Psyllid ID: psy11633

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------
Protein Sequence
MKYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS
Secondary Structure (PSIPRED)
ccEEEEEEccccccEEEEEEEcccEEEEcccccccccccccccccccccccHHccccccccccHHHHHHHHHEEEEEEEEcccccccccccccccEEEEEEccccHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEccHHHHHHHHHHccHcHHHHHHHHccccccEEEEcccccccHHHHccccccccHHHHHHHHHHEEEEEEEccccccccccccHHHcccEEEEEEHHHHHHHHHHHHHcccccccccccc
Coil and Loop (DISEMBL)
MKYLVIIPLSSSYVQLFISLiqpsnifqqlsfftqrpifcirnkcnrteipfavkvprqFSLSVIILWYFVLISRMSFvkgwgaeyhrqdvtstpcwieihlhgplQWLDKVLIqmgsphqpissvs
Flexible Loop (DISEMBL)
MKYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSphqpissvs
Low Complexity Region (SEG)
MKYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS
Disordered region (IsUnstruct)
**YLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQ************
Disordered Region (DISOPRED)
*KYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAV**PR***LSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGS*********
Disordered Region (DISEMBL)
MKYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMG**********
Disordered Region (DISPRO)
MKYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMG**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKYLVIIPLSSSYVQLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS
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	127	2.2.26 [Sep-21-2011]
P97588	468	Mothers against decapenta	yes	N/A	0.417	0.113	0.962	1e-25
Q1JQA2	465	Mothers against decapenta	yes	N/A	0.417	0.113	0.962	1e-25
P70340	465	Mothers against decapenta	yes	N/A	0.417	0.113	0.962	1e-25
Q15797	465	Mothers against decapenta	yes	N/A	0.417	0.113	0.962	1e-25
O15198	467	Mothers against decapenta	no	N/A	0.417	0.113	0.962	1e-25
Q9I962	465	Mothers against decapenta	N/A	N/A	0.417	0.113	0.962	1e-25
Q9JIW5	430	Mothers against decapenta	no	N/A	0.417	0.123	0.962	2e-25
O54835	434	Mothers against decapenta	yes	N/A	0.417	0.122	0.962	2e-25
Q9I8V2	472	Mothers against decapenta	no	N/A	0.417	0.112	0.943	3e-25
P42003	455	Protein mothers against d	yes	N/A	0.417	0.116	0.943	5e-25

>sp|P97588|SMAD1_RAT Mothers against decapentaplegic homolog 1 OS=Rattus norvegicus GN=Smad1 PE=1 SV=1

 Score =  115 bits (287), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 416 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 468

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD1 is a receptor-regulated SMAD (R-SMAD) (By similarity). Has been shown to be also activated by TGF-beta (transforming growth factor) type I receptor kinase in rat intestinal epithelial cells (IEC 4-1). SMAD1/OAZ1/PSMB4 complex mediates the degradation of the CREBBP/EP300 repressor SNIP1.
Rattus norvegicus (taxid: 10116)

>sp|Q1JQA2|SMAD1_BOVIN Mothers against decapentaplegic homolog 1 OS=Bos taurus GN=SMAD1 PE=1 SV=1

 Score =  115 bits (287), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 413 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD1 is a receptor-regulated SMAD (R-SMAD).

Bos taurus (taxid: 9913)

>sp|P70340|SMAD1_MOUSE Mothers against decapentaplegic homolog 1 OS=Mus musculus GN=Smad1 PE=1 SV=2

 Score =  115 bits (287), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 413 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD1 is a receptor-regulated SMAD (R-SMAD) (By similarity). May play a role in the initiation and maintenance of spermatogenesis. SMAD1/OAZ1/PSMB4 complex mediates the degradation of the CREBBP/EP300 repressor SNIP1.

Mus musculus (taxid: 10090)

>sp|Q15797|SMAD1_HUMAN Mothers against decapentaplegic homolog 1 OS=Homo sapiens GN=SMAD1 PE=1 SV=1

 Score =  115 bits (287), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 413 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD1 is a receptor-regulated SMAD (R-SMAD). SMAD1/OAZ1/PSMB4 complex mediates the degradation of the CREBBP/EP300 repressor SNIP1.

Homo sapiens (taxid: 9606)

>sp|O15198|SMAD9_HUMAN Mothers against decapentaplegic homolog 9 OS=Homo sapiens GN=SMAD9 PE=1 SV=1

 Score =  114 bits (286), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 415 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 467

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD9 is a receptor-regulated SMAD (R-SMAD).

Homo sapiens (taxid: 9606)

>sp|Q9I962|SMAD1_COTJA Mothers against decapentaplegic homolog 1 OS=Coturnix coturnix japonica GN=SMAD1 PE=2 SV=1

 Score =  114 bits (286), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 413 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 465

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD1 is a receptor-regulated SMAD (R-SMAD).

Coturnix coturnix japonica (taxid: 93934)

>sp|Q9JIW5|SMAD9_MOUSE Mothers against decapentaplegic homolog 9 OS=Mus musculus GN=Smad9 PE=1 SV=2

 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 378 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 430

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD9 is a receptor-regulated SMAD (R-SMAD). Has been shown to be activated by activin type I receptor-like kinases (ALK-2, ALK-3, ALK-6) which stimulate heteromerization between SMAD9 and SMAD4. May play a role in osteoblast differentiation and maturation.

Mus musculus (taxid: 10090)

>sp|O54835|SMAD9_RAT Mothers against decapentaplegic homolog 9 OS=Rattus norvegicus GN=Smad9 PE=1 SV=1

 Score =  114 bits (285), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 382 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 434

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD9 is a receptor-regulated SMAD (R-SMAD) (By similarity). Has been shown to be activated by activin type I receptor-like kinase-2 (ALK-2) which stimulates heteromerization between SMAD9 and SMAD4. ALK-2 binds TGF-beta, activin and BMP.

Rattus norvegicus (taxid: 10116)

>sp|Q9I8V2|SMAD1_DANRE Mothers against decapentaplegic homolog 1 OS=Danio rerio GN=smad1 PE=2 SV=1

 Score =  113 bits (283), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGA+YHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 420 RMSFVKGWGAKYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 472

Involved in ventralization. May mediate Bmp2b signaling during embryonic dorsal-ventral pattern formation, and may itself be a transcriptional target for Smad5-mediated Bmp2b signaling.

Danio rerio (taxid: 7955)

>sp|P42003|MAD_DROME Protein mothers against dpp OS=Drosophila melanogaster GN=Mad PE=1 SV=1

 Score =  112 bits (281), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 50/53 (94%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH  ISSVS
Sbjct: 403 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNAISSVS 455

Required for the function of decapentaplegic. May play an important role in mediating Dpp signaling. Involved in the BMP signaling pathway.

Drosophila melanogaster (taxid: 7227)

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	127
344244115	232	Mothers against decapentaplegic-like 1 [	0.417	0.228	0.962	3e-24
38112335	233	mothers against decapentaplegic-like pro	0.417	0.227	0.962	4e-24
17943326	218	Chain A, Smad1 Crystal Structure Reveals	0.417	0.243	0.962	4e-24
38112333	235	mothers against decapentaplegic-like pro	0.417	0.225	0.962	4e-24
90086488	300	unnamed protein product [Macaca fascicul	0.417	0.176	0.962	5e-24
4809224	299	Smad1 protein [Gallus gallus]	0.417	0.177	0.962	5e-24
395735384	515	PREDICTED: LOW QUALITY PROTEIN: mothers	0.417	0.102	0.962	5e-24
432847196	471	PREDICTED: mothers against decapentapleg	0.417	0.112	0.962	6e-24
56268794	472	MAD homolog 1 (Drosophila) [Danio rerio]	0.417	0.112	0.962	6e-24
53734054	466	MAD homolog 9 (Drosophila) [Danio rerio]	0.417	0.113	0.962	6e-24

>gi|344244115|gb|EGW00219.1| Mothers against decapentaplegic-like 1 [Cricetulus griseus]

 Score =  116 bits (290), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 180 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 232

Source: Cricetulus griseus

Species: Cricetulus griseus

Genus: Cricetulus

Family: Cricetidae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|38112335|gb|AAR11256.1| mothers against decapentaplegic-like protein 1 [Macaca mulatta]

 Score =  115 bits (289), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 181 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 233

Source: Macaca mulatta

Species: Macaca mulatta

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|17943326|pdb|1KHU|A Chain A, Smad1 Crystal Structure Reveals The Details Of Bmp Signaling Pathway gi|17943327|pdb|1KHU|B Chain B, Smad1 Crystal Structure Reveals The Details Of Bmp Signaling Pathway gi|17943328|pdb|1KHU|C Chain C, Smad1 Crystal Structure Reveals The Details Of Bmp Signaling Pathway gi|17943329|pdb|1KHU|D Chain D, Smad1 Crystal Structure Reveals The Details Of Bmp Signaling Pathway

