Citrus Sinensis ID: 039560

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340----
Protein Sequence
MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccHHHHHHHHHHHccccEEEEEEccccccccccccccHHHHHHHHHcccHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEcccHHHHHHHHHHHccccccccccccHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccccccccccccHHHcccHHHHccccccccccccHHcccccccccccccHHHEEcccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDialimfspsgrlshfsgrkRIEDVFSRyvnlpdqerehaiifpdqgrhpdiqNKEYLLRTLQQLRSENDIALQLANPAAINNDIEELQQEVGRLQQQLQMAEDQiriyepdplritsIKDIESCEKNLVDTLTQVSQRKEFLLSnhlssydpssmqqqampssfenevvgwlpggghnqaQIFESSASLNELRdlsttmydpllqgtssnagphsigechvtnpsgenfatwpQAFVsaglhsaplspslypqiqqhgmmgtdtneilprdqveipinaphvqadneganydqnkipqvngq
Flexible Loop (DISEMBL)
MGRVKLEIkrienntnrqvtfskrrngliKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHAiifpdqgrhpDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGTDTNEILPRDQVEIPINAPHVQadneganydqnkipqvngq
Low Complexity Region (SEG)
MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDIeelqqevgrlqqqlqMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSYDpssmqqqampssFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ
Disordered region (IsUnstruct)
******************VTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDI****************AEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVS****F**************************VVGWLPGG*******************************************CHV*****ENFATWPQAFVSAGLH************************************************************
Disordered Region (DISOPRED)
MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQ****************IQNKEYLLRTLQQLRSENDIA***************LQQEVGRLQ**************PDPLRITSIKDIESCEKNLVDTLTQVSQ*******************************************************************************************************L*SAPL********************************************************
Disordered Region (DISEMBL)
MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSY*************FENEVVGWLPGGGHNQAQIFESSASLNELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ
Disordered Region (DISPRO)
*****LEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQER**********RHPDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSYDPSSM***********EVVGWLPGGGHNQAQIFESSASLNELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGTDTNEILPRDQVEIPINAP**********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPAAINNDxxxxxxxxxxxxxxxxxxxxxIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ
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	344	2.2.26 [Sep-21-2011]
Q38836	230	Agamous-like MADS-box pro	no	no	0.424	0.634	0.362	2e-21
Q0D4T4	249	MADS-box transcription fa	no	no	0.465	0.642	0.380	5e-21
A2YNI2	249	MADS-box transcription fa	N/A	no	0.465	0.642	0.380	5e-21
Q2QW53	270	MADS-box transcription fa	no	no	0.447	0.570	0.326	8e-21
P29383	258	Agamous-like MADS-box pro	no	no	0.456	0.608	0.377	9e-21
Q7XUN2	249	MADS-box transcription fa	no	no	0.415	0.574	0.359	1e-20
Q6R4S6	254	Transcription factor CAUL	N/A	no	0.482	0.653	0.321	1e-20
Q6R4S3	254	Transcription factor CAUL	N/A	no	0.482	0.653	0.321	1e-20
Q9SBK9	254	Transcription factor CAUL	N/A	no	0.482	0.653	0.321	1e-20
Q39081	255	Transcription factor CAUL	no	no	0.482	0.650	0.326	3e-20

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

 Score =  103 bits (256), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 67/185 (36%), Positives = 91/185 (49%), Gaps = 39/185 (21%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR K+EIKRIEN+TNRQVTF KRRNGL+KKAYELS+LCD ++ALI+FS  GRL  ++  
Sbjct: 1   MGRGKIEIKRIENSTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYAN- 59

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             I     RY                                     S N   +Q  N A
Sbjct: 60  NNIRSTIERYKKACSD-------------------------------STNTSTVQEINAA 88

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
                    QQE  +L+QQ+Q  ++  R    D L   S+K+++  E  L   ++++  +
Sbjct: 89  Y-------YQQESAKLRQQIQTIQNSNRNLMGDSLSSLSVKELKQVENRLEKAISRIRSK 141

Query: 181 KEFLL 185
           K  LL
Sbjct: 142 KHELL 146

Probable transcription factor.
Arabidopsis thaliana (taxid: 3702)

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

 Score =  102 bits (253), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 102/171 (59%), Gaps = 11/171 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR  ++++RIEN  NRQVTFSKRRNGL+KKA+E+S+LCD D+ALI+FS  G+L  FS  
Sbjct: 1   MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             +E +  RY      ER  A++       P+ +++E        L+S+ D ALQ +   
Sbjct: 61  SSMEGILERYQRYSFDER--AVL------EPNTEDQENWGDEYGILKSKLD-ALQKSQRQ 111

Query: 121 AINNDIEELQ-QEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNL 170
            +   ++ L  +E+ +L+ QL+ +   IR  + + L   SI +++  EK+L
Sbjct: 112 LLGEQLDTLTIKELQQLEHQLEYSLKHIR-SKKNQLLFESISELQKKEKSL 161

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

Oryza sativa subsp. japonica (taxid: 39947)

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

 Score =  102 bits (253), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 65/171 (38%), Positives = 102/171 (59%), Gaps = 11/171 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR  ++++RIEN  NRQVTFSKRRNGL+KKA+E+S+LCD D+ALI+FS  G+L  FS  
Sbjct: 1   MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             +E +  RY      ER  A++       P+ +++E        L+S+ D ALQ +   
Sbjct: 61  SSMEGILERYQRYSFDER--AVL------EPNTEDQENWGDEYGILKSKLD-ALQKSQRQ 111

Query: 121 AINNDIEELQ-QEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNL 170
            +   ++ L  +E+ +L+ QL+ +   IR  + + L   SI +++  EK+L
Sbjct: 112 LLGEQLDTLTIKELQQLEHQLEYSLKHIR-SKKNQLLFESISELQKKEKSL 161

Probable transcription factor.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q2QW53|MAD13_ORYSJ MADS-box transcription factor 13 OS=Oryza sativa subsp. japonica GN=MADS13 PE=1 SV=2

 Score =  101 bits (251), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 62/190 (32%), Positives = 98/190 (51%), Gaps = 36/190 (18%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR ++EIKRIEN T+RQVTF KRRNGL+KKAYELS+LCD ++ALI+FS  GRL  +S  
Sbjct: 1   MGRGRIEIKRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSNN 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             ++    RY      ++ HA          ++  ++Y                      
Sbjct: 61  NNVKATIDRY------KKAHACGSTSGAPLIEVNAQQY---------------------- 92

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
                    QQE  +L+ Q+QM ++  +    D +   S+K+++  E  L   ++++  R
Sbjct: 93  --------YQQESAKLRHQIQMLQNTNKHLVGDNVSNLSLKELKQLESRLEKGISKIRAR 144

Query: 181 KEFLLSNHLS 190
           K  LL++ ++
Sbjct: 145 KNELLASEIN 154

Probable transcription factor.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P29383|AGL3_ARATH Agamous-like MADS-box protein AGL3 OS=Arabidopsis thaliana GN=AGL3 PE=2 SV=2

 Score =  101 bits (251), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 68/180 (37%), Positives = 109/180 (60%), Gaps = 23/180 (12%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHF--- 57
           MGR K+E+KRIEN  NRQVTF+KRRNGL+KKAYELS+LCD +IAL++FS  G+L  F   
Sbjct: 1   MGRGKVELKRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEIALLIFSNRGKLYEFCSS 60

Query: 58  -SGRKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNK--EYLLRTLQQLRSENDIAL 114
            SG  R  D + ++         +A + P+Q    D+Q+K  +YL     +L+S  +I L
Sbjct: 61  PSGMARTVDKYRKH--------SYATMDPNQS-AKDLQDKYQDYL-----KLKSRVEI-L 105

Query: 115 QLANPAAINNDIEELQ-QEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDT 173
           Q +    +  ++ E+   E+  L++Q+  +  QIR  +   + +  + D+++ E+ L++T
Sbjct: 106 QHSQRHLLGEELSEMDVNELEHLERQVDASLRQIRSTKARSM-LDQLSDLKTKEEMLLET 164

Probable transcription factor.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XUN2|MAD17_ORYSJ MADS-box transcription factor 17 OS=Oryza sativa subsp. japonica GN=MADS17 PE=1 SV=2

 Score =  100 bits (250), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 65/181 (35%), Positives = 92/181 (50%), Gaps = 38/181 (20%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR ++E+KRIEN  NRQVTFSKRRNGL+KKAYELS+LCD ++ALI+FS  G+L  F G 
Sbjct: 1   MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEF-GS 59

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             I     +Y         ++  +  QG                            +N A
Sbjct: 60  AGINKTLEKY---------NSCCYNAQG----------------------------SNSA 82

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
               + +   QE+ RL+ +L+  +   R    + L   SIK+++  EK L  +L+Q  QR
Sbjct: 83  LAGGEHQSWYQEMSRLKTKLECLQRSQRHMLGEDLGPLSIKELQQLEKQLEYSLSQARQR 142

Query: 181 K 181
           K
Sbjct: 143 K 143

Probable transcription factor. Plays minor but redundant roles with MADS6 in floral development.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6R4S6|CAL_BRARC Transcription factor CAULIFLOWER OS=Brassica rapa subsp. chinensis GN=CAL PE=2 SV=1

 Score =  100 bits (249), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 66/205 (32%), Positives = 100/205 (48%), Gaps = 39/205 (19%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR ++E+KRIEN  NRQVTFSKRR GL+KKA+E+SILCD +++LI+FS  G+L  +S  
Sbjct: 1   MGRGRVEMKRIENKINRQVTFSKRRAGLLKKAHEISILCDAEVSLIVFSHKGKLFEYSSE 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             +E V  RY      E+                                    QL  P 
Sbjct: 61  SCMEKVLERYERYSYAEK------------------------------------QLKAPD 84

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           +  N       E  RL+ ++++ E   R Y  + L   SIK++++ E+ L  +L  +  R
Sbjct: 85  SHVNAQTNWSMEYSRLKAKIELLERNQRHYLGEDLESISIKELQNLEQQLDTSLKHIRSR 144

