Citrus Sinensis ID: 042472

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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-------
Protein Sequence
MEHEEQQQPANQHKIIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANASSSMAPPMCFRHK
Secondary Structure (PSIPRED)
cccHHHcccccccccccccEEEEEEcccccccccccccHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHccccccccEcccEEEEEEEccccccEccccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccHHHccc
Coil and Loop (DISEMBL)
meheeqqqpanqhkiipkqqsllehhrsgrpfsfghpsiEAAANRfvglnqpandnthplVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRtgkesqpcwwetpvdelNHQELLQMGATIDDLHKTFLSKLNEktanasssmappmcfrhk
Flexible Loop (DISEMBL)
meheeqqqpanqhkiIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNektanasssmappmcfrhk
Low Complexity Region (SEG)
MEHEEQQQPANQHKIIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANASSSMAPPMCFRHK
Disordered region (IsUnstruct)
********************************************RFVGL********HPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMV*********QPCWWETPVDELNHQELLQMGATIDDLHKTFL***********************
Disordered Region (DISOPRED)
**************IIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGL*******************INELNQRHNELLC*******************ESQPCWWETPVDELNHQELLQMGATIDDLHKTFL***********************
Disordered Region (DISEMBL)
************HKIIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMV*********QPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEK*****************
Disordered Region (DISPRO)
***********QHKIIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTAN**************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MEHEEQQQPANQHKIIPKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANASSSMAPPMCFRHK
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	157	2.2.26 [Sep-21-2011]
Q4PSU4	264	Agamous-like MADS-box pro	yes	no	0.675	0.401	0.318	2e-09
Q9FKK2	299	Agamous-like MADS-box pro	no	no	0.643	0.337	0.320	1e-08

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

 Score = 61.2 bits (147), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 35/110 (31%), Positives = 62/110 (56%), Gaps = 4/110 (3%)

Query: 30  RPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEW 89
           +PFSFGHPS+E+  +R+V  N  +   +  L          ELN +   +L ++ EEK+ 
Sbjct: 114 KPFSFGHPSVESVLDRYVSRNNMSLAQSQQLQ--GSPAASCELNMQLTHILSEVEEEKKK 171

Query: 90  ETMVKQMR--TGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKL 137
              +++MR  + + S   WWE PV+E+N  +L +M   +++L KT ++ +
Sbjct: 172 GQAMEEMRKESVRRSMINWWEKPVEEMNMVQLQEMKYALEELRKTVVTNM 221

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

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

 Score = 59.3 bits (142), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 33/103 (32%), Positives = 54/103 (52%), Gaps = 2/103 (1%)

Query: 32  FSFGHPSIEAAANRFVGLNQ--PANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEW 89
           FSFGHP++++  +RF+  N   P   N   L E  R   + +LN    ++L QL  EK+ 
Sbjct: 60  FSFGHPNVDSVIDRFINNNPLPPHQHNNMQLRETRRNSIVQDLNNHLTQVLSQLETEKKK 119

Query: 90  ETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKT 132
              +K++R   ++   WWE PV+EL   +L      +++L K 
Sbjct: 120 YDELKKIREKTKALGNWWEDPVEELALSQLEGFKGNLENLKKV 162

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

Arabidopsis thaliana (taxid: 3702)

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	157
255557369	220	mads box protein, putative [Ricinus comm	0.796	0.568	0.531	2e-30
224077620	194	predicted protein [Populus trichocarpa]	0.757	0.613	0.525	1e-28
255557367	239	mads box protein, putative [Ricinus comm	0.783	0.514	0.468	1e-23
224054544	202	predicted protein [Populus trichocarpa]	0.751	0.584	0.450	4e-21
224104275	201	predicted protein [Populus trichocarpa]	0.796	0.621	0.441	2e-20
449434264	260	PREDICTED: agamous-like MADS-box protein	0.707	0.426	0.442	5e-19
225462217	199	PREDICTED: agamous-like MADS-box protein	0.770	0.608	0.430	3e-18
449505973	269	PREDICTED: agamous-like MADS-box protein	0.719	0.420	0.408	7e-18
357462355	207	Agamous-like MADS-box protein AGL62 [Med	0.738	0.560	0.393	2e-15
225429161	214	PREDICTED: agamous-like MADS-box protein	0.789	0.579	0.367	2e-15

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

 Score =  137 bits (344), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 67/126 (53%), Positives = 89/126 (70%), Gaps = 1/126 (0%)

Query: 21  SLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELL 80
            +L    +G+PFSFGHPS+E+ ANRF+G N P +DNTHPLVE HR++RINELN+++NELL
Sbjct: 51  GILVFSPAGKPFSFGHPSLESIANRFLGKNVPPSDNTHPLVEAHRKMRINELNKQYNELL 110

Query: 81  CQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEK 140
            +L  EKE  +M+K+   GK     WWE P+D+LN QEL Q+ A  ++LH T   K+NEK
Sbjct: 111 NRLESEKERGSMLKKTIRGKGCNN-WWEAPIDDLNMQELEQIYAMFEELHSTLCKKMNEK 169

Query: 141 TANASS 146
             N  S
Sbjct: 170 RNNGVS 175

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  131 bits (329), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 63/120 (52%), Positives = 84/120 (70%), Gaps = 1/120 (0%)

