Psyllid ID: psy13847

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-
Protein Sequence
MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALSWGAEYR
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccHHHHHHHHHcccccccEEEccccccccccccccccccEEEEcccccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccHHHHHHHHccccccccEEEEcccccccEEEcccccccEEEEcccccc
Coil and Loop (DISEMBL)
mtslfpftppiVKKLlgwkkgdgedkySEKAVKSLVKKLKKSNGLDELEKAittqdpntkcvtiprlqfedlqqsgvcsspvalswgaeyr
Flexible Loop (DISEMBL)
mtslfpftppivkkllgwkkgdgedkysEKAVKSLVKklkksngldelekaittqdpntkcVTIPRLqfedlqqsgvcsspvalswgaeyr
Low Complexity Region (SEG)
MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAvkslvkklkksNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALSWGAEYR
Disordered region (IsUnstruct)
******FTPPIVKKLLGWK***************************************TKCVTIPRLQFEDLQQSGVCSSPVALS******
Disordered Region (DISOPRED)
*******TPPIVKKLLGWKK*****KYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALSWGAEYR
Disordered Region (DISEMBL)
MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALSWGAEYR
Disordered Region (DISPRO)
**SLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALSWGAEYR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALSWGAEYR
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]
P42003	455	Protein mothers against d	yes	N/A	0.725	0.145	0.626	2e-16
P84025	425	Mothers against decapenta	yes	N/A	0.725	0.155	0.739	3e-16
P84024	425	Mothers against decapenta	yes	N/A	0.725	0.155	0.739	3e-16
Q8BUN5	425	Mothers against decapenta	yes	N/A	0.725	0.155	0.739	3e-16
P84022	425	Mothers against decapenta	yes	N/A	0.725	0.155	0.739	3e-16
P84023	426	Mothers against decapenta	yes	N/A	0.725	0.154	0.739	4e-16
Q56I99	465	Mothers against decapenta	no	N/A	0.725	0.141	0.626	9e-14
Q5R6H7	465	Mothers against decapenta	no	N/A	0.725	0.141	0.626	1e-13
Q99717	465	Mothers against decapenta	no	N/A	0.725	0.141	0.626	1e-13
Q9R1V3	465	Mothers against decapenta	no	N/A	0.725	0.141	0.626	1e-13

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

 Score = 84.3 bits (207), Expect = 2e-16,   Method: Composition-based stats.
 Identities = 42/67 (62%), Positives = 53/67 (79%), Gaps = 1/67 (1%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNT 59
          + SLF FT P VKKLLGWK+GD E+K++EKAV SLVKKLKK  G ++ELE+A++     +
Sbjct: 17 LGSLFSFTSPAVKKLLGWKQGDEEEKWAEKAVDSLVKKLKKRKGAIEELERALSCPGQPS 76

Query: 60 KCVTIPR 66
          KCVTIPR
Sbjct: 77 KCVTIPR 83

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)

>sp|P84025|SMAD3_RAT Mothers against decapentaplegic homolog 3 OS=Rattus norvegicus GN=Smad3 PE=1 SV=1

 Score = 83.6 bits (205), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 51/69 (73%), Positives = 60/69 (86%), Gaps = 3/69 (4%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

Receptor-regulated SMAD (R-SMAD) that is an intracellular signal transducer and transcriptional modulator activated by TGF-beta (transforming growth factor) and activin type 1 receptor kinases. Binds the TRE element in the promoter region of many genes that are regulated by TGF-beta and, on formation of the SMAD3/SMAD4 complex, activates transcription. Also can form a SMAD3/SMAD4/JUN/FOS complex at the AP-1/SMAD site to regulate TGF-beta-mediated transcription. Has an inhibitory effect on wound healing probably by modulating both growth and migration of primary keratinocytes and by altering the TGF-mediated chemotaxis of monocytes. This effect on wound healing appears to be hormone-sensitive. Regulator of chondrogenesis and osteogenesis and inhibits early healing of bone fractures. Positively regulates PDPK1 kinase activity by stimulating its dissociation from the 14-3-3 protein YWHAQ which acts as a negative regulator.

Rattus norvegicus (taxid: 10116)

>sp|P84024|SMAD3_PIG Mothers against decapentaplegic homolog 3 OS=Sus scrofa GN=SMAD3 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 51/69 (73%), Positives = 60/69 (86%), Gaps = 3/69 (4%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

Receptor-regulated SMAD (R-SMAD) that is an intracellular signal transducer and transcriptional modulator activated by TGF-beta (transforming growth factor) and activin type 1 receptor kinases. Binds the TRE element in the promoter region of many genes that are regulated by TGF-beta and, on formation of the SMAD3/SMAD4 complex, activates transcription. Also can form a SMAD3/SMAD4/JUN/FOS complex at the AP-1/SMAD site to regulate TGF-beta-mediated transcription. Has an inhibitory effect on wound healing probably by modulating both growth and migration of primary keratinocytes and by altering the TGF-mediated chemotaxis of monocytes. This effect on wound healing appears to be hormone-sensitive. Regulator of chondrogenesis and osteogenesis and inhibits early healing of bone fractures. Positively regulates PDPK1 kinase activity by stimulating its dissociation from the 14-3-3 protein YWHAQ which acts as a negative regulator.

Sus scrofa (taxid: 9823)

>sp|Q8BUN5|SMAD3_MOUSE Mothers against decapentaplegic homolog 3 OS=Mus musculus GN=Smad3 PE=1 SV=2

 Score = 83.6 bits (205), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 51/69 (73%), Positives = 60/69 (86%), Gaps = 3/69 (4%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

Receptor-regulated SMAD (R-SMAD) that is an intracellular signal transducer and transcriptional modulator activated by TGF-beta (transforming growth factor) and activin type 1 receptor kinases. Binds the TRE element in the promoter region of many genes that are regulated by TGF-beta and, on formation of the SMAD3/SMAD4 complex, activates transcription. Also can form a SMAD3/SMAD4/JUN/FOS complex at the AP-1/SMAD site to regulate TGF-beta-mediated transcription. Has an inhibitory effect on wound healing probably by modulating both growth and migration of primary keratinocytes and by altering the TGF-mediated chemotaxis of monocytes. This effect on wound healing appears to be hormone-sensitive. Regulator of chondrogenesis and osteogenesis and inhibits early healing of bone fractures. Positively regulates PDPK1 kinase activity by stimulating its dissociation from the 14-3-3 protein YWHAQ which acts as a negative regulator.

