNTNLDESYTKLHVQMLNKSYTEVKAEVEKEQKNKQSRA 120

Query:   120 KRKMMNQQSYCRHLW-ETPVDXXXXXXXXXXXAMIEDLQEKLQKHLAERSAQ 170
             + +  N+ +     W ++P++            MI  L++ L+K + E++ Q
Sbjct:   121 QNERENENA--EEWWSKSPLELNLSQST----CMIRVLKD-LKKIVDEKAIQ 165

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009553 "embryo sac development" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

TAIR|locus:2103415 AGL91 "AGAMOUS-like 91" [Arabidopsis thaliana (taxid:3702)]

 Score = 145 (56.1 bits), Expect = 3.2e-10, P = 3.2e-10
 Identities = 40/124 (32%), Positives = 58/124 (46%)

Query:     4 MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
             MGR+K +M+  Q  + +QV    RR GLFKK SE+ TLC  E    +F P  K  SF  P
Sbjct:     1 MGRRKIKMEKVQDTNTKQVTFSKRRLGLFKKASELATLCNAEVGIVVFSPGNKPYSFGKP 60

Query:    64 GDEPVITNLART------GNP-DPGSYQRTLADHEATVQALNKEYHDLLEQLEAEKKRGK 116
               + +             G+  +   Y R   +     + + K  + + E+ EAEKK G+
Sbjct:    61 NFDVIAERFKNEFEEEEEGDSCETSGYSR--GNRARQEKKICKRLNSITEEAEAEKKHGE 118

Query:   117 ILQK 120
              L K
Sbjct:   119 DLHK 122

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2032537 AGL59 "AGAMOUS-like 59" [Arabidopsis thaliana (taxid:3702)]

 Score = 141 (54.7 bits), Expect = 8.4e-10, P = 8.4e-10
 Identities = 43/169 (25%), Positives = 80/169 (47%)

Query:     5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
             G++K  +K  + ++ R V    R +G++ K SE++ LC +E  F  +  +GK  +F  P 
Sbjct:     8 GKQKINIKKIEKDEGRSVTFSKRLNGIYTKISELSILCGVEVAFIGYSCSGKPYTFGSPS 67

Query:    65 DEPVITNLARTGNPDPGSYQRTLADH-EATVQALNKEYHDLLEQLEAEK---KRGKILQK 120
              + V             S    +  H +A +Q L K+Y+ L+E+L+ ++   K+   L +
Sbjct:    68 FQAVAERFLNGDASSSSSSSLVMNAHKQAKIQELCKKYNRLVEELKVDEVKVKKAAALAE 127

Query:   121 RKMMNQQSYCRHLWETPVDXXXXXXXXXXXAMIEDLQEKLQKHLAERSA 169
              +++N+  +    W+  VD            M+E  QE   K L E++A
Sbjct:   128 TRVVNKDVW----WK--VDPNDVKDHEKAKKMMEKYQELYDK-LCEQAA 169

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

TAIR|locus:4010713489 AGL64 "AGAMOUS-like 64" [Arabidopsis thaliana (taxid:3702)]

 Score = 140 (54.3 bits), Expect = 1.1e-09, P = 1.1e-09
 Identities = 44/171 (25%), Positives = 79/171 (46%)

Query:     5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
             G+++  +K  + ++ R V    RR+G++ K SE++ LC  E  F  +  +GK  +F  P 
Sbjct:     8 GKQRINIKKIEKDEDRLVTLSKRRNGIYTKLSELSILCGAEVAFLGYSCSGKPYTFGSPS 67

Query:    65 DEPVITNL--ARTGNPDPGSYQRTL--ADHEATVQALNKEYHDLLEQLEAEK---KRGKI 117
              + V          +    S QR++  A  +A +Q L K Y+ L+E++  E+   K+   
Sbjct:    68 FQAVAERFLNGEASSSSSSSLQRSVMNAHQQAKIQELCKVYNRLVEEITVEEVKLKKTAA 127

Query:   118 LQKRKMMNQQSYCRHLWET-PVDXXXXXXXXXXXAMIEDLQEKLQKHLAER 167
             L +   MN+ ++    W+  P D              ++L EKL +  A R
Sbjct:   128 LAEMMPMNEDAW----WKVDPNDVKDREEVKKMMEKHQELYEKLCEEAASR 174

