Citrus Sinensis ID: 043113

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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--
Protein Sequence
MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSSVAPPMYFHNK
Secondary Structure (PSIPRED)
ccccccccccccccEEccccccccccccccccHHHHHHHHHHcccccccccccEEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHcccccccccccHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHccHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccc
Coil and Loop (DISEMBL)
MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGmsqlhndnihPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKetqprwwetpvdeLNLQELLQMDSAVDDLHQTFLAKINEKTAAaaasssvappmyfhnk
Flexible Loop (DISEMBL)
magkktkrrqkiemkkieneddrlitfskrgsGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRrvketqprwwetpVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAaaasssvappmyfhnk
Low Complexity Region (SEG)
MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTaaaaasssvaPPMYFHNK
Disordered region (IsUnstruct)
***********************LITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINE*********************************RWWETPVDELNLQELLQMDSAVDDLHQTFLAKI**********************
Disordered Region (DISOPRED)
***********IEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANR*************************************************************WETPVDELNLQELLQMDSAVDDLHQTF**************************
Disordered Region (DISEMBL)
***********IEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINE**********VAPPMYFHNK
Disordered Region (DISPRO)
***********IEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAA****************
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSSVAPPMYFHNK
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	172	2.2.26 [Sep-21-2011]
Q9FKK2	299	Agamous-like MADS-box pro	no	no	0.808	0.464	0.331	1e-15
Q4PSU4	264	Agamous-like MADS-box pro	no	no	0.808	0.526	0.321	2e-15
O82794	220	MADS-box protein AGL24 OS	no	no	0.755	0.590	0.315	5e-07
Q9AT76	196	Agamous-like MADS-box pro	no	no	0.680	0.596	0.315	2e-06
O82743	219	Agamous-like MADS-box pro	no	no	0.720	0.566	0.299	1e-05
Q38836	230	Agamous-like MADS-box pro	no	no	0.75	0.560	0.263	1e-05
Q9FPN7	196	Agamous-like MADS-box pro	no	no	0.668	0.586	0.272	2e-05
Q2V0P1	272	MADS-box transcription fa	no	no	0.831	0.525	0.257	4e-05
Q40702	209	MADS-box transcription fa	no	no	0.680	0.559	0.326	4e-05
Q07474	212	Floral homeotic protein P	N/A	no	0.767	0.622	0.291	4e-05

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

 Score = 82.8 bits (203), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 85/157 (54%), Gaps = 18/157 (11%)

Query: 4   KKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAIHL 47
           KK+K RQKIEM K++NE +  +TFSKR SG++KKASE+                 +    
Sbjct: 3   KKSKGRQKIEMVKMKNESNLQVTFSKRRSGLFKKASELCTLCGAEVAIVVFSPGRKVFSF 62

Query: 48  CQPSVKAIANRFLGMSQL--HNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNM 105
             P+V ++ +RF+  + L  H  N   L +   ++ + +LN     +L QL+ EK++ + 
Sbjct: 63  GHPNVDSVIDRFINNNPLPPHQHNNMQLRETRRNSIVQDLNNHLTQVLSQLETEKKKYDE 122

Query: 106 LKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDL 142
           LK++R   +    WWE PV+EL L +L      +++L
Sbjct: 123 LKKIREKTKALGNWWEDPVEELALSQLEGFKGNLENL 159

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

 Score = 81.6 bits (200), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 91/168 (54%), Gaps = 29/168 (17%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAIHLCQPSV 52
           RQKI M KI+ E  R +TFSKR +G++KKASE+                 +      PSV
Sbjct: 64  RQKIPMVKIKKESHRQVTFSKRRAGLFKKASELCTLCGAEIGIIVFSPAKKPFSFGHPSV 123

Query: 53  KAIANRFLG---MSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQM 109
           +++ +R++    MS   +  +       S A   ELN Q   +L +++EEK++   +++M
Sbjct: 124 ESVLDRYVSRNNMSLAQSQQLQG-----SPAASCELNMQLTHILSEVEEEKKKGQAMEEM 178

Query: 110 RR--VKETQPRWWETPVDELNLQELLQMDSAVDDLHQTF---LAKINE 152
           R+  V+ +   WWE PV+E+N+ +L +M  A+++L +T    +A  NE
Sbjct: 179 RKESVRRSMINWWEKPVEEMNMVQLQEMKYALEELRKTVVTNMASFNE 226

Probable transcription factor. Controls central cell differentiation during female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

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

 Score = 53.9 bits (128), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 53/168 (31%), Positives = 82/168 (48%), Gaps = 38/168 (22%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAI------------A 56
           R+KI +KKI+N   R +TFSKR  GI+KKA E+     LC   V  I            +
Sbjct: 3   REKIRIKKIDNITARQVTFSKRRRGIFKKADELS---VLCDADVALIIFSATGKLFEFSS 59

Query: 57  NR---FLGMSQLHNDNIHPLVKAYS-HARINELNQQHNDLLRQLDEEKEQQNMLKQMRRV 112
           +R    LG   LH  NI+ L+   S H R+   N      L +L +E E +   KQ+R++
Sbjct: 60  SRMRDILGRYSLHASNINKLMDPPSTHLRLENCN------LSRLSKEVEDKT--KQLRKL 111

Query: 113 KETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAAS 160
           +          +D LNL+EL +++     L ++ L++++EK      S
Sbjct: 112 RGED-------LDGLNLEELQRLEK----LLESGLSRVSEKKGECVMS 148

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|Q9AT76|AGL27_ARATH Agamous-like MADS-box protein AGL27 OS=Arabidopsis thaliana GN=AGL27 PE=1 SV=1

 Score = 52.0 bits (123), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 41/130 (31%), Positives = 66/130 (50%), Gaps = 13/130 (10%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLG--MSQLH 66
           R+KIE+K+IEN+  R +TFSKR +G+  KA ++     LC+ SV  +     G       
Sbjct: 3   RRKIEIKRIENKSSRQVTFSKRRNGLIDKARQLS---ILCESSVAVVVVSASGKLYDSSS 59

Query: 67  NDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDE 126
            D+I  ++  Y          QH D LR LD E++ QN L     ++  Q +  E  VD 
Sbjct: 60  GDDISKIIDRYEI--------QHADELRALDLEEKIQNYLPHKELLETVQSKLEEPNVDN 111

Query: 127 LNLQELLQMD 136
           +++  L+ ++
Sbjct: 112 VSVDSLISLE 121

Probable transcription factor involved in the negative regulation of flowering time in both long and short days, probably through the photoperiodic and vernalization pathways. Prevents premature flowering.

Arabidopsis thaliana (taxid: 3702)

>sp|O82743|AGL19_ARATH Agamous-like MADS-box protein AGL19 OS=Arabidopsis thaliana GN=AGL19 PE=1 SV=1

 Score = 49.7 bits (117), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 41/137 (29%), Positives = 73/137 (53%), Gaps = 13/137 (9%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLH-- 66
           R K EMK+IEN   R +TFSKR +G+ KKA   +E   LC   V  +   F   S+L+  
Sbjct: 3   RGKTEMKRIENATSRQVTFSKRRNGLLKKA---FELSVLCDAEVALVI--FSPRSKLYEF 57

Query: 67  -NDNIHPLVKAYSHARINELNQQH--NDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETP 123
            + +I   ++ Y   RI E+   H  ND  +Q  +  E   + K++ +++ ++ +     
Sbjct: 58  SSSSIAATIERYQR-RIKEIGNNHKRNDNSQQARD--ETSGLTKKIEQLEISKRKLLGEG 114

Query: 124 VDELNLQELLQMDSAVD 140
           +D  +++EL Q+++ +D
Sbjct: 115 IDACSIEELQQLENQLD 131

Probable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner.

