Citrus Sinensis ID: 038327

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-
Protein Sequence
MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQMTKGKETQRWWETPV
Secondary Structure (PSIPRED)
cccccccccccEEEcccccHHHHHHHHHHHHHccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHccEEccccHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
MKRIENEDDRLITFSKRKSRTYNKASELVTltgaeighpSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQMTKGKETQRWWETPV
Flexible Loop (DISEMBL)
mkrieneddrlitfskrksrtynkaSELVTltgaeighpsiEAVANRFLGQTRRQMTTLLLVEAQRqkergnflkqmtkgketqrwwetpv
Low Complexity Region (SEG)
MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQMTKGKETQRWWETPV
Disordered region (IsUnstruct)
**************************ELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLLVE****************************
Disordered Region (DISOPRED)
*KR***EDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRF************************************RWWETPV
Disordered Region (DISEMBL)
********DRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQ***************
Disordered Region (DISPRO)
*KRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQMTKGKETQRWW****
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIGHPSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQMTKGKETQRWWETPV
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	91	2.2.26 [Sep-21-2011]
Q4PSU4	264	Agamous-like MADS-box pro	yes	no	0.978	0.337	0.317	9e-10
Q9FKK2	299	Agamous-like MADS-box pro	no	no	1.0	0.304	0.317	7e-08
Q9C633	266	Agamous-like MADS-box pro	no	no	0.582	0.199	0.338	0.0004

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

 Score = 62.0 bits (149), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 41/129 (31%), Positives = 63/129 (48%), Gaps = 40/129 (31%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           M +I+ E  R +TFSKR++  + KASEL TL GAEI              GHPS+E+V +
Sbjct: 69  MVKIKKESHRQVTFSKRRAGLFKKASELCTLCGAEIGIIVFSPAKKPFSFGHPSVESVLD 128

Query: 47  RFLGQTRRQMT-------------------TLLLVEAQRQKERGNFLKQMTKGKETQR-- 85
           R++ +    +                    T +L E + +K++G  +++M   KE+ R  
Sbjct: 129 RYVSRNNMSLAQSQQLQGSPAASCELNMQLTHILSEVEEEKKKGQAMEEMR--KESVRRS 186

Query: 86  ---WWETPV 91
              WWE PV
Sbjct: 187 MINWWEKPV 195

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 = 55.8 bits (133), Expect = 7e-08,   Method: Composition-based stats.
 Identities = 41/129 (31%), Positives = 64/129 (49%), Gaps = 38/129 (29%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           M +++NE +  +TFSKR+S  + KASEL TL GAE+              GHP++++V +
Sbjct: 13  MVKMKNESNLQVTFSKRRSGLFKKASELCTLCGAEVAIVVFSPGRKVFSFGHPNVDSVID 72

Query: 47  RF---------------LGQTRRQMT--------TLLLVEAQRQKERGNFLKQM-TKGKE 82
           RF               L +TRR           T +L + + +K++ + LK++  K K 
Sbjct: 73  RFINNNPLPPHQHNNMQLRETRRNSIVQDLNNHLTQVLSQLETEKKKYDELKKIREKTKA 132

Query: 83  TQRWWETPV 91
              WWE PV
Sbjct: 133 LGNWWEDPV 141

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

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C633|AGL97_ARATH Agamous-like MADS-box protein AGL97 OS=Arabidopsis thaliana GN=AGL97 PE=1 SV=1

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 37/71 (52%), Gaps = 18/71 (25%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI------------------GHPSIE 42
          +++I+N++ R ++FSKR+   Y+KASEL  L+ AEI                  GH S++
Sbjct: 10 IEKIQNKNPRAVSFSKRRKGLYSKASELCLLSDAEIAIIATPVSSNSNAAFYSFGHSSVD 69

Query: 43 AVANRFLGQTR 53
           V   FL   R
Sbjct: 70 NVVAAFLANQR 80

Putative transcription factor.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	91
224077620	194	predicted protein [Populus trichocarpa]	1.0	0.469	0.460	6e-20
255557369	220	mads box protein, putative [Ricinus comm	1.0	0.413	0.452	1e-19
224054544	202	predicted protein [Populus trichocarpa]	1.0	0.450	0.448	4e-17
255557367	239	mads box protein, putative [Ricinus comm	1.0	0.380	0.438	6e-17
224104275	201	predicted protein [Populus trichocarpa]	1.0	0.452	0.416	6e-14
449434264	260	PREDICTED: agamous-like MADS-box protein	0.978	0.342	0.424	2e-13
449505973	269	PREDICTED: agamous-like MADS-box protein	0.989	0.334	0.383	2e-12
225462217	199	PREDICTED: agamous-like MADS-box protein	1.0	0.457	0.392	3e-11
255563264	207	mads box protein, putative [Ricinus comm	1.0	0.439	0.364	4e-11
297736389	194	unnamed protein product [Vitis vinifera]	0.978	0.458	0.351	7e-11

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

 Score =  101 bits (252), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 58/126 (46%), Positives = 69/126 (54%), Gaps = 35/126 (27%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           +KRIENEDDRLITFSKR+S  Y KASELVTL GAE+              GHPSIE+VAN
Sbjct: 14  IKRIENEDDRLITFSKRRSGIYKKASELVTLCGAEVAVLVFSPAGKAFSFGHPSIESVAN 73