Query: 181 KEFLLS---NHLSSYDPSSMQQQAM 202
           K  L+    NHL   +   +++ +M
Sbjct: 145 KNQLMHESLNHLQRKEKEILEENSM 169

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

Brassica rapa subsp. chinensis (taxid: 93385)

>sp|Q6R4S3|CAL_BRARA Transcription factor CAULIFLOWER OS=Brassica rapa GN=CAL PE=2 SV=1

 Score =  100 bits (249), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 66/205 (32%), Positives = 100/205 (48%), Gaps = 39/205 (19%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR ++E+KRIEN  NRQVTFSKRR GL+KKA+E+SILCD +++LI+FS  G+L  +S  
Sbjct: 1   MGRGRVEMKRIENKINRQVTFSKRRAGLLKKAHEISILCDAEVSLIVFSHKGKLFEYSSE 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             +E V  RY      E+                                    QL  P 
Sbjct: 61  SCMEKVLERYERYSYAEK------------------------------------QLKAPD 84

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           +  N       E  RL+ ++++ E   R Y  + L   SIK++++ E+ L  +L  +  R
Sbjct: 85  SHVNAQTNWSMEYSRLKAKIELLERNQRHYLGEDLESISIKELQNLEQQLDTSLKHIRSR 144

Query: 181 KEFLLS---NHLSSYDPSSMQQQAM 202
           K  L+    NHL   +   +++ +M
Sbjct: 145 KNQLMHESLNHLQRKEKEILEENSM 169

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

Brassica rapa (taxid: 51350)

>sp|Q9SBK9|CAL_BRARP Transcription factor CAULIFLOWER OS=Brassica rapa subsp. pekinensis GN=CAL PE=2 SV=1

 Score =  100 bits (249), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 66/205 (32%), Positives = 100/205 (48%), Gaps = 39/205 (19%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR ++E+KRIEN  NRQVTFSKRR GL+KKA+E+SILCD +++LI+FS  G+L  +S  
Sbjct: 1   MGRGRVEMKRIENKINRQVTFSKRRAGLLKKAHEISILCDAEVSLIVFSHKGKLFEYSSE 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             +E V  RY      E+                                    QL  P 
Sbjct: 61  SCMEKVLERYERYSYAEK------------------------------------QLKAPD 84

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           +  N       E  RL+ ++++ E   R Y  + L   SIK++++ E+ L  +L  +  R
Sbjct: 85  SHVNAQTNWSMEYSRLKAKIELLERNQRHYLGEDLESISIKELQNLEQQLDTSLKHIRSR 144

Query: 181 KEFLLS---NHLSSYDPSSMQQQAM 202
           K  L+    NHL   +   +++ +M
Sbjct: 145 KNQLMHESLNHLQRKEKEILEENSM 169

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

Brassica rapa subsp. pekinensis (taxid: 51351)

>sp|Q39081|CAL_ARATH Transcription factor CAULIFLOWER OS=Arabidopsis thaliana GN=CAL PE=1 SV=3

 Score = 99.8 bits (247), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 67/205 (32%), Positives = 102/205 (49%), Gaps = 39/205 (19%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGR ++E+KRIEN  NRQVTFSKRR GL+KKA E+S+LCD +++LI+FS  G+L  +S  
Sbjct: 1   MGRGRVELKRIENKINRQVTFSKRRTGLLKKAQEISVLCDAEVSLIVFSHKGKLFEYSSE 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
             +E V  RY      ER+  +I PD   H + Q    +                     
Sbjct: 61  SCMEKVLERYERYSYAERQ--LIAPDS--HVNAQTNWSM--------------------- 95

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
                      E  RL+ ++++ E   R Y  + L   S+KD+++ E+ L   L  +  R
Sbjct: 96  -----------EYSRLKAKIELLERNQRHYLGEELEPMSLKDLQNLEQQLETALKHIRSR 144

Query: 181 KEFLLS---NHLSSYDPSSMQQQAM 202
           K  L++   NHL   +    ++ +M
Sbjct: 145 KNQLMNESLNHLQRKEKEIQEENSM 169

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

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	344
255545624	347	mads box protein, putative [Ricinus comm	0.985	0.976	0.700	1e-135
356551640	347	PREDICTED: MADS-box transcription factor	0.938	0.930	0.666	1e-123
356550807	347	PREDICTED: MADS-box transcription factor	0.953	0.945	0.642	1e-120
297850664	335	predicted protein [Arabidopsis lyrata su	0.973	1.0	0.604	1e-111
15219223	335	protein AGAMOUS-like 104 [Arabidopsis th	0.970	0.997	0.605	1e-111
297842575	331	MADS-box family protein [Arabidopsis lyr	0.947	0.984	0.587	1e-104
42563302	332	protein agamous-like 66 [Arabidopsis tha	0.950	0.984	0.581	1e-103
116831035	333	unknown [Arabidopsis thaliana]	0.950	0.981	0.581	1e-103
32402448	332	MADS-box protein AGL66 [Arabidopsis thal	0.950	0.984	0.581	1e-102
343160545	348	AGL66 protein [Eschscholzia californica]	0.959	0.948	0.563	1e-100

>gi|255545624|ref|XP_002513872.1| mads box protein, putative [Ricinus communis] gi|223546958|gb|EEF48455.1| mads box protein, putative [Ricinus communis]

 Score =  486 bits (1250), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 246/351 (70%), Positives = 294/351 (83%), Gaps = 12/351 (3%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
           KRIEDVF+RYVNLPDQEREHA ++P++ R+P     +YLLRTL QL+SENDIALQLANP 
Sbjct: 61  KRIEDVFARYVNLPDQEREHA-LYPERSRNPMFYLMQYLLRTLHQLKSENDIALQLANPT 119

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EELQQEV  LQQQ+Q+AE+QIRIYEPDPL++ S+ ++ESCEKNLVDTLT+V QR
Sbjct: 120 AINSDVEELQQEVTSLQQQIQIAEEQIRIYEPDPLKLPSLGELESCEKNLVDTLTRVMQR 179

Query: 181 KEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQA--------QIFESSASLN 232
           KEFLLSNHL SYDPSSM  Q +P+SFEN+V+GWLP G  N A        QIF++SASLN
Sbjct: 180 KEFLLSNHL-SYDPSSM--QGIPNSFENDVIGWLPDGSQNHAQMLPTPAPQIFDTSASLN 236

Query: 233 ELRDLSTTMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSL 292
            LRD+S+TMYDPLLQG+SSN   H +GECHVTNP+  NF+ WPQ + S GL+S  +S SL
Sbjct: 237 NLRDISSTMYDPLLQGSSSNGETHRMGECHVTNPNDGNFSPWPQLYTSTGLNSTAISSSL 296

Query: 293 YPQIQQHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNG 343
           YP   QHGM+G +  +++PR+Q+EIP++A HV  +N  ANY+ NK+P++NG
Sbjct: 297 YPHQLQHGMVGPNIPDMMPREQMEIPMDAEHVHMENVAANYENNKVPRLNG 347

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356551640|ref|XP_003544182.1| PREDICTED: MADS-box transcription factor 1 [Glycine max]

 Score =  448 bits (1152), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 226/339 (66%), Positives = 266/339 (78%), Gaps = 16/339 (4%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIA+IMFSPSGRL+HFSGR
Sbjct: 22  MGRVKLEIKRIENPTNRQVTFSKRRNGLIKKAYELSILCDIDIAVIMFSPSGRLNHFSGR 81

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
           +RIEDVF+RY+NLPDQER++A+ FP+      IQNKEYLLRTLQQLRSENDIALQLANP 
Sbjct: 82  RRIEDVFTRYINLPDQERDNAVSFPELPYRRSIQNKEYLLRTLQQLRSENDIALQLANPG 141

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
            IN++IEELQQEV RLQQQLQMAE+QIR+YEPDPL+++S+ D+E+ EK+LVD LT+V QR
Sbjct: 142 DINSEIEELQQEVNRLQQQLQMAEEQIRLYEPDPLKMSSMADLENSEKHLVDVLTRVIQR 201

Query: 181 KEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTT 240
           KE+LLSNHLSSYDPS +  Q +P+SFEN  VGWL  G  NQAQIF++SA L+ LRDLS+T
Sbjct: 202 KEYLLSNHLSSYDPSGI--QGIPTSFEN--VGWLQDGSQNQAQIFDASAPLDPLRDLSST 257

Query: 241 MYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHG 300
           MY    QG SSNA P  +GECHV+NPS  N   WPQ +            +LYP   QH 
Sbjct: 258 MYGSFSQGRSSNADPRGMGECHVSNPSDGNLQAWPQGY------------TLYPHHIQHD 305

Query: 301 MMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIP 339
           M+G D  +++P  QV +PI A     +NE   YDQ+K P
Sbjct: 306 MVGPDMPDMMPHAQVNLPITALEPPKNNEPVEYDQSKQP 344

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356550807|ref|XP_003543775.1| PREDICTED: MADS-box transcription factor 1-like, partial [Glycine max]

 Score =  437 bits (1123), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 225/350 (64%), Positives = 267/350 (76%), Gaps = 22/350 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIA+IMFSPSGR++HFSGR
Sbjct: 14  MGRVKLEIKRIENPTNRQVTFSKRRNGLIKKAYELSILCDIDIAVIMFSPSGRVNHFSGR 73

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
           +RIEDVF+RY+NLPDQ R++A+ FP+      IQNKEYLLRTLQQLRSENDIALQLANP 
Sbjct: 74  RRIEDVFTRYINLPDQVRDNAVSFPELPYRRGIQNKEYLLRTLQQLRSENDIALQLANPG 133

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
            IN++IEELQQEV +LQQQLQM E+QIR+YEPDPL+++++ D+E+ EK LVD LT+V QR
Sbjct: 134 DINSEIEELQQEVNKLQQQLQMTEEQIRLYEPDPLKMSTMADLENSEKYLVDVLTRVIQR 193