Mus musculus (taxid: 10090)

>sp|P84022|SMAD3_HUMAN Mothers against decapentaplegic homolog 3 OS=Homo sapiens GN=SMAD3 PE=1 SV=1

 Score = 83.6 bits (205), Expect = 3e-16,   Method: Composition-based stats.
 Identities = 51/69 (73%), Positives = 60/69 (86%), Gaps = 3/69 (4%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

Receptor-regulated SMAD (R-SMAD) that is an intracellular signal transducer and transcriptional modulator activated by TGF-beta (transforming growth factor) and activin type 1 receptor kinases. Binds the TRE element in the promoter region of many genes that are regulated by TGF-beta and, on formation of the SMAD3/SMAD4 complex, activates transcription. Also can form a SMAD3/SMAD4/JUN/FOS complex at the AP-1/SMAD site to regulate TGF-beta-mediated transcription. Has an inhibitory effect on wound healing probably by modulating both growth and migration of primary keratinocytes and by altering the TGF-mediated chemotaxis of monocytes. This effect on wound healing appears to be hormone-sensitive. Regulator of chondrogenesis and osteogenesis and inhibits early healing of bone fractures (By similarity). Positively regulates PDPK1 kinase activity by stimulating its dissociation from the 14-3-3 protein YWHAQ which acts as a negative regulator.

Homo sapiens (taxid: 9606)

>sp|P84023|SMAD3_CHICK Mothers against decapentaplegic homolog 3 OS=Gallus gallus GN=SMAD3 PE=2 SV=1

 Score = 83.6 bits (205), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 51/69 (73%), Positives = 60/69 (86%), Gaps = 3/69 (4%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNI 60

Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

Transcriptional modulator activated by TGF-beta (transforming growth factor) and activin type 1 receptor kinase. SMAD3 is a receptor-regulated SMAD (R-SMAD).

Gallus gallus (taxid: 9031)

>sp|Q56I99|SMAD5_CHICK Mothers against decapentaplegic homolog 5 OS=Gallus gallus GN=SMAD5 PE=2 SV=1

 Score = 75.5 bits (184), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 42/67 (62%), Positives = 54/67 (80%), Gaps = 1/67 (1%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNT 59
          M SLF FT P VK+LLGWK+GD E+K++EKAV +LVKKLKK  G ++ELEKA+++    +
Sbjct: 4  MASLFSFTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSSPGQPS 63

Query: 60 KCVTIPR 66
          KCVTIPR
Sbjct: 64 KCVTIPR 70

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD5 is a receptor-regulated SMAD (R-SMAD).

Gallus gallus (taxid: 9031)

>sp|Q5R6H7|SMAD5_PONAB Mothers against decapentaplegic homolog 5 OS=Pongo abelii GN=SMAD5 PE=2 SV=1

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 42/67 (62%), Positives = 54/67 (80%), Gaps = 1/67 (1%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNT 59
          M SLF FT P VK+LLGWK+GD E+K++EKAV +LVKKLKK  G ++ELEKA+++    +
Sbjct: 4  MASLFSFTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSSPGQPS 63

Query: 60 KCVTIPR 66
          KCVTIPR
Sbjct: 64 KCVTIPR 70

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD5 is a receptor-regulated SMAD (R-SMAD).

Pongo abelii (taxid: 9601)

>sp|Q99717|SMAD5_HUMAN Mothers against decapentaplegic homolog 5 OS=Homo sapiens GN=SMAD5 PE=1 SV=1

 Score = 75.1 bits (183), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 42/67 (62%), Positives = 54/67 (80%), Gaps = 1/67 (1%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNT 59
          M SLF FT P VK+LLGWK+GD E+K++EKAV +LVKKLKK  G ++ELEKA+++    +
Sbjct: 4  MASLFSFTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSSPGQPS 63

Query: 60 KCVTIPR 66
          KCVTIPR
Sbjct: 64 KCVTIPR 70

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD5 is a receptor-regulated SMAD (R-SMAD).

Homo sapiens (taxid: 9606)

>sp|Q9R1V3|SMAD5_RAT Mothers against decapentaplegic homolog 5 OS=Rattus norvegicus GN=Smad5 PE=2 SV=1

 Score = 74.7 bits (182), Expect = 1e-13,   Method: Composition-based stats.
 Identities = 42/67 (62%), Positives = 54/67 (80%), Gaps = 1/67 (1%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNT 59
          M SLF FT P VK+LLGWK+GD E+K++EKAV +LVKKLKK  G ++ELEKA+++    +
Sbjct: 4  MASLFSFTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSSPGQPS 63

Query: 60 KCVTIPR 66
          KCVTIPR
Sbjct: 64 KCVTIPR 70

Transcriptional modulator activated by BMP (bone morphogenetic proteins) type 1 receptor kinase. SMAD5 is a receptor-regulated SMAD (R-SMAD).

Rattus norvegicus (taxid: 10116)

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
269785013	420	Smad2/3 transcription factor [Saccogloss	0.725	0.157	0.772	3e-22
260826197	425	hypothetical protein BRAFLDRAFT_278811 [	0.725	0.155	0.848	3e-19
348505900	425	PREDICTED: mothers against decapentapleg	0.703	0.150	0.716	5e-19
432861628	425	PREDICTED: mothers against decapentapleg	0.703	0.150	0.716	1e-18
241119204	145	conserved hypothetical protein [Ixodes s	0.725	0.455	0.787	3e-17
399932273	423	Smad3 [Tegillarca granosa]	0.725	0.156	0.797	4e-16
312385231	2976	hypothetical protein AND_01020 [Anophele	0.714	0.021	0.594	4e-16
443725757	451	hypothetical protein CAPTEDRAFT_167863 [	0.725	0.146	0.794	5e-16
380027084	479	PREDICTED: mothers against decapentapleg	0.725	0.137	0.805	1e-15
350425181	479	PREDICTED: mothers against decapentapleg	0.725	0.137	0.805	1e-15

>gi|269785013|ref|NP_001161658.1| Smad2/3 transcription factor [Saccoglossus kowalevskii] gi|268054327|gb|ACY92650.1| Smad2/3 transcription factor [Saccoglossus kowalevskii]

 Score =  108 bits (271), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 51/66 (77%), Positives = 60/66 (90%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTK 60
          M+S+ PFTPPIVK+LLGWKKGD EDK+SEKAVKSLVK+LKK+  LDELEK+I+ QD +TK
Sbjct: 1  MSSMLPFTPPIVKRLLGWKKGDSEDKWSEKAVKSLVKRLKKTGSLDELEKSISNQDASTK 60

Query: 61 CVTIPR 66
          CVTIPR
Sbjct: 61 CVTIPR 66

Source: Saccoglossus kowalevskii

Species: Saccoglossus kowalevskii

Genus: Saccoglossus

Family: Harrimaniidae

Class: Enteropneusta

Phylum: Hemichordata

Superkingdom: Eukaryota

>gi|260826197|ref|XP_002608052.1| hypothetical protein BRAFLDRAFT_278811 [Branchiostoma floridae] gi|229293402|gb|EEN64062.1| hypothetical protein BRAFLDRAFT_278811 [Branchiostoma floridae]