Query: 47  RFLGQT---------------------RRQMTTLLLVEAQRQKERGNFLKQMTKGKETQR 85
           RFLGQ                        Q    LL E + +++RG  LK+ T  K +Q 
Sbjct: 74  RFLGQNIAPNDNTHPLVEAHRKVRINELNQQHNELLSEMEAERDRGKVLKEGTSEKSSQG 133

Query: 86  WWETPV 91
           WWE P+
Sbjct: 134 WWEAPI 139

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  100 bits (248), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 57/126 (45%), Positives = 70/126 (55%), Gaps = 35/126 (27%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           MKRIENE+DRLITFSKR+S  Y KASEL+TL GAE+              GHPS+E++AN
Sbjct: 15  MKRIENEEDRLITFSKRRSGIYKKASELITLCGAEVGILVFSPAGKPFSFGHPSLESIAN 74

Query: 47  RFLGQ-TRRQMTTLLLVEAQR--------------------QKERGNFLKQMTKGKETQR 85
           RFLG+       T  LVEA R                    +KERG+ LK+  +GK    
Sbjct: 75  RFLGKNVPPSDNTHPLVEAHRKMRINELNKQYNELLNRLESEKERGSMLKKTIRGKGCNN 134

Query: 86  WWETPV 91
           WWE P+
Sbjct: 135 WWEAPI 140

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 = 92.0 bits (227), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 56/125 (44%), Positives = 67/125 (53%), Gaps = 34/125 (27%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           MKRIEN+DDRLITFSKR+S  Y KASEL TLTGAEI              GHPS+E+V N
Sbjct: 14  MKRIENQDDRLITFSKRRSGIYKKASELATLTGAEIAIAVFSPAGKPFSFGHPSVESVIN 73

Query: 47  RFLGQTRRQMTTLLLVEAQR--------------------QKERGNFLKQMTKGKETQRW 86
           RFL       +T  LVEA R                    +KE+G  LK   K  +++ W
Sbjct: 74  RFLEDPLDMDSTYHLVEAHRRMRIEELTQKHNDMQHQLDEEKEKGLKLKSKIKEMDSKGW 133

Query: 87  WETPV 91
           W+T V
Sbjct: 134 WDTAV 138

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 = 91.7 bits (226), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 57/130 (43%), Positives = 69/130 (53%), Gaps = 39/130 (30%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           MK+IENEDDRLITFSKR+S  Y KASELVTLTGAE+               HPS++A+ N
Sbjct: 18  MKKIENEDDRLITFSKRRSGIYKKASELVTLTGAELAFLVYSPAGKPFSFAHPSMDAITN 77

Query: 47  RFLGQT----RRQMTTLLLVEAQR--------------------QKERGNFLKQ-MTKGK 81
           RF GQ         TT  L+EA R                    +KE+G  LKQ   K  
Sbjct: 78  RFFGQGSADRNNNPTTHPLIEAHRLMRIEELNQQHNELLRQLEIEKEKGKQLKQKHKKNN 137

Query: 82  ETQRWWETPV 91
           E + WW+TP+
Sbjct: 138 ERKGWWDTPI 147

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

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 = 81.6 bits (200), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 52/125 (41%), Positives = 59/125 (47%), Gaps = 34/125 (27%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVAN 46
           MKRI NEDDRL+TFSKR+S  Y K SEL+TLTG E               GHPSIE V +
Sbjct: 14  MKRIVNEDDRLVTFSKRRSGIYKKLSELITLTGTEAAFLVFSPGGKPFSFGHPSIENVLD 73

Query: 47  RFLGQTRRQMTTLLLVEAQR--------------------QKERGNFLKQMTKGKETQRW 86
           RFL        T  LVE  R                     KE+G+ LK   +G E   W
Sbjct: 74  RFLENPSNADGTHELVEEYRRARIEELTQKYDEMQQQLDDDKEKGSKLKDKIQGNERGDW 133

Query: 87  WETPV 91
           W  PV
Sbjct: 134 WNAPV 138

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 = 80.1 bits (196), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 53/125 (42%), Positives = 65/125 (52%), Gaps = 36/125 (28%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG--------------HPSIEAVAN 46
           MK+I NEDDRLITFSKR+S  Y KASEL TL GAE+G              HP IE +AN
Sbjct: 25  MKKIVNEDDRLITFSKRRSGIYKKASELATLCGAEVGVVVFSPAGKPFSFAHPCIETIAN 84

Query: 47  RFLGQTRRQMTTLLLVEAQR--------------------QKERGNFLKQMTKGKETQR- 85
           +FL       TT  LVEA R                    +KE+G  L+++ + +   R 
Sbjct: 85  KFL-NAAATTTTTPLVEAHRRVRINELNQQHNQLLSQLDAEKEKGKALEKLKRVRGNGRG 143

Query: 86  WWETP 90
           WWETP
Sbjct: 144 WWETP 148

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score = 76.6 bits (187), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 51/133 (38%), Positives = 64/133 (48%), Gaps = 43/133 (32%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG--------------HPSIEAVAN 46
           MK+I NEDDRLITFSKR+S  Y KASEL TL GAE+G              HP IE +AN
Sbjct: 25  MKKIVNEDDRLITFSKRRSGIYKKASELATLCGAEVGVVVFSPAGKPFSFAHPCIETIAN 84