Query: 28  SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEK 87
           +G+ FSFGHPSIE+ ANRF+G N   NDNTHPLVE HR+VRINELNQ+HNELL ++  E+
Sbjct: 57  AGKAFSFGHPSIESVANRFLGQNIAPNDNTHPLVEAHRKVRINELNQQHNELLSEMEAER 116

Query: 88  EWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANASSS 147
           +   ++K+  + K SQ  WWE P+DEL+ QEL QM   +++ HK     +NE   N  +S
Sbjct: 117 DRGKVLKEGTSEKSSQG-WWEAPIDELSLQELKQMNVMLEEFHKNLHKTINELRRNGGAS 175

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  114 bits (286), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 59/126 (46%), Positives = 79/126 (62%), Gaps = 3/126 (2%)

Query: 21  SLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDN---THPLVEVHRQVRINELNQRHN 77
           + L +  +G+PFSF HPS++A  NRF G      +N   THPL+E HR +RI ELNQ+HN
Sbjct: 54  AFLVYSPAGKPFSFAHPSMDAITNRFFGQGSADRNNNPTTHPLIEAHRLMRIEELNQQHN 113

Query: 78  ELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKL 137
           ELL QL  EKE    +KQ       +  WW+TP++ELN  ELLQM A   ++  + ++KL
Sbjct: 114 ELLRQLEIEKEKGKQLKQKHKKNNERKGWWDTPIEELNVPELLQMEAACKEIRTSLINKL 173

Query: 138 NEKTAN 143
            EKT N
Sbjct: 174 KEKTNN 179

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  105 bits (263), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 59/131 (45%), Positives = 85/131 (64%), Gaps = 13/131 (9%)

Query: 28  SGRPFSFGHPSIEAAANRFVGLNQPAN-DNTHPLVEVHRQVRINELNQRHNELLCQLNEE 86
           +G+PFSFGHPS+E+  NRF  L  P + D+T+ LVE HR++RI EL Q+HN++  QL+EE
Sbjct: 57  AGKPFSFGHPSVESVINRF--LEDPLDMDSTYHLVEAHRRMRIEELTQKHNDMQHQLDEE 114

Query: 87  KE----WETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTA 142
           KE     ++ +K+M +       WW+T VDELN QEL+++     +L  T  SK+ E  +
Sbjct: 115 KEKGLKLKSKIKEMDS-----KGWWDTAVDELNIQELIELEKKFKELQMTLCSKIAENAS 169

Query: 143 N-ASSSMAPPM 152
             ASSS AP +
Sbjct: 170 TVASSSQAPEI 180

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  103 bits (258), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 57/129 (44%), Positives = 81/129 (62%), Gaps = 4/129 (3%)

Query: 28  SGRPFSFGHPSIEAAANRFVGLNQPAN-DNTHPLVEVHRQVRINELNQRHNELLCQLNEE 86
            G+PFSFGHPSIE   +RF  L  P+N D TH LVE +R+ RI EL Q+++E+  QL+++
Sbjct: 57  GGKPFSFGHPSIENVLDRF--LENPSNADGTHELVEEYRRARIEELTQKYDEMQQQLDDD 114

Query: 87  KEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANASS 146
           KE  + +K    G E +  WW  PV+ELN QEL+++    + L  T  SK+ + +  ASS
Sbjct: 115 KEKGSKLKDKIQGNE-RGDWWNAPVEELNLQELIELEKKFEGLRMTLHSKMKDSSNGASS 173

Query: 147 SMAPPMCFR 155
           S AP +  R
Sbjct: 174 SHAPEVGNR 182

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 99.0 bits (245), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 50/113 (44%), Positives = 75/113 (66%), Gaps = 2/113 (1%)

Query: 28  SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEK 87
           +G+PFSF HP IE  AN+F  LN  A   T PLVE HR+VRINELNQ+HN+LL QL+ EK
Sbjct: 68  AGKPFSFAHPCIETIANKF--LNAAATTTTTPLVEAHRRVRINELNQQHNQLLSQLDAEK 125

Query: 88  EWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEK 140
           E    +++++  + +   WWETP +EL  +EL ++ A+  +++     +L ++
Sbjct: 126 EKGKALEKLKRVRGNGRGWWETPTEELGIEELQEVDASFGEIYSNVCHQLKQR 178

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 96.7 bits (239), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 53/123 (43%), Positives = 73/123 (59%), Gaps = 2/123 (1%)

Query: 28  SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEK 87
           +G+ FSFG PSIE   N+ +  N P NDNT  LVE HR+ R+NEL+Q+++ELL ++   K
Sbjct: 57  AGKAFSFGQPSIEKITNKVLYENPPPNDNTLNLVEAHRRFRLNELHQKYSELLSKMEVAK 116

Query: 88  EWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANASSS 147
           E E ++++    +     WWE P+ EL+  EL QM   I  LHK    + NE    ASSS
Sbjct: 117 EQEKILRKKVPNRSK--GWWEEPISELSMHELEQMAIKIQMLHKHVQHRANELWTRASSS 174

Query: 148 MAP 150
             P
Sbjct: 175 SLP 177

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 95.5 bits (236), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 49/120 (40%), Positives = 76/120 (63%), Gaps = 7/120 (5%)