 Score = 99.0 bits (245), Expect = 3e-19,   Method: Composition-based stats.
 Identities = 56/66 (84%), Positives = 63/66 (95%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTK 60
          MTS+ PFTPPIVK+LLGWKKG+GEDK+SEKAVKSLVKKLKK+ GL+ELEK+IT QDPNTK
Sbjct: 1  MTSMLPFTPPIVKRLLGWKKGEGEDKWSEKAVKSLVKKLKKTCGLEELEKSITQQDPNTK 60

Query: 61 CVTIPR 66
          CVTIPR
Sbjct: 61 CVTIPR 66

Source: Branchiostoma floridae

Species: Branchiostoma floridae

Genus: Branchiostoma

Family: Branchiostomidae

Phylum: Chordata

Superkingdom: Eukaryota

>gi|348505900|ref|XP_003440498.1| PREDICTED: mothers against decapentaplegic homolog 3-like isoform 1 [Oreochromis niloticus]

 Score = 98.6 bits (244), Expect = 5e-19,   Method: Composition-based stats.
 Identities = 48/67 (71%), Positives = 58/67 (86%), Gaps = 3/67 (4%)

Query: 3  SLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNT 59
          S+ PFTPP+VK+LLGWKKG+    E+K+ EKAVKSLVKKLK++  LDELEKAITTQ+ NT
Sbjct: 2  SILPFTPPVVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKRTGQLDELEKAITTQNVNT 61

Query: 60 KCVTIPR 66
          KC+TIPR
Sbjct: 62 KCLTIPR 68

Source: Oreochromis niloticus

Species: Oreochromis niloticus

Genus: Oreochromis

Family: Cichlidae

Order: Perciformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|432861628|ref|XP_004069659.1| PREDICTED: mothers against decapentaplegic homolog 3-like isoform 1 [Oryzias latipes]

 Score = 97.1 bits (240), Expect = 1e-18,   Method: Composition-based stats.
 Identities = 48/67 (71%), Positives = 57/67 (85%), Gaps = 3/67 (4%)

Query: 3  SLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNT 59
          S+ PFTPPIVK LLGWKKG+    E+K+ EKAVKSLVKKLK++  +DELEKAITTQ+ NT
Sbjct: 2  SILPFTPPIVKSLLGWKKGEQNGQEEKWCEKAVKSLVKKLKRTGQVDELEKAITTQNMNT 61

Query: 60 KCVTIPR 66
          KC+TIPR
Sbjct: 62 KCLTIPR 68

Source: Oryzias latipes

Species: Oryzias latipes

Genus: Oryzias

Family: Adrianichthyidae

Order: Beloniformes

Class: Actinopterygii

Phylum: Chordata

Superkingdom: Eukaryota

>gi|241119204|ref|XP_002402501.1| conserved hypothetical protein [Ixodes scapularis] gi|215493304|gb|EEC02945.1| conserved hypothetical protein [Ixodes scapularis]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/66 (78%), Positives = 62/66 (93%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTK 60
          M S+ PFTPP+VK+LLGWKKG+GEDK+SEKAVKSLVKKLKKS G+DELEK+I+TQD +TK
Sbjct: 1  MISILPFTPPVVKRLLGWKKGEGEDKWSEKAVKSLVKKLKKSGGIDELEKSISTQDVHTK 60

Query: 61 CVTIPR 66
          C+TIPR
Sbjct: 61 CITIPR 66

Source: Ixodes scapularis

Species: Ixodes scapularis

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|399932273|gb|AFP57672.1| Smad3 [Tegillarca granosa]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 55/69 (79%), Positives = 62/69 (89%), Gaps = 3/69 (4%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          MT+L PFTPPIVK+LLGWKKGD    EDK+SEKAVKSLVKKLKKS GLDELEK++TTQD 
Sbjct: 1  MTTLSPFTPPIVKRLLGWKKGDNNEREDKWSEKAVKSLVKKLKKSGGLDELEKSVTTQDS 60

Query: 58 NTKCVTIPR 66
          +TKC+TIPR
Sbjct: 61 STKCITIPR 69

Source: Tegillarca granosa

Species: Tegillarca granosa

Genus: Tegillarca

Family: Arcidae

Order: Arcoida

Class: Bivalvia

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|312385231|gb|EFR29783.1| hypothetical protein AND_01020 [Anopheles darlingi]

 Score = 88.6 bits (218), Expect = 4e-16,   Method: Composition-based stats.
 Identities = 41/69 (59%), Positives = 54/69 (78%), Gaps = 4/69 (5%)

Query: 2    TSLFPFTPPIVKKLLGWKKGDGED----KYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
            T + PF PPIVK+LLGW+K   +D    K+ EKAVKSL KK+KKS+ LDELE+A+TTQ+ 
Sbjct: 2444 TIMLPFNPPIVKRLLGWRKVPSDDTAEGKWGEKAVKSLAKKMKKSSALDELERALTTQNA 2503

Query: 58   NTKCVTIPR 66
            +TKC+ +PR
Sbjct: 2504 HTKCIPMPR 2512

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|443725757|gb|ELU13208.1| hypothetical protein CAPTEDRAFT_167863 [Capitella teleta]

 Score = 88.6 bits (218), Expect = 5e-16,   Method: Composition-based stats.
 Identities = 54/68 (79%), Positives = 62/68 (91%), Gaps = 2/68 (2%)

Query: 1  MTSLF-PFTPPIVKKLLGWKKGDG-EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPN 58
          MTS+  PFTPPIVK+LLGWK+GD  EDK+SEKAVKSLVKKLKK  GL+ELEK+I+TQDPN
Sbjct: 1  MTSMLAPFTPPIVKRLLGWKQGDDKEDKWSEKAVKSLVKKLKKGGGLEELEKSISTQDPN 60

Query: 59 TKCVTIPR 66
          TKC+TIPR
Sbjct: 61 TKCITIPR 68

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|380027084|ref|XP_003697263.1| PREDICTED: mothers against decapentaplegic homolog 3-like [Apis florea]

 Score = 87.4 bits (215), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 54/67 (80%), Positives = 59/67 (88%), Gaps = 1/67 (1%)

Query: 1  MTSLFP-FTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNT 59
          MTS+   F PPIVK+LLGWKK +GEDK+SEKAVKSLVKKLKKS GLDELEKAITTQ  NT
Sbjct: 1  MTSMLSSFNPPIVKRLLGWKKAEGEDKWSEKAVKSLVKKLKKSTGLDELEKAITTQSCNT 60

Query: 60 KCVTIPR 66
          KC+TIPR
Sbjct: 61 KCITIPR 67

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350425181|ref|XP_003494038.1| PREDICTED: mothers against decapentaplegic homolog 3-like [Bombus impatiens]