Query: 47  RFLGQTRRQMTTLL--------LVEAQR--------------------QKERGNFLKQMT 78
           +FL   +               LVEA R                    +KE+G  L+++ 
Sbjct: 85  KFLNGNKNNKGNNDDNNNNAHPLVEAHRRVRINELNQQHNQLLSQLDAEKEKGKALEKLK 144

Query: 79  KGKETQR-WWETP 90
           + +   R WWETP
Sbjct: 145 RVRGNGRGWWETP 157

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 = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 49/125 (39%), Positives = 61/125 (48%), Gaps = 34/125 (27%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           MKRI NE+DRLITFSKR+S  Y KASEL TL GAE+              G PSIE + N
Sbjct: 14  MKRIPNEEDRLITFSKRRSGIYKKASELSTLCGAEVGVLVFSPAGKAFSFGQPSIEKITN 73

Query: 47  RFLGQTRRQM-TTLLLVEAQR-------QKERGNFLKQMTKGKETQR------------W 86
           + L +       TL LVEA R        ++    L +M   KE ++            W
Sbjct: 74  KVLYENPPPNDNTLNLVEAHRRFRLNELHQKYSELLSKMEVAKEQEKILRKKVPNRSKGW 133

Query: 87  WETPV 91
           WE P+
Sbjct: 134 WEEPI 138

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563264|ref|XP_002522635.1| mads box protein, putative [Ricinus communis] gi|223538111|gb|EEF39722.1| mads box protein, putative [Ricinus communis]

 Score = 72.0 bits (175), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/118 (36%), Positives = 63/118 (53%), Gaps = 27/118 (22%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           M +I  E +RL+TFSKR+   + KASEL TL GAEI              G+PS+E V +
Sbjct: 14  MVKISKESNRLVTFSKRRYGVFKKASELSTLCGAEISIIVFSPGKRAFSFGNPSVETVVD 73

Query: 47  RFLGQTRRQMT-TLLLVEAQR------------QKERGNFLKQMTKGKETQRWWETPV 91
            FL     +++ +L L+EA R            +K+RG  L ++ K  + Q WWE+P+
Sbjct: 74  CFLSNKPPRISGSLQLIEAHRSSRLRELNMLLTKKKRGEELDRIRKASQAQHWWESPI 131

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297736389|emb|CBI25112.3| unnamed protein product [Vitis vinifera]

 Score = 71.2 bits (173), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/108 (35%), Positives = 60/108 (55%), Gaps = 19/108 (17%)

Query: 1   MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
           + +I  ++   +TFSKR+S  + KASEL TL GA +              GHP +E++ +
Sbjct: 14  ISKIPKKNHLQVTFSKRRSGLFKKASELCTLCGANVAIIVFSPAGKVFSFGHPDVESIVD 73

Query: 47  RFLGQTRRQMT---TLLLVEAQRQKERGNFLKQMTKGKETQRWWETPV 91
           RF   T R++    T +L + + +K+RG  L QM +  +TQ WWE P+
Sbjct: 74  RFF--TVRELNLQLTQVLNQLEAEKKRGEILSQMRRASQTQCWWEAPI 119

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	91
TAIR|locus:2047304	264	AGL61 "AGAMOUS-like 61" [Arabi	0.615	0.212	0.385	1.3e-10
TAIR|locus:2175188	299	AGL62 "AGAMOUS-like 62" [Arabi	0.538	0.163	0.396	2.6e-09
TAIR|locus:2040819	172	AGL29 "AGAMOUS-like 29" [Arabi	0.406	0.215	0.459	1.1e-06
TAIR|locus:2043600	252	AGL6 "AT2G45650" [Arabidopsis	0.395	0.142	0.527	1.2e-06
TAIR|locus:4010713489	185	AGL64 "AGAMOUS-like 64" [Arabi	0.538	0.264	0.444	1.7e-06
TAIR|locus:2032537	182	AGL59 "AGAMOUS-like 59" [Arabi	0.868	0.434	0.329	3.7e-06
TAIR|locus:2098826	244	AGL13 "AGAMOUS-like 13" [Arabi	0.395	0.147	0.555	4.2e-06
TAIR|locus:2115420	248	AT4G36590 [Arabidopsis thalian	0.527	0.193	0.435	4.8e-06
TAIR|locus:2825756	266	AGL97 "AGAMOUS-like 97" [Arabi	0.395	0.135	0.472	1.4e-05
TAIR|locus:2102990	207	AGL57 "AGAMOUS-like 57" [Arabi	0.604	0.265	0.362	2.3e-05

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

 Score = 110 (43.8 bits), Expect = 1.3e-10, Sum P(2) = 1.3e-10
 Identities = 27/70 (38%), Positives = 40/70 (57%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG--------------HPSIEAVAN 46
             M +I+ E  R +TFSKR++  + KASEL TL GAEIG              HPS+E+V +
Sbjct:    69 MVKIKKESHRQVTFSKRRAGLFKKASELCTLCGAEIGIIVFSPAKKPFSFGHPSVESVLD 128