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh4_pg.C_LG_IV001019 hypothetical protein (194 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	191
smart00432	59	smart00432, MADS, MADS domain	1e-11
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	2e-10
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	7e-10
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	6e-08
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	2e-04

>gnl|CDD|197721 smart00432, MADS, MADS domain

 Score = 56.8 bits (138), Expect = 1e-11
 Identities = 25/59 (42%), Positives = 33/59 (55%)

Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
          GR+K ++K  +    RQV    RR+GLFKK  E++ LC  E    +F P GK   FA P
Sbjct: 1  GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59

Length = 59

>gnl|CDD|238165 cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators

 Score = 54.5 bits (132), Expect = 2e-10
 Identities = 27/67 (40%), Positives = 35/67 (52%), Gaps = 4/67 (5%)

Query: 5  GRKKTQMK--MNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAH 62
          GR K ++K   N  N  RQV    RR+GL KK  E++ LC  E    IF  +GK   F+ 
Sbjct: 1  GRGKIEIKRIENSTN--RQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSS 58

Query: 63 PGDEPVI 69
          P  E +I
Sbjct: 59 PSMEKII 65

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 = 52.5 bits (127), Expect = 7e-10
 Identities = 24/59 (40%), Positives = 33/59 (55%)

Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
          GR K ++K  +   +RQV    RR+GLFKK SE++ LC  E    +F P+GK   F   
Sbjct: 1  GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59

Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi. Length = 59

>gnl|CDD|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 = 48.0 bits (115), Expect = 6e-08
 Identities = 27/68 (39%), Positives = 36/68 (52%), Gaps = 1/68 (1%)

Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAH-P 63
          GRKK ++K  +    R V    RR GLFKK SE++TLC  E    ++ P+GK   F    
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS 60

Query: 64 GDEPVITN 71
            E VI+ 
Sbjct: 61 EVEGVISR 68

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 = 37.4 bits (87), Expect = 2e-04
 Identities = 17/42 (40%), Positives = 23/42 (54%)

Query: 20 RQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
          RQV    RR+G+FKK  E++ LC  E    IF   GK   ++
Sbjct: 9  RQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYS 50

Length = 51

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	191
KOG0014	195	consensus MADS box transcription factor [Transcrip	100.0
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	100.0
smart00432	59	MADS MADS domain.	99.96
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.96
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.96
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.92
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.79
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.42
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	98.53
PF06698	59	DUF1192: Protein of unknown function (DUF1192); In	81.95

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=100.00  E-value=6.1e-34  Score=223.92  Aligned_cols=153  Identities=27%  Similarity=0.371  Sum_probs=105.0

Q ss_pred             CCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCC--ChhhhhhhccCCCCCCC
Q 029592            4 MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG--DEPVITNLARTGNPDPG   81 (191)
Q Consensus         4 mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Ps--v~~Vi~ry~~~~~~~~~   81 (191)
                      |||+||+|++|+|++.|+|||+|||+||||||+||||||||+||+|||||+|++|.|++|+  +++|+++|...+..+..
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            8999999999999999999999999999999999999999999999999999999999998  99999999887655443


Q ss_pred             CccccccchHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHhhhhhhhhccccCCCCCCCCH-HHH
Q 029592           82 SYQRTLADHEATVQALNKEYHDLLEQLEA--------------EKKRGKILQKRKMMNQQSYCRHLWETPVDELNL-EEL  146 (191)
Q Consensus        82 ~~~~~~~~~~~~~~~l~~~~~~l~~~l~~--------------~k~~~~~l~~~~~~~~~~~~~~~~~~~l~~Ls~-eeL  146 (191)
                      +   .......+.... . +..+....+.              .+.....++.     .....+...+.++.+++. .+|
T Consensus        81 ~---~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-----~~~~~~~~~~~~l~~l~~~~~l  150 (195)
T KOG0014|consen   81 K---KRVNLESFLRNK-K-LTELVEEEEKEELKLQLKKSLESSLKVDPEDLEL-----LELEQRKLTGEDLQSLSSLNEL  150 (195)
T ss_pred             c---cccchhhHhhhh-h-hhcccchhhhhhccchhhhhhhhhhhcchhhhhh-----hHHHHHHHhccccccCCHHHHh
Confidence            2   111111111101 0 1111111111              1111111110     001244556678888888 888