Arabidopsis thaliana (taxid: 3702)

>sp|Q38836|AGL11_ARATH Agamous-like MADS-box protein AGL11 OS=Arabidopsis thaliana GN=AGL11 PE=1 SV=1

 Score = 48.9 bits (115), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 35/133 (26%), Positives = 67/133 (50%), Gaps = 4/133 (3%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLG-MSQLHN 67
           R KIE+K+IEN  +R +TF KR +G+ KKA   +E   LC   V  I     G + +  N
Sbjct: 3   RGKIEIKRIENSTNRQVTFCKRRNGLLKKA---YELSVLCDAEVALIVFSTRGRLYEYAN 59

Query: 68  DNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDEL 127
           +NI   ++ Y  A  +  N      +     ++E   + +Q++ ++ +        +  L
Sbjct: 60  NNIRSTIERYKKACSDSTNTSTVQEINAAYYQQESAKLRQQIQTIQNSNRNLMGDSLSSL 119

Query: 128 NLQELLQMDSAVD 140
           +++EL Q+++ ++
Sbjct: 120 SVKELKQVENRLE 132

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FPN7|AGL31_ARATH Agamous-like MADS-box protein AGL31 OS=Arabidopsis thaliana GN=AGL31 PE=2 SV=2

 Score = 48.9 bits (115), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 36/132 (27%), Positives = 67/132 (50%), Gaps = 17/132 (12%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLH-- 66
           R+K+E+K+IEN+  R +TFSKR +G+ +KA ++     LC+ S+  +     G  +L+  
Sbjct: 3   RKKVEIKRIENKSSRQVTFSKRRNGLIEKARQLS---ILCESSIAVLV--VSGSGKLYKS 57

Query: 67  --NDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPV 124
              DN+  ++  Y           H D L  LD  ++ +N L     ++  Q +  E+ V
Sbjct: 58  ASGDNMSKIIDRYEI--------HHADELEALDLAEKTRNYLPLKELLEIVQSKLEESNV 109

Query: 125 DELNLQELLQMD 136
           D  ++  L+ ++
Sbjct: 110 DNASVDTLISLE 121

Probable transcription factor that prevents vernalization by short periods of cold. Acts as a floral repressor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q2V0P1|MAD58_ORYSJ MADS-box transcription factor 58 OS=Oryza sativa subsp. japonica GN=MADS58 PE=2 SV=1

 Score = 47.8 bits (112), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 42/163 (25%), Positives = 74/163 (45%), Gaps = 20/163 (12%)

Query: 3   GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLG- 61
            +K   R KIE+K+IEN  +R +TF KR SG+ KKA   +E   LC   V  +     G 
Sbjct: 39  AEKIGSRGKIEIKRIENTTNRQVTFCKRRSGLLKKA---YELSVLCDAEVALVVFSSRGR 95

Query: 62  MSQLHNDNIHPLVKAYSHAR--------INELNQQHNDLLRQLDEEKEQQNMLKQMRRVK 113
           + +  N+++   ++ Y  A         + E+N QH         ++E   + +Q+  ++
Sbjct: 96  LYEYSNNSVKETIERYKKANSDTSNASTVAEINAQHY--------QQEAAKLKQQITNLQ 147

Query: 114 ETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAA 156
            +        +  +N +EL Q++  +D       A+ NE   A
Sbjct: 148 NSNRTLVGDNITTMNHRELKQLEGRLDKGLGKIRARKNELLCA 190

Probable transcription factor involved in the development of floral organs. Acts as a C-class protein in association with MADS3. Involved in the control of lodicule number (whorl 2), stamen specification (whorl 3), floral meristem determinacy and regulation of the carpel morphogenesis (whorl 4). Plays a more predominant role in floral meristem determinacy than MADS3.

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score = 47.4 bits (111), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 47/144 (32%), Positives = 72/144 (50%), Gaps = 27/144 (18%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHND 68
           R KIE+K+IEN  +R +TFSKR SGI KKA EI     LC   V  +   F    +L+ D
Sbjct: 3   RGKIEIKRIENSTNRQVTFSKRRSGILKKAREISV---LCDAEVGVVI--FSSAGKLY-D 56

Query: 69  NIHPLVKAYSHARINE----------LNQQHNDLLRQLDE-EKEQQNMLKQMRRVKETQP 117
              P     S +RI E           +++H  L  ++D  +KE  NM  ++R +K    
Sbjct: 57  YCSP---KTSLSRILEKYQTNSGKILWDEKHKSLSAEIDRIKKENDNMQIELRHLKGED- 112

Query: 118 RWWETPVDELNLQELLQMDSAVDD 141
                 ++ L  +EL+ ++ A+D+
Sbjct: 113 ------LNSLQPKELIMIEEALDN 130

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

 Score = 47.4 bits (111), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 75/151 (49%), Gaps = 19/151 (12%)

Query: 9   RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLH-- 66
           R KIE+K+IEN  +R +T+SKR +GI KKA EI     LC   V  I   F    ++H  
Sbjct: 3   RGKIEIKRIENSSNRQVTYSKRRNGIIKKAKEITV---LCDAKVSLII--FGNSGKMHEY 57

Query: 67  ---NDNIHPLVKAYSHARINEL-NQQHNDLLRQLDE-EKEQQNMLKQMRRVKETQPRWWE 121
              +  +  ++  Y       L + +H +L  ++D  +KE  NM  ++R +K        
Sbjct: 58  CSPSTTLPDMLDGYQKTSGRRLWDAKHENLSNEIDRIKKENDNMQVKLRHLKGED----- 112

Query: 122 TPVDELNLQELLQMDSAVDDLHQTFLAKINE 152
             ++ LN +EL+ ++  + +   +  AK +E
Sbjct: 113 --INSLNHKELMVLEEGLTNGLSSISAKQSE 141

Transcription factor involved in the genetic control of flower development.

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	172
224077620	194	predicted protein [Populus trichocarpa]	0.936	0.829	0.488	4e-39
255557369	220	mads box protein, putative [Ricinus comm	0.965	0.754	0.502	3e-38
255557367	239	mads box protein, putative [Ricinus comm	0.883	0.635	0.502	3e-37
224054544	202	predicted protein [Populus trichocarpa]	0.936	0.797	0.483	1e-33
449505973	269	PREDICTED: agamous-like MADS-box protein	0.906	0.579	0.424	1e-31
449434264	260	PREDICTED: agamous-like MADS-box protein	0.895	0.592	0.430	1e-31
224104275	201	predicted protein [Populus trichocarpa]	0.936	0.800	0.430	2e-27
225462217	199	PREDICTED: agamous-like MADS-box protein	0.924	0.798	0.418	1e-26
225429161	214	PREDICTED: agamous-like MADS-box protein	0.965	0.775	0.347	1e-20
357487743	237	Agamous-like MADS-box protein AGL62 [Med	0.941	0.683	0.338	5e-20

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

 Score =  166 bits (419), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 87/178 (48%), Positives = 117/178 (65%), Gaps = 17/178 (9%)

Query: 1   MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI----------------WEA 44
           M GK+T+ RQKI +K+IENEDDRLITFSKR SGIYKKASE+                 +A
Sbjct: 1   MEGKQTRGRQKIAIKRIENEDDRLITFSKRRSGIYKKASELVTLCGAEVAVLVFSPAGKA 60