Query:    47 RFLGQTRRQM 56
             R++ +    +
Sbjct:   129 RYVSRNNMSL 138

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 = 106 (42.4 bits), Expect = 2.6e-09, Sum P(2) = 2.6e-09
 Identities = 25/63 (39%), Positives = 39/63 (61%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
             M +++NE +  +TFSKR+S  + KASEL TL GAE+              GHP++++V +
Sbjct:    13 MVKMKNESNLQVTFSKRRSGLFKKASELCTLCGAEVAIVVFSPGRKVFSFGHPNVDSVID 72

Query:    47 RFL 49
             RF+
Sbjct:    73 RFI 75

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

GO:0009960 "endosperm development" evidence=IMP

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

 Score = 90 (36.7 bits), Expect = 1.1e-06, Sum P(2) = 1.1e-06
 Identities = 17/37 (45%), Positives = 27/37 (72%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG 37
             M+ +++ + R +TFSKR++  + KASEL TL  AE+G
Sbjct:     8 MEMVQDMNTRQVTFSKRRTGLFKKASELATLCNAELG 44

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0046983 "protein dimerization activity" evidence=IEA

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

 Score = 87 (35.7 bits), Expect = 1.2e-06, Sum P(2) = 1.2e-06
 Identities = 19/36 (52%), Positives = 25/36 (69%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
             MKRIEN+ +R +TFSKR++    KA EL  L  AE+
Sbjct:     8 MKRIENKINRQVTFSKRRNGLLKKAYELSVLCDAEV 43

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

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

 Score = 110 (43.8 bits), Expect = 1.7e-06, P = 1.7e-06
 Identities = 28/63 (44%), Positives = 37/63 (58%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
             +K+IE ++DRL+T SKR++  Y K SEL  L GAE+              G PS +AVA 
Sbjct:    14 IKKIEKDEDRLVTLSKRRNGIYTKLSELSILCGAEVAFLGYSCSGKPYTFGSPSFQAVAE 73

Query:    47 RFL 49
             RFL
Sbjct:    74 RFL 76

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

 Score = 107 (42.7 bits), Expect = 3.7e-06, P = 3.7e-06
 Identities = 31/94 (32%), Positives = 47/94 (50%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
             +K+IE ++ R +TFSKR +  Y K SEL  L G E+              G PS +AVA 
Sbjct:    14 IKKIEKDEGRSVTFSKRLNGIYTKISELSILCGVEVAFIGYSCSGKPYTFGSPSFQAVAE 73

Query:    47 RFL-GQTRRQMTTLLLVEAQRQKERGNFLKQMTK 79
             RFL G      ++ L++ A +Q +     K+  +
Sbjct:    74 RFLNGDASSSSSSSLVMNAHKQAKIQELCKKYNR 107

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:2098826 AGL13 "AGAMOUS-like 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 87 (35.7 bits), Expect = 4.2e-06, Sum P(2) = 4.2e-06
 Identities = 20/36 (55%), Positives = 24/36 (66%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
             +KRIEN+  R +TFSKRKS    KA EL  L  AE+
Sbjct:     8 VKRIENKITRQVTFSKRKSGLLKKAYELSVLCDAEV 43

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

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:0010048 "vernalization response" evidence=RCA

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

GO:0048440 "carpel development" evidence=RCA

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

 Score = 110 (43.8 bits), Expect = 4.8e-06, P = 4.8e-06
 Identities = 27/62 (43%), Positives = 38/62 (61%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
             MK++ENE +  +TFSKR+   + KASEL TL+GAEI              GHPS++ + +
Sbjct:    13 MKKMENESNLQVTFSKRRFGLFKKASELCTLSGAEILLIVFSPGGKVFSFGHPSVQELIH 72

Query:    47 RF 48
             RF
Sbjct:    73 RF 74

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:2825756 AGL97 "AGAMOUS-like 97" [Arabidopsis thaliana (taxid:3702)]

 Score = 89 (36.4 bits), Expect = 1.4e-05, Sum P(2) = 1.4e-05
 Identities = 17/36 (47%), Positives = 28/36 (77%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
             +++I+N++ R ++FSKR+   Y+KASEL  L+ AEI
Sbjct:    10 IEKIQNKNPRAVSFSKRRKGLYSKASELCLLSDAEI 45

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:0005515 "protein binding" evidence=IPI

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

 Score = 102 (41.0 bits), Expect = 2.3e-05, P = 2.3e-05
 Identities = 25/69 (36%), Positives = 39/69 (56%)

Query:     1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG--------------HPSIEAVAN 46
             MK++EN  DR+ITFSKRK+  + K +ELV +   E+               HPS++ VA+
Sbjct:    20 MKKVENYGDRMITFSKRKTGIFKKMNELVAMCDVEVAFLIFSQPKKPYTFAHPSMKKVAD 79

Query:    47 RFLGQTRRQ 55
             R    +R++
Sbjct:    80 RLKNPSRQE 88

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	91
cd00120	59	cd00120, MADS, MADS: MCM1, Agamous, Deficiens, and	1e-10
cd00266	83	cd00266, MADS_SRF_like, SRF-like/Type I subfamily	5e-10
cd00265	77	cd00265, MADS_MEF2_like, MEF2 (myocyte enhancer fa	1e-09
smart00432	59	smart00432, MADS, MADS domain	4e-09
pfam00319	51	pfam00319, SRF-TF, SRF-type transcription factor (	4e-06