Q ss_pred             HHHHHHHHHHHHHHHHHHHH
Q 029592          147 LTLNAMIEDLQEKLQKHLAE  166 (191)
Q Consensus       147 ~~l~~~Le~~l~~v~~r~~~  166 (191)
                      ..++..++..+..++.....
T Consensus       151 ~~~~~~l~~~~~~~~~~~~~  170 (195)
T KOG0014|consen  151 NSLESQLESSLHNSRSSKSK  170 (195)
T ss_pred             cchhhHHHHhhcCCCCCCCc
Confidence            88888888777665554433

>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=2.2e-34  Score=193.97  Aligned_cols=73  Identities=36%  Similarity=0.573  Sum_probs=71.0

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhccCCC
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGN   77 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~~~~   77 (191)
                      ||+||+|++|+|+.+|++||+||++||||||+|||+||||+||+|||||+|++|+|+||++++||+||...+.
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~   73 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSG   73 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhccc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999988754

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

>smart00432 MADS MADS domain

Probab=99.96  E-value=4.8e-31  Score=168.06  Aligned_cols=59  Identities=42%  Similarity=0.722  Sum_probs=58.2

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCC
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP   63 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~P   63 (191)
                      ||+||+|++|+|++.|++||+||++||||||+||||||||+||+|||||+|++|.|+||
T Consensus         1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p   59 (59)
T smart00432        1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP   59 (59)
T ss_pred             CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence            89999999999999999999999999999999999999999999999999999999987

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

Probab=99.96  E-value=2.9e-31  Score=181.39  Aligned_cols=76  Identities=36%  Similarity=0.522  Sum_probs=71.3

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCC-ChhhhhhhccCCCCCC
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG-DEPVITNLARTGNPDP   80 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Ps-v~~Vi~ry~~~~~~~~   80 (191)
                      ||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+.+.|++++ +++++++|...+..++
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~   77 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALER   77 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhh
Confidence            799999999999999999999999999999999999999999999999999999988877 9999999988765443

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.

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

Probab=99.96  E-value=5.2e-30  Score=163.40  Aligned_cols=59  Identities=41%  Similarity=0.639  Sum_probs=57.4

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCC
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP   63 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~P   63 (191)
                      ||+||+|++|+|+..|++||+||++||||||+||||||||+||+|||||+|+++.|++|
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~   59 (59)
T cd00120           1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS   59 (59)
T ss_pred             CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence            79999999999999999999999999999999999999999999999999999998775

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=99.92  E-value=6.6e-28  Score=148.84  Aligned_cols=51  Identities=37%  Similarity=0.664  Sum_probs=46.3

Q ss_pred             eecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCC
Q 029592           12 KMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAH   62 (191)
Q Consensus        12 k~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~   62 (191)
                      |+|+|++.|++||+||+.||||||+|||+||||+||+|||||+|++|+|++
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            589999999999999999999999999999999999999999999998864

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

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

Probab=99.79  E-value=2.4e-20  Score=150.86  Aligned_cols=79  Identities=24%  Similarity=0.352  Sum_probs=70.2

Q ss_pred             CCCCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCC---------hhhhhhh
Q 029592            2 TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGD---------EPVITNL   72 (191)
Q Consensus         2 ~~mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv---------~~Vi~ry   72 (191)
                      ++-||+||+|++|+|+..|.+||+|||.||||||+|||||.|.+|-++|.|.+|-+|+|+.|..         +++|...
T Consensus        60 ~~~gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq~c  139 (338)
T KOG0015|consen   60 KTTGRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQAC  139 (338)
T ss_pred             cccceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHHHH
Confidence            4568999999999999999999999999999999999999999999999999999999999874         4566666


Q ss_pred             ccCCCCCC
Q 029592           73 ARTGNPDP   80 (191)
Q Consensus        73 ~~~~~~~~   80 (191)
                      .+.+..+.
T Consensus       140 Ln~pd~~~  147 (338)
T KOG0015|consen  140 LNAPDTPP  147 (338)
T ss_pred             hcCCCCCC
Confidence            66665543

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

Probab=99.42  E-value=5e-14  Score=119.10  Aligned_cols=69  Identities=22%  Similarity=0.310  Sum_probs=64.1