Query: 45  IHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQN 104
                PS++++ANRFLG +   NDN HPLV+A+   RINELNQQHN+LL +++ E+++  
Sbjct: 61  FSFGHPSIESVANRFLGQNIAPNDNTHPLVEAHRKVRINELNQQHNELLSEMEAERDRGK 120

Query: 105 MLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSS 162
           +LK+    K +Q  WWE P+DEL+LQEL QM+  +++ H+     INE      ASSS
Sbjct: 121 VLKEGTSEKSSQG-WWEAPIDELSLQELKQMNVMLEEFHKNLHKTINELRRNGGASSS 177

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

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 =  163 bits (412), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 96/191 (50%), Positives = 123/191 (64%), Gaps = 25/191 (13%)

Query: 1   MAGKK-TKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLC----------- 48
           MAGKK TK RQKI MK+IENE+DRLITFSKR SGIYKKASE+   I LC           
Sbjct: 1   MAGKKQTKGRQKITMKRIENEEDRLITFSKRRSGIYKKASEL---ITLCGAEVGILVFSP 57

Query: 49  --------QPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEK 100
                    PS+++IANRFLG +   +DN HPLV+A+   RINELN+Q+N+LL +L+ EK
Sbjct: 58  AGKPFSFGHPSLESIANRFLGKNVPPSDNTHPLVEAHRKMRINELNKQYNELLNRLESEK 117

Query: 101 EQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEK-TAAAAA 159
           E+ +MLK+  R K     WWE P+D+LN+QEL Q+ +  ++LH T   K+NEK     + 
Sbjct: 118 ERGSMLKKTIRGKGCN-NWWEAPIDDLNMQELEQIYAMFEELHSTLCKKMNEKRNNGVSI 176

Query: 160 SSSVAPPMYFH 170
            SS  P M  H
Sbjct: 177 WSSSIPQMNNH 187

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557367|ref|XP_002519714.1| mads box protein, putative [Ricinus communis] gi|223541131|gb|EEF42687.1| mads box protein, putative [Ricinus communis]

 Score =  159 bits (403), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 86/171 (50%), Positives = 109/171 (63%), Gaps = 19/171 (11%)

Query: 3   GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI----------------WEAIH 46
           GKKTK RQKIEMKKIENEDDRLITFSKR SGIYKKASE+                 +   
Sbjct: 7   GKKTKGRQKIEMKKIENEDDRLITFSKRRSGIYKKASELVTLTGAELAFLVYSPAGKPFS 66

Query: 47  LCQPSVKAIANRFLGMSQL---HNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQ 103
              PS+ AI NRF G       +N   HPL++A+   RI ELNQQHN+LLRQL+ EKE+ 
Sbjct: 67  FAHPSMDAITNRFFGQGSADRNNNPTTHPLIEAHRLMRIEELNQQHNELLRQLEIEKEKG 126

Query: 104 NMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKT 154
             LKQ  +    +  WW+TP++ELN+ ELLQM++A  ++  + + K+ EKT
Sbjct: 127 KQLKQKHKKNNERKGWWDTPIEELNVPELLQMEAACKEIRTSLINKLKEKT 177

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224054544|ref|XP_002298313.1| predicted protein [Populus trichocarpa] gi|222845571|gb|EEE83118.1| predicted protein [Populus trichocarpa]

 Score =  147 bits (372), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 88/182 (48%), Positives = 115/182 (63%), Gaps = 21/182 (11%)

Query: 1   MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI----------------WEA 44
           MA KKTK RQK+EMK+IEN+DDRLITFSKR SGIYKKASE+                 + 
Sbjct: 1   MASKKTKGRQKVEMKRIENQDDRLITFSKRRSGIYKKASELATLTGAEIAIAVFSPAGKP 60

Query: 45  IHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQN 104
                PSV+++ NRFL    L  D+ + LV+A+   RI EL Q+HND+  QLDEEKE+  
Sbjct: 61  FSFGHPSVESVINRFL-EDPLDMDSTYHLVEAHRRMRIEELTQKHNDMQHQLDEEKEKG- 118

Query: 105 MLKQMRRVKETQPR-WWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSSV 163
            LK   ++KE   + WW+T VDELN+QEL++++    +L  T  +KI E  A+  ASSS 
Sbjct: 119 -LKLKSKIKEMDSKGWWDTAVDELNIQELIELEKKFKELQMTLCSKIAE-NASTVASSSQ 176

Query: 164 AP 165
           AP
Sbjct: 177 AP 178

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449505973|ref|XP_004162618.1| PREDICTED: agamous-like MADS-box protein AGL61-like [Cucumis sativus]

 Score =  140 bits (354), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 76/179 (42%), Positives = 107/179 (59%), Gaps = 23/179 (12%)

Query: 4   KKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI----------------WEAIHL 47
           K+TK RQKIEMKKI NEDDRLITFSKR SGIYKKASE+                 +    
Sbjct: 15  KQTKGRQKIEMKKIVNEDDRLITFSKRRSGIYKKASELATLCGAEVGVVVFSPAGKPFSF 74

Query: 48  CQPSVKAIANRFLGMSQLHNDN-------IHPLVKAYSHARINELNQQHNDLLRQLDEEK 100
             P ++ IAN+FL  ++ +  N        HPLV+A+   RINELNQQHN LL QLD EK
Sbjct: 75  AHPCIETIANKFLNGNKNNKGNNDDNNNNAHPLVEAHRRVRINELNQQHNQLLSQLDAEK 134

Query: 101 EQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAA 159
           E+   L++++RV+     WWETP +EL ++EL ++D++  +++     ++ ++      
Sbjct: 135 EKGKALEKLKRVRGNGRGWWETPTEELGIEELQEVDASFGEIYSNVCHQLKQRGVIGCC 193

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434264|ref|XP_004134916.1| PREDICTED: agamous-like MADS-box protein AGL61-like [Cucumis sativus]

 Score =  140 bits (354), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 74/172 (43%), Positives = 103/172 (59%), Gaps = 18/172 (10%)

Query: 4   KKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI----------------WEAIHL 47
           K+TK RQKIEMKKI NEDDRLITFSKR SGIYKKASE+                 +    
Sbjct: 15  KQTKGRQKIEMKKIVNEDDRLITFSKRRSGIYKKASELATLCGAEVGVVVFSPAGKPFSF 74

Query: 48  CQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLK 107
             P ++ IAN+FL  +        PLV+A+   RINELNQQHN LL QLD EKE+   L+
Sbjct: 75  AHPCIETIANKFL--NAAATTTTTPLVEAHRRVRINELNQQHNQLLSQLDAEKEKGKALE 132

Query: 108 QMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAA 159
           +++RV+     WWETP +EL ++EL ++D++  +++     ++ ++      
Sbjct: 133 KLKRVRGNGRGWWETPTEELGIEELQEVDASFGEIYSNVCHQLKQRGVIGCC 184

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224104275|ref|XP_002313380.1| predicted protein [Populus trichocarpa] gi|222849788|gb|EEE87335.1| predicted protein [Populus trichocarpa]

 Score =  127 bits (319), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 78/181 (43%), Positives = 112/181 (61%), Gaps = 20/181 (11%)

Query: 1   MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI-----WEAIHLC------- 48
           M  KKT+ RQK+EMK+I NEDDRL+TFSKR SGIYKK SE+      EA  L        
Sbjct: 1   MEAKKTRGRQKVEMKRIVNEDDRLVTFSKRRSGIYKKLSELITLTGTEAAFLVFSPGGKP 60

Query: 49  ----QPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQN 104
                PS++ + +RFL  +  + D  H LV+ Y  ARI EL Q+++++ +QLD++KE+ +
Sbjct: 61  FSFGHPSIENVLDRFL-ENPSNADGTHELVEEYRRARIEELTQKYDEMQQQLDDDKEKGS 119