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

 Score = 51.7 bits (125), Expect = 1e-10
 Identities = 19/37 (51%), Positives = 26/37 (70%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG 37
          +KRIEN+  R +TFSKR++  + KASEL  L  AE+ 
Sbjct: 7  IKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVA 43

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 = 50.7 bits (122), Expect = 5e-10
 Identities = 21/37 (56%), Positives = 27/37 (72%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG 37
          +KRIEN+  R +TFSKR+   + KASEL TL GAE+ 
Sbjct: 7  IKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVA 43

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|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 = 49.5 bits (119), Expect = 1e-09
 Identities = 22/71 (30%), Positives = 33/71 (46%), Gaps = 14/71 (19%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG--------------HPSIEAVAN 46
          +KRIEN  +R +TFSKR++    KA EL  L  AE+                PS+E +  
Sbjct: 7  IKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIE 66

Query: 47 RFLGQTRRQMT 57
          R+   +   + 
Sbjct: 67 RYQKTSGSSLW 77

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 = 47.6 bits (114), Expect = 4e-09
 Identities = 18/37 (48%), Positives = 26/37 (70%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG 37
          +KRIEN+ +R +TFSKR++  + KA EL  L  AE+ 
Sbjct: 7  IKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVA 43

Length = 59

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

 Score = 40.1 bits (94), Expect = 4e-06
 Identities = 18/35 (51%), Positives = 25/35 (71%)

Query: 2  KRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI 36
          KRIEN+ +R +TFSKR++  + KA EL  L  AE+
Sbjct: 1  KRIENKSNRQVTFSKRRNGIFKKAHELSVLCDAEV 35

Length = 51

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	91
KOG0014	195	consensus MADS box transcription factor [Transcrip	99.86
cd00265	77	MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-li	99.86
cd00266	83	MADS_SRF_like SRF-like/Type I subfamily of MADS (M	99.8
smart00432	59	MADS MADS domain.	99.73
cd00120	59	MADS MADS: MCM1, Agamous, Deficiens, and SRF (seru	99.69
PF00319	51	SRF-TF: SRF-type transcription factor (DNA-binding	99.67
KOG0015	338	consensus Regulator of arginine metabolism and rel	99.42
COG5068	412	ARG80 Regulator of arginine metabolism and related	98.63

>KOG0014 consensus MADS box transcription factor [Transcription]

Probab=99.86  E-value=7.6e-23  Score=144.52  Aligned_cols=54  Identities=50%  Similarity=0.754  Sum_probs=50.2

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCc--HHHHHHHHhCCChH
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPS--IEAVANRFLGQTRR   54 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps--~~~vl~r~~~~~~~   54 (91)
                      |++|+|+++|+|||+|||.||||||+||||||||+              |++|+  ++.|+++|.....+
T Consensus         8 i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~   77 (195)
T KOG0014|consen    8 IKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEP   77 (195)
T ss_pred             eeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhh
Confidence            78999999999999999999999999999999999              77887  99999999886654

>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=99.86  E-value=3.6e-23  Score=130.99  Aligned_cols=53  Identities=42%  Similarity=0.637  Sum_probs=50.2

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhCCCh
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLGQTR   53 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~~~~   53 (91)
                      |++|+|+.+|++||+||+.||||||+|||+|||++              |++|++++||+||+..++
T Consensus         7 i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~   73 (77)
T cd00265           7 IKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSG   73 (77)
T ss_pred             eEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhccc
Confidence            68999999999999999999999999999999999              888999999999997654

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=99.80  E-value=1e-20  Score=121.12  Aligned_cols=54  Identities=48%  Similarity=0.628  Sum_probs=48.5

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCc-HHHHHHHHhCCChH
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPS-IEAVANRFLGQTRR   54 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps-~~~vl~r~~~~~~~   54 (91)
                      |++|+|+.+|++||+|||.||||||+|||+|||++              |++++ ++.++++|...+..
T Consensus         7 i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~   75 (83)
T cd00266           7 IKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSAL   75 (83)
T ss_pred             eEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHh
Confidence            68999999999999999999999999999999999              44455 89999999877654

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=99.73  E-value=6.6e-19  Score=106.95  Aligned_cols=35  Identities=51%  Similarity=0.760  Sum_probs=34.3

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE   35 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~   35 (91)
                      |++|+|+..|++||+||+.||||||+|||+|||++
T Consensus         7 i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~   41 (59)
T smart00432        7 IKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAE   41 (59)
T ss_pred             eEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCe
Confidence            68999999999999999999999999999999999

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

Probab=99.69  E-value=3e-18  Score=103.99  Aligned_cols=35  Identities=54%  Similarity=0.767  Sum_probs=34.2

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE   35 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~   35 (91)
                      |++|+|+..|++||+|||.||||||+|||+|||++
T Consensus         7 i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~   41 (59)
T cd00120           7 IKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAE   41 (59)
T ss_pred             eEEeeCcchhhhhHHHHhchHHHhhhhheeccCCc
Confidence            68999999999999999999999999999999999

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=99.67  E-value=2.5e-18  Score=101.86  Aligned_cols=34  Identities=59%  Similarity=0.811  Sum_probs=30.5