Query: 181 KEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTT 240
           KE+LLSNHLSSYDPS +  Q +P+SFEN  VGWL  G  N  QIF++SA L+ LRDLS+T
Sbjct: 194 KEYLLSNHLSSYDPSGI--QGIPTSFEN--VGWLQDGNQNHTQIFDASAPLDPLRDLSST 249

Query: 241 MYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQ-QH 299
           +Y    QGTSSNA P  +GECHV+NPS  N   WP  +            +LYP    QH
Sbjct: 250 VYGSFSQGTSSNANPRIMGECHVSNPSDGNLQAWPLGY------------TLYPHHHIQH 297

Query: 300 GMMGTDTNEILPRDQVEIPINAPHV-QADNEGANYDQNKIP----QVNGQ 344
           GM+G D  +++P  QV IPI   HV Q  NE   YDQ+K P    Q+N Q
Sbjct: 298 GMVGPDMTDMMPNGQVNIPITPSHVEQPKNESVEYDQSKQPPPHHQLNAQ 347

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297850664|ref|XP_002893213.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297339055|gb|EFH69472.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  409 bits (1050), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 208/344 (60%), Positives = 261/344 (75%), Gaps = 9/344 (2%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPS RLS FSG+
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSDRLSLFSGK 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
            RIEDVF+R++NLP QERE A+ F DQ R PDIQNKE LLR LQQL+SENDIALQL NPA
Sbjct: 61  TRIEDVFTRFINLPKQERESALYFSDQNRRPDIQNKECLLRILQQLKSENDIALQLTNPA 120

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EEL+ EV RLQQQLQMAE+++R YEPDP+R T++++ E  EK L+DTLT V QR
Sbjct: 121 AINSDVEELEHEVCRLQQQLQMAEEELRRYEPDPVRFTTMEEYEVYEKQLLDTLTHVVQR 180

Query: 181 KEFLLSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTT 240
           ++ L+SNHLSSY+ S+MQQ        + V GWLP  G NQ  +F++SA  N+LR+LS+ 
Sbjct: 181 RDHLMSNHLSSYEASTMQQSIGGPFVNDGVEGWLPENGPNQTHLFDASAHSNQLRELSSA 240

Query: 241 MYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHG 300
           MY+PLLQG+SS++  +++ ECHVTN +GE F  W QA+ S+ L ++          QQHG
Sbjct: 241 MYEPLLQGSSSSSNQNNMSECHVTNHNGEMFPEWAQAYSSSALFAS--------MQQQHG 292

Query: 301 MMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
            +G    E++P  Q +IP      Q D+E ++Y+  K+PQ++ Q
Sbjct: 293 GVGPSIEEMMPAQQGDIPAVTAEAQPDHEVSDYE-TKVPQLSSQ 335

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15219223|ref|NP_173632.1| protein AGAMOUS-like 104 [Arabidopsis thaliana] gi|9280686|gb|AAF86555.1|AC069252_14 F2E2.20 [Arabidopsis thaliana] gi|67633378|gb|AAY78614.1| MADS-box family protein [Arabidopsis thaliana] gi|332192079|gb|AEE30200.1| protein AGAMOUS-like 104 [Arabidopsis thaliana]

 Score =  407 bits (1047), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 209/345 (60%), Positives = 264/345 (76%), Gaps = 11/345 (3%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPS RLS FSG+
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSDRLSLFSGK 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
            RIEDVFSR++NLP QERE A+ FPDQ R PDIQNKE LLR LQQL++ENDIALQ+ NPA
Sbjct: 61  TRIEDVFSRFINLPKQERESALYFPDQNRRPDIQNKECLLRILQQLKTENDIALQVTNPA 120

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EEL+ EV RLQQQLQMAE+++R YEPDP+R T++++ E  EK L+DTLT V QR
Sbjct: 121 AINSDVEELEHEVCRLQQQLQMAEEELRRYEPDPIRFTTMEEYEVSEKQLLDTLTHVVQR 180

Query: 181 KEFLLSNHLSSYDPSSMQQQAMPSSFENEVV-GWLPGGGHNQAQIFESSASLNELRDLST 239
           ++ L+SNHLSSY+ S+MQ   +   F N+VV GWLP  G NQ  +F++SA  N+LR+LS+
Sbjct: 181 RDHLMSNHLSSYEASTMQPN-IGGPFVNDVVEGWLPENGTNQTHLFDASAHSNQLRELSS 239

Query: 240 TMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQH 299
            MY+PLLQG+SS++  +++ ECHVTN +GE F  W QA+ S+ L ++          QQH
Sbjct: 240 AMYEPLLQGSSSSSNQNNMSECHVTNHNGEMFPEWAQAYSSSALFAS--------MQQQH 291

Query: 300 GMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
             +G    E++P  Q +IP      Q D+E ++Y+  K+PQ++ Q
Sbjct: 292 EGVGPSIEEMMPAQQSDIPGVTAETQVDHEVSDYE-TKVPQLSSQ 335

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297842575|ref|XP_002889169.1| MADS-box family protein [Arabidopsis lyrata subsp. lyrata] gi|297335010|gb|EFH65428.1| MADS-box family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  385 bits (990), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 205/349 (58%), Positives = 266/349 (76%), Gaps = 23/349 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIAL+MFSPS RLS FSG+
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALLMFSPSDRLSLFSGK 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
            RIEDVFSRY+NL DQERE+A++FPDQ R PD Q+KEYLLRTLQQL++ENDIALQL NP 
Sbjct: 61  TRIEDVFSRYINLSDQERENALVFPDQSRRPDFQSKEYLLRTLQQLKTENDIALQLTNPT 120

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EEL+ EV +LQQQL MAE+++R YEPDP+R T++++ E+CEK L+DTLT+V+QR
Sbjct: 121 AINSDVEELEHEVYKLQQQLHMAEEELRKYEPDPIRFTTMEEYETCEKQLMDTLTRVNQR 180

Query: 181 KEFLLS-NHLSSYDPSSMQQQA-MPSSFENEVV-GWLPGGGHNQAQIFESSASLNELRDL 237
           +E +LS +HLSSY+ S++QQQ  M   F N+VV GWL   G NQA +F++SA        
Sbjct: 181 REHMLSHDHLSSYEASAIQQQQNMGGPFVNDVVGGWLTENGPNQAHLFDASA-------- 232

Query: 238 STTMYDPLLQGTSSNAGPHSI-GECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQI 296
            + MY+ LLQG+SS++  ++I GE +V+N +G+ F  W QA+ S   H+     +L+P +
Sbjct: 233 HSAMYETLLQGSSSSSNQNNIMGESNVSNHNGDMFQEWAQAYNSTTAHNP---TTLFPPM 289

Query: 297 Q-QHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
           Q QHG++  +  EI      EIP+     QAD E ++YD  ++PQ++ Q
Sbjct: 290 QHQHGLVDPNMEEI------EIPVMKKEAQADQEVSDYDI-RMPQLSSQ 331

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42563302|ref|NP_177921.2| protein agamous-like 66 [Arabidopsis thaliana] gi|91806109|gb|ABE65783.1| MADS-box family protein [Arabidopsis thaliana] gi|332197932|gb|AEE36053.1| protein agamous-like 66 [Arabidopsis thaliana]

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 203/349 (58%), Positives = 269/349 (77%), Gaps = 22/349 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIAL+MFSPS RLS FSG+
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALLMFSPSDRLSLFSGK 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
            RIEDVFSRY+NL DQERE+A++FPDQ R PD Q+KEYLLRTLQQL++ENDIALQL NP 
Sbjct: 61  TRIEDVFSRYINLSDQERENALVFPDQSRRPDFQSKEYLLRTLQQLKAENDIALQLTNPT 120

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EEL+ EV +LQQQL MAE+++R YEPDP+R T++++ E+CEK L+DTLT+V+QR
Sbjct: 121 AINSDVEELEHEVYKLQQQLLMAEEELRKYEPDPIRFTTMEEYETCEKQLMDTLTRVNQR 180

Query: 181 KEFLLS-NHLSSYDPSSM-QQQAMPSSFENEVV-GWLPGGGHNQAQIFESSASLNELRDL 237
           +E +LS + LSSY+ S++ QQQ+M   F N+VV GWL   G N+A +F++SA        
Sbjct: 181 REHILSQDQLSSYEASALQQQQSMGGPFGNDVVGGWLTENGPNEAHLFDASA-------- 232

Query: 238 STTMYDPLLQGTSSNAGPHSI-GECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQI 296
            + MY+ LLQG+SS++  ++I GE +V+N +G+ F  W QA+ S   H+     +L+P +
Sbjct: 233 HSAMYETLLQGSSSSSNQNNIMGESNVSNHNGDMFQEWAQAYNSTTAHNP---STLFPPM 289

Query: 297 Q-QHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
           Q QHG++  D N     +++EIP+     QAD+E ++YD  ++PQ++ Q
Sbjct: 290 QHQHGLV-VDPN----IEEIEIPVMKKDAQADHEVSDYDI-RMPQLSSQ 332

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116831035|gb|ABK28473.1| unknown [Arabidopsis thaliana]

 Score =  379 bits (974), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 203/349 (58%), Positives = 269/349 (77%), Gaps = 22/349 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIAL+MFSPS RLS FSG+
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALLMFSPSDRLSLFSGK 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
            RIEDVFSRY+NL DQERE+A++FPDQ R PD Q+KEYLLRTLQQL++ENDIALQL NP 
Sbjct: 61  TRIEDVFSRYINLSDQERENALVFPDQSRRPDFQSKEYLLRTLQQLKAENDIALQLTNPT 120

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EEL+ EV +LQQQL MAE+++R YEPDP+R T++++ E+CEK L+DTLT+V+QR
Sbjct: 121 AINSDVEELEHEVYKLQQQLLMAEEELRKYEPDPIRFTTMEEYETCEKQLMDTLTRVNQR 180

Query: 181 KEFLLS-NHLSSYDPSSM-QQQAMPSSFENEVV-GWLPGGGHNQAQIFESSASLNELRDL 237
           +E +LS + LSSY+ S++ QQQ+M   F N+VV GWL   G N+A +F++SA        
Sbjct: 181 REHILSQDQLSSYEASALQQQQSMGGPFGNDVVGGWLTENGPNEAHLFDASA-------- 232