 Score = 87.0 bits (214), Expect = 1e-15,   Method: Composition-based stats.
 Identities = 54/67 (80%), Positives = 59/67 (88%), Gaps = 1/67 (1%)

Query: 1  MTSLFP-FTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNT 59
          MTS+   F PPIVK+LLGWKK +GEDK+SEKAVKSLVKKLKKS GLDELEKAITTQ  NT
Sbjct: 1  MTSMLSSFNPPIVKRLLGWKKAEGEDKWSEKAVKSLVKKLKKSTGLDELEKAITTQSCNT 60

Query: 60 KCVTIPR 66
          KC+TIPR
Sbjct: 61 KCITIPR 67

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

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
UNIPROTKB|F1PSQ3	425	SMAD2 "Uncharacterized protein	0.725	0.155	0.608	5.8e-18
UNIPROTKB|P84022	425	SMAD3 "Mothers against decapen	0.725	0.155	0.608	5.8e-18
UNIPROTKB|P84024	425	SMAD3 "Mothers against decapen	0.725	0.155	0.608	5.8e-18
MGI|MGI:1201674	425	Smad3 "SMAD family member 3" [	0.725	0.155	0.608	5.8e-18
RGD|3032	425	Smad3 "SMAD family member 3" [	0.725	0.155	0.608	5.8e-18
ZFIN|ZDB-GENE-000509-3	425	smad3a "MAD homolog 3a (Drosop	0.703	0.150	0.626	7.5e-18
UNIPROTKB|P84023	426	SMAD3 "Mothers against decapen	0.725	0.154	0.608	7.6e-18
ZFIN|ZDB-GENE-030128-4	423	smad3b "MAD, mothers against d	0.703	0.151	0.597	9.5e-17
UNIPROTKB|B7Z5N5	431	SMAD2 "cDNA FLJ50177, highly s	0.725	0.153	0.531	2.2e-15
UNIPROTKB|Q08DE0	437	SMAD2 "SMAD2 protein" [Bos tau	0.725	0.151	0.531	2.4e-15

UNIPROTKB|F1PSQ3 SMAD2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 204 (76.9 bits), Expect = 5.8e-18, Sum P(2) = 5.8e-18
 Identities = 42/69 (60%), Positives = 50/69 (72%)

Query:     1 MTSLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
             M+S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQ+ 
Sbjct:     1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query:    58 NTKCVTIPR 66
             NTKC+TIPR
Sbjct:    61 NTKCITIPR 69

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|P84022 SMAD3 "Mothers against decapentaplegic homolog 3" [Homo sapiens (taxid:9606)]

 Score = 204 (76.9 bits), Expect = 5.8e-18, Sum P(2) = 5.8e-18
 Identities = 42/69 (60%), Positives = 50/69 (72%)

Query:     1 MTSLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
             M+S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQ+ 
Sbjct:     1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query:    58 NTKCVTIPR 66
             NTKC+TIPR
Sbjct:    61 NTKCITIPR 69

GO:0048340 "paraxial mesoderm morphogenesis" evidence=IEA

GO:0048589 "developmental growth" evidence=IEA

GO:0048617 "embryonic foregut morphogenesis" evidence=IEA

GO:0048701 "embryonic cranial skeleton morphogenesis" evidence=IEA

GO:0050678 "regulation of epithelial cell proliferation" evidence=IEA

GO:0050728 "negative regulation of inflammatory response" evidence=IEA

GO:0050776 "regulation of immune response" evidence=IEA

GO:0050927 "positive regulation of positive chemotaxis" evidence=IEA

GO:0051098 "regulation of binding" evidence=IEA

GO:0051496 "positive regulation of stress fiber assembly" evidence=IEA

GO:0051894 "positive regulation of focal adhesion assembly" evidence=IEA

GO:0060039 "pericardium development" evidence=IEA

GO:0060290 "transdifferentiation" evidence=IEA

GO:0061045 "negative regulation of wound healing" evidence=IEA

GO:0070306 "lens fiber cell differentiation" evidence=IEA

GO:0001657 "ureteric bud development" evidence=IEA

GO:0001701 "in utero embryonic development" evidence=IEA

GO:0001707 "mesoderm formation" evidence=IEA

GO:0001756 "somitogenesis" evidence=IEA

GO:0001836 "release of cytochrome c from mitochondria" evidence=IEA

GO:0001889 "liver development" evidence=IEA

GO:0001947 "heart looping" evidence=IEA

GO:0002076 "osteoblast development" evidence=IEA

GO:0002520 "immune system development" evidence=IEA

GO:0003690 "double-stranded DNA binding" evidence=IEA

GO:0005518 "collagen binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0007492 "endoderm development" evidence=IEA

GO:0009880 "embryonic pattern specification" evidence=IEA

GO:0010694 "positive regulation of alkaline phosphatase activity" evidence=IEA

GO:0016202 "regulation of striated muscle tissue development" evidence=IEA

GO:0030335 "positive regulation of cell migration" evidence=IEA

GO:0030501 "positive regulation of bone mineralization" evidence=IEA

GO:0030878 "thyroid gland development" evidence=IEA

GO:0031490 "chromatin DNA binding" evidence=IEA

GO:0032332 "positive regulation of chondrocyte differentiation" evidence=IEA

GO:0032731 "positive regulation of interleukin-1 beta production" evidence=IEA

GO:0032916 "positive regulation of transforming growth factor beta3 production" evidence=IEA

GO:0033689 "negative regulation of osteoblast proliferation" evidence=IEA

GO:0042110 "T cell activation" evidence=IEA

GO:0043066 "negative regulation of apoptotic process" evidence=IEA

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005637 "nuclear inner membrane" evidence=IDA

GO:0043130 "ubiquitin binding" evidence=IDA

GO:0019902 "phosphatase binding" evidence=IPI

GO:0008270 "zinc ion binding" evidence=IDA

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=IMP;IDA;TAS

GO:0000988 "protein binding transcription factor activity" evidence=IDA

GO:0000987 "core promoter proximal region sequence-specific DNA binding" evidence=IDA

GO:0071141 "SMAD protein complex" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005667 "transcription factor complex" evidence=IDA

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

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IDA;TAS

GO:0019901 "protein kinase binding" evidence=IPI

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IMP;IDA;TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

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

GO:0006367 "transcription initiation from RNA polymerase II promoter" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0030512 "negative regulation of transforming growth factor beta receptor signaling pathway" evidence=TAS

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

GO:0005160 "transforming growth factor beta receptor binding" evidence=IPI

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

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

GO:0070412 "R-SMAD binding" evidence=IPI

GO:0008134 "transcription factor binding" evidence=IPI

GO:0044212 "transcription regulatory region DNA binding" evidence=IDA

GO:0031625 "ubiquitin protein ligase binding" evidence=IPI

GO:0030618 "transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity" evidence=IDA