Q ss_pred             ccccCCCCcccccccccchhhhhhhhhhhhhCCC
Q 038327            2 KRIENEDDRLITFSKRKSRTYNKASELVTLTGAE   35 (91)
Q Consensus         2 k~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~   35 (91)
                      |+|+|++.|++||+|||.||||||+|||+|||++
T Consensus         1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~   34 (51)
T PF00319_consen    1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVD   34 (51)
T ss_dssp             S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-E
T ss_pred             CCccchhHhHhHHHHHHhhhhhccceeeeecCCe
Confidence            6899999999999999999999999999999999

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=99.42  E-value=2.8e-14  Score=109.89  Aligned_cols=35  Identities=54%  Similarity=0.679  Sum_probs=34.1

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE   35 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~   35 (91)
                      |++|+|+..|.|||||||.||||||+||++|.|.+
T Consensus        69 ~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtq  103 (338)
T KOG0015|consen   69 MEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQ  103 (338)
T ss_pred             chhhcccceeeeeehhhhhhhHHHHHHhhhcccce
Confidence            68999999999999999999999999999999998

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

Probab=98.63  E-value=7.3e-09  Score=82.53  Aligned_cols=46  Identities=43%  Similarity=0.595  Sum_probs=40.7

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHH
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVAN   46 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~   46 (91)
                      |.+|+|+..|.|||+||+.||+|||.||++|.+.+              |+.|....|+.
T Consensus        88 is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~  147 (412)
T COG5068          88 ISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVK  147 (412)
T ss_pred             cccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCccccccc
Confidence            67899999999999999999999999999999988              77777555554

---

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

ID	Length	Definition	E-value
Query	91
1hbx_A	92	SRF, serum response factor; gene regulation, trans	2e-11
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	9e-11
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	1e-10
1egw_A	77	MADS box transcription enhancer factor 2, polypept	9e-07
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	1e-06

>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 = 53.6 bits (129), Expect = 2e-11
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 14/69 (20%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
          M+ I+N+  R  TFSKRK+    KA EL TLTG ++                  ++ +  
Sbjct: 17 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMIT 76

Query: 47 RFLGQTRRQ 55
             G+   Q
Sbjct: 77 SETGKALIQ 85

>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 = 52.6 bits (126), Expect = 9e-11
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 14/69 (20%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
          M+ I+N+  R  TFSKRK+    KA EL TLTG ++                  ++ +  
Sbjct: 16 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMIT 75

Query: 47 RFLGQTRRQ 55
             G+   Q
Sbjct: 76 SETGKALIQ 84

>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 = 51.8 bits (124), Expect = 1e-10
 Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 14/69 (20%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
          +K IEN+  R +TFSKRK     KA EL  LTG ++                P  E +  
Sbjct: 23 IKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVT 82

Query: 47 RFLGQTRRQ 55
          +  G+   Q
Sbjct: 83 QQEGRNLIQ 91

>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 = 41.6 bits (98), Expect = 9e-07
 Identities = 16/37 (43%), Positives = 21/37 (56%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG 37
          + RI +E +R +TF+KRK     KA EL  L   EI 
Sbjct: 7  ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIA 43

>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 = 41.6 bits (98), Expect = 1e-06
 Identities = 16/37 (43%), Positives = 21/37 (56%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEIG 37
          + RI +E +R +TF+KRK     KA EL  L   EI 
Sbjct: 7  ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIA 43

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	91
1egw_A	77	MADS box transcription enhancer factor 2, polypept	99.91
3p57_A	90	Myocyte-specific enhancer factor 2A; protein-DNA c	99.9
1mnm_A	100	Protein (MCM1 transcriptional regulator); transcri	99.86
1hbx_A	92	SRF, serum response factor; gene regulation, trans	99.84
1k6o_B	103	SRF, serum response factor; protein/DNA complex, t	99.83
2yy0_A	53	C-MYC-binding protein; conserved hypothetical prot	91.8
2wuj_A	57	Septum site-determining protein diviva; bacterial	84.06
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	80.11

>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=99.91  E-value=2.9e-26  Score=144.86  Aligned_cols=54  Identities=30%  Similarity=0.415  Sum_probs=49.2

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhCCChH
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLGQTRR   54 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~~~~~   54 (91)
                      |++|+|+++|+|||+|||+||||||+||||||||+              |++|+++.||+||+..+++
T Consensus         7 ik~I~n~~~R~vTfsKRr~GL~KKA~ELsvLCdaeV~livfs~~gk~~~~~s~~~~~il~ry~~~~~~   74 (77)
T 1egw_A            7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEP   74 (77)
T ss_dssp             SSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHC---
T ss_pred             eEEecCchHHHHHHHHhHHHHHHHHHHHhcccCCeEEEEEECCCCCEeeCCCCCHHHHHHHHHhccCC
Confidence            78999999999999999999999999999999999              7889999999999876654

>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=99.90  E-value=1.3e-25  Score=145.57  Aligned_cols=54  Identities=30%  Similarity=0.415  Sum_probs=51.3

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhCCChH
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLGQTRR   54 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~~~~~   54 (91)
                      |++|+|+.+|+|||+|||+||||||+||||||||+              |+||+++.||+||+..+++
T Consensus         7 ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valiifs~~gk~~~f~s~~~~~il~rY~~~~~~   74 (90)
T 3p57_A            7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTEYNEP   74 (90)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEESSCHHHHHHHHHHCCSC
T ss_pred             eEEecCchHHHHHHHHhhhhHHHHHHHHHhccCCceEEEEECCCCCEEEeCCCCHHHHHHHHHhcCcc
Confidence            78999999999999999999999999999999999              8889999999999987665