Query: 238 STTMYDPLLQGTSSNAGPHSI-GECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQI 296
            + MY+ LLQG+SS++  ++I GE +V+N +G+ F  W QA+ S   H+     +L+P +
Sbjct: 233 HSAMYETLLQGSSSSSNQNNIMGESNVSNHNGDMFQEWAQAYNSTTAHNP---STLFPPM 289

Query: 297 Q-QHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
           Q QHG++  D N     +++EIP+     QAD+E ++YD  ++PQ++ Q
Sbjct: 290 QHQHGLV-VDPN----IEEIEIPVMKKDAQADHEVSDYDI-RMPQLSSQ 332

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|32402448|gb|AAN52806.1| MADS-box protein AGL66 [Arabidopsis thaliana]

 Score =  379 bits (972), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 203/349 (58%), Positives = 268/349 (76%), Gaps = 22/349 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIAL+MFSPS RLS FSG 
Sbjct: 1   MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALLMFSPSDRLSLFSGE 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
            RIEDVFSRY+NL DQERE+A++FPDQ R PD Q+KEYLLRTLQQL++ENDIALQL NP 
Sbjct: 61  TRIEDVFSRYINLSDQERENALVFPDQSRRPDFQSKEYLLRTLQQLKAENDIALQLTNPT 120

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN+D+EEL+ EV +LQQQL MAE+++R YEPDP+R T++++ E+CEK L+DTLT+V+QR
Sbjct: 121 AINSDVEELEHEVYKLQQQLLMAEEELRKYEPDPIRFTTMEEYETCEKQLMDTLTRVNQR 180

Query: 181 KEFLLS-NHLSSYDPSSM-QQQAMPSSFENEVV-GWLPGGGHNQAQIFESSASLNELRDL 237
           +E +LS + LSSY+ S++ QQQ+M   F N+VV GWL   G N+A +F++SA        
Sbjct: 181 REHILSQDQLSSYEASALQQQQSMGGPFGNDVVGGWLTENGPNEAHLFDASA-------- 232

Query: 238 STTMYDPLLQGTSSNAGPHSI-GECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQI 296
            + MY+ LLQG+SS++  ++I GE +V+N +G+ F  W QA+ S   H+     +L+P +
Sbjct: 233 HSAMYETLLQGSSSSSNQNNIMGESNVSNHNGDMFQEWAQAYNSTTAHNP---STLFPPM 289

Query: 297 Q-QHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
           Q QHG++  D N     +++EIP+     QAD+E ++YD  ++PQ++ Q
Sbjct: 290 QHQHGLV-VDPN----IEEIEIPVMKKDAQADHEVSDYDI-RMPQLSSQ 332

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|343160545|emb|CAX16992.1| AGL66 protein [Eschscholzia californica]

 Score =  371 bits (953), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 199/353 (56%), Positives = 258/353 (73%), Gaps = 23/353 (6%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           MGRVKL+IK+IENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSG+
Sbjct: 1   MGRVKLQIKKIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGK 60

Query: 61  KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
           +RIEDV +RY+NLP+ +R              IQN+EYL+RTL++L+SE+DIALQLANPA
Sbjct: 61  RRIEDVLTRYINLPEHDRGGI-----------IQNREYLIRTLKKLKSESDIALQLANPA 109

Query: 121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
           AIN++IE+L QE+ R Q ++QM E+++RIYEPDPL+I+S+ DIESCEKNL DTLT++++R
Sbjct: 110 AINSNIEDLHQEISRHQHEIQMIEERLRIYEPDPLKISSMADIESCEKNLFDTLTRITER 169

Query: 181 KEFLLSN-HLSSYDPSSMQ-----QQAMPS-SFENEVVGWLPGGGHNQAQIFESSASLNE 233
           K++LLSN  ++SYDPS +Q     Q+ M S SF NEVV W+P   HN  QI+  S SL+ 
Sbjct: 170 KKYLLSNQQIASYDPSDIQMYMDPQEGMGSTSFRNEVVNWMPDHQHNPNQIYVESHSLSP 229

Query: 234 LRDLSTTMYDPLLQ-GTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSL 292
           LRD  + M+   LQ G+S N  P S+GECHV N +  N   W Q + SA L S  L PS 
Sbjct: 230 LRDHQSNMFHEQLQHGSSLNVDPRSMGECHVNNQTEGNLPPWNQTYTSAELFST-LLPSS 288

Query: 293 YPQIQQHGMMGTDTNEILPR-DQVEIPINAPHVQADN--EGANYDQNKIPQVN 342
           +  IQ  G++G++   ++ + +QVE PIN    Q  N  + A+Y+ N   Q++
Sbjct: 289 FSLIQHDGLVGSNMQPMMQQHEQVETPINCSQGQNINSVDVADYNTNVHQQIH 341

Source: Eschscholzia californica

Species: Eschscholzia californica

Genus: Eschscholzia

Family: Papaveraceae

Order: Ranunculales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	344
TAIR|locus:2030621	335	AGL104 "AGAMOUS-like 104" [Ara	0.970	0.997	0.562	2e-95
TAIR|locus:2029386	332	AGL66 "AGAMOUS-like 66" [Arabi	0.947	0.981	0.542	1.6e-88
TAIR|locus:2029411	252	AGL67 "AGAMOUS-like 67" [Arabi	0.718	0.980	0.494	6.6e-58
TAIR|locus:2140578	256	STK "AT4G09960" [Arabidopsis t	0.200	0.269	0.642	2.9e-22
UNIPROTKB|Q6EU39	250	MADS6 "MADS-box transcription	0.200	0.276	0.628	4.7e-22
TAIR|locus:2177125	268	AGL15 "AGAMOUS-like 15" [Arabi	0.206	0.264	0.597	4.7e-22
UNIPROTKB|Q0D4T4	249	MADS18 "MADS-box transcription	0.244	0.337	0.523	6e-22
UNIPROTKB|Q7XUN2	249	MADS17 "MADS-box transcription	0.200	0.277	0.614	7.6e-22
TAIR|locus:2056760	386	AGL30 "AGAMOUS-like 30" [Arabi	0.485	0.432	0.336	1.2e-21
TAIR|locus:2043600	252	AGL6 "AT2G45650" [Arabidopsis	0.200	0.273	0.642	1.2e-21

TAIR|locus:2030621 AGL104 "AGAMOUS-like 104" [Arabidopsis thaliana (taxid:3702)]

 Score = 949 (339.1 bits), Expect = 2.0e-95, P = 2.0e-95
 Identities = 194/345 (56%), Positives = 246/345 (71%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPS RLS FSG+
Sbjct:     1 MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSDRLSLFSGK 60

Query:    61 KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
              RIEDVFSR++NLP QERE A+ FPDQ R PDIQNKE LLR LQQL++ENDIALQ+ NPA
Sbjct:    61 TRIEDVFSRFINLPKQERESALYFPDQNRRPDIQNKECLLRILQQLKTENDIALQVTNPA 120

Query:   121 AINNDIXXXXXXXXXXXXXXXMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
             AIN+D+               MAE+++R YEPDP+R T++++ E  EK L+DTLT V QR
Sbjct:   121 AINSDVEELEHEVCRLQQQLQMAEEELRRYEPDPIRFTTMEEYEVSEKQLLDTLTHVVQR 180

Query:   181 KEFLLSNHLSSYDXXXXXXXXXXXXFENEVV-GWLPGGGHNQAQIFESSASLNELRDLST 239
             ++ L+SNHLSSY+            F N+VV GWLP  G NQ  +F++SA  N+LR+LS+
Sbjct:   181 RDHLMSNHLSSYEASTMQPNIGGP-FVNDVVEGWLPENGTNQTHLFDASAHSNQLRELSS 239

Query:   240 TMYDPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQH 299
              MY+PLLQG+SS++  +++ ECHVTN +GE F  W QA+ S+ L ++          QQH
Sbjct:   240 AMYEPLLQGSSSSSNQNNMSECHVTNHNGEMFPEWAQAYSSSALFAS--------MQQQH 291

Query:   300 GMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
               +G    E++P  Q +IP      Q D+E ++Y+  K+PQ++ Q
Sbjct:   292 EGVGPSIEEMMPAQQSDIPGVTAETQVDHEVSDYE-TKVPQLSSQ 335

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:0009555 "pollen development" evidence=IGI

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0010584 "pollen exine formation" evidence=RCA

TAIR|locus:2029386 AGL66 "AGAMOUS-like 66" [Arabidopsis thaliana (taxid:3702)]

 Score = 884 (316.2 bits), Expect = 1.6e-88, P = 1.6e-88
 Identities = 190/350 (54%), Positives = 250/350 (71%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGRVKLEIKRIEN TNRQVTFSKRRNGLIKKAYELSILCDIDIAL+MFSPS RLS FSG+
Sbjct:     1 MGRVKLEIKRIENTTNRQVTFSKRRNGLIKKAYELSILCDIDIALLMFSPSDRLSLFSGK 60

Query:    61 KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANPA 120
              RIEDVFSRY+NL DQERE+A++FPDQ R PD Q+KEYLLRTLQQL++ENDIALQL NP 
Sbjct:    61 TRIEDVFSRYINLSDQERENALVFPDQSRRPDFQSKEYLLRTLQQLKAENDIALQLTNPT 120

Query:   121 AINNDIXXXXXXXXXXXXXXXMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQR 180
             AIN+D+               MAE+++R YEPDP+R T++++ E+CEK L+DTLT+V+QR
Sbjct:   121 AINSDVEELEHEVYKLQQQLLMAEEELRKYEPDPIRFTTMEEYETCEKQLMDTLTRVNQR 180

Query:   181 KEFLLS-NHLSSYDXXXXXXXXXXXX-FENEVVG-WLPGGGHNQAQIFESSASLNELRDL 237
             +E +LS + LSSY+             F N+VVG WL   G N+A +F++SA        
Sbjct:   181 REHILSQDQLSSYEASALQQQQSMGGPFGNDVVGGWLTENGPNEAHLFDASAH------- 233