GO:0031053 "primary miRNA processing" evidence=TAS

GO:0042060 "wound healing" evidence=TAS

GO:0006955 "immune response" evidence=IMP

GO:0019049 "evasion or tolerance of host defenses by virus" evidence=IDA

GO:0006917 "induction of apoptosis" evidence=IMP

GO:0043565 "sequence-specific DNA binding" evidence=IDA

GO:0017015 "regulation of transforming growth factor beta receptor signaling pathway" evidence=IMP

GO:0030308 "negative regulation of cell growth" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IPI

GO:0043235 "receptor complex" evidence=IMP

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=IMP

GO:0006810 "transport" evidence=IDA

GO:0007050 "cell cycle arrest" evidence=IMP

GO:0045930 "negative regulation of mitotic cell cycle" evidence=IMP

GO:0001666 "response to hypoxia" evidence=IMP

GO:0032909 "regulation of transforming growth factor beta2 production" evidence=IMP

GO:0042993 "positive regulation of transcription factor import into nucleus" evidence=IDA

GO:0001102 "RNA polymerase II activating transcription factor binding" evidence=IPI

GO:0032924 "activin receptor signaling pathway" evidence=IMP

GO:0038092 "nodal signaling pathway" evidence=IMP

GO:0010718 "positive regulation of epithelial to mesenchymal transition" evidence=IDA;IMP

GO:0045216 "cell-cell junction organization" evidence=IMP

GO:1901313 "positive regulation of gene expression involved in extracellular matrix organization" evidence=IMP

GO:0008013 "beta-catenin binding" evidence=IPI

GO:0050821 "protein stabilization" evidence=IMP

GO:0042177 "negative regulation of protein catabolic process" evidence=IMP

GO:0001933 "negative regulation of protein phosphorylation" evidence=IMP

GO:0035413 "positive regulation of catenin import into nucleus" evidence=IMP

GO:0090263 "positive regulation of canonical Wnt receptor signaling pathway" evidence=IMP

UNIPROTKB|P84024 SMAD3 "Mothers against decapentaplegic homolog 3" [Sus scrofa (taxid:9823)]

 Score = 204 (76.9 bits), Expect = 5.8e-18, Sum P(2) = 5.8e-18
 Identities = 42/69 (60%), Positives = 50/69 (72%)

Query:     1 MTSLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
             M+S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQ+ 
Sbjct:     1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query:    58 NTKCVTIPR 66
             NTKC+TIPR
Sbjct:    61 NTKCITIPR 69

GO:0071141 "SMAD protein complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0005667 "transcription factor complex" evidence=ISS

GO:0005634 "nucleus" evidence=ISS

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

GO:0000987 "core promoter proximal region sequence-specific DNA binding" evidence=ISS

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

GO:0046872 "metal ion binding" evidence=IEA

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

MGI|MGI:1201674 Smad3 "SMAD family member 3" [Mus musculus (taxid:10090)]

 Score = 204 (76.9 bits), Expect = 5.8e-18, Sum P(2) = 5.8e-18
 Identities = 42/69 (60%), Positives = 50/69 (72%)

Query:     1 MTSLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
             M+S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQ+ 
Sbjct:     1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query:    58 NTKCVTIPR 66
             NTKC+TIPR
Sbjct:    61 NTKCITIPR 69

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO;IDA

GO:0000987 "core promoter proximal region sequence-specific DNA binding" evidence=ISO

GO:0001102 "RNA polymerase II activating transcription factor binding" evidence=ISO

GO:0001501 "skeletal system development" evidence=IGI

GO:0001649 "osteoblast differentiation" evidence=IMP

GO:0001666 "response to hypoxia" evidence=ISO

GO:0001701 "in utero embryonic development" evidence=IGI

GO:0001707 "mesoderm formation" evidence=IMP

GO:0001756 "somitogenesis" evidence=IMP

GO:0001889 "liver development" evidence=IGI

GO:0001933 "negative regulation of protein phosphorylation" evidence=ISO

GO:0001947 "heart looping" evidence=IGI

GO:0002076 "osteoblast development" evidence=IGI

GO:0002520 "immune system development" evidence=IGI

GO:0003677 "DNA binding" evidence=ISO

GO:0003682 "chromatin binding" evidence=IDA

GO:0003690 "double-stranded DNA binding" evidence=IDA

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

GO:0005160 "transforming growth factor beta receptor binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005518 "collagen binding" evidence=IPI

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005637 "nuclear inner membrane" evidence=ISO

GO:0005667 "transcription factor complex" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO;IDA

GO:0005886 "plasma membrane" evidence=IDA

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

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

GO:0006366 "transcription from RNA polymerase II promoter" evidence=TAS

GO:0006810 "transport" evidence=ISO

GO:0006917 "induction of apoptosis" evidence=ISO

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=ISO

GO:0006955 "immune response" evidence=ISO

GO:0007050 "cell cycle arrest" evidence=ISO

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=ISO;IDA

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

GO:0007369 "gastrulation" evidence=IGI

GO:0007492 "endoderm development" evidence=IGI

GO:0008013 "beta-catenin binding" evidence=ISO

GO:0008134 "transcription factor binding" evidence=ISO;IPI

GO:0008270 "zinc ion binding" evidence=ISO

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

GO:0009880 "embryonic pattern specification" evidence=IGI

GO:0010694 "positive regulation of alkaline phosphatase activity" evidence=ISO

GO:0010718 "positive regulation of epithelial to mesenchymal transition" evidence=ISO

GO:0016202 "regulation of striated muscle tissue development" evidence=IDA

GO:0017015 "regulation of transforming growth factor beta receptor signaling pathway" evidence=ISO;IDA

GO:0019049 "evasion or tolerance of host defenses by virus" evidence=ISO

GO:0019899 "enzyme binding" evidence=ISO

GO:0019901 "protein kinase binding" evidence=ISO

GO:0019902 "phosphatase binding" evidence=ISO

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=ISO

GO:0030308 "negative regulation of cell growth" evidence=ISO

GO:0030335 "positive regulation of cell migration" evidence=ISO

GO:0030501 "positive regulation of bone mineralization" evidence=ISO

GO:0030618 "transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity" evidence=ISO

GO:0030878 "thyroid gland development" evidence=IGI

GO:0031490 "chromatin DNA binding" evidence=IDA

GO:0031625 "ubiquitin protein ligase binding" evidence=ISO

GO:0032332 "positive regulation of chondrocyte differentiation" evidence=IMP

GO:0032731 "positive regulation of interleukin-1 beta production" evidence=ISO

GO:0032909 "regulation of transforming growth factor beta2 production" evidence=ISO

GO:0032916 "positive regulation of transforming growth factor beta3 production" evidence=ISO