 Score =  115 bits (289), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 166 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 218

Source: Homo sapiens

Species: Homo sapiens

Genus: Homo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|38112333|gb|AAR11255.1| mothers against decapentaplegic-like protein 1 [Pan troglodytes]

 Score =  115 bits (289), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 183 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 235

Source: Pan troglodytes

Species: Pan troglodytes

Genus: Pan

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|90086488|dbj|BAE91783.1| unnamed protein product [Macaca fascicularis]

 Score =  115 bits (289), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 248 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 300

Source: Macaca fascicularis

Species: Macaca fascicularis

Genus: Macaca

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|4809224|gb|AAD30150.1|AF143239_1 Smad1 protein [Gallus gallus]

 Score =  115 bits (288), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 247 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 299

Source: Gallus gallus

Species: Gallus gallus

Genus: Gallus

Family: Phasianidae

Order: Galliformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|395735384|ref|XP_002815227.2| PREDICTED: LOW QUALITY PROTEIN: mothers against decapentaplegic homolog 1 [Pongo abelii]

 Score =  115 bits (288), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 463 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 515

Source: Pongo abelii

Species: Pongo abelii

Genus: Pongo

Family: Hominidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|432847196|ref|XP_004065978.1| PREDICTED: mothers against decapentaplegic homolog 1-like [Oryzias latipes]

 Score =  115 bits (288), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 419 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 471

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|56268794|gb|AAH86962.1| MAD homolog 1 (Drosophila) [Danio rerio]

 Score =  115 bits (288), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 420 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 472

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|53734054|gb|AAH83363.1| MAD homolog 9 (Drosophila) [Danio rerio]

 Score =  115 bits (288), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 414 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 466

Source: Danio rerio

Species: Danio rerio

Genus: Danio

Family: Cyprinidae

Order: Cypriniformes

Class: Actinopterygii

Phylum: Chordata

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	127
UNIPROTKB|F1NGT9	298	SMAD1 "Uncharacterized protein	0.417	0.177	0.962	2.9e-25
UNIPROTKB|F1MWL7	344	SMAD9 "Uncharacterized protein	0.417	0.154	0.962	2.9e-25
UNIPROTKB|E2QZF1	300	SMAD1 "Uncharacterized protein	0.417	0.176	0.962	2.9e-25
UNIPROTKB|F6Q023	325	SMAD1 "Uncharacterized protein	0.417	0.163	0.962	2.9e-25
UNIPROTKB|E1B2C7	430	smad9 "Uncharacterized protein	0.417	0.123	0.962	3.4e-25
MGI|MGI:1859993	430	Smad9 "SMAD family member 9" [	0.417	0.123	0.962	3.4e-25
UNIPROTKB|E2R327	432	SMAD9 "Uncharacterized protein	0.417	0.122	0.962	3.6e-25
RGD|71004	434	Smad9 "SMAD family member 9" [	0.417	0.122	0.962	3.8e-25
UNIPROTKB|O54835	434	Smad9 "Mothers against decapen	0.417	0.122	0.962	3.8e-25
UNIPROTKB|Q6DIS7	464	smad1 "SMAD family member 1" [	0.417	0.114	0.962	6.3e-25

UNIPROTKB|F1NGT9 SMAD1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   246 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 298

GO:0000165 "MAPK cascade" evidence=IEA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IEA

GO:0001657 "ureteric bud development" evidence=IEA

GO:0001710 "mesodermal cell fate commitment" evidence=IEA

GO:0002051 "osteoblast fate commitment" evidence=IEA

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

GO:0005637 "nuclear inner membrane" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0006954 "inflammatory response" evidence=IEA

GO:0007183 "SMAD protein complex assembly" evidence=IEA

GO:0007276 "gamete generation" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0030902 "hindbrain development" evidence=IEA

GO:0042592 "homeostatic process" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0045669 "positive regulation of osteoblast differentiation" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0051216 "cartilage development" evidence=IEA

GO:0060038 "cardiac muscle cell proliferation" evidence=IEA

GO:0060348 "bone development" evidence=IEA

GO:0061036 "positive regulation of cartilage development" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0070411 "I-SMAD binding" evidence=IEA

GO:0071407 "cellular response to organic cyclic compound" evidence=IEA

UNIPROTKB|F1MWL7 SMAD9 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   292 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 344

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

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

UNIPROTKB|E2QZF1 SMAD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   248 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 300

GO:0071407 "cellular response to organic cyclic compound" evidence=IEA

GO:0070411 "I-SMAD binding" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0061036 "positive regulation of cartilage development" evidence=IEA

GO:0060348 "bone development" evidence=IEA

GO:0060038 "cardiac muscle cell proliferation" evidence=IEA

GO:0051216 "cartilage development" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045669 "positive regulation of osteoblast differentiation" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0042592 "homeostatic process" evidence=IEA

GO:0030902 "hindbrain development" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0007276 "gamete generation" evidence=IEA

GO:0007183 "SMAD protein complex assembly" evidence=IEA

GO:0006954 "inflammatory response" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005637 "nuclear inner membrane" evidence=IEA

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

GO:0002051 "osteoblast fate commitment" evidence=IEA

GO:0001710 "mesodermal cell fate commitment" evidence=IEA

GO:0001657 "ureteric bud development" evidence=IEA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IEA

GO:0000165 "MAPK cascade" evidence=IEA

UNIPROTKB|F6Q023 SMAD1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 287 (106.1 bits), Expect = 2.9e-25, P = 2.9e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   273 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 325

GO:0071407 "cellular response to organic cyclic compound" evidence=IEA

GO:0070411 "I-SMAD binding" evidence=IEA

GO:0070410 "co-SMAD binding" evidence=IEA

GO:0061036 "positive regulation of cartilage development" evidence=IEA

GO:0060348 "bone development" evidence=IEA

GO:0060038 "cardiac muscle cell proliferation" evidence=IEA

GO:0051216 "cartilage development" evidence=IEA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0045669 "positive regulation of osteoblast differentiation" evidence=IEA

GO:0042802 "identical protein binding" evidence=IEA

GO:0042592 "homeostatic process" evidence=IEA

GO:0030902 "hindbrain development" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0008285 "negative regulation of cell proliferation" evidence=IEA

GO:0007276 "gamete generation" evidence=IEA

GO:0007183 "SMAD protein complex assembly" evidence=IEA

GO:0006954 "inflammatory response" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005637 "nuclear inner membrane" evidence=IEA

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

GO:0002051 "osteoblast fate commitment" evidence=IEA

GO:0001710 "mesodermal cell fate commitment" evidence=IEA

GO:0001657 "ureteric bud development" evidence=IEA

GO:0000979 "RNA polymerase II core promoter sequence-specific DNA binding" evidence=IEA

GO:0000165 "MAPK cascade" evidence=IEA

UNIPROTKB|E1B2C7 smad9 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 287 (106.1 bits), Expect = 3.4e-25, P = 3.4e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   378 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 430

GO:0071407 "cellular response to organic cyclic compound" evidence=IEA

GO:0060348 "bone development" evidence=IEA

GO:0051216 "cartilage development" evidence=IEA

GO:0030902 "hindbrain development" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0030509 "BMP signaling pathway" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0001657 "ureteric bud development" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

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

MGI|MGI:1859993 Smad9 "SMAD family member 9" [Mus musculus (taxid:10090)]

 Score = 287 (106.1 bits), Expect = 3.4e-25, P = 3.4e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   378 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 430

GO:0001880 "Mullerian duct regression" evidence=ISO

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IDA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

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

GO:0006468 "protein phosphorylation" evidence=IDA

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0030509 "BMP signaling pathway" evidence=IGI;IDA

GO:0030901 "midbrain development" evidence=IMP

GO:0030902 "hindbrain development" evidence=IMP

GO:0045597 "positive regulation of cell differentiation" evidence=ISO

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0051216 "cartilage development" evidence=IGI

GO:0060348 "bone development" evidence=IGI

GO:0071407 "cellular response to organic cyclic compound" evidence=IDA

UNIPROTKB|E2R327 SMAD9 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 287 (106.1 bits), Expect = 3.6e-25, P = 3.6e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   380 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 432

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0005667 "transcription factor complex" evidence=IEA

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

RGD|71004 Smad9 "SMAD family member 9" [Rattus norvegicus (taxid:10116)]

 Score = 287 (106.1 bits), Expect = 3.8e-25, P = 3.8e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   382 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 434

GO:0001657 "ureteric bud development" evidence=IEA

GO:0001666 "response to hypoxia" evidence=IEP

GO:0001880 "Mullerian duct regression" evidence=IMP

GO:0003677 "DNA binding" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

GO:0005575 "cellular_component" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA;ISO

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0030509 "BMP signaling pathway" evidence=IEA;ISO