Query:   238 STTMYDPLLQGTSSNAGPHSI-GECHVTNPSGENFATWPQAFVSAGLHSAPLSPS-LYPQ 295
              + MY+ LLQG+SS++  ++I GE +V+N +G+ F  W QA+ S   H+    PS L+P 
Sbjct:   234 -SAMYETLLQGSSSSSNQNNIMGESNVSNHNGDMFQEWAQAYNSTTAHN----PSTLFPP 288

Query:   296 IQ-QHGMMGTDTNEILPRDQVEIPINAPHVQADNEGANYDQNKIPQVNGQ 344
             +Q QHG++  D N     +++EIP+     QAD+E ++YD  ++PQ++ Q
Sbjct:   289 MQHQHGLV-VDPNI----EEIEIPVMKKDAQADHEVSDYDI-RMPQLSSQ 332

GO:0003677 "DNA binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

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

GO:0009555 "pollen development" evidence=IGI;IMP

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0010584 "pollen exine formation" evidence=RCA

TAIR|locus:2029411 AGL67 "AGAMOUS-like 67" [Arabidopsis thaliana (taxid:3702)]

 Score = 595 (214.5 bits), Expect = 6.6e-58, P = 6.6e-58
 Identities = 128/259 (49%), Positives = 173/259 (66%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGRVKLE+KRIE +TNRQ+TFSKR+ GLIKKAYELS LCDID+AL+MFSPS RL  FSG+
Sbjct:     1 MGRVKLELKRIEKSTNRQITFSKRKKGLIKKAYELSTLCDIDLALLMFSPSDRLCLFSGQ 60

Query:    61 KRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQL--AN 118
              RIEDV +RY+NLPDQERE+AI+FPDQ +   IQNKEYLLRTL++L+ E+D+ALQ+    
Sbjct:    61 TRIEDVLARYINLPDQERENAIVFPDQSKRQGIQNKEYLLRTLEKLKIEDDMALQINEPR 120

Query:   119 PAAINNDIXXXXXXXXXXXXXXXMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVS 178
             P A N+++               ++E+++R +EPDP+R+TS+++IE+CE NL++TLT+V 
Sbjct:   121 PEATNSNVEELEQEVCRLQQQLQISEEELRKFEPDPMRLTSMEEIEACEANLINTLTRVV 180

Query:   179 QRKEFLLSNHLSSYDXXXXXXXXXXXXFENEVVGWLPGGGHNQAQIFESSASLNELRDLS 238
             QR+E LL     S +              + V  W P     QA +  +SA  +     +
Sbjct:   181 QRREHLLRK---SCEAQSNQQSMDGILLNDIVEDWGPEPEPKQAHMIANSAHHS-----N 232

Query:   239 TTMYDPLLQ--GTSSNAGP 255
                YD LL+   +SSN  P
Sbjct:   233 QPSYDLLLRRSNSSSNQNP 251

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

GO:0009686 "gibberellin biosynthetic process" evidence=RCA

GO:0009740 "gibberellic acid mediated signaling pathway" evidence=RCA

GO:0016114 "terpenoid biosynthetic process" evidence=RCA

TAIR|locus:2140578 STK "AT4G09960" [Arabidopsis thaliana (taxid:3702)]

 Score = 228 (85.3 bits), Expect = 2.9e-22, Sum P(2) = 2.9e-22
 Identities = 45/70 (64%), Positives = 54/70 (77%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGR K+EIKRIEN+TNRQVTF KRRNGL+KKAYELS+LCD ++ALI+FS  GRL  ++  
Sbjct:    27 MGRGKIEIKRIENSTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYANN 86

Query:    61 KRIEDVFSRY 70
               I     RY
Sbjct:    87 N-IRSTIERY 95

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0048440 "carpel development" evidence=IMP

GO:0048481 "ovule development" evidence=IGI;RCA;IMP

GO:0048316 "seed development" evidence=IGI

GO:0080155 "regulation of double fertilization forming a zygote and endosperm" evidence=IGI

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0009860 "pollen tube growth" evidence=RCA

GO:0009886 "post-embryonic morphogenesis" evidence=RCA

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

GO:0048441 "petal development" evidence=RCA

GO:0048443 "stamen development" evidence=RCA

GO:0048507 "meristem development" evidence=RCA

UNIPROTKB|Q6EU39 MADS6 "MADS-box transcription factor 6" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 219 (82.2 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 44/70 (62%), Positives = 53/70 (75%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGR ++E+KRIEN  NRQVTFSKRRNGL+KKAYELS+LCD ++ALI+FS  G+L  F G 
Sbjct:     1 MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEF-GS 59

Query:    61 KRIEDVFSRY 70
               I     RY
Sbjct:    60 AGITKTLERY 69

GO:0005515 "protein binding" evidence=IPI

GO:0010022 "meristem determinacy" evidence=IMP

GO:0010093 "specification of floral organ identity" evidence=IMP

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

TAIR|locus:2177125 AGL15 "AGAMOUS-like 15" [Arabidopsis thaliana (taxid:3702)]

 Score = 210 (79.0 bits), Expect = 4.7e-22, Sum P(2) = 4.7e-22
 Identities = 43/72 (59%), Positives = 56/72 (77%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGR K+EIKRIEN  +RQVTFSKRR+GL+KKA ELS+LCD ++A+I+FS SG+L  +S  
Sbjct:     1 MGRGKIEIKRIENANSRQVTFSKRRSGLLKKARELSVLCDAEVAVIVFSKSGKLFEYSST 60

Query:    61 KRIEDVFSRYVN 72
               ++   SRY N
Sbjct:    61 G-MKQTLSRYGN 71

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

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

GO:0005634 "nucleus" evidence=ISM;IDA;NAS;TAS

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

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA;TAS

GO:0060862 "negative regulation of floral organ abscission" evidence=IMP

GO:0010047 "fruit dehiscence" evidence=IMP

GO:0060867 "fruit abscission" evidence=IMP

GO:2000692 "negative regulation of seed maturation" evidence=IMP

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=IGI;IDA

GO:0071365 "cellular response to auxin stimulus" evidence=IEP

GO:0005515 "protein binding" evidence=IPI

GO:0042803 "protein homodimerization activity" evidence=IDA

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

GO:0048577 "negative regulation of short-day photoperiodism, flowering" evidence=IMP

GO:0010262 "somatic embryogenesis" evidence=IMP

GO:0045892 "negative regulation of transcription, DNA-dependent" evidence=IDA

GO:0009793 "embryo development ending in seed dormancy" evidence=IDA;TAS

GO:0045487 "gibberellin catabolic process" evidence=TAS

GO:0006944 "cellular membrane fusion" evidence=RCA

GO:0009556 "microsporogenesis" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

GO:0052543 "callose deposition in cell wall" evidence=RCA

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

 Score = 230 (86.0 bits), Expect = 6.0e-22, Sum P(2) = 6.0e-22
 Identities = 45/86 (52%), Positives = 61/86 (70%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGR  ++++RIEN  NRQVTFSKRRNGL+KKA+E+S+LCD D+ALI+FS  G+L  FS  
Sbjct:     1 MGRGPVQLRRIENKINRQVTFSKRRNGLLKKAHEISVLCDADVALIVFSTKGKLYEFSSH 60

Query:    61 KRIEDVFSRYVNLPDQEREHAIIFPD 86
               +E +  RY      ER  A++ P+
Sbjct:    61 SSMEGILERYQRYSFDER--AVLEPN 84

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q7XUN2 MADS17 "MADS-box transcription factor 17" [Oryza sativa Japonica Group (taxid:39947)]

 Score = 217 (81.4 bits), Expect = 7.6e-22, Sum P(2) = 7.6e-22
 Identities = 43/70 (61%), Positives = 53/70 (75%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGR ++E+KRIEN  NRQVTFSKRRNGL+KKAYELS+LCD ++ALI+FS  G+L  F G 
Sbjct:     1 MGRGRVELKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEF-GS 59

Query:    61 KRIEDVFSRY 70
               I     +Y
Sbjct:    60 AGINKTLEKY 69

GO:0010093 "specification of floral organ identity" evidence=IMP

TAIR|locus:2056760 AGL30 "AGAMOUS-like 30" [Arabidopsis thaliana (taxid:3702)]

 Score = 234 (87.4 bits), Expect = 1.2e-21, Sum P(2) = 1.2e-21
 Identities = 62/184 (33%), Positives = 104/184 (56%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSG- 59
             MGRVKL+IK++EN   RQ TF+KR+NG++KKA ELSILCDIDI L+MFSP+G+ +   G 
Sbjct:     1 MGRVKLKIKKLENTNGRQSTFAKRKNGILKKANELSILCDIDIVLLMFSPTGKAAICCGT 60

Query:    60 RKRIEDVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRTLQQLRSENDIALQLANP 119
             R  +E+V +++  +  QER        + +   ++N   L +T Q+L  + +I   +A+ 
Sbjct:    61 RSSMEEVIAKFSQVTPQERT-------KRKFESLEN---LKKTFQKLDHDVNIREFIASS 110

Query:   120 AAINNDIXXXXXXXXXXXXXXXMAEDQIRI-YEPDPLRITSIKDIESCEKNLVDTLTQVS 178
              +   D+               ++E   R+ Y  +P +I +++ +   E ++  +L Q+ 
Sbjct:   111 NSTVEDLSTQARILQAR-----ISEIHGRLSYWTEPDKINNVEHLGQLEISIRQSLDQLR 165

Query:   179 QRKE 182
               KE
Sbjct:   166 AHKE 169

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:0009555 "pollen development" evidence=IGI

GO:0010584 "pollen exine formation" evidence=RCA

TAIR|locus:2043600 AGL6 "AT2G45650" [Arabidopsis thaliana (taxid:3702)]

 Score = 224 (83.9 bits), Expect = 1.2e-21, Sum P(2) = 1.2e-21
 Identities = 45/70 (64%), Positives = 54/70 (77%)

Query:     1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
             MGR ++E+KRIEN  NRQVTFSKRRNGL+KKAYELS+LCD ++ALI+FS  G+L  F G 
Sbjct:     1 MGRGRVEMKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEVALIIFSSRGKLYEF-GS 59

Query:    61 KRIEDVFSRY 70
               IE    RY
Sbjct:    60 VGIESTIERY 69

GO:0003677 "DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISM;IEA

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

GO:0005515 "protein binding" evidence=IPI

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

GO:0048437 "floral organ development" evidence=IMP

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

GO:0048481 "ovule development" evidence=RCA

---

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: Al_scaffold_0001_2320 annotation not avaliable (335 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	344
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	7e-37
smart00432	59	smart00432, MADS, MADS domain	5e-34
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	1e-33
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	3e-32
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	3e-23
COG5068	412	COG5068, ARG80, Regulator of arginine metabolism a	6e-06

>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 =  127 bits (321), Expect = 7e-37
 Identities = 46/74 (62%), Positives = 57/74 (77%), Gaps = 1/74 (1%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K+EIKRIEN+TNRQVTFSKRRNGL+KKA+ELS+LCD ++ALI+FS SG+L  FS   
Sbjct: 1  GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSS-P 59

Query: 62 RIEDVFSRYVNLPD 75
           +E +  RY     
Sbjct: 60 SMEKIIERYQKTSG 73

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

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

 Score =  119 bits (300), Expect = 5e-34
 Identities = 42/57 (73%), Positives = 51/57 (89%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          GR K+EIKRIEN TNRQVTFSKRRNGL KKA+ELS+LCD ++ALI+FSP+G+L  F+
Sbjct: 1  GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFA 57

Length = 59

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

 Score =  118 bits (298), Expect = 1e-33
 Identities = 41/57 (71%), Positives = 49/57 (85%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          GR K+EIKRIEN T+RQVTFSKRRNGL KKA ELS+LCD ++A+I+FSPSG+L  F 
Sbjct: 1  GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFW 57

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 =  115 bits (289), Expect = 3e-32
 Identities = 42/79 (53%), Positives = 53/79 (67%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K++IKRIEN   R VTFSKRR GL KKA ELS LC  ++A+I++SPSG+L  F    
Sbjct: 1  GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSS 60

Query: 62 RIEDVFSRYVNLPDQEREH 80
           +E V SR+  L   ER+ 
Sbjct: 61 EVEGVISRFEVLSALERKK 79

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 = 90.5 bits (225), Expect = 3e-23
 Identities = 33/50 (66%), Positives = 44/50 (88%)

Query: 9  KRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          KRIEN +NRQVTFSKRRNG+ KKA+ELS+LCD ++A+I+FS +G+L  +S
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEVAVIIFSSTGKLYEYS 50

Length = 51

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

 Score = 47.3 bits (112), Expect = 6e-06
 Identities = 24/58 (41%), Positives = 38/58 (65%)

Query: 1   MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
           +   K+ I  I N T R VTFSKR++G+ KKA+ELS+L   ++ L++ S +G +  F+
Sbjct: 81  VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFT 138

Length = 412

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	344
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.97
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.94
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.93
smart00432	59	MADS MADS domain.	99.91
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.9
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.85
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.73
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	99.31
COG5068	412	ARG80 Regulator of arginine metabolism and related	99.27
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	85.85
PHA03155	115	hypothetical protein; Provisional	83.04

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.97  E-value=1.1e-31  Score=241.91  Aligned_cols=171  Identities=37%  Similarity=0.525  Sum_probs=123.3

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccc-hhhhHHhhhcCCChhhhh
Q 039560            1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK-RIEDVFSRYVNLPDQERE   79 (344)
Q Consensus         1 MgR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~-~ve~VIeRY~~l~~~er~   79 (344)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++|.||+.. ++.+|++||.+.+...+.
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            9999999999999999999999999999999999999999999999999999999986643 499999999998877665


Q ss_pred             hhccCCCCCCCCcchhhHHHHHH-HHHhhhhhhHHHhhcCcccccccHHHHHHHHHHHHHHHHHH---HhhhhccCCCCC
Q 039560           80 HAIIFPDQGRHPDIQNKEYLLRT-LQQLRSENDIALQLANPAAINNDIEELQQEVGRLQQQLQMA---EDQIRIYEPDPL  155 (344)
Q Consensus        80 ~~~~~~~~~~~~~~~~~e~L~~~-l~KLk~e~d~~~~~~~~~~~n~~iE~Lq~Ei~~Lq~qle~l---e~~lR~~~gd~L  155 (344)
                      +...          ....++... +.++..+.+.         ..........+...+....+.+   ....+.+.+.++
T Consensus        81 ~~~~----------~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l  141 (195)
T KOG0014|consen   81 KKRV----------NLESFLRNKKLTELVEEEEK---------EELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDL  141 (195)
T ss_pred             cccc----------chhhHhhhhhhhcccchhhh---------hhccchhhhhhhhhhhcchhhhhhhHHHHHHHhcccc
Confidence            5422          222222211 1111110000         0000011122222333333332   244677888999


Q ss_pred             CCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 039560          156 RITSI-KDIESCEKNLVDTLTQVSQRKEFLLSNHLS  190 (344)
Q Consensus       156 ~~lSl-eEL~~LE~~Le~~L~~Vr~RK~~Ll~~qi~  190 (344)
                      ..++. .+|..++..|+..+..++.++...+.+++.
T Consensus       142 ~~l~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~  177 (195)
T KOG0014|consen  142 QSLSSLNELNSLESQLESSLHNSRSSKSKPLSDSNF  177 (195)
T ss_pred             ccCCHHHHhcchhhHHHHhhcCCCCCCCcCCcchhh
Confidence            99999 999999999999999999998777666553

>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=99.94  E-value=6.3e-28  Score=187.77  Aligned_cols=72  Identities=64%  Similarity=0.982  Sum_probs=68.9

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcCCC
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLP   74 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~l~   74 (344)
                      ||+||+|++|+|++.|++||+|||.||||||+|||+||||+||+|||||+|+++.|++ +++++||+||.+.+
T Consensus         1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s-~s~~~vl~ry~~~~   72 (77)
T cd00265           1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSS-PSMEKIIERYQKTS   72 (77)
T ss_pred             CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecC-CCHHHHHHHHHhcc
Confidence            8999999999999999999999999999999999999999999999999999999955 67899999999765

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=99.93  E-value=3.9e-27  Score=185.89  Aligned_cols=80  Identities=53%  Similarity=0.804  Sum_probs=74.9

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcCCChhhhhhh
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQEREHA   81 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~l~~~er~~~   81 (344)
                      ||+||+|++|+|+.+|++||+|||.||+|||+||||||||+||+|||||+|+.+.||+..++..+|+||..++..++.+.
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~   80 (83)
T cd00266           1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALERKKK   80 (83)
T ss_pred             CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhhhcc
Confidence            89999999999999999999999999999999999999999999999999999998776559999999999988777654

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=99.91  E-value=3e-25  Score=163.77  Aligned_cols=58  Identities=72%  Similarity=1.120  Sum_probs=56.6

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccc
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSG   59 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss   59 (344)
                      ||+||+|++|+|++.|++||+|||.||+|||+||||||||+||+|||||+|+++.|++
T Consensus         1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~   58 (59)
T smart00432        1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFAS   58 (59)
T ss_pred             CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccC
Confidence            8999999999999999999999999999999999999999999999999999999864

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

Probab=99.90  E-value=7.4e-25  Score=161.77  Aligned_cols=58  Identities=71%  Similarity=1.064  Sum_probs=56.6

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccc
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSG   59 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss   59 (344)
                      ||+||+|++|+|++.|++||+|||.||+|||+||||||||+||+|||||+|+++.|++
T Consensus         1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~   58 (59)
T cd00120           1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWS   58 (59)
T ss_pred             CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccC
Confidence            8999999999999999999999999999999999999999999999999999999865

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=99.85  E-value=3e-23  Score=148.54  Aligned_cols=51  Identities=63%  Similarity=1.025  Sum_probs=46.5

Q ss_pred             EEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccc
Q 039560            9 KRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSG   59 (344)
Q Consensus         9 k~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss   59 (344)
                      |+|+|++.|++||+|||.||+|||+|||+||||+||||||+|+|++++|++
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            589999999999999999999999999999999999999999999999964

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

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

Probab=99.73  E-value=9.5e-19  Score=163.92  Aligned_cols=65  Identities=43%  Similarity=0.724  Sum_probs=60.4

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHH
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVF   67 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VI   67 (344)
                      ||+||+|+||+|+.+|.+||||||.||||||+|||||+|.+|.|+|.|.+|.+|+|+. +.++.||
T Consensus        63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaT-pKLep~i  127 (338)
T KOG0015|consen   63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT-PKLEPMI  127 (338)
T ss_pred             ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEecc-ccccccc
Confidence            7999999999999999999999999999999999999999999999999999999944 5566555

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

Probab=99.31  E-value=3e-12  Score=104.37  Aligned_cols=76  Identities=25%  Similarity=0.401  Sum_probs=71.3

Q ss_pred             cccccHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCch
Q 039560          121 AINNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKEFLLSNHLSSYDPSS  196 (344)
Q Consensus       121 ~~n~~iE~Lq~Ei~~Lq~qle~le~~lR~~~gd~L~~lSleEL~~LE~~Le~~L~~Vr~RK~~Ll~~qi~~l~~~~  196 (344)
                      ......+.+..|+.+|+.+++.++..+|++.|++|+++|++||..||+.|+.+|.+||+||.+++.++|..++++.
T Consensus         9 ~~~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke   84 (100)
T PF01486_consen    9 LWDSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKE   84 (100)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456778899999999999999999999999999999999999999999999999999999999999999887776

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

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

Probab=99.27  E-value=1.7e-12  Score=127.22  Aligned_cols=66  Identities=39%  Similarity=0.643  Sum_probs=60.2

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHH
Q 039560            1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVF   67 (344)
Q Consensus         1 MgR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VI   67 (344)
                      |||+||.|.+|+|+.+|.|||+|||.||+|||+||+||+|.+|+|++.|..|+++.|+. +..+.|+
T Consensus        81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~t-p~~e~v~  146 (412)
T COG5068          81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTT-PKLESVV  146 (412)
T ss_pred             cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecC-Ccccccc
Confidence            79999999999999999999999999999999999999999999999999999999944 3344444

>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=85.85  E-value=6.6  Score=34.59  Aligned_cols=56  Identities=21%  Similarity=0.287  Sum_probs=43.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 039560          126 IEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRKE  182 (344)
Q Consensus       126 iE~Lq~Ei~~Lq~qle~le~~lR~~~gd~L~~lSleEL~~LE~~Le~~L~~Vr~RK~  182 (344)
                      .++|..++..|+.++..++.++..+.+ .-...|.+|...+++......+..+.||.
T Consensus       111 ~~el~~~i~~l~~e~~~l~~kL~~l~~-~~~~vs~ee~~~~~~~~~~~~k~w~kRKr  166 (169)
T PF07106_consen  111 NEELREEIEELEEEIEELEEKLEKLRS-GSKPVSPEEKEKLEKEYKKWRKEWKKRKR  166 (169)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456777777777777777777766654 34457899999999999999999999885

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 [].