Query: 28  SGRPFSFGHPSIEAAANRFVGLNQPANDN-------THPLVEVHRQVRINELNQRHNELL 80
           +G+PFSF HP IE  AN+F+  N+    N        HPLVE HR+VRINELNQ+HN+LL
Sbjct: 68  AGKPFSFAHPCIETIANKFLNGNKNNKGNNDDNNNNAHPLVEAHRRVRINELNQQHNQLL 127

Query: 81  CQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEK 140
            QL+ EKE    +++++  + +   WWETP +EL  +EL ++ A+  +++     +L ++
Sbjct: 128 SQLDAEKEKGKALEKLKRVRGNGRGWWETPTEELGIEELQEVDASFGEIYSNVCHQLKQR 187

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 87.4 bits (215), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/122 (39%), Positives = 71/122 (58%), Gaps = 6/122 (4%)

Query: 30  RPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEW 89
           + FSFGHP +E+  +R++  N P   ++H LVE HR   + +LN +  +LL  L  EK+ 
Sbjct: 60  KAFSFGHPEVESIIDRYLSRNPPQESSSHQLVEAHRNANVRDLNVQLTQLLSHLEIEKKQ 119

Query: 90  ETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKT----ANAS 145
              +  +R  ++ Q  WWE+PVDEL   ELLQ+  +I+DL K  L K+  K     +N S
Sbjct: 120 GEEIDHVRKARQMQ-FWWESPVDELGLNELLQLKVSIEDLRKN-LGKIASKCMMEQSNVS 177

Query: 146 SS 147
           SS
Sbjct: 178 SS 179

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 87.0 bits (214), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 47/128 (36%), Positives = 74/128 (57%), Gaps = 4/128 (3%)

Query: 21  SLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELL 80
           +++    +G+ FSFGHP +E+  +RF   N     N   L+E HR   + ELN +  ++L
Sbjct: 50  AIIVFSPAGKVFSFGHPDVESIVDRFFTCNPIPEPNGLHLIEAHRNASVRELNLQLTQVL 109

Query: 81  CQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLS---KL 137
            QL  EK+   ++ QMR   ++Q CWWE P++EL+  EL Q+  ++++L K  LS   KL
Sbjct: 110 NQLEAEKKRGEILSQMRRASQTQ-CWWEAPINELSMPELEQLKVSMEELKKVVLSQGDKL 168

Query: 138 NEKTANAS 145
             + AN S
Sbjct: 169 LMEAANPS 176

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	157
TAIR|locus:2047304	264	AGL61 "AGAMOUS-like 61" [Arabi	0.675	0.401	0.318	1.5e-11
TAIR|locus:2175188	299	AGL62 "AGAMOUS-like 62" [Arabi	0.656	0.344	0.330	2.1e-10
TAIR|locus:2032537	182	AGL59 "AGAMOUS-like 59" [Arabi	0.713	0.615	0.271	2.9e-09
TAIR|locus:2102990	207	AGL57 "AGAMOUS-like 57" [Arabi	0.585	0.444	0.305	1.2e-08
TAIR|locus:2199444	161	AGL85 "AGAMOUS-like 85" [Arabi	0.783	0.763	0.274	1.6e-08
TAIR|locus:2115420	248	AT4G36590 [Arabidopsis thalian	0.757	0.479	0.264	4.5e-08
TAIR|locus:2032543	185	AGL58 "AGAMOUS-like 58" [Arabi	0.694	0.589	0.286	5.3e-08
TAIR|locus:2025386	247	AGL28 "AGAMOUS-like 28" [Arabi	0.770	0.489	0.265	5.7e-08
TAIR|locus:4010713489	185	AGL64 "AGAMOUS-like 64" [Arabi	0.738	0.627	0.267	1.4e-07
TAIR|locus:2206320	226	AGL23 "AGAMOUS-like 23" [Arabi	0.643	0.446	0.266	2.6e-06

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

 Score = 159 (61.0 bits), Expect = 1.5e-11, P = 1.5e-11
 Identities = 35/110 (31%), Positives = 62/110 (56%)

Query:    30 RPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEKEW 89
             +PFSFGHPS+E+  +R+V  N  +   +  L          ELN +   +L ++ EEK+ 
Sbjct:   114 KPFSFGHPSVESVLDRYVSRNNMSLAQSQQLQG--SPAASCELNMQLTHILSEVEEEKKK 171

Query:    90 ETMVKQMR--TGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKL 137
                +++MR  + + S   WWE PV+E+N  +L +M   +++L KT ++ +
Sbjct:   172 GQAMEEMRKESVRRSMINWWEKPVEEMNMVQLQEMKYALEELRKTVVTNM 221

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

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

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

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

GO:0043078 "polar nucleus" evidence=IDA

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

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

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

 Score = 151 (58.2 bits), Expect = 2.1e-10, P = 2.1e-10
 Identities = 35/106 (33%), Positives = 56/106 (52%)