Query: 105 MLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSSVA 164
            LK   +  E +  WW  PV+ELNLQEL++++   + L  T  +K+  K ++  ASSS A
Sbjct: 120 KLKDKIQGNE-RGDWWNAPVEELNLQELIELEKKFEGLRMTLHSKM--KDSSNGASSSHA 176

Query: 165 P 165
           P
Sbjct: 177 P 177

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462217|ref|XP_002269756.1| PREDICTED: agamous-like MADS-box protein AGL62-like [Vitis vinifera]

 Score =  124 bits (311), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 74/177 (41%), Positives = 107/177 (60%), Gaps = 18/177 (10%)

Query: 1   MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI----------------WEA 44
           M  K+TK RQKIEMK+I NE+DRLITFSKR SGIYKKASE+                 +A
Sbjct: 1   MEKKQTKGRQKIEMKRIPNEEDRLITFSKRRSGIYKKASELSTLCGAEVGVLVFSPAGKA 60

Query: 45  IHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQN 104
               QPS++ I N+ L  +   NDN   LV+A+   R+NEL+Q++++LL +++  KEQ+ 
Sbjct: 61  FSFGQPSIEKITNKVLYENPPPNDNTLNLVEAHRRFRLNELHQKYSELLSKMEVAKEQEK 120

Query: 105 MLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASS 161
           +L+  ++V      WWE P+ EL++ EL QM   +  LH+    + NE    A++SS
Sbjct: 121 ILR--KKVPNRSKGWWEEPISELSMHELEQMAIKIQMLHKHVQHRANELWTRASSSS 175

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225429161|ref|XP_002270964.1| PREDICTED: agamous-like MADS-box protein AGL62 [Vitis vinifera] gi|147772544|emb|CAN63001.1| hypothetical protein VITISV_024203 [Vitis vinifera]

 Score =  104 bits (259), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 65/187 (34%), Positives = 104/187 (55%), Gaps = 21/187 (11%)

Query: 1   MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EA 44
           M  K +K RQKIE+ KI  ++   +TFSKR SG++KKASE+                 + 
Sbjct: 1   MVKKPSKGRQKIEISKIPKKNHLQVTFSKRRSGLFKKASELCTLCGANVAIIVFSPAGKV 60

Query: 45  IHLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQN 104
                P V++I +RF   + +   N   L++A+ +A + ELN Q   +L QL+ EK++  
Sbjct: 61  FSFGHPDVESIVDRFFTCNPIPEPNGLHLIEAHRNASVRELNLQLTQVLNQLEAEKKRGE 120

Query: 105 MLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSSVA 164
           +L QMRR  +TQ  WWE P++EL++ EL Q+  ++++L +  L++  +K    AA+ S  
Sbjct: 121 ILSQMRRASQTQ-CWWEAPINELSMPELEQLKVSMEELKKVVLSQ-GDKLLMEAANPS-- 176

Query: 165 PPMYFHN 171
            P Y  N
Sbjct: 177 -PFYMIN 182

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357487743|ref|XP_003614159.1| Agamous-like MADS-box protein AGL62 [Medicago truncatula] gi|355515494|gb|AES97117.1| Agamous-like MADS-box protein AGL62 [Medicago truncatula]

 Score =  102 bits (254), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 61/180 (33%), Positives = 92/180 (51%), Gaps = 18/180 (10%)

Query: 2   AGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAI 45
           +GKKT  RQKIEMKK+ NE +  +TFSKR SG++KKASE+                 +  
Sbjct: 3   SGKKTLGRQKIEMKKMSNESNLQVTFSKRRSGLFKKASELCTLCGAYVALIIFSPGEKVF 62

Query: 46  HLCQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNM 105
               P+V+ + +R+L +    ND+I   ++AY +A + ELN     +   LD +K + N 
Sbjct: 63  SFGHPNVETVIDRYLSLVPTQNDDITQFIEAYRNASVRELNDILTHMKEALDIDKNRANE 122

Query: 106 LKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAAAASSSVAP 165
           L Q+R+  E    WW  P D +N+ +L     A++DL Q  +A    K      S+   P
Sbjct: 123 LSQLRKNNEAH-FWWTCPFDRMNMVQLGSFKKALEDL-QKLVAHYANKVEIQGTSTQPVP 180

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	172
TAIR|locus:2047304	264	AGL61 "AGAMOUS-like 61" [Arabi	0.843	0.549	0.309	6e-16
TAIR|locus:2025386	247	AGL28 "AGAMOUS-like 28" [Arabi	0.866	0.603	0.292	1e-11
TAIR|locus:2025282	196	MAF1 "MADS AFFECTING FLOWERING	0.703	0.617	0.320	5.8e-11
TAIR|locus:2206320	226	AGL23 "AGAMOUS-like 23" [Arabi	0.796	0.606	0.270	7.4e-11
TAIR|locus:2102990	207	AGL57 "AGAMOUS-like 57" [Arabi	0.604	0.502	0.369	1.5e-10
TAIR|locus:2144345	196	MAF3 "MADS AFFECTING FLOWERING	0.761	0.668	0.290	1.5e-10
TAIR|locus:2032537	182	AGL59 "AGAMOUS-like 59" [Arabi	0.656	0.620	0.340	2e-10
UNIPROTKB|Q43616	225	fbp7 "Floral binding protein n	0.75	0.573	0.270	5.2e-10
UNIPROTKB|Q9ZS26	197	gglo1 "MADS-box protein, GGLO1	0.761	0.664	0.306	1.4e-09
TAIR|locus:2195798	217	AT1G17310 [Arabidopsis thalian	0.220	0.175	0.578	1.4e-09

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

 Score = 199 (75.1 bits), Expect = 6.0e-16, P = 6.0e-16
 Identities = 51/165 (30%), Positives = 91/165 (55%)

Query:     4 KKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAIHL 47
             K++  RQKI M KI+ E  R +TFSKR +G++KKASE+                 +    
Sbjct:    59 KESIGRQKIPMVKIKKESHRQVTFSKRRAGLFKKASELCTLCGAEIGIIVFSPAKKPFSF 118

Query:    48 CQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLK 107
               PSV+++ +R++  + +       L    S A   ELN Q   +L +++EEK++   ++
Sbjct:   119 GHPSVESVLDRYVSRNNMSLAQSQQLQG--SPAASCELNMQLTHILSEVEEEKKKGQAME 176

Query:   108 QMRR--VKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKI 150
             +MR+  V+ +   WWE PV+E+N+ +L +M  A+++L +T +  +
Sbjct:   177 EMRKESVRRSMINWWEKPVEEMNMVQLQEMKYALEELRKTVVTNM 221

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

 Score = 159 (61.0 bits), Expect = 1.0e-11, P = 1.0e-11
 Identities = 48/164 (29%), Positives = 81/164 (49%)

Query:     1 MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWE------AIHLCQPSVKA 54
             MA K   RR KIE+ K+ NE +  +TFSKR SG++KK SE+        AI +  PS KA
Sbjct:     1 MARKNLGRR-KIELVKMTNESNLQVTFSKRRSGLFKKGSELCTLCDAEIAIIVFSPSGKA 59

Query:    55 IA------NRFL--GMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNML 106
              +      N+ L   + ++   N     ++ +  RI  LN+   +++ + ++E+E +  +
Sbjct:    60 YSFGHPNVNKLLDHSLGRVIRHNNTNFAESRTKLRIQMLNESLTEVMAEKEKEQETKQSI 119