>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=99.86  E-value=7e-24  Score=139.70  Aligned_cols=50  Identities=42%  Similarity=0.582  Sum_probs=47.6

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLG   50 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~   50 (91)
                      |++|+|+.+|+|||+|||+||||||+||||||||+              |++|+++.||++|.+
T Consensus        23 ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~sps~~~il~r~~G   86 (100)
T 1mnm_A           23 IKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEG   86 (100)
T ss_dssp             SSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHH
T ss_pred             eEEecCcchhhhhhhHhhhhHHHHHHHHHHhcCCcEEEEEecCCCCcceecCCCHHHHHHHhhC
Confidence            78999999999999999999999999999999999              889999999998864

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

Probab=99.84  E-value=1.1e-23  Score=137.00  Aligned_cols=49  Identities=37%  Similarity=0.453  Sum_probs=46.3

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHh
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFL   49 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~   49 (91)
                      |++|+|+.+|+|||+|||.||||||+||||||||+              |++|+++.+|++|.
T Consensus        17 ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~V~livfs~~gk~~~f~s~~~~~~i~~~~   79 (92)
T 1hbx_A           17 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSET   79 (92)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTSCEEEEECGGGGGGTSSHH
T ss_pred             EEEecChhHHHHHHHHhhhhHHHHHHHHHhhcCCceEEEEECCCCCEEEecCCCHHHHHhhhc
Confidence            78999999999999999999999999999999999              88999999998764

>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=99.83  E-value=3.4e-23  Score=137.03  Aligned_cols=48  Identities=38%  Similarity=0.471  Sum_probs=45.5

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHH
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRF   48 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~   48 (91)
                      |++|+|+.+|+|||+|||.||||||+||||||||+              |++|+++.||+++
T Consensus        16 ik~Ien~~~R~vTFsKRr~GL~KKA~ELsvLCda~Valivfs~~gk~~~f~s~~~~~vi~~~   77 (103)
T 1k6o_B           16 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSE   77 (103)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECSSSCEEEEECGGGGGGTSSH
T ss_pred             EEEecCchHHHHhHhHhhHhHHHHHHHHHhhhCCceEEEEEeCCCCeeeecCccHHHHHHhh
Confidence            78999999999999999999999999999999999              8899999998864

>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=91.80  E-value=0.24  Score=28.35  Aligned_cols=38  Identities=21%  Similarity=0.207  Sum_probs=21.8

Q ss_pred             HHHHHHHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 038327           42 EAVANRFLG--QTRRQMTTLLLVEAQRQKERGNFLKQMTK   79 (91)
Q Consensus        42 ~~vl~r~~~--~~~~~~~~~l~~el~~~k~~~~~l~~~~~   79 (91)
                      -+.|.+|++  .|....++.|+.+++.++.+.+.|.....
T Consensus         4 lefIk~~LG~~~p~~~d~eaLk~E~~eLk~k~~~L~~~~~   43 (53)
T 2yy0_A            4 LDFLKHHLGAATPENPEIELLRLELAEMKEKYEAIVEENK   43 (53)
T ss_dssp             ------------CCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456778888  66668888888888888888887776654

>2wuj_A Septum site-determining protein diviva; bacterial cell division, septation, cell cycle, sporulation; 1.40A {Bacillus subtilis} PDB: 2wuk_A

Probab=84.06  E-value=0.75  Score=26.41  Aligned_cols=34  Identities=9%  Similarity=0.092  Sum_probs=19.5

Q ss_pred             CcHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHH
Q 038327           39 PSIEAVANRFLGQTRRQMTTLLLVEAQRQKERGNFLKQM   77 (91)
Q Consensus        39 ps~~~vl~r~~~~~~~~~~~~l~~el~~~k~~~~~l~~~   77 (91)
                      -.|+..|+...     ..|..+..+...++++++.|++.
T Consensus        23 ~EVD~FLd~v~-----~~~~~l~~e~~~L~~~~~~l~~~   56 (57)
T 2wuj_A           23 DEVNEFLAQVR-----KDYEIVLRKKTELEAKVNELDER   56 (57)
T ss_dssp             HHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHhc
Confidence            34666666553     46667777777777777666543

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=80.11  E-value=1.3  Score=27.72  Aligned_cols=57  Identities=11%  Similarity=0.093  Sum_probs=27.2

Q ss_pred             hhhhhhhhhhhhCCCCCCCcHHHHHHHHhCCChH--HHHHHHHHHHHHHHHHHHHHHHH
Q 038327           21 TYNKASELVTLTGAEIGHPSIEAVANRFLGQTRR--QMTTLLLVEAQRQKERGNFLKQM   77 (91)
Q Consensus        21 L~KKA~ELs~Lc~~~f~~ps~~~vl~r~~~~~~~--~~~~~l~~el~~~k~~~~~l~~~   77 (91)
                      ++.++.+.|-+||..........+++.+...-..  ..+..+..++..++.+.+.|...
T Consensus        42 ~l~~~g~~CPvCgs~l~~~~~~~~i~~~~~~l~~l~~~i~~l~~~i~~l~~~~~~l~~~  100 (112)
T 1l8d_A           42 ELKKAKGKCPVCGRELTDEHREELLSKYHLDLNNSKNTLAKLIDRKSELERELRRIDME  100 (112)
T ss_dssp             HHTTCSEECTTTCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhhcCCCCCCCCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3444456677777654322234566665421111  33444445555554444444444