Query:    29 GRP-FSFGHPSIEAAANRFVGLNQ--PANDNTHPLVEVHRQVRINELNQRHNELLCQLNE 85
             GR  FSFGHP++++  +RF+  N   P   N   L E  R   + +LN    ++L QL  
Sbjct:    56 GRKVFSFGHPNVDSVIDRFINNNPLPPHQHNNMQLRETRRNSIVQDLNNHLTQVLSQLET 115

Query:    86 EKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHK 131
             EK+    +K++R   ++   WWE PV+EL   +L      +++L K
Sbjct:   116 EKKKYDELKKIREKTKALGNWWEDPVEELALSQLEGFKGNLENLKK 161

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009960 "endosperm development" evidence=IMP

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

 Score = 136 (52.9 bits), Expect = 2.9e-09, P = 2.9e-09
 Identities = 32/118 (27%), Positives = 65/118 (55%)

Query:    28 SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLN-EE 86
             SG+P++FG PS +A A RF+  +  ++ ++  ++  H+Q +I EL +++N L+ +L  +E
Sbjct:    57 SGKPYTFGSPSFQAVAERFLNGDASSSSSSSLVMNAHKQAKIQELCKKYNRLVEELKVDE 116

Query:    87 KEWETMVKQMRTGKESQPCWWET-PVDELNHQELLQMGATIDDLHKTFLSKLNEKTAN 143
              + +       T   ++  WW+  P D  +H++  +M     +L+     KL E+ A+
Sbjct:   117 VKVKKAAALAETRVVNKDVWWKVDPNDVKDHEKAKKMMEKYQELY----DKLCEQAAS 170

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

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

 Score = 130 (50.8 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 29/95 (30%), Positives = 55/95 (57%)

Query:    30 RPFSFGHPSIEAAANRFVGLN--QPAN-DNTHPLVEVHRQVRINELNQRHNELLCQLNEE 86
             +P++F HPS++  A+R    +  +P   D+T PLVE +++ R+++L ++   L  +L  +
Sbjct:    65 KPYTFAHPSMKKVADRLKNPSRQEPLERDDTRPLVEAYKKRRLHDLVKKMEALEEELAMD 124

Query:    87 KEWETMVKQMRTGKESQPCWWETPVDELNHQELLQ 121
              E   ++K+ R  K+    WW  P + L+ +EL Q
Sbjct:   125 LEKLKLLKESRNEKKLDKMWWNFPSEGLSAKELQQ 159

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

TAIR|locus:2199444 AGL85 "AGAMOUS-like 85" [Arabidopsis thaliana (taxid:3702)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 37/135 (27%), Positives = 70/135 (51%)

Query:     4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNTH-PLV 61
             E +   +N+  I+   + + L +  SG+P++FG PS +A A RF  LN+ A+ +    ++
Sbjct:    12 EMESTISNELSILCGAEVAFLGYSCSGKPYTFGSPSFQAVAERF--LNREASSSLQRSVM 69

Query:    62 EVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQP----CWWETPVDEL-NH 116
               H+Q +I EL + +N ++    E K  E  VK+     E+ P     WW+    E+ +H
Sbjct:    70 NAHQQAKIQELCKVYNRMV---EEAKTEEAKVKKAAALAETMPVDEDAWWKVDPKEVEDH 126

Query:   117 QELLQMGATIDDLHK 131
             +E  ++    + L++
Sbjct:   127 EEAKKIMEKCEGLYE 141

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

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

 Score = 128 (50.1 bits), Expect = 4.5e-08, P = 4.5e-08
 Identities = 33/125 (26%), Positives = 61/125 (48%)

Query:    29 GRPFSFGHPSIEAAANRFVGLNQPA-----NDNTHPLVEVHRQVRINELNQRHNELLCQL 83
             G+ FSFGHPS++   +RF   N  +      +N   LVE      I  LN    E+L   
Sbjct:    57 GKVFSFGHPSVQELIHRFSNPNHNSAIVHHQNNNLQLVETRPDRNIQYLNNILTEVLANQ 116

Query:    84 NEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKT-A 142
              +EK+   ++  ++  +E    W+E  V +L+  E  Q+ + + D+ K  + ++++ +  
Sbjct:   117 EKEKQKRMVLDLLKESREQVGNWYEKDVKDLDMNETNQLISALQDVKKKLVREMSQYSQV 176

Query:   143 NASSS 147
             N S +
Sbjct:   177 NVSQN 181

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

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2032543 AGL58 "AGAMOUS-like 58" [Arabidopsis thaliana (taxid:3702)]

 Score = 124 (48.7 bits), Expect = 5.3e-08, P = 5.3e-08
 Identities = 35/122 (28%), Positives = 63/122 (51%)

Query:    28 SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVE-----VHRQVRINELNQRHNELLCQ 82
             SG+P++FG PS +A   RF  LN  A+ ++   ++      H+Q +I EL +R+N L+ +
Sbjct:    57 SGKPYTFGSPSFQAVVERF--LNGEASSSSSSSLQRSVKNAHKQAKIQELCKRYNRLVEE 114

Query:    83 LN-EEKEWETMVKQMRTGKESQPCWWET-PVDELNHQELLQMGATIDDLHKTFLSKLNEK 140
             L  +E + +       T   ++  WW+  P D  +H++  +M     +L +    KL E+
Sbjct:   115 LKVDEVKVKKAAALAETRAVNKDAWWKADPNDVKDHEKAKKMMEKYQELKE----KLREE 170