Query:   107 KQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKI 150
              Q  R  +   +WW     ELNL +   M   ++ L +    K+
Sbjct:   120 VQNERENKDAEKWWRNSPTELNLAQSTSMKCDLEALKKEVDEKV 163

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:2025282 MAF1 "MADS AFFECTING FLOWERING 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 152 (58.6 bits), Expect = 5.8e-11, P = 5.8e-11
 Identities = 43/134 (32%), Positives = 72/134 (53%)

Query:     9 RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGM--SQLH 66
             R+KIE+K+IEN+  R +TFSKR +G+  KA ++  +I LC+ SV  +     G       
Sbjct:     3 RRKIEIKRIENKSSRQVTFSKRRNGLIDKARQL--SI-LCESSVAVVVVSASGKLYDSSS 59

Query:    67 NDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDE 126
              D+I  ++  Y      E+  QH D LR LD E++ QN L     ++  Q +  E  VD 
Sbjct:    60 GDDISKIIDRY------EI--QHADELRALDLEEKIQNYLPHKELLETVQSKLEEPNVDN 111

Query:   127 LNLQELLQMDSAVD 140
             +++  L+ ++  ++
Sbjct:   112 VSVDSLISLEEQLE 125

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;ISS

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009909 "regulation of flower development" evidence=IMP

GO:0009910 "negative regulation of flower development" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0048573 "photoperiodism, flowering" evidence=IMP

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

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 = 42/155 (27%), Positives = 73/155 (47%)

Query:     4 KKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAIHL 47
             KKT  R+K+E+ K+  E +  +TFSKR +G++KKASE                  +    
Sbjct:     3 KKTLGRRKVEIVKMTKESNLQVTFSKRKAGLFKKASEFCTLCDAKIAMIVFSPAGKVFSF 62

Query:    48 CQPSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLK 107
               P+V  + + F G    HN+    L ++Y+   +  LN+ + ++  ++++E++ +    
Sbjct:    63 GHPNVDVLLDHFRGCVVGHNNT--NLDESYTKLHVQMLNKSYTEVKAEVEKEQKNKQSRA 120

Query:   108 QMRRVKETQPRWWETPVDELNLQELLQMDSAVDDL 142
             Q  R  E    WW     ELNL +   M   + DL
Sbjct:   121 QNERENENAEEWWSKSPLELNLSQSTCMIRVLKDL 155

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

 Score = 148 (57.2 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 44/119 (36%), Positives = 65/119 (54%)

Query:     3 GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGM 62
             G+KTK +QKIEMKK+EN  DR+ITFSKR +GI+KK +E+   + +C   V      FL  
Sbjct:     9 GRKTKGKQKIEMKKVENYGDRMITFSKRKTGIFKKMNEL---VAMCDVEVA-----FLIF 60

Query:    63 SQLHNDNI--HPLVKAYSHARINELNQQ--HNDLLRQLDE---EKEQQNMLKQMRRVKE 114
             SQ        HP +K  +    N   Q+    D  R L E   ++   +++K+M  ++E
Sbjct:    61 SQPKKPYTFAHPSMKKVADRLKNPSRQEPLERDDTRPLVEAYKKRRLHDLVKKMEALEE 119

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:2144345 MAF3 "MADS AFFECTING FLOWERING 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 148 (57.2 bits), Expect = 1.5e-10, P = 1.5e-10
 Identities = 43/148 (29%), Positives = 80/148 (54%)

Query:     9 RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLHN- 67
             R+K+E+K+IEN+  R +TFSKR  G+ +KA ++  +I LC+ S+  +A    G  +L++ 
Sbjct:     3 RRKVEIKRIENKSSRQVTFSKRRKGLIEKARQL--SI-LCESSIAVVA--VSGSGKLYDS 57

Query:    68 ---DNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPV 124
                DN+  ++  Y      E++  H D L+ LD  ++ +N L     ++  Q +  E+ V
Sbjct:    58 ASGDNMSKIIDRY------EIH--HADELKALDLAEKIRNYLPHKELLEIVQSKLEESNV 109

Query:   125 DELNLQELLQMDSAVDDLHQTFLAKINE 152
             D +++  L+ M+  ++       AK  E
Sbjct:   110 DNVSVDSLISMEEQLETALSVIRAKKTE 137

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;ISS

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0009910 "negative regulation of flower development" evidence=IMP

GO:0010048 "vernalization response" evidence=IEP

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

 Score = 147 (56.8 bits), Expect = 2.0e-10, P = 2.0e-10
 Identities = 45/132 (34%), Positives = 71/132 (53%)

Query:     1 MAGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW-----EAIHL---CQ--- 49
             M  KKTK +QKI +KKIE ++ R +TFSKR +GIY K SE+      E   +   C    
Sbjct:     1 MNPKKTKGKQKINIKKIEKDEGRSVTFSKRLNGIYTKISELSILCGVEVAFIGYSCSGKP 60

Query:    50 -----PSVKAIANRFLGMSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQN 104
                  PS +A+A RFL      + +   ++ A+  A+I EL +++N L+ +L   K  + 
Sbjct:    61 YTFGSPSFQAVAERFLNGDASSSSSSSLVMNAHKQAKIQELCKKYNRLVEEL---KVDEV 117

Query:   105 MLKQMRRVKETQ 116
              +K+   + ET+
Sbjct:   118 KVKKAAALAETR 129

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

UNIPROTKB|Q43616 fbp7 "Floral binding protein number 7" [Petunia x hybrida (taxid:4102)]

 Score = 143 (55.4 bits), Expect = 5.2e-10, P = 5.2e-10
 Identities = 36/133 (27%), Positives = 71/133 (53%)

Query:     9 RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLG-MSQLHN 67
             R KIE+K+IEN  +R +TF KR +G+ KKA E+  ++ LC+  +  I     G + +  N
Sbjct:     3 RGKIEIKRIENNTNRQVTFCKRRNGLLKKAYEL--SV-LCEAEIALIVFSTRGRVYEYSN 59

Query:    68 DNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDEL 127
             +NI  ++  Y  A +   N      L     ++E + + +Q++ ++ +        +  L
Sbjct:    60 NNIRAIIDRYKKATVETSNAFTTQELNAQFYQQESKKLRQQIQLIQNSNRHLVGEGLSSL 119

Query:   128 NLQELLQMDSAVD 140
             N++EL Q+++ ++
Sbjct:   120 NVRELKQLENRLE 132

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q9ZS26 gglo1 "MADS-box protein, GGLO1" [Gerbera hybrid cultivar (taxid:18101)]

 Score = 139 (54.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 46/150 (30%), Positives = 75/150 (50%)

Query:     9 RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLGMSQLH-- 66
             R KIE+K+IEN  +R +T+SKR +GI KKA EI     LC  +V  +     G    +  
Sbjct:     3 RGKIEIKRIENTSNRQVTYSKRKNGIIKKAKEITV---LCDANVSLVIYGSSGKMYEYCS 59

Query:    67 -NDNIHPLVKAYSHARINEL-NQQHNDLLRQLDE-EKEQQNMLKQMRRVKETQPRWWETP 123
                N+  ++  Y     N+L + +H +L  ++D  +KE ++M  ++R +K          
Sbjct:    60 PKTNLIDMLDRYQRLSGNKLWDAKHENLQNEIDRIKKENESMQIELRHLKGED------- 112

Query:   124 VDELNLQELLQMDSAVDDLHQTFLAKINEK 153
             +  LN +EL+    A +D  +  L  I EK
Sbjct:   113 ITSLNYEELI----AYEDALENGLTNIREK 138