GO:0030901 "midbrain development" evidence=IEA;ISO

GO:0030902 "hindbrain development" evidence=IEA;ISO

GO:0045597 "positive regulation of cell differentiation" evidence=IDA

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

GO:0046872 "metal ion binding" evidence=IEA

GO:0051216 "cartilage development" evidence=IEA;ISO

GO:0060348 "bone development" evidence=IEA;ISO

GO:0071407 "cellular response to organic cyclic compound" evidence=IEA;ISO

UNIPROTKB|O54835 Smad9 "Mothers against decapentaplegic homolog 9" [Rattus norvegicus (taxid:10116)]

 Score = 287 (106.1 bits), Expect = 3.8e-25, P = 3.8e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   382 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 434

GO:0001657 "ureteric bud development" evidence=IEA

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

GO:0005667 "transcription factor complex" evidence=IEA

GO:0006351 "transcription, DNA-dependent" evidence=IEA

GO:0006468 "protein phosphorylation" evidence=IEA

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA

GO:0030509 "BMP signaling pathway" evidence=IEA

GO:0030901 "midbrain development" evidence=IEA

GO:0030902 "hindbrain development" evidence=IEA

GO:0051216 "cartilage development" evidence=IEA

GO:0060348 "bone development" evidence=IEA

GO:0071407 "cellular response to organic cyclic compound" evidence=IEA

UNIPROTKB|Q6DIS7 smad1 "SMAD family member 1" [Xenopus (Silurana) tropicalis (taxid:8364)]

 Score = 287 (106.1 bits), Expect = 6.3e-25, P = 6.3e-25
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query:    75 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct:   412 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 464

GO:0009880 "embryonic pattern specification" evidence=ISS

GO:0030509 "BMP signaling pathway" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O15198	SMAD9_HUMAN	No assigned EC number	0.9622	0.4173	0.1134	no	N/A
P70340	SMAD1_MOUSE	No assigned EC number	0.9622	0.4173	0.1139	yes	N/A
Q15797	SMAD1_HUMAN	No assigned EC number	0.9622	0.4173	0.1139	yes	N/A
Q9JIW5	SMAD9_MOUSE	No assigned EC number	0.9622	0.4173	0.1232	no	N/A
P97454	SMAD5_MOUSE	No assigned EC number	0.9433	0.4173	0.1139	no	N/A
Q9W7E7	SMAD5_DANRE	No assigned EC number	0.9245	0.4173	0.1142	no	N/A
P97588	SMAD1_RAT	No assigned EC number	0.9622	0.4173	0.1132	yes	N/A
Q9R1V3	SMAD5_RAT	No assigned EC number	0.9433	0.4173	0.1139	no	N/A
Q5R6H7	SMAD5_PONAB	No assigned EC number	0.9433	0.4173	0.1139	no	N/A
Q99717	SMAD5_HUMAN	No assigned EC number	0.9433	0.4173	0.1139	no	N/A
Q9I8V2	SMAD1_DANRE	No assigned EC number	0.9433	0.4173	0.1122	no	N/A
Q02330	SMA2_CAEEL	No assigned EC number	0.7924	0.4173	0.1267	yes	N/A
Q1JQA2	SMAD1_BOVIN	No assigned EC number	0.9622	0.4173	0.1139	yes	N/A
Q9I962	SMAD1_COTJA	No assigned EC number	0.9622	0.4173	0.1139	N/A	N/A
O54835	SMAD9_RAT	No assigned EC number	0.9622	0.4173	0.1221	yes	N/A
P42003	MAD_DROME	No assigned EC number	0.9433	0.4173	0.1164	yes	N/A
Q56I99	SMAD5_CHICK	No assigned EC number	0.9433	0.4173	0.1139	no	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	127
cd10497	201	cd10497, MH2_SMAD_1_5_9, C-terminal Mad Homology 2	1e-38
cd10495	182	cd10495, MH2_R-SMAD, C-terminal Mad Homology 2 (MH	1e-28
cd10985	191	cd10985, MH2_SMAD_2_3, C-terminal Mad Homology 2 (	5e-25
cd10498	222	cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH	2e-18
pfam03166	179	pfam03166, MH2, MH2 domain	5e-18
cd00050	170	cd00050, MH2, C-terminal Mad Homology 2 (MH2) doma	1e-17
smart00524	171	smart00524, DWB, Domain B in dwarfin family protei	2e-16
cd10496	165	cd10496, MH2_I-SMAD, C-terminal Mad Homology 2 (MH	5e-11
cd10499	174	cd10499, MH2_SMAD_6, C-terminal Mad Homology 2 (MH	8e-08
cd10500	171	cd10500, MH2_SMAD_7, C-terminal Mad Homology 2 (MH	4e-05

>gnl|CDD|199822 cd10497, MH2_SMAD_1_5_9, C-terminal Mad Homology 2 (MH2) domain in SMAD1, SMAD5 and SMAD9

 Score =  128 bits (323), Expect = 1e-38
 Identities = 51/53 (96%), Positives = 51/53 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 149 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 201

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain, which prevents it from forming a complex with SMAD4. SMAD1, SMAD5 and SMAD9 (also known as SMAD8), are receptor regulated SMADs (R-SMADs). SMAD1 plays an essential role in bone development and postnatal bone formation through activation by bone morphogenetic protein (BMP) type 1 receptor kinase. SMAD5 is involved in BMP signal modulation and may also play a role in the pathway involving inhibition of hematopoietic progenitor cells by TGF-beta. SMAD9 mediates the differentiation of mesenchymal stem cells (MSCs) into tendon-like cells by inhibiting the osteogenic pathway. Length = 201

>gnl|CDD|199820 cd10495, MH2_R-SMAD, C-terminal Mad Homology 2 (MH2) domain in receptor regulated SMADs

 Score =  102 bits (256), Expect = 1e-28
 Identities = 38/39 (97%), Positives = 39/39 (100%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 113
           R+SFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL
Sbjct: 143 RISFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 181

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain. Receptor regulated SMADs (R-SMADs) include SMAD1, SMAD2, SMAD3, SMAD5 and SMAD9. SMAD1 plays an essential role in bone development and postnatal bone formation through activation by bone morphogenetic protein (BMP) type 1 receptor kinase. SMAD2 regulates multiple cellular processes, such as cell proliferation, apoptosis and differentiation, while SMAD3 modulates signals of activin and TGF-beta. SMAD5 is involved in BMP signal modulation, possibly playing a role in the pathway involving inhibition of hematopoietic progenitor cells by TGF-beta. SMAD9 (also known as SMAD8) can mediate the differentiation of mesenchymal stem cells into tendon-like cells by inhibiting the osteogenic pathway. Length = 182

>gnl|CDD|199826 cd10985, MH2_SMAD_2_3, C-terminal Mad Homology 2 (MH2) domain in SMAD2 and SMAD3

 Score = 93.5 bits (232), Expect = 5e-25
 Identities = 36/42 (85%), Positives = 39/42 (92%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLD+VL QM
Sbjct: 150 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDRVLTQM 191

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain. SMAD2 and SMAD3 are receptor regulated SMADs (R-SMADs). SMAD2 regulates multiple cellular processes, such as cell proliferation, apoptosis and differentiation, while SMAD3 modulates signals of activin and TGF-beta. Length = 191

>gnl|CDD|199823 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH2) domain in SMAD4

 Score = 77.1 bits (190), Expect = 2e-18
 Identities = 29/41 (70%), Positives = 32/41 (78%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL 113
           I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL
Sbjct: 181 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVL 221

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain. SMAD4, which belongs to the Dwarfin family of proteins, is involved in many cell functions such as differentiation, apoptosis, gastrulation, embryonic development and the cell cycle. SMAD4 binds receptor regulated SMADs (R-SMADs) such as SMAD1 or SMAD2, and forms an oligomeric complex that binds to DNA and serves as a transcription factor. SMAD4 is often mutated in several cancers, such as multiploid colorectal cancer, cervical cancer and pancreatic carcinoma, as well as in juvenile polyposis syndrome. Length = 222

>gnl|CDD|217398 pfam03166, MH2, MH2 domain

 Score = 74.7 bits (184), Expect = 5e-18
 Identities = 23/31 (74%), Positives = 28/31 (90%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGP 105
           R+SFVKGWG +Y RQD+TSTPCWIE+HL+ P
Sbjct: 149 RISFVKGWGEDYPRQDITSTPCWIEVHLNRP 179

This is the MH2 (MAD homology 2) domain found at the carboxy terminus of MAD related proteins such as Smads. This domain is separated from the MH1 domain by a non-conserved linker region. The MH2 domain mediates interaction with a wide variety of proteins and provides specificity and selectivity to Smad function and also is critical for mediating interactions in Smad oligomers. Unlike MH1, MH2 does not bind DNA. The well-studied MH2 domain of Smad4 is composed of five alpha helices and three loops enclosing a beta sandwich. Smads are involved in the propagation of TGF-beta signals by direct association with the TGF-beta receptor kinase which phosphorylates the last two Ser of a conserved 'SSXS' motif located at the C-terminus of MH2. Length = 179