Query:   141 TA 142
              A
Sbjct:   171 VA 172

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

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

 Score = 127 (49.8 bits), Expect = 5.7e-08, P = 5.7e-08
 Identities = 35/132 (26%), Positives = 70/132 (53%)

Query:    28 SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLNEEK 87
             SG+ +SFGHP++    +  +G     ++NT+   E   ++RI  LN+   E++ +  +E+
Sbjct:    56 SGKAYSFGHPNVNKLLDHSLG-RVIRHNNTN-FAESRTKLRIQMLNESLTEVMAEKEKEQ 113

Query:    88 EW-ETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTF---LSKLNEKTAN 143
             E  +++V+  R  K+++  WW     ELN  +   M   ++ L K     +++L+ +  N
Sbjct:   114 ETKQSIVQNERENKDAEK-WWRNSPTELNLAQSTSMKCDLEALKKEVDEKVAQLHHRNLN 172

Query:   144 ----ASSSMAPP 151
                 +SS++A P
Sbjct:   173 FYVGSSSNVAAP 184

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

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

 Score = 120 (47.3 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 35/131 (26%), Positives = 66/131 (50%)

Query:    21 SLLEHHRSGRPFSFGHPSIEAAANRFVGLNQPANDNT---HPLVEVHRQVRINELNQRHN 77
             + L +  SG+P++FG PS +A A RF+     ++ ++     ++  H+Q +I EL + +N
Sbjct:    50 AFLGYSCSGKPYTFGSPSFQAVAERFLNGEASSSSSSSLQRSVMNAHQQAKIQELCKVYN 109

Query:    78 ELLCQLNEEKEWETMVKQMRTGKESQP----CWWET-PVDELNHQELLQMGATIDDLHKT 132
              L+ ++  E   E  +K+     E  P     WW+  P D  + +E+ +M     + H+ 
Sbjct:   110 RLVEEITVE---EVKLKKTAALAEMMPMNEDAWWKVDPNDVKDREEVKKMM----EKHQE 162

Query:   133 FLSKLNEKTAN 143
                KL E+ A+
Sbjct:   163 LYEKLCEEAAS 173

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

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

 Score = 114 (45.2 bits), Expect = 2.6e-06, P = 2.6e-06
 Identities = 28/105 (26%), Positives = 58/105 (55%)

Query:    28 SGRPFSFGHPSIEAAANRFVGLNQPANDNTHPLVEVHRQVRINELNQRHNELLCQLN-EE 86
             +G+ FSFGHP+++   + F G     ++NT+ L E + ++ +  LN+ + E+  ++  E+
Sbjct:    56 AGKVFSFGHPNVDVLLDHFRGC-VVGHNNTN-LDESYTKLHVQMLNKSYTEVKAEVEKEQ 113

Query:    87 KEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHK 131
             K  ++  +  R  + ++  W ++P+ ELN  +   M   + DL K
Sbjct:   114 KNKQSRAQNERENENAEEWWSKSPL-ELNLSQSTCMIRVLKDLKK 157


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.315   0.128   0.390    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      157       157   0.00079  106 3  11 23  0.39    32
                                                     30  0.42    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  10
  No. of states in DFA:  586 (62 KB)
  Total size of DFA:  164 KB (2097 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  17.44u 0.13s 17.57t   Elapsed:  00:00:01
  Total cpu time:  17.44u 0.13s 17.57t   Elapsed:  00:00:01
  Start:  Fri May 10 09:36:00 2013   End:  Fri May 10 09:36:01 2013

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009553 "embryo sac development" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

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

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	157
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.71
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.7
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.42
smart00432	59	MADS MADS domain.	99.35
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.33
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.27
PF01486	100	K-box: K-box region; InterPro: IPR002487 MADS gene	98.75
KOG0015	338	consensus Regulator of arginine metabolism and rel	98.3
COG5068	412	ARG80 Regulator of arginine metabolism and related	97.7
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	92.48
PF07106	169	TBPIP: Tat binding protein 1(TBP-1)-interacting pr	90.52
KOG4302	660	consensus Microtubule-associated protein essential	81.4
PF05700	221	BCAS2: Breast carcinoma amplified sequence 2 (BCAS	80.22
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	80.01

>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=99.71  E-value=5.5e-18  Score=114.42  Aligned_cols=47  Identities=19%  Similarity=0.386  Sum_probs=43.7

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhcCC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLN   50 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~~~   50 (157)
                      ...||||+||||| ||+||||||||+|++|+|++||+++||+||++.+
T Consensus        25 ~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~   72 (77)
T cd00265          25 NGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTS   72 (77)
T ss_pred             hhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhcc
Confidence            3579999999996 9999999999999999999999999999998854

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.