GO:0032924 "activin receptor signaling pathway" evidence=ISO

GO:0033689 "negative regulation of osteoblast proliferation" evidence=IMP

GO:0035413 "positive regulation of catenin import into nucleus" evidence=ISO

GO:0038092 "nodal signaling pathway" evidence=ISO

GO:0042110 "T cell activation" evidence=IMP

GO:0042177 "negative regulation of protein catabolic process" evidence=ISO

GO:0042803 "protein homodimerization activity" evidence=ISO

GO:0042993 "positive regulation of transcription factor import into nucleus" evidence=ISO

GO:0043066 "negative regulation of apoptotic process" evidence=ISO

GO:0043130 "ubiquitin binding" evidence=ISO

GO:0043234 "protein complex" evidence=ISO

GO:0043235 "receptor complex" evidence=ISO

GO:0043565 "sequence-specific DNA binding" evidence=ISO

GO:0044212 "transcription regulatory region DNA binding" evidence=ISO

GO:0045216 "cell-cell junction organization" evidence=ISO

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IGI

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

GO:0045930 "negative regulation of mitotic cell cycle" evidence=ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO;IGI;IDA

GO:0046332 "SMAD binding" evidence=ISO

GO:0046872 "metal ion binding" evidence=IEA

GO:0048340 "paraxial mesoderm morphogenesis" evidence=IMP

GO:0048589 "developmental growth" evidence=IGI

GO:0048617 "embryonic foregut morphogenesis" evidence=IGI

GO:0048701 "embryonic cranial skeleton morphogenesis" evidence=IGI

GO:0050678 "regulation of epithelial cell proliferation" evidence=IMP

GO:0050728 "negative regulation of inflammatory response" evidence=IMP

GO:0050776 "regulation of immune response" evidence=IMP

GO:0050821 "protein stabilization" evidence=ISO

GO:0050927 "positive regulation of positive chemotaxis" evidence=ISO

GO:0051098 "regulation of binding" evidence=IDA

GO:0051496 "positive regulation of stress fiber assembly" evidence=ISO

GO:0051894 "positive regulation of focal adhesion assembly" evidence=ISO

GO:0060039 "pericardium development" evidence=IGI

GO:0060290 "transdifferentiation" evidence=ISO

GO:0061045 "negative regulation of wound healing" evidence=IMP

GO:0070306 "lens fiber cell differentiation" evidence=IMP

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

GO:0070412 "R-SMAD binding" evidence=ISO

GO:0071141 "SMAD protein complex" evidence=ISO

GO:0090263 "positive regulation of canonical Wnt receptor signaling pathway" evidence=ISO

GO:0097296 "activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway" evidence=ISO

GO:1901313 "positive regulation of gene expression involved in extracellular matrix organization" evidence=ISO

RGD|3032 Smad3 "SMAD family member 3" [Rattus norvegicus (taxid:10116)]

 Score = 204 (76.9 bits), Expect = 5.8e-18, Sum P(2) = 5.8e-18
 Identities = 42/69 (60%), Positives = 50/69 (72%)

Query:     1 MTSLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
             M+S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQ+ 
Sbjct:     1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query:    58 NTKCVTIPR 66
             NTKC+TIPR
Sbjct:    61 NTKCITIPR 69

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO;IMP

GO:0000987 "core promoter proximal region sequence-specific DNA binding" evidence=ISO;ISS

GO:0000988 "protein binding transcription factor activity" evidence=IEA;ISO

GO:0001102 "RNA polymerase II activating transcription factor binding" evidence=IEA;ISO

GO:0001501 "skeletal system development" evidence=ISO

GO:0001649 "osteoblast differentiation" evidence=ISO

GO:0001657 "ureteric bud development" evidence=IEA

GO:0001666 "response to hypoxia" evidence=IEA;ISO

GO:0001701 "in utero embryonic development" evidence=IEA;ISO

GO:0001707 "mesoderm formation" evidence=IEA;ISO

GO:0001756 "somitogenesis" evidence=IEA;ISO

GO:0001889 "liver development" evidence=IEA;ISO

GO:0001933 "negative regulation of protein phosphorylation" evidence=IEA;ISO

GO:0001947 "heart looping" evidence=IEA;ISO

GO:0002076 "osteoblast development" evidence=IEA;ISO

GO:0002520 "immune system development" evidence=IEA;ISO

GO:0003677 "DNA binding" evidence=IDA

GO:0003682 "chromatin binding" evidence=ISO

GO:0003690 "double-stranded DNA binding" evidence=IEA;ISO

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

GO:0005160 "transforming growth factor beta receptor binding" evidence=IEA;ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005518 "collagen binding" evidence=IEA;ISO

GO:0005634 "nucleus" evidence=ISO;IDA

GO:0005637 "nuclear inner membrane" evidence=IEA;ISO

GO:0005667 "transcription factor complex" evidence=ISO;IDA

GO:0005737 "cytoplasm" evidence=ISO;IDA

GO:0005886 "plasma membrane" evidence=IEA;ISO

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

GO:0006810 "transport" evidence=IEA;ISO

GO:0006917 "induction of apoptosis" evidence=IEA;ISO

GO:0006919 "activation of cysteine-type endopeptidase activity involved in apoptotic process" evidence=ISO

GO:0006955 "immune response" evidence=IEA;ISO

GO:0007050 "cell cycle arrest" evidence=IEA;ISO

GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=ISO;IMP

GO:0007183 "SMAD protein complex assembly" evidence=ISO;IPI

GO:0007369 "gastrulation" evidence=ISO

GO:0007492 "endoderm development" evidence=IEA;ISO

GO:0008013 "beta-catenin binding" evidence=IEA;ISO

GO:0008134 "transcription factor binding" evidence=ISO;IDA;IPI

GO:0008270 "zinc ion binding" evidence=IEA;ISO

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

GO:0009880 "embryonic pattern specification" evidence=IEA;ISO

GO:0010694 "positive regulation of alkaline phosphatase activity" evidence=IDA

GO:0010718 "positive regulation of epithelial to mesenchymal transition" evidence=IEA;ISO

GO:0016202 "regulation of striated muscle tissue development" evidence=IEA;ISO

GO:0017015 "regulation of transforming growth factor beta receptor signaling pathway" evidence=IEA;ISO

GO:0019049 "evasion or tolerance of host defenses by virus" evidence=IEA;ISO

GO:0019899 "enzyme binding" evidence=IPI

GO:0019901 "protein kinase binding" evidence=IEA;ISO

GO:0019902 "phosphatase binding" evidence=IEA;ISO

GO:0023019 "signal transduction involved in regulation of gene expression" evidence=IMP

GO:0030308 "negative regulation of cell growth" evidence=IEA;ISO

GO:0030335 "positive regulation of cell migration" evidence=IMP

GO:0030501 "positive regulation of bone mineralization" evidence=IDA

GO:0030618 "transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity" evidence=IEA;ISO