>gnl|CDD|199819 cd00050, MH2, C-terminal Mad Homology 2 (MH2) domain

 Score = 73.4 bits (180), Expect = 1e-17
 Identities = 27/29 (93%), Positives = 28/29 (96%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLH 103
           RMSFVKGWG EYHRQD+TSTPCWIEIHLH
Sbjct: 142 RMSFVKGWGPEYHRQDITSTPCWIEIHLH 170

The MH2 domain is found in the SMAD (small mothers against decapentaplegic) family of proteins and is responsible for type I receptor interactions, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain which prevents it from forming a complex with SMAD4. The MH2 domain is multifunctional and provides SMADs with their specificity and selectivity, as well as transcriptional activity. Several transcriptional co-activators and repressors have also been reported to regulate SMAD signaling by interacting with the MH2 domain. Mutations in the MH2 domains of SMAD2 and especially SMAD4 have been detected in colorectal and other human cancers. Length = 170

>gnl|CDD|197770 smart00524, DWB, Domain B in dwarfin family proteins

 Score = 70.8 bits (174), Expect = 2e-16
 Identities = 21/31 (67%), Positives = 26/31 (83%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLH 103
             R+SFVKGWG +Y RQ +TSTPCWIE+HL+
Sbjct: 141 TIRISFVKGWGPDYSRQTITSTPCWIEVHLN 171

Length = 171

>gnl|CDD|199821 cd10496, MH2_I-SMAD, C-terminal Mad Homology 2 (MH2) domain in Inhibitory SMADs

 Score = 56.2 bits (136), Expect = 5e-11
 Identities = 19/28 (67%), Positives = 22/28 (78%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHL 102
           R+SFVKGWG  Y RQ +TS PCW+EI L
Sbjct: 137 RISFVKGWGPNYSRQFITSCPCWLEILL 164

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain, which prevents it from forming a complex with SMAD4. SMAD6 and SMAD7 are inhibitory SMADs (I-SMADs) that function as negative regulators of signaling mediated by the TGF-beta superfamily. SMAD6 specifically inhibits bone morphogenetic protein (BMP) type I receptor mediated signaling, while SMAD7 enhances muscle differentiation and is often associated with cancer, tissue fibrosis and inflammatory diseases. Length = 165

>gnl|CDD|199824 cd10499, MH2_SMAD_6, C-terminal Mad Homology 2 (MH2) domain in SMAD6

 Score = 47.9 bits (114), Expect = 8e-08
 Identities = 18/28 (64%), Positives = 21/28 (75%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHL 102
           R+SF KGWG  Y RQ +TS PCW+EI L
Sbjct: 145 RISFAKGWGPCYSRQFITSCPCWLEILL 172

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain, which prevents it from forming a complex with SMAD4. SMAD6, an inhibitory or antagonistic SMAD (I-SMAD), acts as a negative regulator of signaling mediated by the TGF-beta superfamily of ligands, by competing with SMAD4 and preventing the transcription of SMAD4's gene products. SMAD6 specifically inhibits bone morphogenetic protein (BMP) type I receptor mediated signaling. SMAD6 and SMAD7 act as critical mediators for effective TGF-beta I-mediated suppression of Interleukin-1/Toll-like receptor (IL-1R/TLR) signaling through simultaneous binding to Pellino-1, an adaptor protein of interleukin-1 receptor associated kinase 1 (IRAK1), via their MH2 domains. Length = 174

>gnl|CDD|199825 cd10500, MH2_SMAD_7, C-terminal Mad Homology 2 (MH2) domain in SMAD7

 Score = 40.8 bits (95), Expect = 4e-05
 Identities = 15/26 (57%), Positives = 21/26 (80%)

Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEI 100
           ++SFVKGWG  Y RQ ++S PCW+E+
Sbjct: 143 QISFVKGWGQCYTRQFISSCPCWLEV 168

The MH2 domain is located at the C-terminus of the SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. The MH2 domain is responsible for type I receptor interaction, phosphorylation-triggered homo- and hetero-oligomerization, and transactivation. It is negatively regulated by the N-terminal MH1 domain, which prevents it from forming a complex with SMAD4. SMAD7, an inhibitory or antagonistic SMAD (I-SMAD), acts as a negative regulator of signaling mediated by the TGF-beta superfamily of ligands, by blocking TGF-beta type 1 and activin association with the receptor as well as access to SMAD2. SMAD7 enhances muscle differentiation, playing pivotal roles in embryonic development and adult homoeostasis. SMAD7 and SMAD6 act as critical mediators for effective TGF-beta I-mediated suppression of Interleukin-1/Toll-like receptor (IL-1R/TLR) signaling through simultaneous binding to Pellino-1, an adaptor protein of interleukin-1 receptor associated kinase 1(IRAK1), via their MH2 domains. Altered expression of SMAD7 is often associated with cancer, tissue fibrosis and inflammatory diseases. Length = 171

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	127
KOG3701|consensus	411		100.0
smart00524	171	DWB Domain B in dwarfin family proteins.	99.97
cd00050	176	MH2 MH2 domain; C terminal domain of SMAD family p	99.97
PF03166	181	MH2: MH2 domain; InterPro: IPR001132 Mammalian dwa	99.96
smart00524	171	DWB Domain B in dwarfin family proteins.	89.25

>KOG3701|consensus

Probab=100.00  E-value=2.1e-37  Score=267.33  Aligned_cols=111  Identities=40%  Similarity=0.633  Sum_probs=90.9

Q ss_pred             eCCchhhhhhhhhccCCeeeEecCCCcccc------eEEecCCCCCCC--cccc----ccCCcceeeeeeeeEEEeEEEE
Q psy11633          8 PLSSSYVQLFISLIQPSNIFQQLSFFTQRP------IFCIRNKCNRTE--IPFA----VKVPRQFSLSVIILWYFVLISR   75 (127)
Q Consensus         8 ~~~~~~~~~f~~clsdsaiFvqs~~f~q~p------If~i~~~cn~kn--sefA----~~Vp~gfs~~~~~~~~~~c~iR   75 (127)
                      .|+.-=-||+++|+||+.|||||+++++..      +.+++|+|+.|-  .+|+    ..+-+|+.....  +++||+||
T Consensus       289 ~L~~~~gdVw~~n~sd~pIFVqS~~ln~~~g~~~~~v~ki~Pg~~iKvFd~~~~~~l~~s~~~g~~~~~~--l~~~ctIr  366 (411)
T KOG3701|consen  289 QLSYENGDVWLYNLSDYPIFVQSPNLNYPNGRTLDTVHKVPPGYSIKVFDFEFAQQLPTSADPGFESVDQ--LRKMCTIR  366 (411)
T ss_pred             eeeEecCcEEEEecCCCceeeeCCCCcCCCCCcccceEeeCCCceeEeechHHHhhhhhcccCCCccccc--cccceeEE
Confidence            444434689999999999999999998655      557888887662  2233    345555555554  78999999


Q ss_pred             EEEeeecCCCcCcccccccceEEEEEecCchhHHHHHHHHhCCCC
Q psy11633         76 MSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPH  120 (127)
Q Consensus        76 iSFvKGwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qmg~p~  120 (127)
                      ||||||||++|+||+||+||||||||||+||||||+||+|||+|+
T Consensus       367 iSFvKGWG~~Y~Rq~It~~PCWiEvhl~~p~~~lD~vl~~~~~~~  411 (411)
T KOG3701|consen  367 ISFVKGWGECYSRQDITSTPCWIEVHLNGPLQWLDTVLTQMGSPP  411 (411)
T ss_pred             EEEeccccccccccccccCcceEEEecCCcHHHHHHHHhhcCCCC
Confidence            999999999999999999999999999999999999999999663

>smart00524 DWB Domain B in dwarfin family proteins

Probab=99.97  E-value=2.6e-33  Score=218.47  Aligned_cols=88  Identities=32%  Similarity=0.554  Sum_probs=73.9

Q ss_pred             hhhhhhhccCCeeeEecCCCcc------cceEEecCCCCCC---Ccccc----ccCCcceeeeeeeeEEEeEEEEEEEee
Q psy11633         14 VQLFISLIQPSNIFQQLSFFTQ------RPIFCIRNKCNRT---EIPFA----VKVPRQFSLSVIILWYFVLISRMSFVK   80 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~q------~pIf~i~~~cn~k---nsefA----~~Vp~gfs~~~~~~~~~~c~iRiSFvK   80 (127)
                      -+||++|+||++||||||+++.      .+|++++|+|+.|   +.+|+    ....++++..+.  +++||+|||||||
T Consensus        71 g~Vw~~~~s~~~VFVqS~~~~~~~~~~~~~V~Kv~pg~~lKvFd~~~f~~~l~~~~~~~~~~~~~--l~~~c~iriSFvK  148 (171)
T smart00524       71 GDVWLYNRSDSPIFVQSPYLDEPGGRTLDTVHKLPPGYSIKVFDMEKFAQLLARELAKGFEGVYD--LARMCTIRISFVK  148 (171)
T ss_pred             CeEEEEEcCCCCeEEcCCCcccccCCCCcceEEECCCCeEEEeChHHHHHHHHhhhcccCccccc--hhhheeEEEEEec
Confidence            5899999999999999999884      3578888888876   22233    356677766665  6789999999999