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.70  E-value=1.2e-17  Score=129.44  Aligned_cols=48  Identities=19%  Similarity=0.464  Sum_probs=43.9

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCCC--HHHHHHHhhcCCC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPS--IEAAANRFVGLNQ   51 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PS--v~~Vi~Ryl~~~~   51 (157)
                      ...||||+||||| ||+||||||||+||+|+||+|+  |+.|++||+....
T Consensus        26 ~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~   76 (195)
T KOG0014|consen   26 NGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTE   76 (195)
T ss_pred             hhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhh
Confidence            4579999999995 9999999999999999999998  9999999988543

>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=99.42  E-value=7.3e-14  Score=95.54  Aligned_cols=47  Identities=19%  Similarity=0.273  Sum_probs=42.7

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCCC-HHHHHHHhhcCC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPS-IEAAANRFVGLN   50 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PS-v~~Vi~Ryl~~~   50 (157)
                      ...||||+||||| ||+||+|||||+|++|.|++++ ++.+++||....
T Consensus        25 ~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~   73 (83)
T cd00266          25 QGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLS   73 (83)
T ss_pred             hhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcC
Confidence            3579999999996 9999999999999999999887 999999997743

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=99.35  E-value=3.1e-13  Score=86.76  Aligned_cols=34  Identities=15%  Similarity=0.382  Sum_probs=31.7

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHP   37 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~P   37 (157)
                      ...+|||+||||| ||+||+|||||+|++|.|++|
T Consensus        25 ~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p   59 (59)
T smart00432       25 NGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP   59 (59)
T ss_pred             hhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence            3579999999996 999999999999999999997

>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=99.33  E-value=2.2e-13  Score=84.97  Aligned_cols=33  Identities=12%  Similarity=0.231  Sum_probs=29.3

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGH   36 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~   36 (157)
                      ...||||+|||+| ||+||||||||+|++|.|++
T Consensus        18 ~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s   51 (51)
T PF00319_consen   18 KGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS   51 (51)
T ss_dssp             HHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred             hhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence            4579999999996 99999999999999999975

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 ....

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

Probab=99.27  E-value=1.8e-12  Score=83.26  Aligned_cols=34  Identities=12%  Similarity=0.250  Sum_probs=31.4

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHP   37 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~P   37 (157)
                      ...+|||+||||| ||+|++|||||+|++|.|++|
T Consensus        25 ~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~   59 (59)
T cd00120          25 NGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS   59 (59)
T ss_pred             chHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence            3579999999996 999999999999999999986

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.

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

Probab=98.75  E-value=7e-08  Score=67.84  Aligned_cols=66  Identities=14%  Similarity=0.177  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 042472           74 QRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANAS  145 (157)
Q Consensus        74 ~e~~~l~~el~~ek~~~e~L~~~~k~~~~~~~w~~~~ve~L~~~EL~~le~~Le~l~~~v~~r~~~l~~~as  145 (157)
                      ..+..+..++..++..++.|+...+      +..|+|+++|+++||..||.+|+.+..+||.|+.+++++..
T Consensus        12 ~~~e~~~~e~~~L~~~~~~L~~~~R------~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i   77 (100)
T PF01486_consen   12 SQHEELQQEIAKLRKENESLQKELR------HLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQI   77 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHh------ccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            3344455555556666666676677      78899999999999999999999999999999999987653

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

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

Probab=98.30  E-value=2.1e-07  Score=76.56  Aligned_cols=47  Identities=17%  Similarity=0.253  Sum_probs=40.5

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCCCH---------HHHHHHhhcCC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSI---------EAAANRFVGLN   50 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv---------~~Vi~Ryl~~~   50 (157)
                      -.++|||+|||+| |.+|-|+|-|.+|-+|.|++|-.         +++|.-+++..
T Consensus        87 ~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq~cLn~p  143 (338)
T KOG0015|consen   87 TGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQACLNAP  143 (338)
T ss_pred             hhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHHHHhcCC
Confidence            3589999999999 99999999999999999999843         56777777743

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

Probab=97.70  E-value=1.4e-05  Score=68.31  Aligned_cols=43  Identities=16%  Similarity=0.262  Sum_probs=38.0

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHh
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRF   46 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ry   46 (157)
                      ..++|||+||+|| |.+|+++|.|.+|++|.|+.|....|+.--
T Consensus       106 ~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~~~  149 (412)
T COG5068         106 HGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVKSL  149 (412)
T ss_pred             hhhhhhhhhhhhccCCceEEEEecCCCceeeecCCccccccccc
Confidence            4578999999999 999999999999999999999777666544

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

Probab=92.48  E-value=0.012  Score=30.56  Aligned_cols=13  Identities=31%  Similarity=0.491  Sum_probs=10.6

Q ss_pred             eEEEEeCCCCcee
Q 042472           21 SLLEHHRSGRPFS   33 (157)
Q Consensus        21 AlIVFSp~GK~fs   33 (157)
                      .+.+|||.||+|.
T Consensus         4 ~~t~FSp~Grl~Q   16 (23)
T PF10584_consen    4 SITTFSPDGRLFQ   16 (23)
T ss_dssp             STTSBBTTSSBHH
T ss_pred             CceeECCCCeEEe
Confidence            4568999999984

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

>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=90.52  E-value=6  Score=29.85  Aligned_cols=73  Identities=18%  Similarity=0.161  Sum_probs=52.0

Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 042472           66 QVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKTANAS  145 (157)
Q Consensus        66 ~~~i~~l~~e~~~l~~el~~ek~~~e~L~~~~k~~~~~~~w~~~~ve~L~~~EL~~le~~Le~l~~~v~~r~~~l~~~as  145 (157)
                      ...+..+..++.+|++++..++.....|...++.-          -..++.+||...-.+|+.=...+..|+..+.. ++
T Consensus        71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L----------~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~-~~  139 (169)
T PF07106_consen   71 PEELAELDAEIKELREELAELKKEVKSLEAELASL----------SSEPTNEELREEIEELEEEIEELEEKLEKLRS-GS  139 (169)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------hcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh-CC
Confidence            33467778888888888888887777777666532          13478888888888888888888888888766 43


Q ss_pred             CCCC
Q 042472          146 SSMA  149 (157)
Q Consensus       146 s~~~  149 (157)
                      ...+
T Consensus       140 ~~vs  143 (169)
T PF07106_consen  140 KPVS  143 (169)
T ss_pred             CCCC
Confidence            3333

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

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

Probab=81.40  E-value=22  Score=33.01  Aligned_cols=73  Identities=15%  Similarity=0.228  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCcccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042472           69 INELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWETPVDELNHQELLQMGATIDDLHKTFLSKLNEKT  141 (157)
Q Consensus        69 i~~l~~e~~~l~~el~~ek~~~e~L~~~~k~~~~~~~w~~~~ve~L~~~EL~~le~~Le~l~~~v~~r~~~l~  141 (157)
                      +++|..++++=.+++-....+.+.|-..+.+..+.......|..+|++..|++|...|..+++.-..|+.++.
T Consensus       112 le~lr~qk~eR~~ef~el~~qie~l~~~l~g~~~~~~~~~~D~~dlsl~kLeelr~~L~~L~~ek~~Rlekv~  184 (660)
T KOG4302|consen  112 LEGLRKQKDERRAEFKELYHQIEKLCEELGGPEDLPSFLIADESDLSLEKLEELREHLNELQKEKSDRLEKVL  184 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCcccccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5667777776666666666666666655543322223456888999999999999999999999998887753

>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function

Probab=80.22  E-value=24  Score=27.99  Aligned_cols=100  Identities=11%  Similarity=0.192  Sum_probs=61.6

Q ss_pred             eccCCCHHHHHHHhhcCCCCCCCC----CCchhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCccc
Q 042472           33 SFGHPSIEAAANRFVGLNQPANDN----THPLVEVHRQVRINELNQRHNELLCQLNEEKEWETMVKQMRTGKESQPCWWE  108 (157)
Q Consensus        33 sFg~PSv~~Vi~Ryl~~~~~~~~~----~~~~~e~~~~~~i~~l~~e~~~l~~el~~ek~~~e~L~~~~k~~~~~~~w~~  108 (157)
                      .|-+|.+..=++|+.+..+....+    ..+...+.....+..|+.-+.....+++....|..+|.-+.+ .+.. .|. 
T Consensus        59 ~~~t~~l~~E~~R~~~~~~~~~lD~sRY~l~~p~~~~~~d~~~w~~al~na~a~lehq~~R~~NLeLl~~-~g~n-aW~-  135 (221)
T PF05700_consen   59 AFETPLLQAELERVASGEPMQGLDMSRYELPPPPSGKSNDVEAWKEALDNAYAQLEHQRLRLENLELLSK-YGEN-AWL-  135 (221)
T ss_pred             cccchhHHHHHHHHHcCCCCCccCHHhcCCCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhHH-HHH-
Confidence            365677888888887764322111    011111122234777888888888888888888887764444 2221 354 


Q ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042472          109 TPVDELNHQELLQMGATIDDLHKTFLSKLNEK  140 (157)
Q Consensus       109 ~~ve~L~~~EL~~le~~Le~l~~~v~~r~~~l  140 (157)
                           .....|+.+...|+.-+..++..++.+
T Consensus       136 -----~~n~~Le~~~~~le~~l~~~k~~ie~v  162 (221)
T PF05700_consen  136 -----IHNEQLEAMLKRLEKELAKLKKEIEEV  162 (221)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                 455777777777777777777766654

The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=80.01  E-value=20  Score=25.96  Aligned_cols=26  Identities=15%  Similarity=0.436  Sum_probs=21.0

Q ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHH
Q 042472          115 NHQELLQMGATIDDLHKTFLSKLNEK  140 (157)
Q Consensus       115 ~~~EL~~le~~Le~l~~~v~~r~~~l  140 (157)
                      --++.++|+..+.+++...+..++++
T Consensus        94 K~E~veEL~~Dv~DlK~myr~Qi~~l  119 (120)
T PF12325_consen   94 KSEEVEELRADVQDLKEMYREQIDQL  119 (120)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            45678888888889888888888775

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	157
1egw_A	77	MADS box transcription enhancer factor 2, polypept	99.79
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	99.78
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	99.7
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.67
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	99.65
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	81.47

>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=99.79  E-value=1.3e-20  Score=126.04  Aligned_cols=48  Identities=13%  Similarity=0.305  Sum_probs=42.9

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhcCCCC
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQP   52 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~~~~~   52 (157)
                      ..||||+||||| ||+||||||||+||+|+|++|+|+.|++||+..++|
T Consensus        26 GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~~~~il~ry~~~~~~   74 (77)
T 1egw_A           26 GLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEP   74 (77)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC---
T ss_pred             HHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCCHHHHHHHHHhccCC
Confidence            569999999995 999999999999999999999999999999886543