---

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	91
d1mnma_	85	d.88.1.1 (A:) MCM1 transcriptional regulator {Bake	2e-11
d1srsa_	84	d.88.1.1 (A:) Serum response factor (SRF) core {Hu	5e-11
d1egwa_	71	d.88.1.1 (A:) Myocyte enhancer factor Mef2a core {	7e-11

>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 = 52.4 bits (126), Expect = 2e-11
 Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 14/69 (20%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
          +K IEN+  R +TFSKRK     KA EL  LTG ++                P  E +  
Sbjct: 9  IKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVT 68

Query: 47 RFLGQTRRQ 55
          +  G+   Q
Sbjct: 69 QQEGRNLIQ 77

>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 = 51.7 bits (124), Expect = 5e-11
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 14/69 (20%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
          M+ I+N+  R  TFSKRK+    KA EL TLTG ++                  ++ +  
Sbjct: 9  MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMIT 68

Query: 47 RFLGQTRRQ 55
             G+   Q
Sbjct: 69 SETGKALIQ 77

>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 = 50.8 bits (122), Expect = 7e-11
 Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 14/62 (22%)

Query: 1  MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAEI--------------GHPSIEAVAN 46
          + RI +E +R +TF+KRK     KA EL  L   EI                  ++ V  
Sbjct: 7  ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLL 66

Query: 47 RF 48
          ++
Sbjct: 67 KY 68

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	91
d1egwa_	71	Myocyte enhancer factor Mef2a core {Human (Homo sa	99.9
d1mnma_	85	MCM1 transcriptional regulator {Baker's yeast (Sac	99.87
d1srsa_	84	Serum response factor (SRF) core {Human (Homo sapi	99.86

>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=99.90  E-value=3.8e-26  Score=140.94  Aligned_cols=50  Identities=32%  Similarity=0.459  Sum_probs=48.1

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLG   50 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~   50 (91)
                      |++|+|+..|+|||+|||.||||||+|||+||||+              |+||++++|++||+.
T Consensus         7 ik~Ie~~~~R~vTFsKRk~GL~KKa~ELs~LC~~~valiv~s~~gk~~~f~s~~~~~vl~ry~~   70 (71)
T d1egwa_           7 ITRIMDERNRQVTFTKRKFGLMKKAYELSVLCDCEIALIIFNSSNKLFQYASTDMDKVLLKYTE   70 (71)
T ss_dssp             SSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTCCEEEEESSCHHHHHHHHHH
T ss_pred             EEeccCCchheeehhHhhhhHHHHHHHHhhccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHhc
Confidence            78999999999999999999999999999999999              889999999999974

>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=99.87  E-value=4.8e-25  Score=140.08  Aligned_cols=51  Identities=41%  Similarity=0.580  Sum_probs=48.7

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhCC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLGQ   51 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~~   51 (91)
                      |++|+|+..|+|||+|||.||||||+|||+||||+              |+||+|+.|+++|++.
T Consensus         9 i~~I~~~~~R~vTFsKRr~GL~KKa~ELsvLc~a~vaviv~s~~gk~~~f~sp~v~~vl~r~~~~   73 (85)
T d1mnma_           9 IKFIENKTRRHVTFSKRKHGIMKKAFELSVLTGTQVLLLVVSETGLVYTFSTPKFEPIVTQQEGR   73 (85)
T ss_dssp             SSCCCSHHHHHHHHHHHHHHHHHHHHHHHHHHTCEEEEEEECTTCCEEEEECTTTTHHHHSHHHH
T ss_pred             EEEecCCchhhhhhHHHHhhHHHHHHHHhccCCCcEEEEEEcCCCCEEeccCCCHHHHHHHHhcc
Confidence            78999999999999999999999999999999999              8899999999999753

>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=99.86  E-value=2e-24  Score=136.95  Aligned_cols=50  Identities=38%  Similarity=0.488  Sum_probs=47.8

Q ss_pred             CccccCCCCcccccccccchhhhhhhhhhhhhCCC--------------CCCCcHHHHHHHHhC
Q 038327            1 MKRIENEDDRLITFSKRKSRTYNKASELVTLTGAE--------------IGHPSIEAVANRFLG   50 (91)
Q Consensus         1 ik~I~n~~~R~vTfsKRr~GL~KKA~ELs~Lc~~~--------------f~~ps~~~vl~r~~~   50 (91)
                      |++|+|+..|+|||+|||.||||||+|||+||||+              |+||+++.|+++|..
T Consensus         9 i~~Ie~~~~R~vTFsKRr~GL~KKa~ELs~Lc~~~v~liv~s~~gk~~~f~s~~~~~vi~~~~~   72 (84)
T d1srsa_           9 MEFIDNKLRRYTTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATRKLQPMITSETG   72 (84)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECTTCCEEEEECGGGHHHHSSHHH
T ss_pred             EEeecCcchhhhhhHHhhhhHHHHHHHHhcccCCcEEEEEEcCCCCEEEeeCCCHHHHHHHHHH
Confidence            78999999999999999999999999999999999              889999999999963