Q ss_pred             CCCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhh
Q 029592            3 GMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITN   71 (191)
Q Consensus         3 ~mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~r   71 (191)
                      .|||+||.|.+|+|+.+|.|||+||+.||+|||.||++|.|.+|.++|.|..|.++.|+.|..+.|+.-
T Consensus        80 ~~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~~  148 (412)
T COG5068          80 SVTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVKS  148 (412)
T ss_pred             ccccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCcccccccc
Confidence            589999999999999999999999999999999999999999999999999999999999875555443

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

Probab=98.53  E-value=6.9e-07  Score=63.00  Aligned_cols=63  Identities=22%  Similarity=0.333  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 029592          101 YHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQT  171 (191)
Q Consensus       101 ~~~l~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~l~~~~  171 (191)
                      +..+..++..++.+++.|+.        ..+++.|+++++|+++||..|+..|+..+..|+.|+.+++.+.
T Consensus        14 ~e~~~~e~~~L~~~~~~L~~--------~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~   76 (100)
T PF01486_consen   14 HEELQQEIAKLRKENESLQK--------ELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQ   76 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHH--------HHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence            33444444455555555554        6678889999999999999999999999999999999988764

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

>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=81.95  E-value=4.5  Score=25.56  Aligned_cols=35  Identities=26%  Similarity=0.283  Sum_probs=29.2

Q ss_pred             cccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 029592          132 HLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAE  166 (191)
Q Consensus       132 ~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~  166 (191)
                      +.-|.+|+.||++||.+-...|+.-+..++.-+..
T Consensus        12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~~   46 (59)
T PF06698_consen   12 HEIGEDLSLLSVEELEERIALLEAEIARLEAAIAK   46 (59)
T ss_pred             cccCCCchhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45678999999999999999999888887766654

The function of this family is unknown.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	191
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		4e-05
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		1e-04
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		5e-04
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		8e-04

>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 = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 31/96 (32%), Positives = 42/96 (43%), Gaps = 6/96 (6%)
Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  + K   +A   
Sbjct: 1   GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 65  DEPVITNLARTGNPDPGSYQRTLADHEATVQALNKE 100
            + V+        P      RT +D    V+ALNK+
Sbjct: 61  MDKVLLKYTEYNEPHES---RTNSD---IVEALNKK 90

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 32/75 (42%)
Query: 4  MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
          MGRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  A +   +A  
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYAST 60
Query: 64 GDEPVITNLARTGNP 78
            + V+        P
Sbjct: 61 DMDRVLLKYTEYSEP 75

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 31/74 (41%)
Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
          GRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  + K   +A   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 65 DEPVITNLARTGNP 78
           + V+        P
Sbjct: 61 MDKVLLKYTEYNEP 74

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 23/74 (31%), Positives = 31/74 (41%)
Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
          GRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  A +   +A   
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYASTD 60
Query: 65 DEPVITNLARTGNP 78
           + V+        P
Sbjct: 61 MDRVLLKYTEYSEP 74

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	191
1hbx_A	92	SRF, serum response factor; gene regulation, trans	1e-14
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	3e-14
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	9e-14
1egw_A	77	MADS box transcription enhancer factor 2, polypept	4e-10
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	1e-09

>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 = 65.6 bits (160), Expect = 1e-14
 Identities = 18/69 (26%), Positives = 30/69 (43%)

Query: 2  TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
             GR K +M+       R      R++G+ KK  E++TL   +    +    G   +FA
Sbjct: 8  KTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA 67

Query: 62 HPGDEPVIT 70
              +P+IT
Sbjct: 68 TRKLQPMIT 76

>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 = 64.9 bits (158), Expect = 3e-14
 Identities = 18/69 (26%), Positives = 30/69 (43%)

Query: 2  TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFA 61
             GR K +M+       R      R++G+ KK  E++TL   +    +    G   +FA
Sbjct: 7  KTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA 66

Query: 62 HPGDEPVIT 70
              +P+IT
Sbjct: 67 TRKLQPMIT 75

>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 = 63.3 bits (154), Expect = 9e-14
 Identities = 17/67 (25%), Positives = 31/67 (46%)

Query: 4  MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
            R+K ++K  +    R V    R+ G+ KK  E++ L   +    +    G   +F+ P
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 64 GDEPVIT 70
            EP++T
Sbjct: 76 KFEPIVT 82