Q ss_pred             ecCCCcCcccccccceEEEEEec
Q psy11633         81 GWGAEYHRQDVTSTPCWIEIHLH  103 (127)
Q Consensus        81 GwG~~Y~Rq~It~tPCWiEi~l~  103 (127)
                      |||++|+||+||+||||||||||
T Consensus       149 GWG~~Y~Rq~it~tPCWiEi~l~  171 (171)
T smart00524      149 GWGPDYSRQTITSTPCWIEVHLN  171 (171)
T ss_pred             ccCCcccccccccCceEEEEEcC
Confidence            99999999999999999999997

>cd00050 MH2 MH2 domain; C terminal domain of SMAD family proteins, responsible for receptor interaction, transactivation, and homo- and heterooligomerisation; also known as Domain B in dwarfin family proteins

Probab=99.97  E-value=9.3e-33  Score=216.21  Aligned_cols=88  Identities=31%  Similarity=0.489  Sum_probs=69.8

Q ss_pred             hhhhhhhccCCeeeEecCCCccc------ceEEecCCCCCC---Ccccc----ccCCcceeeeeeeeEEEeEEEEEEEee
Q psy11633         14 VQLFISLIQPSNIFQQLSFFTQR------PIFCIRNKCNRT---EIPFA----VKVPRQFSLSVIILWYFVLISRMSFVK   80 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~q~------pIf~i~~~cn~k---nsefA----~~Vp~gfs~~~~~~~~~~c~iRiSFvK   80 (127)
                      -+||++|+||++|||||++++..      .|++++|+|+.|   ..+|+    ..+.++++..+.  +++||+|||||||
T Consensus        76 g~Vw~~~~S~~~VFVqS~~l~~~~~~~~~~V~Kv~pg~~lKvFd~~~f~~~l~~~~~~~~~~~~~--l~~~c~iriSFvK  153 (176)
T cd00050          76 GEVWAYNLSDHPIFVQSPTLDYPLGRPLLTVHKVPPGYSLKVFDFEQFEQLLRQAAGSTFDGVYD--LRRMCTIRISFVK  153 (176)
T ss_pred             CeEEEEEcCCCCEEEcCCCCCcccCCCCcceEEeCCCCEEEEeCHHHHHHHHHhhhcccCccHHH--HHhhceEEEEEec
Confidence            58999999999999999998744      356666666665   12222    244555554443  5679999999999


Q ss_pred             ecCCCcCcccccccceEEEEEec
Q psy11633         81 GWGAEYHRQDVTSTPCWIEIHLH  103 (127)
Q Consensus        81 GwG~~Y~Rq~It~tPCWiEi~l~  103 (127)
                      |||++|+||+||+||||||||||
T Consensus       154 GWG~~Y~Rq~it~tPCWiEi~l~  176 (176)
T cd00050         154 GWGEDYPRQDITSTPCWIEVHLN  176 (176)
T ss_pred             cccccccccccCCCceEEEEEcC
Confidence            99999999999999999999997

>PF03166 MH2: MH2 domain; InterPro: IPR001132 Mammalian dwarfins are phosphorylated in response to transforming growth factor beta and are implicated in control of cell growth []

Probab=99.96  E-value=1.4e-31  Score=205.81  Aligned_cols=82  Identities=41%  Similarity=0.705  Sum_probs=58.3

Q ss_pred             hhhhhhccCCeeeEecCCCcccceEEecCCCCCCCccccccCCcceeeeeeee-----------------------EEEe
Q psy11633         15 QLFISLIQPSNIFQQLSFFTQRPIFCIRNKCNRTEIPFAVKVPRQFSLSVIIL-----------------------WYFV   71 (127)
Q Consensus        15 ~~f~~clsdsaiFvqs~~f~q~pIf~i~~~cn~knsefA~~Vp~gfs~~~~~~-----------------------~~~~   71 (127)
                      +|+++|+||++|||||++++...         ..+...+.|||+|+++++|+.                       +.++
T Consensus        77 ~V~l~n~s~~pVFVqS~~~n~~~---------~~~~~~V~Kv~pg~~~kvFd~~~f~~~l~~~~~~~~~~~~~~~~l~~~  147 (181)
T PF03166_consen   77 NVWLYNRSDSPVFVQSPTLNYQH---------GFHPGTVCKVPPGYSLKVFDMEKFAQLLRQAVRRGYEAEEDVDELRKM  147 (181)
T ss_dssp             EEEEEE-SSS-EEEE-HHHHHHT---------TSTTTSEEEE-TT-EEEEEEHHHHHHHHHHHHTTHHHHTTTHHGGGGG
T ss_pred             eEEEEECCCCCEEEccCCCCccc---------CcCCCCcEEeCCCceeeccCHHHHHHHHHhhhccccccccchhhhhhc
Confidence            59999999999999998776433         112223445555555554421                       3579


Q ss_pred             EEEEEEEeeecCCCcCcccccccceEEEEEecCc
Q psy11633         72 LISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGP  105 (127)
Q Consensus        72 c~iRiSFvKGwG~~Y~Rq~It~tPCWiEi~l~~p  105 (127)
                      |+||||||||||++|+||+||+||||||||||+|
T Consensus       148 c~iriSFvKGWG~~Y~R~~it~~PCWiEi~l~~p  181 (181)
T PF03166_consen  148 CTIRISFVKGWGPEYRRQDITSCPCWIEIHLNGP  181 (181)
T ss_dssp             GEEEEEESSB-STTSSSSSGGGSSSEEEEEEHH-
T ss_pred             ceEEEEEEcccCCcccccCcccCCeEEEEEccCC
Confidence            9999999999999999999999999999999988

The dwarfin family also includes the Drosophila protein MAD that is required for the function of decapentaplegic (DPP) and may play a role in DPP signalling. Drosophila Mad binds to DNA and directly mediates activation of vestigial by Dpp []. This domain is also found in nuclear factor I (NF-I) or CCAAT box-binding transcription factor (CTF). This entry represents the SMAD (Mothers against decapentaplegic (MAD) homologue) (also called MH2 for MAD homology 2) domain found at the carboxy terminus of MAD related proteins such as Smads. This domain is separated from the MH1 domain by a non-conserved linker region. The MH2 domain mediates interaction with a wide variety of proteins and provides specificity and selectivity to Smad function and also is critical for mediating interactions in Smad oligomers. Unlike MH1, MH2 does not bind DNA. The well-studied MH2 domain of Smad4 is composed of five alpha helices and three loops enclosing a beta sandwich. Smads are involved in the propagation of TGF-beta signals by direct association with the TGF-beta receptor kinase which phosphorylates the last two Ser of a conserved 'SSXS' motif located at the C terminus of MH2 [, , ].; GO: 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1MK2_A 1U7F_A 1MJS_A 1KHU_A 1DD1_C 1G88_A 1U7V_B 1MR1_B 1YGS_A 3DIT_B ....

>smart00524 DWB Domain B in dwarfin family proteins

Probab=89.25  E-value=0.34  Score=38.40  Aligned_cols=40  Identities=18%  Similarity=0.232  Sum_probs=31.2

Q ss_pred             eeeEecCCCcccceEEecCCCCCCCc---cccccCCcceeeeeee
Q psy11633         25 NIFQQLSFFTQRPIFCIRNKCNRTEI---PFAVKVPRQFSLSVII   66 (127)
Q Consensus        25 aiFvqs~~f~q~pIf~i~~~cn~kns---efA~~Vp~gfs~~~~~   66 (127)
                      .+|+.  +-.+.|||+.+++||+.+.   ..++|||+|+++++|+
T Consensus        72 ~Vw~~--~~s~~~VFVqS~~~~~~~~~~~~~V~Kv~pg~~lKvFd  114 (171)
T smart00524       72 DVWLY--NRSDSPIFVQSPYLDEPGGRTLDTVHKLPPGYSIKVFD  114 (171)
T ss_pred             eEEEE--EcCCCCeEEcCCCcccccCCCCcceEEECCCCeEEEeC
Confidence            44443  5568899999999997532   3667999999999985