>PHA03155 hypothetical protein; Provisional

Probab=83.04  E-value=9.8  Score=31.78  Aligned_cols=59  Identities=19%  Similarity=0.257  Sum_probs=49.5

Q ss_pred             cccHHHHHHHHHHHHHHHHHHHhhhhccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 039560          123 NNDIEELQQEVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNLVDTLTQVSQRK  181 (344)
Q Consensus       123 n~~iE~Lq~Ei~~Lq~qle~le~~lR~~~gd~L~~lSleEL~~LE~~Le~~L~~Vr~RK  181 (344)
                      +..+|+|..|+.+|+-++..|...++.-.+.+...|+..+-+.+-......|...-.+|
T Consensus         7 ~~tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~K   65 (115)
T PHA03155          7 CADVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEK   65 (115)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence            35789999999999999999999997765666788999999888888888887776666

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	344
1tqe_P	93	Mechanism Of Recruitment Of Class Ii Histone Deacet		4e-14
3mu6_A	71	Inhibiting The Binding Of Class Iia Histone Deacety		7e-14
3kov_A	90	Structure Of Mef2a Bound To Dna Reveals A Completel		9e-14
1n6j_A	93	Structural Basis Of Sequence-Specific Recruitment O		2e-13
1egw_A	77	Crystal Structure Of Mef2a Core Bound To Dna Length		2e-13
1c7u_A	85	Complex Of The Dna Binding Core Domain Of The Trans		2e-12
1mnm_A	100	Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLE		4e-09
1srs_A	92	Serum Response Factor (Srf) Core Complexed With Spe		5e-09
1k6o_B	103	Crystal Structure Of A Ternary Sap-1SRFC-Fos Sre Dn		2e-08

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

Iteration: 1
 Score = 75.9 bits (185), Expect = 4e-14,   Method: Composition-based stats.
 Identities = 34/58 (58%), Positives = 47/58 (81%)
Query: 1  MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          MGR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ + RL  ++
Sbjct: 1  MGRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYA 58

>pdb|3MU6|A Chain A, Inhibiting The Binding Of Class Iia Histone Deacetylases To Myocyte Enhancer Factor-2 By Small Molecules Length = 71

Iteration: 1
 Score = 74.7 bits (182), Expect = 7e-14,   Method: Composition-based stats.
 Identities = 33/57 (57%), Positives = 46/57 (80%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ S +L  ++
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA 57

>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 = 74.3 bits (181), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 39/84 (46%), Positives = 58/84 (69%), Gaps = 3/84 (3%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ S +L  ++   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTD 60
Query: 62 RIEDVFSRYV--NLPDQEREHAII 83
           ++ V  +Y   N P + R ++ I
Sbjct: 61 -MDKVLLKYTEYNEPHESRTNSDI 83

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 33/57 (57%), Positives = 46/57 (80%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ + RL  ++
Sbjct: 1  GRKKIQISRILDQRNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSANRLFQYA 57

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

Iteration: 1
 Score = 73.6 bits (179), Expect = 2e-13,   Method: Composition-based stats.
 Identities = 33/57 (57%), Positives = 46/57 (80%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFS 58
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ S +L  ++
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA 57

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

Iteration: 1
 Score = 69.7 bits (169), Expect = 2e-12,   Method: Composition-based stats.
 Identities = 38/84 (45%), Positives = 57/84 (67%), Gaps = 3/84 (3%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+L D +IALI+F+ S +L  ++   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLADAEIALIIFNSSNKLFQYASTD 60
Query: 62 RIEDVFSRYV--NLPDQEREHAII 83
           ++ V  +Y   N P + R ++ I
Sbjct: 61 -MDKVLLKYTEYNEPHESRTNSDI 83

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

Iteration: 1
 Score = 58.9 bits (141), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 30/59 (50%), Positives = 42/59 (71%)
Query: 3  RVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          R K+EIK IEN T R VTFSKR++G++KKA+ELS+L    + L++ S +G +  FS  K
Sbjct: 18 RRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPK 76

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 5e-09,   Method: Composition-based stats.
 Identities = 27/60 (45%), Positives = 41/60 (68%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GRVK++++ I+N   R  TFSKR+ G++KKAYELS L    + L++ S +G +  F+ RK
Sbjct: 11 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 70

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

Iteration: 1
 Score = 57.0 bits (136), Expect = 2e-08,   Method: Composition-based stats.
 Identities = 27/60 (45%), Positives = 41/60 (68%)
Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GRVK++++ I+N   R  TFSKR+ G++KKAYELS L    + L++ S +G +  F+ RK
Sbjct: 10 GRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRK 69

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	344
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	2e-35
1hbx_A	92	SRF, serum response factor; gene regulation, trans	7e-35
1egw_A	77	MADS box transcription enhancer factor 2, polypept	3e-34
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	4e-34
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	3e-33
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	9e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>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 =  123 bits (311), Expect = 2e-35
 Identities = 35/78 (44%), Positives = 52/78 (66%), Gaps = 1/78 (1%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ S +L  ++   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-T 59

Query: 62 RIEDVFSRYVNLPDQERE 79
           ++ V  +Y    +    
Sbjct: 60 DMDKVLLKYTEYNEPHES 77

>1hbx_A SRF, serum response factor; gene regulation, transcription complex; 3.15A {Homo sapiens} SCOP: d.88.1.1 PDB: 1srs_A* Length = 92

 Score =  121 bits (306), Expect = 7e-35
 Identities = 27/79 (34%), Positives = 46/79 (58%), Gaps = 1/79 (1%)

Query: 1  MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           GRVK++++ I+N   R  TFSKR+ G++KKAYELS L    + L++ S +G +  F+ R
Sbjct: 10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 69

Query: 61 KRIEDVFSRYVNLPDQERE 79
          K ++ + +        +  
Sbjct: 70 K-LQPMITSETGKALIQTC 87

>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 =  119 bits (301), Expect = 3e-34
 Identities = 35/76 (46%), Positives = 52/76 (68%), Gaps = 1/76 (1%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ S +L  ++   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-T 59

Query: 62 RIEDVFSRYVNLPDQE 77
           ++ V  +Y    +  
Sbjct: 60 DMDKVLLKYTEYNEPH 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 =  120 bits (302), Expect = 4e-34
 Identities = 31/80 (38%), Positives = 47/80 (58%), Gaps = 1/80 (1%)

Query: 1  MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
            R K+EIK IEN T R VTFSKR++G++KKA+ELS+L    + L++ S +G +  FS  
Sbjct: 16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTP 75

Query: 61 KRIEDVFSRYVNLPDQEREH 80
          K  E + ++       +   
Sbjct: 76 K-FEPIVTQQEGRNLIQACL 94

>1k6o_B SRF, serum response factor; protein/DNA complex, transcription factor, combinatorial gene regulation, ETS proteins, MADS-box proteins; 3.19A {Homo sapiens} SCOP: d.88.1.1 Length = 103

 Score =  118 bits (296), Expect = 3e-33
 Identities = 27/79 (34%), Positives = 46/79 (58%), Gaps = 1/79 (1%)

Query: 1  MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           GRVK++++ I+N   R  TFSKR+ G++KKAYELS L    + L++ S +G +  F+ R
Sbjct: 9  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATR 68

Query: 61 KRIEDVFSRYVNLPDQERE 79
          K ++ + +        +  
Sbjct: 69 K-LQPMITSETGKALIQTC 86

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 41.5 bits (96), Expect = 9e-05
 Identities = 8/31 (25%), Positives = 16/31 (51%), Gaps = 5/31 (16%)

Query: 137 QQQLQMAEDQIRIYEPD--P-LRITSIKDIE 164
           +Q L+  +  +++Y  D  P L I +   +E
Sbjct: 19  KQALKKLQASLKLYADDSAPALAIKA--TME 47

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.8 bits (97), Expect = 3e-04
 Identities = 28/184 (15%), Positives = 53/184 (28%), Gaps = 43/184 (23%)

Query: 132 EVGRLQQQLQMAEDQIRIYEPDPLRITSIKDIESCEKNL-----VDTLTQVSQRKE--FL 184
           E G  Q Q +   D + ++E   +     KD++   K++     +D +            
Sbjct: 10  ETGEHQYQYK---DILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLR 66

Query: 185 LSNHLSSYDPSSMQQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLNELRDLSTTMY-- 242
           L   L S     M Q+ +          +L               +      + T MY  
Sbjct: 67  LFWTLLSK-QEEMVQKFVEEVLRIN-YKFL----------MSPIKTEQRQPSMMTRMYIE 114

Query: 243 --DPLLQGTSSNAGPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHG 300
             D L              + +V+          P   +   L    L P+    +   G
Sbjct: 115 QRDRL------YNDNQVFAKYNVSRLQ-------PYLKLRQALLE--LRPAKN--VLIDG 157

Query: 301 MMGT 304
           ++G+
Sbjct: 158 VLGS 161

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 4e-04
 Identities = 52/383 (13%), Positives = 111/383 (28%), Gaps = 109/383 (28%)