>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 = 53.2 bits (128), Expect = 4e-10
 Identities = 25/88 (28%), Positives = 34/88 (38%), Gaps = 11/88 (12%)

Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
          GRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  + K   +A   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

Query: 65 DEPVITNLARTGNPDPGSYQRTLADHEA 92
           + V+             Y      HE+
Sbjct: 61 MDKVL-----------LKYTEYNEPHES 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 = 52.1 bits (125), Expect = 1e-09
 Identities = 27/96 (28%), Positives = 39/96 (40%), Gaps = 6/96 (6%)

Query: 5   GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           GRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  + K   +A   
Sbjct: 1   GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

Query: 65  DEPVITNLARTGNPDPGSYQRTLADHEATVQALNKE 100
            + V+            +       +   V+ALNK+
Sbjct: 61  MDKVLLKYTEY------NEPHESRTNSDIVEALNKK 90

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	191
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	100.0
1egw_A	77	MADS box transcription enhancer factor 2, polypept	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
2ic9_A	96	Nucleocapsid protein; hantavirus, bunyaviridae, ss	88.1
4fi5_A	113	Nucleoprotein; structural genomics, niaid, nationa	88.09
2k48_A	107	Nucleoprotein; viral protein; NMR {Andes virus}	80.89

>3p57_A Myocyte-specific enhancer factor 2A; protein-DNA complex, transcription factor, transcriptional activation, zinc finger; HET: DNA; 2.19A {Homo sapiens} PDB: 3kov_A* 1tqe_P 1n6j_A

Probab=100.00  E-value=4.6e-38  Score=214.54  Aligned_cols=77  Identities=30%  Similarity=0.443  Sum_probs=73.2

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhccCCCCCCC
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTGNPDPG   81 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~~~~~~~~   81 (191)
                      ||+||+|++|+|+.+|+|||+|||+||||||+||||||||+||+|||||+|++|+|++|+++.||+||...+.....
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~~~il~rY~~~~~~~~~   77 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEPHES   77 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHCCSCCCE
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCHHHHHHHHHhcCccccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999999887655443

>1egw_A MADS box transcription enhancer factor 2, polypeptide A; MADS-box transcription factor, DNA/protein complex, transcription/DNA; HET: DNA; 1.50A {Homo sapiens} SCOP: d.88.1.1 PDB: 1c7u_A 3mu6_A*

Probab=100.00  E-value=5.3e-38  Score=209.32  Aligned_cols=72  Identities=31%  Similarity=0.433  Sum_probs=69.8

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhccCC
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLARTG   76 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~~~   76 (191)
                      ||+||+|++|+|+++|+|||+|||+||||||+||||||||+||+|||||+|++|+|++|+++.||+||...+
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~~~~il~ry~~~~   72 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYN   72 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC-
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCCHHHHHHHHHhcc
Confidence            899999999999999999999999999999999999999999999999999999999999999999998764

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

Probab=100.00  E-value=3.5e-37  Score=213.61  Aligned_cols=73  Identities=23%  Similarity=0.395  Sum_probs=70.5

Q ss_pred             CCCCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhcc
Q 029592            2 TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLAR   74 (191)
Q Consensus         2 ~~mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~   74 (191)
                      ++|||+||+|++|+|+.+|+|||+|||+||||||+||||||||+||+|||||+|++|+|++|++..|+++|..
T Consensus        14 ~~mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~~~il~r~~G   86 (100)
T 1mnm_A           14 QQKERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEG   86 (100)
T ss_dssp             -CCCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHH
T ss_pred             CCCCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCHHHHHHHhhC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999954

>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=3.7e-37  Score=210.90  Aligned_cols=73  Identities=25%  Similarity=0.336  Sum_probs=70.6

Q ss_pred             CCCCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhcc
Q 029592            2 TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLAR   74 (191)
Q Consensus         2 ~~mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~   74 (191)
                      ++|||+||+|++|+|+.+|+|||+|||+||||||+||||||||+||+|||||+|++|+|++|+++.+|++|..
T Consensus         8 ~~mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~~~~i~~~~G   80 (92)
T 1hbx_A            8 KTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   80 (92)
T ss_dssp             SSCCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGGGGGTSSHHH
T ss_pred             CCCCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCHHHHHhhhcc
Confidence            6899999999999999999999999999999999999999999999999999999999999999999998743