GO:0030878 "thyroid gland development" evidence=IEA;ISO

GO:0031490 "chromatin DNA binding" evidence=IEA;ISO

GO:0031625 "ubiquitin protein ligase binding" evidence=IEA;ISO

GO:0032332 "positive regulation of chondrocyte differentiation" evidence=IEA;ISO

GO:0032731 "positive regulation of interleukin-1 beta production" evidence=IMP

GO:0032909 "regulation of transforming growth factor beta2 production" evidence=IEA;ISO

GO:0032916 "positive regulation of transforming growth factor beta3 production" evidence=IMP

GO:0032924 "activin receptor signaling pathway" evidence=ISO

GO:0033689 "negative regulation of osteoblast proliferation" evidence=IEA;ISO

GO:0035413 "positive regulation of catenin import into nucleus" evidence=IEA;ISO

GO:0038092 "nodal signaling pathway" evidence=IEA;ISO

GO:0042110 "T cell activation" evidence=IEA;ISO

GO:0042177 "negative regulation of protein catabolic process" evidence=IEA;ISO

GO:0042803 "protein homodimerization activity" evidence=IEA;ISO

GO:0042993 "positive regulation of transcription factor import into nucleus" evidence=IEA;ISO

GO:0043066 "negative regulation of apoptotic process" evidence=IDA

GO:0043130 "ubiquitin binding" evidence=IEA;ISO

GO:0043234 "protein complex" evidence=IDA

GO:0043235 "receptor complex" evidence=IEA;ISO

GO:0043565 "sequence-specific DNA binding" evidence=ISO;IDA

GO:0044212 "transcription regulatory region DNA binding" evidence=ISO

GO:0045216 "cell-cell junction organization" evidence=IEA;ISO

GO:0045668 "negative regulation of osteoblast differentiation" evidence=IEA;ISO

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

GO:0045930 "negative regulation of mitotic cell cycle" evidence=IEA;ISO

GO:0045944 "positive regulation of transcription from RNA polymerase II promoter" evidence=ISO;IDA;IMP

GO:0046332 "SMAD binding" evidence=IPI

GO:0048340 "paraxial mesoderm morphogenesis" evidence=IEA;ISO

GO:0048589 "developmental growth" evidence=IEA;ISO

GO:0048617 "embryonic foregut morphogenesis" evidence=IEA;ISO

GO:0048701 "embryonic cranial skeleton morphogenesis" evidence=IEA;ISO

GO:0050678 "regulation of epithelial cell proliferation" evidence=IEA;ISO

GO:0050728 "negative regulation of inflammatory response" evidence=IEA;ISO

GO:0050776 "regulation of immune response" evidence=IEA;ISO

GO:0050821 "protein stabilization" evidence=IEA;ISO

GO:0050927 "positive regulation of positive chemotaxis" evidence=IDA

GO:0051098 "regulation of binding" evidence=IEA;ISO

GO:0051496 "positive regulation of stress fiber assembly" evidence=IDA

GO:0051894 "positive regulation of focal adhesion assembly" evidence=IDA

GO:0060039 "pericardium development" evidence=IEA;ISO

GO:0060290 "transdifferentiation" evidence=IDA

GO:0061045 "negative regulation of wound healing" evidence=IEA;ISO

GO:0070306 "lens fiber cell differentiation" evidence=IEA;ISO

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

GO:0070412 "R-SMAD binding" evidence=IEA;ISO

GO:0071141 "SMAD protein complex" evidence=ISO;ISS

GO:0090263 "positive regulation of canonical Wnt receptor signaling pathway" evidence=IEA;ISO

GO:0097296 "activation of cysteine-type endopeptidase activity involved in apoptotic signaling pathway" evidence=IMP

GO:1901313 "positive regulation of gene expression involved in extracellular matrix organization" evidence=IEA;ISO

ZFIN|ZDB-GENE-000509-3 smad3a "MAD homolog 3a (Drosophila)" [Danio rerio (taxid:7955)]

 Score = 203 (76.5 bits), Expect = 7.5e-18, Sum P(2) = 7.5e-18
 Identities = 42/67 (62%), Positives = 48/67 (71%)

Query:     3 SLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDPNT 59
             S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQD NT
Sbjct:     2 SILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQDVNT 61

Query:    60 KCVTIPR 66
             KC+TIPR
Sbjct:    62 KCITIPR 68

GO:0005622 "intracellular" evidence=IEA

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

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

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

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

GO:0043565 "sequence-specific DNA binding" evidence=IPI

UNIPROTKB|P84023 SMAD3 "Mothers against decapentaplegic homolog 3" [Gallus gallus (taxid:9031)]

 Score = 203 (76.5 bits), Expect = 7.6e-18, Sum P(2) = 7.6e-18
 Identities = 42/69 (60%), Positives = 50/69 (72%)

Query:     1 MTSLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
             M+S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             LDELEKAITTQ+ 
Sbjct:     1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNI 60

Query:    58 NTKCVTIPR 66
             NTKC+TIPR
Sbjct:    61 NTKCITIPR 69

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

GO:0046872 "metal ion binding" evidence=IEA

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

GO:0000987 "core promoter proximal region sequence-specific DNA binding" evidence=ISS

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

GO:0005634 "nucleus" evidence=ISS

GO:0005667 "transcription factor complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISS

GO:0071141 "SMAD protein complex" evidence=ISS

ZFIN|ZDB-GENE-030128-4 smad3b "MAD, mothers against decapentaplegic homolog 3b (Drosophila)" [Danio rerio (taxid:7955)]

 Score = 193 (73.0 bits), Expect = 9.5e-17, Sum P(2) = 9.5e-17
 Identities = 40/67 (59%), Positives = 48/67 (71%)

Query:     3 SLFPFTPPIVKKLLGWKKGD--G-EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDPNT 59
             S+ PFTPPIVK+LLGWKKG+  G E+K+ EKA             L+ELEKAITTQ+ NT
Sbjct:     2 SILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLEELEKAITTQNINT 61

Query:    60 KCVTIPR 66
             KC+TIPR
Sbjct:    62 KCITIPR 68

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

GO:0005622 "intracellular" evidence=IEA

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

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

GO:0005667 "transcription factor complex" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

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

UNIPROTKB|B7Z5N5 SMAD2 "cDNA FLJ50177, highly similar to Mothers against decapentaplegic homolog 2(SMAD 2)" [Homo sapiens (taxid:9606)]

 Score = 181 (68.8 bits), Expect = 2.2e-15, Sum P(2) = 2.2e-15
 Identities = 42/79 (53%), Positives = 49/79 (62%)