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	127
1khu_A	218	Smad1 Crystal Structure Reveals The Details Of Bmp		5e-27
3gmj_D	245	Crystal Structure Of Mad Mh2 Domain Length = 245		3e-26
3dit_A	188	Crystal Structure Of Mad Mh2 Domain Length = 188		2e-22
1mk2_A	206	Smad3 Sbd Complex Length = 206		3e-21
1mjs_A	197	Mh2 Domain Of Transcriptional Factor Smad3 Length =		3e-21
1khx_A	227	Crystal Structure Of A Phosphorylated Smad2 Length		3e-20
1u7f_A	198	Crystal Structure Of The Phosphorylated Smad3SMAD4		3e-20
1u7v_A	198	Crystal Structure Of The Phosphorylated Smad2SMAD4		3e-20
1dev_A	196	Crystal Structure Of Smad2 Mh2 Domain Bound To The		3e-18
1mr1_A	235	Crystal Structure Of A Smad4-Ski Complex Length = 2		7e-12
1u7v_B	236	Crystal Structure Of The Phosphorylated Smad2SMAD4		7e-12
1u7f_B	239	Crystal Structure Of The Phosphorylated Smad3SMAD4		8e-12
1ygs_A	234	Crystal Structure Of The Smad4 Tumor Suppressor C-T		8e-12
1dd1_A	268	Crystal Structure Analysis Of The Smad4 Active Frag		9e-12
1g88_A	268	S4afl3arg515 Mutant Length = 268		5e-11

>pdb|1KHU|A Chain A, Smad1 Crystal Structure Reveals The Details Of Bmp Signaling Pathway Length = 218

Iteration: 1
 Score =  115 bits (289), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 51/53 (96%), Positives = 51/53 (96%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 166 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 218

>pdb|3GMJ|D Chain D, Crystal Structure Of Mad Mh2 Domain Length = 245

Iteration: 1
 Score =  113 bits (283), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 50/53 (94%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH  ISSVS
Sbjct: 193 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNAISSVS 245

>pdb|3DIT|A Chain A, Crystal Structure Of Mad Mh2 Domain Length = 188

Iteration: 1
 Score =  100 bits (249), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 43/44 (97%), Positives = 43/44 (97%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGS 118
           RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGS
Sbjct: 145 RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGS 188

>pdb|1MK2|A Chain A, Smad3 Sbd Complex Length = 206

Iteration: 1
 Score = 96.7 bits (239), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 44/53 (83%), Positives = 46/53 (86%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP    SSVS
Sbjct: 154 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSIRCSSVS 206

>pdb|1MJS|A Chain A, Mh2 Domain Of Transcriptional Factor Smad3 Length = 197

Iteration: 1
 Score = 96.7 bits (239), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 44/53 (83%), Positives = 46/53 (86%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP    SSVS
Sbjct: 145 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSIRCSSVS 197

>pdb|1KHX|A Chain A, Crystal Structure Of A Phosphorylated Smad2 Length = 227

Iteration: 1
 Score = 93.6 bits (231), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 40/45 (88%), Positives = 42/45 (93%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSP 119
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP
Sbjct: 175 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSP 219

>pdb|1U7F|A Chain A, Crystal Structure Of The Phosphorylated Smad3SMAD4 Heterotrimeric Complex Length = 198

Iteration: 1
 Score = 93.6 bits (231), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 40/45 (88%), Positives = 42/45 (93%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSP 119
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP
Sbjct: 146 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSP 190

>pdb|1U7V|A Chain A, Crystal Structure Of The Phosphorylated Smad2SMAD4 Heterotrimeric Complex Length = 198

Iteration: 1
 Score = 93.2 bits (230), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 40/45 (88%), Positives = 42/45 (93%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSP 119
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP
Sbjct: 146 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSP 190

>pdb|1DEV|A Chain A, Crystal Structure Of Smad2 Mh2 Domain Bound To The Smad- Binding Domain Of Sara Length = 196

Iteration: 1
 Score = 86.7 bits (213), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 37/42 (88%), Positives = 39/42 (92%)
Query: 75  RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QM
Sbjct: 155 RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQM 196

>pdb|1MR1|A Chain A, Crystal Structure Of A Smad4-Ski Complex Length = 235

Iteration: 1
 Score = 65.5 bits (158), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 30/46 (65%), Positives = 34/46 (73%)
Query: 71  VLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           + I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 181 LCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 226

>pdb|1U7V|B Chain B, Crystal Structure Of The Phosphorylated Smad2SMAD4 Heterotrimeric Complex Length = 236

Iteration: 1
 Score = 65.5 bits (158), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 30/46 (65%), Positives = 34/46 (73%)
Query: 71  VLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           + I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 185 LCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 230

>pdb|1U7F|B Chain B, Crystal Structure Of The Phosphorylated Smad3SMAD4 Heterotrimeric Complex Length = 239

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 30/46 (65%), Positives = 34/46 (73%)
Query: 71  VLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           + I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 185 LCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 230

>pdb|1YGS|A Chain A, Crystal Structure Of The Smad4 Tumor Suppressor C-Terminal Domain Length = 234

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 30/46 (65%), Positives = 34/46 (73%)
Query: 71  VLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           + I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 180 LCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 225

>pdb|1DD1|A Chain A, Crystal Structure Analysis Of The Smad4 Active Fragment Length = 268

Iteration: 1
 Score = 65.1 bits (157), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 30/46 (65%), Positives = 34/46 (73%)
Query: 71  VLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           + I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 214 LCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 259

>pdb|1G88|A Chain A, S4afl3arg515 Mutant Length = 268

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 29/46 (63%), Positives = 33/46 (71%)
Query: 71  VLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           + I RMSFVKGWG +Y  Q +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 214 LCILRMSFVKGWGPDYPSQSIKETPCWIEIHLHRALQLLDEVLHTM 259

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	127
3gmj_D	245	Protein mothers against DPP; MH2,SMAD,MAD, cytopla	3e-26
1khx_A	227	SMAD2; TGF-beta signaling, phosphorylation, recept	6e-26
1ygs_A	234	SMAD4; tumor suppressor C-terminal domain, TGF-bet	9e-23
1dd1_A	268	SMAD4; B-sheet sandwich helix-turn-helix, signalin	3e-22

>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental protein, nucleus, phosphoprotein, transcription; 2.80A {Drosophila melanogaster} Length = 245

 Score = 97.5 bits (242), Expect = 3e-26
 Identities = 50/55 (90%), Positives = 50/55 (90%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH  ISSVS
Sbjct: 191 TIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNAISSVS 245

>1khx_A SMAD2; TGF-beta signaling, phosphorylation, receptor kinase signaling, cancer, transcription; HET: SEP; 1.80A {Homo sapiens} SCOP: b.26.1.1 PDB: 1mk2_A 1u7v_A* 1dev_A 1u7f_A* 1mjs_A 1khu_A 3dit_A Length = 227

 Score = 96.4 bits (239), Expect = 6e-26
 Identities = 43/55 (78%), Positives = 46/55 (83%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 127
             RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP    SS+S
Sbjct: 173 TIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSVRCSSMS 227

>1ygs_A SMAD4; tumor suppressor C-terminal domain, TGF-beta signal mediator, beta-sandwich scaffold with A three-helix bundle, tumour suppressor; 2.10A {Homo sapiens} SCOP: b.26.1.1 PDB: 1u7f_B* 1mr1_A 1u7v_B* Length = 234

 Score = 88.0 bits (217), Expect = 9e-23
 Identities = 30/49 (61%), Positives = 33/49 (67%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQ 121
           I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M     
Sbjct: 182 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTMPIADP 230

>1dd1_A SMAD4; B-sheet sandwich helix-turn-helix, signaling protein; 2.62A {Homo sapiens} SCOP: b.26.1.1 PDB: 1g88_A Length = 268

 Score = 87.6 bits (216), Expect = 3e-22
 Identities = 30/49 (61%), Positives = 33/49 (67%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQ 121
           I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M     
Sbjct: 216 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTMPIADP 264

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	127
3gmj_D	245	Protein mothers against DPP; MH2,SMAD,MAD, cytopla	100.0
1khx_A	227	SMAD2; TGF-beta signaling, phosphorylation, recept	100.0
1ygs_A	234	SMAD4; tumor suppressor C-terminal domain, TGF-bet	100.0
1dd1_A	268	SMAD4; B-sheet sandwich helix-turn-helix, signalin	100.0

>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental protein, nucleus, phosphoprotein, transcription; 2.80A {Drosophila melanogaster}

Probab=100.00  E-value=1.2e-47  Score=311.32  Aligned_cols=112  Identities=54%  Similarity=0.832  Sum_probs=100.4