>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=1.7e-36  Score=211.51  Aligned_cols=71  Identities=25%  Similarity=0.347  Sum_probs=69.5

Q ss_pred             CCCCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhh
Q 029592            2 TGMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNL   72 (191)
Q Consensus         2 ~~mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry   72 (191)
                      ++|||+||+|++|+|+.+|+|||+|||+||||||+||||||||+||+|||||+|++|+|++|+++.||+++
T Consensus         7 ~~mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~   77 (103)
T 1k6o_B            7 KTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSE   77 (103)
T ss_dssp             SSCCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSH
T ss_pred             CCCCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhh
Confidence            68999999999999999999999999999999999999999999999999999999999999999999984

>2ic9_A Nucleocapsid protein; hantavirus, bunyaviridae, ssRNA negative- strand viruses, antiparallel coiled coil, viral protein; 2.00A {Sin nombre virus}

Probab=88.10  E-value=1.2  Score=29.85  Aligned_cols=81  Identities=19%  Similarity=0.222  Sum_probs=48.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 029592           93 TVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTD  172 (191)
Q Consensus        93 ~~~~l~~~~~~l~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~l~~~~~  172 (191)
                      .+++|+.++.....+|.-.+.+.+....         ......++++--++..-......|+.++..+...++.....+.
T Consensus         6 ~i~eLq~e~~~~E~QL~~A~QKLkdA~~---------~~e~DPDevNk~~~~~R~~~V~~lq~Ki~elkr~lAd~v~~~k   76 (96)
T 2ic9_A            6 TLKEVQDNITLHEQRLVTTRQKLKDAER---------AVELDPDDVNKSTLQSRRAAVSALETKLGELKRELADLIAAQK   76 (96)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            3677777787777777766655554443         1111123344457777778888889999999988888877554


Q ss_pred             CCCcCCCCCCCC
Q 029592          173 APTEGSSVDPNG  184 (191)
Q Consensus       173 ~~~~~~~~~~~~  184 (191)
                        .+.-..+|+|
T Consensus        77 --~~~k~~DpTG   86 (96)
T 2ic9_A           77 --LASKPVDPTG   86 (96)
T ss_dssp             --C---------
T ss_pred             --cccCCCCCCC
Confidence              6666777777

>4fi5_A Nucleoprotein; structural genomics, niaid, national institute of allergy AN infectious diseases; 2.20A {Hantaan virus}

Probab=88.09  E-value=1.8  Score=29.79  Aligned_cols=80  Identities=19%  Similarity=0.229  Sum_probs=46.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 029592           94 VQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQTDA  173 (191)
Q Consensus        94 ~~~l~~~~~~l~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~l~~~~~~  173 (191)
                      +++|+.++.....+|.-.+.+.+....         ......++++--++..-......|+.++..++..++.....+..
T Consensus        24 ieeLq~Ei~~~E~QL~~ArQKLkdA~~---------~~e~DPDevNK~tl~~R~~~Vs~lq~KiaeLKrqLAd~va~~k~   94 (113)
T 4fi5_A           24 MEELQREINAHEGQLVIARQKVRDAEK---------QYEKDPDELNKRTLTDREGVAVSIQAKIDELKRQLADRIATGKN   94 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH---------HhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            677888888888888776665554443         11111233444577777788888888888888888887775533


Q ss_pred             CCcCCCCCCCC
Q 029592          174 PTEGSSVDPNG  184 (191)
Q Consensus       174 ~~~~~~~~~~~  184 (191)
                      ....  .+|+|
T Consensus        95 ~~k~--~DPTG  103 (113)
T 4fi5_A           95 LGKE--QDPTG  103 (113)
T ss_dssp             -----------
T ss_pred             ccCC--CCCCC
Confidence            3222  77777