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2195798 AT1G17310 [Arabidopsis thaliana (taxid:3702)]

 Score = 114 (45.2 bits), Expect = 1.4e-09, Sum P(2) = 1.4e-09
 Identities = 22/38 (57%), Positives = 30/38 (78%)

Query:     4 KKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
             K T+ RQKIE+KKIE E  R +TFSKR  G++KK++E+
Sbjct:    44 KTTRGRQKIEIKKIEEETKRQVTFSKRRRGLFKKSAEL 81

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

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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

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	172
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	1e-12
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	5e-12
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	8e-11
smart00432	59	smart00432, MADS, MADS domain	2e-10
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	2e-04

>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 = 59.5 bits (145), Expect = 1e-12
 Identities = 23/48 (47%), Positives = 32/48 (66%), Gaps = 3/48 (6%)

Query: 8  RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAI 55
           R KIE+K+IEN  +R +TFSKR +G+ KKA E+  ++ LC   V  I
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHEL--SV-LCDAEVALI 45

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 = 57.5 bits (140), Expect = 5e-12
 Identities = 20/33 (60%), Positives = 27/33 (81%)

Query: 8  RRQKIEMKKIENEDDRLITFSKRGSGIYKKASE 40
           R KIE+K+IEN+  R +TFSKR +G++KKASE
Sbjct: 1  GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASE 33

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 = 55.0 bits (133), Expect = 8e-11
 Identities = 19/32 (59%), Positives = 27/32 (84%)

Query: 9  RQKIEMKKIENEDDRLITFSKRGSGIYKKASE 40
          R+KI++K+IEN+  R +TFSKR  G++KKASE
Sbjct: 2  RKKIKIKRIENKKKRAVTFSKRRQGLFKKASE 33

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

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

 Score = 53.7 bits (130), Expect = 2e-10
 Identities = 19/33 (57%), Positives = 29/33 (87%)

Query: 9  RQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
          R+KIE+K+IEN+ +R +TFSKR +G++KKA E+
Sbjct: 2  RRKIEIKRIENKTNRQVTFSKRRNGLFKKAHEL 34

Length = 59

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

 Score = 37.4 bits (87), Expect = 2e-04
 Identities = 16/27 (59%), Positives = 23/27 (85%)

Query: 15 KKIENEDDRLITFSKRGSGIYKKASEI 41
          K+IEN+ +R +TFSKR +GI+KKA E+
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHEL 27

Length = 51

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	172
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.91
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.9
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.83
smart00432	59	MADS MADS domain.	99.79
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.75
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.67
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.53
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.04
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	98.51
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	85.8
KOG4302	660	consensus Microtubule-associated protein essential	81.5
PF06698	59	DUF1192: Protein of unknown function (DUF1192); In	80.64
PF07820	92	TraC: TraC-like protein; InterPro: IPR012930 The m	80.36

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.91  E-value=2.9e-25  Score=169.72  Aligned_cols=60  Identities=43%  Similarity=0.666  Sum_probs=56.6

Q ss_pred             CCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCccc--HHHHHHHHhCCCccC
Q 043113            7 KRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPS--VKAIANRFLGMSQLH   66 (172)
Q Consensus         7 m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Ps--v~~Vl~ry~~~~~~~   66 (172)
                      |||+||+|++|+|++.|||||+|||.||||||+|||||                |+||+|+  |..|+++|.......
T Consensus         1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~   78 (195)
T KOG0014|consen    1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPS   78 (195)
T ss_pred             CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhh
Confidence            89999999999999999999999999999999999999                7899987  999999999877654

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

Probab=99.90  E-value=1.3e-24  Score=142.61  Aligned_cols=57  Identities=42%  Similarity=0.617  Sum_probs=54.9

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhCCCc
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLGMSQ   64 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~~~~   64 (172)
                      ||+||+|++|+|+..|++||+||+.||||||+|||+|                |+|++|++++||+||+..+.
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            8999999999999999999999999999999999999                78999999999999998765

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=99.83  E-value=1.9e-21  Score=129.34  Aligned_cols=58  Identities=43%  Similarity=0.642  Sum_probs=53.4

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCccc-HHHHHHHHhCCCcc
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPS-VKAIANRFLGMSQL   65 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Ps-v~~Vl~ry~~~~~~   65 (172)
                      ||+||+|++|+|+..|++||+||+.||||||+|||||                |.|++|+ +..+|++|...+..
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~   75 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSAL   75 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHh
Confidence            7999999999999999999999999999999999999                5577666 99999999988754

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=99.79  E-value=2.3e-20  Score=115.87  Aligned_cols=37  Identities=51%  Similarity=0.793  Sum_probs=36.7

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA   44 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L   44 (172)
                      ||+||+|++|+|+..|++||+||+.||||||+|||||
T Consensus         1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~L   37 (59)
T smart00432        1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVL   37 (59)
T ss_pred             CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhc
Confidence            8999999999999999999999999999999999999

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

Probab=99.75  E-value=2.6e-19  Score=111.21  Aligned_cols=37  Identities=54%  Similarity=0.776  Sum_probs=36.6

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA   44 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L   44 (172)
                      ||+||+|++|+|+..|++||+||+.||||||+|||||
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~L   37 (59)
T cd00120           1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVL   37 (59)
T ss_pred             CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheec
Confidence            7999999999999999999999999999999999999

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.

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

Probab=99.67  E-value=5.7e-18  Score=133.53  Aligned_cols=64  Identities=42%  Similarity=0.523  Sum_probs=56.9

Q ss_pred             CCCCCCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCccc---------HHHHHH
Q 043113            3 GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPS---------VKAIAN   57 (172)
Q Consensus         3 ~k~~m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Ps---------v~~Vl~   57 (172)
                      +|++.||+||+|++|+|+..|.||||||+.||||||+|||||                |.|+.|-         -+++|.
T Consensus        58 ~k~~~gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq  137 (338)
T KOG0015|consen   58 GKKTTGRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQ  137 (338)
T ss_pred             CccccceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHH
Confidence            588999999999999999999999999999999999999999                8898763         377888


Q ss_pred             HHhCCCccC
Q 043113           58 RFLGMSQLH   66 (172)
Q Consensus        58 ry~~~~~~~   66 (172)
                      ..++.+..+
T Consensus       138 ~cLn~pd~~  146 (338)
T KOG0015|consen  138 ACLNAPDTP  146 (338)
T ss_pred             HHhcCCCCC
Confidence            888877543

>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=99.53  E-value=5e-16  Score=93.40  Aligned_cols=30  Identities=53%  Similarity=0.781  Sum_probs=27.5

Q ss_pred             eeecCCcccchhhccccchhhhhhhhhhhc
Q 043113           15 KKIENEDDRLITFSKRGSGIYKKASEIWEA   44 (172)
Q Consensus        15 ~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L   44 (172)
                      ++|+|+..|++||+||+.||||||+|||+|
T Consensus         1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~L   30 (51)
T PF00319_consen    1 KRIENKSRRKVTFSKRKKGLFKKASELSTL   30 (51)
T ss_dssp             S--SSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCccchhHhHhHHHHHHhhhhhccceeeee
Confidence            589999999999999999999999999999

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 ....