Q ss_pred             hhhhhhhccCCeeeEecCCCc------ccceEEecCCCCCC---Ccccc----ccCCcceeeeeeeeEEEeEEEEEEEee
Q psy11633         14 VQLFISLIQPSNIFQQLSFFT------QRPIFCIRNKCNRT---EIPFA----VKVPRQFSLSVIILWYFVLISRMSFVK   80 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~------q~pIf~i~~~cn~k---nsefA----~~Vp~gfs~~~~~~~~~~c~iRiSFvK   80 (127)
                      -+||++|+||++|||||++++      ...|++|+++|+.|   +.+|+    ..+.+||+..+.  +++||+|||||||
T Consensus       121 G~V~~~nlS~~~IFVqS~~~n~~~g~~~~tV~KI~pg~slKiFd~~~fa~~L~qs~~~g~~~v~~--L~~~CtiRiSFvK  198 (245)
T 3gmj_D          121 GEVYAECLSDSAIFVQSRNCNYQHGFHPSTVCKIPPGCSLKIFNNQEFAQLLSQSVNNGFEAVYE--LTKMCTIRMSFVK  198 (245)
T ss_dssp             TEEEEEECSSSCEEEEEHHHHHHTTCCTTCCEEECTTCEEEEECHHHHHHHHHHTTTTCSHHHHH--HGGGGEEEEEESS
T ss_pred             CEEEEEecCCCcEEECCCcccccCCCCccceEEeCCCCeEEEeCHHHHHHHHHHHhhcCCchhhh--hhhcceeeeEeec
Confidence            489999999999999998875      44599999999987   23454    377888887765  6899999999999


Q ss_pred             ecCCCcCcccccccceEEEEEecCchhHHHHHHHHhCCCCCCCCCCC
Q psy11633         81 GWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS  127 (127)
Q Consensus        81 GwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qmg~p~~~~~s~s  127 (127)
                      |||++|+||+||+||||||||||+||||||+||+|||+|.++|||||
T Consensus       199 GWG~~Y~Rq~ItstPCWiEI~L~~pLq~LD~vL~qmg~p~~~~ss~s  245 (245)
T 3gmj_D          199 GWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNAISSVS  245 (245)
T ss_dssp             CCSTTSSCCSGGGSSSEEEEEEHHHHHHHHHHHTSSCCCSSCCCSCC
T ss_pred             CcCcccccCCcccCCEEEEEEcChHHHHHHHHHHhcCCCCCCCCCCC
Confidence            99999999999999999999999999999999999999999999997

>1khx_A SMAD2; TGF-beta signaling, phosphorylation, receptor kinase signaling, cancer, transcription; HET: SEP; 1.80A {Homo sapiens} SCOP: b.26.1.1 PDB: 1mk2_A 1u7v_A* 1dev_A 1u7f_A* 1mjs_A 1khu_A 3dit_A

Probab=100.00  E-value=1.5e-44  Score=290.32  Aligned_cols=112  Identities=50%  Similarity=0.765  Sum_probs=96.7

Q ss_pred             hhhhhhhccCCeeeEecCCCcc------cceEEecCCCCCC---Ccccc----ccCCcceeeeeeeeEEEeEEEEEEEee
Q psy11633         14 VQLFISLIQPSNIFQQLSFFTQ------RPIFCIRNKCNRT---EIPFA----VKVPRQFSLSVIILWYFVLISRMSFVK   80 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~q------~pIf~i~~~cn~k---nsefA----~~Vp~gfs~~~~~~~~~~c~iRiSFvK   80 (127)
                      -+||++|+||++|||||+++++      .+|++|+|+|+.|   +.+|+    ..+.+||+..+.  ++++|+|||||||
T Consensus       103 G~V~~~nlS~~~IFVqS~~~n~~~~~~~~tV~Ki~pg~~lKvFd~~~fa~~L~~~~~~~~~~v~~--L~~~C~iRISFvK  180 (227)
T 1khx_A          103 GEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQEFAALLAQSVNQGFEAVYQ--LTRMCTIRMSFVK  180 (227)
T ss_dssp             TEEEEEECSSSCEEEECHHHHHHTTCCTTCCEEECTTCEEEEEEHHHHHHHHHHHGGGCHHHHHG--GGGGGEEEEEESC
T ss_pred             CEEEEEEcCCCCEEEeCCCcccccCCCcCceEEeCCCCeEEEeCHHHHHHHHHHHhccCCCchhh--hhhceEEEEEEEc
Confidence            3799999999999999988754      4588888888766   22333    356677765554  6789999999999


Q ss_pred             ecCCCcCcccccccceEEEEEecCchhHHHHHHHHhCCCCCCCCCCC
Q psy11633         81 GWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS  127 (127)
Q Consensus        81 GwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qmg~p~~~~~s~s  127 (127)
                      |||++|+||+||+||||||||||+||||||+||+||++|+++|||||
T Consensus       181 GWG~~Y~Rq~It~tPCWiEI~l~~pL~~ld~vl~~m~~p~~~~~s~~  227 (227)
T 1khx_A          181 GWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSVRCSSMS  227 (227)
T ss_dssp             CCSSSSSCCSGGGSSSEEEEEEHHHHHHHHHHHTTSCCCSSCCCSCC
T ss_pred             CCCCCCCCCCCCcCCeEEEEECCHHHHHHHHHHhhcCCCCCCCCCCC
Confidence            99999999999999999999999999999999999999999999997

>1ygs_A SMAD4; tumor suppressor C-terminal domain, TGF-beta signal mediator, beta-sandwich scaffold with A three-helix bundle, tumour suppressor; 2.10A {Homo sapiens} SCOP: b.26.1.1 PDB: 1u7f_B* 1mr1_A 1u7v_B*

Probab=100.00  E-value=4.8e-40  Score=264.68  Aligned_cols=106  Identities=34%  Similarity=0.576  Sum_probs=78.9

Q ss_pred             hhhhhhccCCeeeEecCCCccc-------ceEEecCCCCCCC---ccccc----------------------cCCc----
Q psy11633         15 QLFISLIQPSNIFQQLSFFTQR-------PIFCIRNKCNRTE---IPFAV----------------------KVPR----   58 (127)
Q Consensus        15 ~~f~~clsdsaiFvqs~~f~q~-------pIf~i~~~cn~kn---sefA~----------------------~Vp~----   58 (127)
                      +||++|+||++|||||++++..       +|++++|+|+.|-   ..|+.                      .++.    
T Consensus        78 ~Vw~~n~S~~~IFVqS~~ln~~~~~~p~~~V~Ki~pg~~lKvFd~~~f~~~l~~~~~~~q~~~~~~~a~~~g~~~~~~~~  157 (234)
T 1ygs_A           78 DVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLRQCHRQMQQQAATAQAAAAAQAAAVAGNIPGPGSV  157 (234)
T ss_dssp             EEEEEECSSSCEEEECHHHHHTTTCCTTCCCEEECTTCEEEEECHHHHHHHHHHHHHHHTC-------------------
T ss_pred             cEEEEecCCCCEEEcCCCccccccCCCCCcEEEeCCCCeEEEeCcHHHHHHHHHHhhhhhhhhhhhhhhhcccccccccc
Confidence            6999999999999999988643       6889999988761   12210                      1122    


Q ss_pred             -cee----e------eeeeeEEEeEEEEEEEeeecCCCcCcccccccceEEEEEecCchhHHHHHHHHhCCCCC
Q psy11633         59 -QFS----L------SVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQ  121 (127)
Q Consensus        59 -gfs----~------~~~~~~~~~c~iRiSFvKGwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qmg~p~~  121 (127)
                       |+.    +      .. ..+++||+||||||||||++|+||+||+||||||||||+||||||+||+|||+++.
T Consensus       158 ~g~~p~~~~~~~a~~~v-~~L~~~c~iRISFvKGWG~~Y~Rq~It~tPCWiEI~l~~~l~~ld~vl~~m~~~~~  230 (234)
T 1ygs_A          158 GGIAPAISLSAAAGIGV-DDLRRLCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTMPIADP  230 (234)
T ss_dssp             ----------------C-HHHHHTTEEEEESSCCCSTTSSCSSGGGSSSEEEEEEHHHHHHHHHHHHTC-----
T ss_pred             cCcccccccccccccch-hhhhhceEEEEEEEcCCCCCCCCCCCCCCCeEEEEEcCHHHHHHHHHHHhCCCCCC
Confidence             221    0      01 11457999999999999999999999999999999999999999999999999863

>1dd1_A SMAD4; B-sheet sandwich helix-turn-helix, signaling protein; 2.62A {Homo sapiens} SCOP: b.26.1.1 PDB: 1g88_A

Probab=100.00  E-value=1.1e-39  Score=267.53  Aligned_cols=107  Identities=35%  Similarity=0.555  Sum_probs=81.5