Query: 5   KLEIKRIENNTNRQV-------TFSKRRNGLIKKAYELSILCDID-----IALIMFSPSG 52
           K EI  I  + +          T   ++  +++K  E  +  +       I      PS 
Sbjct: 48  KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSM 107

Query: 53  RLSHF-SGRKRIE---DVFSRYVNLPDQEREHAIIFPDQGRHPDIQNKEYLLRT-LQQLR 107
               +   R R+     VF++Y N+               R          LR  L +LR
Sbjct: 108 MTRMYIEQRDRLYNDNQVFAKY-NVS--------------RLQPYLK----LRQALLELR 148

Query: 108 SENDIALQ---------LANPAAINNDIEELQQ------EVGRLQ---QQLQMAEDQIRI 149
              ++ +          +A    ++  ++           +         L+M +  +  
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208

Query: 150 YEPD----PLRITSIK-DIESCEKNLVDTLTQVSQRKEFLL-------SNHLSSYDPSSM 197
            +P+        ++IK  I S +  L   L      +  LL       +   ++++ S  
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS-KPYENCLLVLLNVQNAKAWNAFNLSC- 266

Query: 198 QQQAMPSSFENEVVGWLPGGGHNQAQIFESSASLN--ELRDLSTTMYDPLLQ--GTSSNA 253
             + + ++   +V  +L         +   S +L   E++ L       LL+        
Sbjct: 267 --KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL-------LLKYLDCRPQD 317

Query: 254 GPHSIGECHVTNPSGENFATWPQAFVSAGLHSAPLSPSLYPQIQQHGMMGT--------D 305
            P    E   TNP          + ++  +     +   +  +    +           +
Sbjct: 318 LPR---EVLTTNP----RRL---SIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367

Query: 306 TNE---------ILPRDQVEIPI 319
             E         + P     IP 
Sbjct: 368 PAEYRKMFDRLSVFPPS-AHIPT 389

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	344
1egw_A	77	MADS box transcription enhancer factor 2, polypept	99.96
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	99.96
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	99.95
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.95
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	99.95

>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=99.96  E-value=5.2e-32  Score=208.83  Aligned_cols=73  Identities=48%  Similarity=0.867  Sum_probs=68.6

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcCCCh
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPD   75 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~l~~   75 (344)
                      ||+||+|++|+|+++|+|||+|||+||+|||+||||||||+|||||||++|++++|++ +++++||+||.+.++
T Consensus         1 GR~Ki~ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s-~~~~~il~ry~~~~~   73 (77)
T 1egw_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-TDMDKVLLKYTEYNE   73 (77)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEES-SCHHHHHHHHHHC--
T ss_pred             CCceeeeEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCC-CCHHHHHHHHHhccC
Confidence            8999999999999999999999999999999999999999999999999999999965 679999999987653

>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=99.96  E-value=7e-32  Score=213.25  Aligned_cols=76  Identities=46%  Similarity=0.836  Sum_probs=71.8

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcCCChhhh
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQER   78 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~l~~~er   78 (344)
                      ||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++++|++ +++++||+||.++++..+
T Consensus         1 GR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s-~~~~~il~rY~~~~~~~~   76 (90)
T 3p57_A            1 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-TDMDKVLLKYTEYNEPHE   76 (90)
T ss_dssp             CCSCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEES-SCHHHHHHHHHHCCSCCC
T ss_pred             CCCcceeEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCC-CCHHHHHHHHHhcCcccc
Confidence            8999999999999999999999999999999999999999999999999999999965 789999999998876544

>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=99.95  E-value=1.3e-30  Score=209.44  Aligned_cols=72  Identities=42%  Similarity=0.635  Sum_probs=68.4

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcCC
Q 039560            1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNL   73 (344)
Q Consensus         1 MgR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~l   73 (344)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++|+|++ +++..||+||...
T Consensus        16 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s-ps~~~il~r~~G~   87 (100)
T 1mnm_A           16 KERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFST-PKFEPIVTQQEGR   87 (100)
T ss_dssp             CCCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEEC-TTTTHHHHSHHHH
T ss_pred             CCccceeeEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecC-CCHHHHHHHhhCC
Confidence            89999999999999999999999999999999999999999999999999999999954 6899999999643

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

Probab=99.95  E-value=3.3e-30  Score=204.47  Aligned_cols=70  Identities=36%  Similarity=0.637  Sum_probs=67.0

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhc
Q 039560            1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYV   71 (344)
Q Consensus         1 MgR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~   71 (344)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+||||||||+|++|+|++ ++++.||++|.
T Consensus        10 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s-~~~~~~i~~~~   79 (92)
T 1hbx_A           10 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT-RKLQPMITSET   79 (92)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEEC-GGGGGGTSSHH
T ss_pred             CCcceEEEEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecC-CCHHHHHhhhc
Confidence            99999999999999999999999999999999999999999999999999999999954 78999998764

>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=99.95  E-value=1e-29  Score=205.49  Aligned_cols=70  Identities=36%  Similarity=0.637  Sum_probs=66.6

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhc
Q 039560            1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYV   71 (344)
Q Consensus         1 MgR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~   71 (344)
                      |||+||+|++|+|+++|+|||+|||.||||||+||||||||+|||||||++|++|+|++ +++..||+++.
T Consensus         9 mgR~Ki~ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s-~~~~~vi~~~~   78 (103)
T 1k6o_B            9 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFAT-RKLQPMITSET   78 (103)
T ss_dssp             CCSCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEEC-GGGGGGTSSHH
T ss_pred             CCcceeEEEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecC-ccHHHHHHhhh
Confidence            99999999999999999999999999999999999999999999999999999999954 68999998753

---

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	344
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	3e-32
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	4e-31
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	1e-30

>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 =  113 bits (284), Expect = 3e-32
 Identities = 35/69 (50%), Positives = 51/69 (73%), Gaps = 1/69 (1%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
          GR K++I RI +  NRQVTF+KR+ GL+KKAYELS+LCD +IALI+F+ S +L  ++   
Sbjct: 1  GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYA-ST 59

Query: 62 RIEDVFSRY 70
           ++ V  +Y
Sbjct: 60 DMDKVLLKY 68

>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 =  110 bits (278), Expect = 4e-31
 Identities = 25/70 (35%), Positives = 45/70 (64%), Gaps = 1/70 (1%)

Query: 1  MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGR 60
           GRVK++++ I+N   R  TFSKR+ G++KKAYELS L    + L++ S +G +  F+  
Sbjct: 2  RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-T 60

Query: 61 KRIEDVFSRY 70
          ++++ + +  
Sbjct: 61 RKLQPMITSE 70

>d1mnma_ d.88.1.1 (A:) MCM1 transcriptional regulator {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 85

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

 Score =  109 bits (273), Expect = 1e-30
 Identities = 30/69 (43%), Positives = 46/69 (66%), Gaps = 1/69 (1%)

Query: 2  GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRK 61
           R K+EIK IEN T R VTFSKR++G++KKA+ELS+L    + L++ S +G +  FS   
Sbjct: 3  ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFS-TP 61

Query: 62 RIEDVFSRY 70
          + E + ++ 
Sbjct: 62 KFEPIVTQQ 70

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	344
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	99.96
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	99.95
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	99.95

>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=99.96  E-value=6.8e-32  Score=203.04  Aligned_cols=70  Identities=50%  Similarity=0.896  Sum_probs=67.5

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcC
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVN   72 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~   72 (344)
                      ||+||+|++|+|+..|+|||+|||.||||||+||||||||+||||||||+|++++|++ +++++||+||..
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 GRKKIQITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYAS-TDMDKVLLKYTE   70 (71)
T ss_dssp             CCSCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEES-SCHHHHHHHHHH
T ss_pred             CCccceEEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeC-CCHHHHHHHHhc
Confidence            8999999999999999999999999999999999999999999999999999999965 789999999974

>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=99.95  E-value=2.3e-30  Score=199.71  Aligned_cols=71  Identities=35%  Similarity=0.635  Sum_probs=68.0

Q ss_pred             CCcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcC
Q 039560            1 MGRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVN   72 (344)
Q Consensus         1 MgR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~   72 (344)
                      +||+||+|++|+|++.|+|||+|||.||||||+||||||||+||||||||+|++++|+ +++++.||+||..
T Consensus         2 ~GR~Ki~i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~-s~~~~~vi~~~~~   72 (84)
T d1srsa_           2 RGRVKIKMEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFA-TRKLQPMITSETG   72 (84)
T ss_dssp             CCCCCCCSSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEE-CGGGHHHHSSHHH
T ss_pred             CCCceeeEEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEee-CCCHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999994 5889999999963

>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=99.95  E-value=2.7e-30  Score=200.47  Aligned_cols=76  Identities=38%  Similarity=0.579  Sum_probs=70.6

Q ss_pred             CcccceeEEecCCCCcccccccccchhhhhhhhhhcccCccEEEEeecCCCccccccccchhhhHHhhhcCCChhhh
Q 039560            2 GRVKLEIKRIENNTNRQVTFSKRRNGLIKKAYELSILCDIDIALIMFSPSGRLSHFSGRKRIEDVFSRYVNLPDQER   78 (344)
Q Consensus         2 gR~Ki~ik~I~~~~~R~~TfsKR~~GL~KKA~ELs~LCd~~v~liifsp~gk~~~~ss~~~ve~VIeRY~~l~~~er   78 (344)
                      ||+||+|++|+|++.|+|||+|||.||||||+||||||||+||||||||+|++++| ++++++.||+||......++
T Consensus         3 ~R~Ki~i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f-~sp~v~~vl~r~~~~~~~~~   78 (85)
T d1mnma_           3 ERRKIEIKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTF-STPKFEPIVTQQEGRNLIQA   78 (85)
T ss_dssp             CCCCCCSSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEE-ECTTTTHHHHSHHHHHHHHH
T ss_pred             CccceEEEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEec-cCCCHHHHHHHHhcccHHHH
Confidence            89999999999999999999999999999999999999999999999999999999 45789999999986554443