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

Probab=99.04  E-value=3.8e-11  Score=99.03  Aligned_cols=39  Identities=41%  Similarity=0.476  Sum_probs=38.3

Q ss_pred             CCCccccceeeecCCcccchhhccccchhhhhhhhhhhc
Q 043113            6 TKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA   44 (172)
Q Consensus         6 ~m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L   44 (172)
                      +|||+||.|.+|+|+..|.|||+||+.||+|||.||++|
T Consensus        80 ~~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvL  118 (412)
T COG5068          80 SVTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVL  118 (412)
T ss_pred             ccccccCCcccccCcccccchhhhhhhhhhhhhhhhhhc
Confidence            689999999999999999999999999999999999999

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

Probab=98.51  E-value=8.9e-07  Score=60.78  Aligned_cols=62  Identities=13%  Similarity=0.283  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 043113           90 NDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAAA  157 (172)
Q Consensus        90 ~kl~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~l~~Ls~~eL~~l~~~Le~~l~~V~~r~~~l~~~~  157 (172)
                      ..+..++..++..++.|+..++      ++.|+++++|+++||..|+..|+.++..|+.|+.+++.+.
T Consensus        15 e~~~~e~~~L~~~~~~L~~~~R------~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~   76 (100)
T PF01486_consen   15 EELQQEIAKLRKENESLQKELR------HLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQ   76 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh------ccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHH
Confidence            3344444444444445555666      3445699999999999999999999999999999998765

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

>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences

Probab=85.80  E-value=12  Score=27.65  Aligned_cols=66  Identities=17%  Similarity=0.188  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 043113           81 RINELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTAA  156 (172)
Q Consensus        81 ~~~~L~~~~~kl~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~l~~Ls~~eL~~l~~~Le~~l~~V~~r~~~l~~~  156 (172)
                      .+..+..++..|++++..++.....+.......          ...++.+||......|..-...+..|+..|..+
T Consensus        73 el~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L----------~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~~  138 (169)
T PF07106_consen   73 ELAELDAEIKELREELAELKKEVKSLEAELASL----------SSEPTNEELREEIEELEEEIEELEEKLEKLRSG  138 (169)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            466778888888888888888777777666532          256789999999999999999999999988874

TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].

>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=81.50  E-value=21  Score=32.50  Aligned_cols=73  Identities=15%  Similarity=0.225  Sum_probs=47.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 043113           82 INELNQQHNDLLRQLDEEKEQQNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKT  154 (172)
Q Consensus        82 ~~~L~~~~~kl~~~l~~~k~~~~~l~~~~~~~~~~~~~~~~~l~~Ls~~eL~~l~~~Le~~l~~V~~r~~~l~  154 (172)
                      +..|..++.+-.+++..+..+.+.+...+.+..+-....-.|..+|+++.|.+|...|..+.+....|++...
T Consensus       112 le~lr~qk~eR~~ef~el~~qie~l~~~l~g~~~~~~~~~~D~~dlsl~kLeelr~~L~~L~~ek~~Rlekv~  184 (660)
T KOG4302|consen  112 LEGLRKQKDERRAEFKELYHQIEKLCEELGGPEDLPSFLIADESDLSLEKLEELREHLNELQKEKSDRLEKVL  184 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCcccccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445555555555555555544444444432211113345577999999999999999999999888887765

>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=80.64  E-value=6.5  Score=24.19  Aligned_cols=37  Identities=19%  Similarity=0.120  Sum_probs=29.6

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 043113          119 WWETPVDELNLQELLQMDSAVDDLHQTFLAKINEKTA  155 (172)
Q Consensus       119 ~~~~~l~~Ls~~eL~~l~~~Le~~l~~V~~r~~~l~~  155 (172)
                      ..+.+|+.||++||.+....|+.=..+++.-+.....
T Consensus        13 ~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~~~~K~a   49 (59)
T PF06698_consen   13 EIGEDLSLLSVEELEERIALLEAEIARLEAAIAKKSA   49 (59)
T ss_pred             ccCCCchhcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3567999999999999999888888777776665543

The function of this family is unknown.

>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli

Probab=80.36  E-value=5.2  Score=26.83  Aligned_cols=60  Identities=10%  Similarity=0.310  Sum_probs=32.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhhhcCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 043113           82 INELNQQHNDLLRQLDEEKEQ-QNMLKQMRRVKETQPRWWETPVDELNLQELLQMDSAVDDLHQTFLAKIN  151 (172)
Q Consensus        82 ~~~L~~~~~kl~~~l~~~k~~-~~~l~~~~~~~~~~~~~~~~~l~~Ls~~eL~~l~~~Le~~l~~V~~r~~  151 (172)
                      +..+..++.+|++++.....+ .+.+-...         ....|.+|.++| .+|...++++..+++.-..
T Consensus         4 ~s~I~~eIekLqe~lk~~e~keaERigr~A---------lKaGL~eieI~d-~eL~~~FeeIa~RFrk~~~   64 (92)
T PF07820_consen    4 SSKIREEIEKLQEQLKQAETKEAERIGRIA---------LKAGLGEIEISD-AELQAAFEEIAARFRKGKK   64 (92)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHcccccccCCH-HHHHHHHHHHHHHHhcccc
Confidence            346778888888888766442 22222221         112555555554 2455555555555555443

The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	172
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		2e-04
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		2e-04
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		7e-04

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/39 (56%), Positives = 29/39 (74%)
Query: 3  GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
          GKKT+ R KI+M+ I+N+  R  TFSKR +GI KKA E+
Sbjct: 6  GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYEL 44

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/39 (56%), Positives = 29/39 (74%)
Query: 3  GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
          GKKT+ R KI+M+ I+N+  R  TFSKR +GI KKA E+
Sbjct: 5  GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYEL 43

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/35 (60%), Positives = 26/35 (74%)
Query: 7  KRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
          K R+KIE+K IEN+  R +TFSKR  GI KKA E+
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFEL 50

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	172
1hbx_A	92	SRF, serum response factor; gene regulation, trans	7e-14
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	1e-13
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	6e-13
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	3e-11
1egw_A	77	MADS box transcription enhancer factor 2, polypept	9e-10

>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 = 62.9 bits (153), Expect = 7e-14
 Identities = 22/40 (55%), Positives = 29/40 (72%)

Query: 2  AGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
           GKKT+ R KI+M+ I+N+  R  TFSKR +GI KKA E+
Sbjct: 5  PGKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYEL 44

>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 = 62.6 bits (152), Expect = 1e-13
 Identities = 29/103 (28%), Positives = 48/103 (46%), Gaps = 4/103 (3%)

Query: 2   AGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLG 61
            GKKT+ R KI+M+ I+N+  R  TFSKR +GI KKA E+     L    V  +     G
Sbjct: 4   PGKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELST---LTGTQVLLLVASETG 60

Query: 62  -MSQLHNDNIHPLVKAYSHARINELNQQHNDLLRQLDEEKEQQ 103
            +       + P++ + +   + +      D   + D   +Q+
Sbjct: 61  HVYTFATRKLQPMITSETGKALIQTCLNSPDSPPRSDPTTDQR 103

>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 = 60.6 bits (147), Expect = 6e-13
 Identities = 21/40 (52%), Positives = 27/40 (67%)

Query: 2  AGKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
             + K R+KIE+K IEN+  R +TFSKR  GI KKA E+
Sbjct: 11 NNGQQKERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFEL 50

>3p57_A Myocyte-specific enhancer factor 2A; protein-DNA complex, transcription factor, transcriptional activation, zinc finger; HET: DNA; 2.19A {Homo sapiens} PDB: 3kov_A* 1tqe_P 1n6j_A Length = 90

 Score = 55.9 bits (135), Expect = 3e-11
 Identities = 22/92 (23%), Positives = 51/92 (55%), Gaps = 4/92 (4%)

Query: 9  RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEAIHLCQPSVKAIANRFLG-MSQLHN 67
          R+KI++ +I +E +R +TF+KR  G+ KKA E+  ++ LC   +  I       + Q  +
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYEL--SV-LCDCEIALIIFNSSNKLFQYAS 58