>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=99.78  E-value=4e-20  Score=126.83  Aligned_cols=48  Identities=13%  Similarity=0.305  Sum_probs=44.6

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhcCCCC
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGLNQP   52 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~~~~~   52 (157)
                      ..||||+||||| ||+||||||||+||+|+|++|+|+.|++||+..+.+
T Consensus        26 GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~~~il~rY~~~~~~   74 (90)
T 3p57_A           26 GLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEP   74 (90)
T ss_dssp             HHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHCCSC
T ss_pred             hHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCHHHHHHHHHhcCcc
Confidence            469999999996 999999999999999999999999999999986654

>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=99.70  E-value=1.3e-18  Score=121.32  Aligned_cols=44  Identities=20%  Similarity=0.289  Sum_probs=41.5

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhc
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVG   48 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~   48 (157)
                      ..||||+||||| ||+||||||||+||+|+|++|+++.|++||..
T Consensus        42 GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~~~il~r~~G   86 (100)
T 1mnm_A           42 GIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEG   86 (100)
T ss_dssp             HHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHH
T ss_pred             hHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCHHHHHHHhhC
Confidence            479999999996 99999999999999999999999999999955

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

Probab=99.67  E-value=3.1e-18  Score=117.85  Aligned_cols=43  Identities=14%  Similarity=0.180  Sum_probs=40.3

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhh
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFV   47 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl   47 (157)
                      ..||||+||||| ||+||||||||+||+|+|++|+|+.||++|.
T Consensus        36 GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~~~~i~~~~   79 (92)
T 1hbx_A           36 GIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSET   79 (92)
T ss_dssp             HHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGGGGGTSSHH
T ss_pred             hHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCHHHHHhhhc
Confidence            469999999996 9999999999999999999999999999774

>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=99.65  E-value=7.9e-18  Score=117.99  Aligned_cols=42  Identities=14%  Similarity=0.184  Sum_probs=39.6

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHh
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRF   46 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ry   46 (157)
                      ..||||+||||| ||+||||||||+||+|+|++|+|+.||+++
T Consensus        35 GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~   77 (103)
T 1k6o_B           35 GIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSE   77 (103)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSH
T ss_pred             hHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhh
Confidence            479999999996 999999999999999999999999999974

>2yy0_A C-MYC-binding protein; conserved hypothetical protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.40A {Homo sapiens}

Probab=81.47  E-value=2.6  Score=25.33  Aligned_cols=31  Identities=16%  Similarity=0.039  Sum_probs=24.1

Q ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 042472           68 RINELNQRHNELLCQLNEEKEWETMVKQMRT   98 (157)
Q Consensus        68 ~i~~l~~e~~~l~~el~~ek~~~e~L~~~~k   98 (157)
                      .++.|..+..+|+.+++.++++++.+...+.
T Consensus        20 d~eaLk~E~~eLk~k~~~L~~~~~el~~~l~   50 (53)
T 2yy0_A           20 EIELLRLELAEMKEKYEAIVEENKKLKAKLA   50 (53)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3677888888888888888888877776554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	157
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	99.77
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	99.74
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	99.72

>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=99.77  E-value=2.7e-20  Score=121.05  Aligned_cols=44  Identities=9%  Similarity=0.234  Sum_probs=41.7

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhc
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVG   48 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~   48 (157)
                      ..||||+||||| ||+||||||||+||+|+|+||++++|++||+.
T Consensus        26 GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~s~~~~~vl~ry~~   70 (71)
T d1egwa_          26 GLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTE   70 (71)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHH
T ss_pred             hHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHhc
Confidence            579999999996 99999999999999999999999999999974

>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=99.74  E-value=1.1e-19  Score=121.94  Aligned_cols=46  Identities=20%  Similarity=0.264  Sum_probs=42.8

Q ss_pred             hhhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhcC
Q 042472            4 EEQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVGL   49 (157)
Q Consensus         4 ~~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~~   49 (157)
                      ...||||+||||| ||+||||||||+||+|+||||+|+.|++||+..
T Consensus        27 ~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~~   73 (85)
T d1mnma_          27 HGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGR   73 (85)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHH
T ss_pred             hhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhcc
Confidence            3579999999996 999999999999999999999999999999763

>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=99.72  E-value=2.9e-19  Score=119.27  Aligned_cols=44  Identities=16%  Similarity=0.226  Sum_probs=41.6

Q ss_pred             hhhccccccccc-CceeeEEEEeCCCCceeccCCCHHHHHHHhhc
Q 042472            5 EQQQPANQHKII-PKQQSLLEHHRSGRPFSFGHPSIEAAANRFVG   48 (157)
Q Consensus         5 ~~~kKA~ELSvl-dAeVAlIVFSp~GK~fsFg~PSv~~Vi~Ryl~   48 (157)
                      ..||||+||||| ||+||||||||+||+|+||||++++|++||..
T Consensus        28 GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~~~vi~~~~~   72 (84)
T d1srsa_          28 GIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   72 (84)
T ss_dssp             HHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGGHHHHSSHHH
T ss_pred             hHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHHH
Confidence            579999999996 99999999999999999999999999999964