>2k48_A Nucleoprotein; viral protein; NMR {Andes virus}

Probab=80.89  E-value=6.6  Score=26.68  Aligned_cols=70  Identities=20%  Similarity=0.200  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccccCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 029592           92 ATVQALNKEYHDLLEQLEAEKKRGKILQKRKMMNQQSYCRHLWETPVDELNLEELLTLNAMIEDLQEKLQKHLAERSAQ  170 (191)
Q Consensus        92 ~~~~~l~~~~~~l~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~~~l~~Ls~eeL~~l~~~Le~~l~~v~~r~~~l~~~  170 (191)
                      +.+++|+.++.....+|.-.+.+.+....         ......++++--++..-......|+.++..++..++.....
T Consensus        35 ~~ieeLQ~Ei~~~E~QL~iArQKLkdAe~---------~~E~DPDevNK~tl~~R~~~Vsalq~KiaeLKrqLAd~va~  104 (107)
T 2k48_A           35 STLQELQENITAHEQQLVTARQKLKDAEK---------AVEVDPDDVNKSTLQNRRAAVSTLETKLGELKRQLADLVAA  104 (107)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45777888888888888776665554443         11111233444467777777888888888888888776653

---

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	191
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	5e-14
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	2e-13
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	6e-13

>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 = 62.4 bits (152), Expect = 5e-14
 Identities = 18/68 (26%), Positives = 31/68 (45%)

Query: 4  MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHP 63
           GR K +M+       R      R++G+ KK  E++TL   +    +    G   +FA  
Sbjct: 2  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 61

Query: 64 GDEPVITN 71
            +P+IT+
Sbjct: 62 KLQPMITS 69

>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 = 60.0 bits (146), Expect = 2e-13
 Identities = 22/65 (33%), Positives = 30/65 (46%)

Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
          GRKK Q+        RQV    R+ GL KK  E++ LC  E    IF  + K   +A   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60

Query: 65 DEPVI 69
           + V+
Sbjct: 61 MDKVL 65

>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 = 59.3 bits (144), Expect = 6e-13
 Identities = 17/66 (25%), Positives = 31/66 (46%)

Query: 5  GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPG 64
           R+K ++K  +    R V    R+ G+ KK  E++ L   +    +    G   +F+ P 
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPK 62

Query: 65 DEPVIT 70
           EP++T
Sbjct: 63 FEPIVT 68

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	191
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=1.5e-38  Score=206.91  Aligned_cols=70  Identities=31%  Similarity=0.452  Sum_probs=68.8

Q ss_pred             CccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhcc
Q 029592            5 GRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLAR   74 (191)
Q Consensus         5 gR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~   74 (191)
                      ||+||+|++|+|+..|++||+|||+||||||+|||+||||+||+|||||+|++|+|++|++++|++||..
T Consensus         1 GR~Ki~ik~Ie~~~~R~vTFsKRk~GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~s~~~~~vl~ry~~   70 (71)
T d1egwa_           1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTE   70 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHH
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHhc
Confidence            8999999999999999999999999999999999999999999999999999999999999999999964

>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=1.6e-37  Score=206.95  Aligned_cols=72  Identities=25%  Similarity=0.340  Sum_probs=70.2

Q ss_pred             CCCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhcc
Q 029592            3 GMGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLAR   74 (191)
Q Consensus         3 ~mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~   74 (191)
                      ++||+||+|++|+|+..|++||+|||.||||||+||||||||+||+|||||+|++|+|++|++++|+++|..
T Consensus         1 ~~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~~~vi~~~~~   72 (84)
T d1srsa_           1 TRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   72 (84)
T ss_dssp             CCCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGGHHHHSSHHH
T ss_pred             CCCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHHH
Confidence            689999999999999999999999999999999999999999999999999999999999999999999964

>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=1.5e-36  Score=203.58  Aligned_cols=71  Identities=24%  Similarity=0.411  Sum_probs=69.6

Q ss_pred             CCccceeeeecCCCCCcccccccccccccccchhhccccCCceeEEeecCCCCccccCCCCChhhhhhhcc
Q 029592            4 MGRKKTQMKMNQGNDARQVVPPIRRSGLFKKFSEVTTLCALETTFFIFFPAGKAISFAHPGDEPVITNLAR   74 (191)
Q Consensus         4 mgR~Ki~ik~I~n~~~R~~tf~KRr~gL~KKa~ELs~LC~v~va~vvfSp~gk~~~f~~Psv~~Vi~ry~~   74 (191)
                      .||+||+|++|+|+..|+|||+|||+||||||+|||+||||+||+|||||+|++|+|++|++++|+++|..
T Consensus         2 k~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~   72 (85)
T d1mnma_           2 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEG   72 (85)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHH
T ss_pred             CCccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhc
Confidence            59999999999999999999999999999999999999999999999999999999999999999999965