Query: 68 DNIHPLVKAYSHARINELNQQHNDLLRQLDEE 99
           ++  ++  Y+       ++ ++D++  L+++
Sbjct: 59 TDMDKVLLKYTEYNEPHESRTNSDIVEALNKK 90

>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 = 51.6 bits (124), Expect = 9e-10
 Identities = 15/33 (45%), Positives = 25/33 (75%)

Query: 9  RQKIEMKKIENEDDRLITFSKRGSGIYKKASEI 41
          R+KI++ +I +E +R +TF+KR  G+ KKA E+
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYEL 34

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	172
1egw_A	77	MADS box transcription enhancer factor 2, polypept	99.93
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.93
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	99.93
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	99.93
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	99.92

>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=99.93  E-value=6.4e-28  Score=156.40  Aligned_cols=58  Identities=26%  Similarity=0.439  Sum_probs=53.6

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhCCCcc
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLGMSQL   65 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~~~~~   65 (172)
                      ||+||+|++|+|+++|||||+|||+||||||+|||||                |+|++|+++.||+||+..+.+
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~~~~il~ry~~~~~~   74 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEP   74 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC---
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCCHHHHHHHHHhccCC
Confidence            8999999999999999999999999999999999999                789999999999999987654

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

Probab=99.93  E-value=2.2e-28  Score=163.03  Aligned_cols=58  Identities=38%  Similarity=0.476  Sum_probs=54.8

Q ss_pred             CCCCCCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHh
Q 043113            3 GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFL   60 (172)
Q Consensus         3 ~k~~m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~   60 (172)
                      +|++|||+||+|++|+|+++|+|||+|||.||||||+|||||                |+|++|+++.||++|.
T Consensus         6 ~k~~mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~~~~i~~~~   79 (92)
T 1hbx_A            6 GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSET   79 (92)
T ss_dssp             CCSSCCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGGGGGTSSHH
T ss_pred             CCCCCCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCHHHHHhhhc
Confidence            588999999999999999999999999999999999999999                8899999999988653

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

Probab=99.93  E-value=1e-27  Score=159.12  Aligned_cols=60  Identities=27%  Similarity=0.463  Sum_probs=56.7

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhCCCccCC
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLGMSQLHN   67 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~~~~~~~   67 (172)
                      ||+||+|++|+|+++|||||+|||.||||||+|||||                |+|++|+|+.||+||+..+.+..
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~~~il~rY~~~~~~~~   76 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEPHE   76 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHCCSCCC
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCHHHHHHHHHhcCcccc
Confidence            8999999999999999999999999999999999999                78999999999999998876543

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

Probab=99.93  E-value=6.9e-28  Score=162.61  Aligned_cols=59  Identities=41%  Similarity=0.534  Sum_probs=54.1

Q ss_pred             CCCCCCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhC
Q 043113            3 GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLG   61 (172)
Q Consensus         3 ~k~~m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~   61 (172)
                      ++++|||+||+|++|+|+.+|+|||+|||.||||||+|||||                |+|++|++..|+++|..
T Consensus        12 ~~~~mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~~~il~r~~G   86 (100)
T 1mnm_A           12 NGQQKERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEG   86 (100)
T ss_dssp             ---CCCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHH
T ss_pred             CCCCCCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCHHHHHHHhhC
Confidence            478999999999999999999999999999999999999999                88999999999998854

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

Probab=99.92  E-value=6.8e-28  Score=163.62  Aligned_cols=57  Identities=39%  Similarity=0.492  Sum_probs=54.4

Q ss_pred             CCCCCCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHH
Q 043113            3 GKKTKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRF   59 (172)
Q Consensus         3 ~k~~m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry   59 (172)
                      +|++|||+||+|++|+|+.+|+|||+|||.||||||+|||||                |+|++|+++.||+++
T Consensus         5 ~k~~mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~   77 (103)
T 1k6o_B            5 GKKTRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSE   77 (103)
T ss_dssp             CCSSCCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSH
T ss_pred             CCCCCCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhh
Confidence            588999999999999999999999999999999999999999                889999999999864

---

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	172
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	4e-15
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	7e-15
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	2e-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 = 64.8 bits (158), Expect = 4e-15
 Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 16/78 (20%)

Query: 6  TKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWE----------------AIHLCQ 49
          T+ R KI+M+ I+N+  R  TFSKR +GI KKA E+                        
Sbjct: 1  TRGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT 60

Query: 50 PSVKAIANRFLGMSQLHN 67
            ++ +     G + +  
Sbjct: 61 RKLQPMITSETGKALIQT 78

>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 = 64.0 bits (156), Expect = 7e-15
 Identities = 24/77 (31%), Positives = 33/77 (42%), Gaps = 16/77 (20%)

Query: 7  KRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAIHLCQP 50
          K R+KIE+K IEN+  R +TFSKR  GI KKA E+                        P
Sbjct: 2  KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 61

Query: 51 SVKAIANRFLGMSQLHN 67
            + I  +  G + +  
Sbjct: 62 KFEPIVTQQEGRNLIQA 78

>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 = 15/67 (22%), Positives = 30/67 (44%), Gaps = 16/67 (23%)

Query: 9  RQKIEMKKIENEDDRLITFSKRGSGIYKKASEIW----------------EAIHLCQPSV 52
          R+KI++ +I +E +R +TF+KR  G+ KKA E+                 +        +
Sbjct: 2  RKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDM 61

Query: 53 KAIANRF 59
            +  ++
Sbjct: 62 DKVLLKY 68

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	172
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	99.93
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	99.92
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	99.91

>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=99.93  E-value=3.3e-28  Score=153.62  Aligned_cols=54  Identities=28%  Similarity=0.471  Sum_probs=52.3

Q ss_pred             CccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhC
Q 043113            8 RRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLG   61 (172)
Q Consensus         8 ~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~   61 (172)
                      ||+||+|++|+|+..|+|||+|||.||||||+|||+|                |+|+||++++||+||+.
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            8999999999999999999999999999999999999                78999999999999974

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

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

Probab=99.92  E-value=1.8e-27  Score=154.05  Aligned_cols=56  Identities=36%  Similarity=0.455  Sum_probs=53.7

Q ss_pred             CCCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhC
Q 043113            6 TKRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLG   61 (172)
Q Consensus         6 ~m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~   61 (172)
                      ++||+||+|++|+|+..|+|||+|||.||||||+|||||                |+|+||++++||++|..
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            689999999999999999999999999999999999999                88999999999999964

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

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

Probab=99.91  E-value=1.1e-26  Score=151.13  Aligned_cols=57  Identities=42%  Similarity=0.543  Sum_probs=54.1

Q ss_pred             CCccccceeeecCCcccchhhccccchhhhhhhhhhhc----------------cccCcccHHHHHHHHhCCC
Q 043113            7 KRRQKIEMKKIENEDDRLITFSKRGSGIYKKASEIWEA----------------IHLCQPSVKAIANRFLGMS   63 (172)
Q Consensus         7 m~R~Ki~i~~I~n~~~R~vTfsKRr~GL~KKa~ELs~L----------------~sfg~Psv~~Vl~ry~~~~   63 (172)
                      .||+||+|++|+|+..|+|||+|||.||||||+|||||                |+|+||+|++||+||...+
T Consensus         2 k~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~~~   74 (85)
T d1mnma_           2 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGRN   74 (85)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHHH
T ss_pred             CCccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhccc
Confidence            59999999999999999999999999999999999999                8899999999999998643