Q ss_pred             hhhhhhhccCCeeeEecCCCccc-------ceEEecCCCCCCC---cccc----------------------ccCCc---
Q psy11633         14 VQLFISLIQPSNIFQQLSFFTQR-------PIFCIRNKCNRTE---IPFA----------------------VKVPR---   58 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~q~-------pIf~i~~~cn~kn---sefA----------------------~~Vp~---   58 (127)
                      -+||++|+||++|||||++++..       +|++|+|+|+.|-   ..|.                      ..+|.   
T Consensus       111 G~Vwl~nlS~~~IFVqS~~ln~~~g~~p~~tV~KI~pg~~lKVFD~~~f~~~l~~~~~~~q~a~~~q~a~~~g~~~~~~~  190 (268)
T 1dd1_A          111 GDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLRQCHRQMQQQAATAQAAAAAQAAAVAGNIPGPGS  190 (268)
T ss_dssp             TEEEEEECSSSCEEEECHHHHHHHTCCTTCCEEEECTTCEEEEECHHHHHHHHHHHHHHHTTTTCC--------------
T ss_pred             CcEEEEecCCCCEEEcCCCccccccCCCCCcEEEeCCCCeEEEeccHHHHHHHHHHHHhhhhhhhhhhhhhccccCCccc
Confidence            36999999999999999998642       6999999998761   1110                      11222   


Q ss_pred             --ce----eee-----eeeeEEEeEEEEEEEeeecCCCcCcccccccceEEEEEecCchhHHHHHHHHhCCCC
Q psy11633         59 --QF----SLS-----VIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPH  120 (127)
Q Consensus        59 --gf----s~~-----~~~~~~~~c~iRiSFvKGwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qmg~p~  120 (127)
                        |+    ++.     .-..+++||+||||||||||++|+||+||+||||||||||+||||||+||+|||.++
T Consensus       191 ~~g~~p~~~~~~~a~~~v~~L~~~C~iRISFVKGWG~~Y~Rq~ItstPCWIEI~L~~pLq~LD~vl~~m~~~~  263 (268)
T 1dd1_A          191 VGGIAPAISLSAAAGIGVDDLRRLCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTMPIAD  263 (268)
T ss_dssp             ------------CCSCCHHHHHGGGEEEEEESCCCSTTSSCCSGGGSSSEEEEEEHHHHHHHHHHHHHSCC--
T ss_pred             ccccccccccccccccchhhhhhceeEEEEEEcCCCCCCCCCCCCcCCeEEEEEcCHHHHHHHHHHHhCCCCC
Confidence              22    000     001256799999999999999999999999999999999999999999999999986

---

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	127
d1mjsa_	190	b.26.1.1 (A:) Smad3 MH2 domain {Human (Homo sapien	1e-29
d1ygsa_	225	b.26.1.1 (A:) Smad4 tumor suppressor C-terminal do	2e-29

>d1mjsa_ b.26.1.1 (A:) Smad3 MH2 domain {Human (Homo sapiens) [TaxId: 9606]} Length = 190

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: SMAD domain
domain: Smad3 MH2 domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (259), Expect = 1e-29
 Identities = 40/47 (85%), Positives = 42/47 (89%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSP 119
             RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP
Sbjct: 143 TIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSP 189

>d1ygsa_ b.26.1.1 (A:) Smad4 tumor suppressor C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 225

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: SMAD domain
domain: Smad4 tumor suppressor C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (259), Expect = 2e-29
 Identities = 30/44 (68%), Positives = 33/44 (75%)

Query: 73  ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 116
           I RMSFVKGWG +Y RQ +  TPCWIEIHLH  LQ LD+VL  M
Sbjct: 182 ILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 225

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	127
d1mjsa_	190	Smad3 MH2 domain {Human (Homo sapiens) [TaxId: 960	100.0
d1ygsa_	225	Smad4 tumor suppressor C-terminal domain {Human (H	100.0

>d1mjsa_ b.26.1.1 (A:) Smad3 MH2 domain {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: SMAD domain
domain: Smad3 MH2 domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.3e-43  Score=273.65  Aligned_cols=105  Identities=51%  Similarity=0.807  Sum_probs=74.1

Q ss_pred             hhhhhhhccCCeeeEecCCCcccc------eEEecCCCCCC---Ccccc----ccCCcceeeeeeeeEEEeEEEEEEEee
Q psy11633         14 VQLFISLIQPSNIFQQLSFFTQRP------IFCIRNKCNRT---EIPFA----VKVPRQFSLSVIILWYFVLISRMSFVK   80 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~q~p------If~i~~~cn~k---nsefA----~~Vp~gfs~~~~~~~~~~c~iRiSFvK   80 (127)
                      -+|+++|+||++||||||++++..      |++++|+|+.|   ..+|+    ..+.++++....  ++++|+|||||||
T Consensus        73 g~Vw~~~lS~~~VFVqS~~l~~~~~~~~~~V~Kv~pg~~lKvFd~~~f~~~l~~~~~~~~~~~~~--l~~~c~iRISFvK  150 (190)
T d1mjsa_          73 GEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQEFAALLAQSVNQGFEAVYQ--LTRMCTIRMSFVK  150 (190)
T ss_dssp             TEEEEEECSSSCEEEECHHHHTC-----CCCEEECTTCEEEEECHHHHHHHHHHHHHHCHHHHHG--GGGGGEEEEEESC
T ss_pred             CeEEEEEecCCCEEEcCCCCCCcCCCCCCceEEeCCCCeEEeeChHHHHHHHHHHhccCCCCccc--cccceEEEEEEEc
Confidence            479999999999999999886543      44444444443   11122    122333333332  4679999999999


Q ss_pred             ecCCCcCcccccccceEEEEEecCchhHHHHHHHHhCCCC
Q psy11633         81 GWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPH  120 (127)
Q Consensus        81 GwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qmg~p~  120 (127)
                      |||++|+||+||+||||||||||+||||||+||+|||+|+
T Consensus       151 GWG~~Y~Rq~ItstPCWiEi~l~~pl~~ld~vL~~mg~p~  190 (190)
T d1mjsa_         151 GWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPS  190 (190)
T ss_dssp             CC-------CCTTSSSEEEEEEHHHHHHHHHHHHHTCCCC
T ss_pred             ccCCCccCCCCCcCCEEEEEecCChhHHHHHHHhhcCCCC
Confidence            9999999999999999999999999999999999999995

>d1ygsa_ b.26.1.1 (A:) Smad4 tumor suppressor C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All beta proteins
fold: SMAD/FHA domain
superfamily: SMAD/FHA domain
family: SMAD domain
domain: Smad4 tumor suppressor C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.8e-42  Score=274.27  Aligned_cols=102  Identities=34%  Similarity=0.568  Sum_probs=77.8

Q ss_pred             hhhhhhhccCCeeeEecCCCccc-------ceEEecCCCCCCCc---cccc------------------cC---------
Q psy11633         14 VQLFISLIQPSNIFQQLSFFTQR-------PIFCIRNKCNRTEI---PFAV------------------KV---------   56 (127)
Q Consensus        14 ~~~f~~clsdsaiFvqs~~f~q~-------pIf~i~~~cn~kns---efA~------------------~V---------   56 (127)
                      -+||++|+||++||||||++++.       +|++++|+|+.|-.   +|..                  .+         
T Consensus        77 G~Vw~~n~S~~pIFVqS~~l~~~~~~~p~~~V~Kv~pg~~lKvFd~~~~~~~l~~~~~~~~~a~~~~~~~~~~~~~~~~~  156 (225)
T d1ygsa_          77 GDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDLRQCHRQMQQQAATAQAAAAAQAAAVAGNIPGPGS  156 (225)
T ss_dssp             TEEEEEECSSSCEEEECHHHHHTTTCCTTCCCEEECTTCEEEEECHHHHHHHHHHHHHHHTC------------------
T ss_pred             CcEEEEecCCCCeEecCCccCCcCCcCCCccEEEcCCCCcEEecChHHHHHHHHHhhhhccchhhhhhhhcccccCCCcc
Confidence            36999999999999999888753       47778888776511   1100                  00         


Q ss_pred             Ccce----------eeeeeeeEEEeEEEEEEEeeecCCCcCcccccccceEEEEEecCchhHHHHHHHHh
Q psy11633         57 PRQF----------SLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM  116 (127)
Q Consensus        57 p~gf----------s~~~~~~~~~~c~iRiSFvKGwG~~Y~Rq~It~tPCWiEi~l~~plqwlD~Vl~qm  116 (127)
                      |.++          ...+ ..+++||+||||||||||++|+||+||+||||||||||+||||||+||+||
T Consensus       157 ~~~~~~~~~~~~~~~~~v-~~L~k~C~iRiSFvKGWG~~Y~Rq~ItstPCWiEi~L~~pl~~lD~vL~~m  225 (225)
T d1ygsa_         157 VGGIAPAISLSAAAGIGV-DDLRRLCILRMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM  225 (225)
T ss_dssp             -----------------C-HHHHHTTEEEEESSCCCSTTSSCSSGGGSSSEEEEEEHHHHHHHHHHHHTC
T ss_pred             ccccccccccccccccch-hhhheeeeEEEEEEcccCCCCcCCCcCcCCeEEEEEcchHHHHHHHHHhcC
Confidence            0000          0011 125689999999999999999999999999999999999999999999998