Query:     1 MTSLFPFTPPIVKKLLGWKK---GDG----------EDKYSEKAXXXXXXXXXXXNGLDE 47
             M+S+ PFTPP+VK+LLGWKK   G G          E+K+ EKA             LDE
Sbjct:     1 MSSILPFTPPVVKRLLGWKKSAGGSGGAGGGEQNGQEEKWCEKAVKSLVKKLKKTGRLDE 60

Query:    48 LEKAITTQDPNTKCVTIPR 66
             LEKAITTQ+ NTKCVTIPR
Sbjct:    61 LEKAITTQNCNTKCVTIPR 79

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

GO:0005667 "transcription factor complex" evidence=IEA

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

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

UNIPROTKB|Q08DE0 SMAD2 "SMAD2 protein" [Bos taurus (taxid:9913)]

 Score = 181 (68.8 bits), Expect = 2.4e-15, Sum P(2) = 2.4e-15
 Identities = 42/79 (53%), Positives = 49/79 (62%)

Query:     1 MTSLFPFTPPIVKKLLGWKK---GDG----------EDKYSEKAXXXXXXXXXXXNGLDE 47
             M+S+ PFTPP+VK+LLGWKK   G G          E+K+ EKA             LDE
Sbjct:     1 MSSILPFTPPVVKRLLGWKKSAGGSGGAGGGEQNGQEEKWCEKAVKSLVKKLKKTGRLDE 60

Query:    48 LEKAITTQDPNTKCVTIPR 66
             LEKAITTQ+ NTKCVTIPR
Sbjct:    61 LEKAITTQNCNTKCVTIPR 79

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

---

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)
P84023	SMAD3_CHICK	No assigned EC number	0.7391	0.7252	0.1549	yes	N/A
Q8BUN5	SMAD3_MOUSE	No assigned EC number	0.7391	0.7252	0.1552	yes	N/A
P84024	SMAD3_PIG	No assigned EC number	0.7391	0.7252	0.1552	yes	N/A
P84025	SMAD3_RAT	No assigned EC number	0.7391	0.7252	0.1552	yes	N/A
P84022	SMAD3_HUMAN	No assigned EC number	0.7391	0.7252	0.1552	yes	N/A
P42003	MAD_DROME	No assigned EC number	0.6268	0.7252	0.1450	yes	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	91
cd10491	124	cd10491, MH1_SMAD_2_3, N-terminal Mad Homology 1 (	8e-33
cd10488	123	cd10488, MH1_R-SMAD, N-terminal Mad Homology 1 (MH	7e-23
cd10490	124	cd10490, MH1_SMAD_1_5_9, N-terminal Mad Homology 1	1e-22
cd00049	121	cd00049, MH1, N-terminal Mad Homology 1 (MH1) doma	9e-20
pfam03165	103	pfam03165, MH1, MH1 domain	2e-10
smart00523	109	smart00523, DWA, Domain A in dwarfin family protei	4e-10
cd10492	125	cd10492, MH1_SMAD_4, N-terminal Mad Homology 1 (MH	7e-09

>gnl|CDD|199815 cd10491, MH1_SMAD_2_3, N-terminal Mad Homology 1 (MH1) domain in SMAD2 and SMAD3

 Score =  109 bits (275), Expect = 8e-33
 Identities = 48/61 (78%), Positives = 55/61 (90%), Gaps = 2/61 (3%)

Query: 8  TPPIVKKLLGWKKG--DGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIP 65
          TPP+VK+LLGWKKG    E+K+SEKAVKSLVKKLKK+ GLDELEKAITTQ+ NTKC+TIP
Sbjct: 1  TPPVVKRLLGWKKGENGQEEKWSEKAVKSLVKKLKKTGGLDELEKAITTQNSNTKCITIP 60

Query: 66 R 66
          R
Sbjct: 61 R 61

The MH1 is a small DNA-binding domain present in SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. MH1 binds to the DNA major groove in an unusual manner via a beta hairpin structure. It negatively regulates the functions of the MH2 domain, the C-terminal domain of SMAD. This MH1 is found in SMAD2 as well as SMAD3. SMAD2 mediates the signal of the transforming growth factor (TGF)-beta, and thereby regulates multiple cellular processes, such as cell proliferation, apoptosis, and differentiation. It plays a role in the transmission of extracellular signals from ligands of the TGF-beta superfamily growth factors into the cell nucleus. SMAD3 modulates signals of activin and TGF-beta. It binds SMAD4, enabling its transmigration into the nucleus where it forms complexes with other proteins and acts as a transcription factor. Increased SMAD3 activity has been implicated in the pathogenesis of scleroderma. Length = 124

>gnl|CDD|199812 cd10488, MH1_R-SMAD, N-terminal Mad Homology 1 (MH1) domain of receptor regulated SMADs

 Score = 84.5 bits (209), Expect = 7e-23
 Identities = 43/60 (71%), Positives = 51/60 (85%), Gaps = 3/60 (5%)

Query: 10 PIVKKLLGWKKG---DGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPR 66
          PIVK+LLGWKKG     E+K++EKAVKSLVKKLKK   L+ELEKAI+TQ+ NT+CVTIPR
Sbjct: 1  PIVKRLLGWKKGEQNGEEEKWAEKAVKSLVKKLKKKGQLEELEKAISTQNVNTRCVTIPR 60

The MH1 is a small DNA-binding domain present in SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. It binds to the major groove in an unusual manner via a beta hairpin structure. It negatively regulates the functions of the MH2 domain, the C-terminal domain of SMAD. This MH1 domain is found in all receptor regulated SMADs (R-SMADs) including 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. SMAD4, a common mediator SMAD (co-SMAD) binds R-SMADs, forming an oligomeric complex that binds to DNA and serves as a transcription factor. SMAD5 is involved in bone morphogenetic proteins (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 (MSCs) into tendon-like cells by inhibiting the osteogenic pathway. Length = 123

>gnl|CDD|199814 cd10490, MH1_SMAD_1_5_9, N-terminal Mad Homology 1 (MH1) domain in SMAD1, SMAD5 and SMAD9 (also known as SMAD8)

 Score = 84.1 bits (208), Expect = 1e-22
 Identities = 40/61 (65%), Positives = 49/61 (80%), Gaps = 1/61 (1%)

Query: 7  FTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNTKCVTIP 65
          FT P VK+LLGWK+GD E+K++EKAV SLVKKLKK  G L+ELEKA++     +KCVTIP
Sbjct: 1  FTSPAVKRLLGWKQGDEEEKWAEKAVDSLVKKLKKKKGALEELEKALSCPGQPSKCVTIP 60

Query: 66 R 66
          R
Sbjct: 61 R 61

The MH1 is a small DNA-binding domain present in SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. MH1 binds to the DNA major groove in an unusual manner via a beta hairpin structure. It negatively regulates the functions of the MH2 domain, the C-terminal domain of SMAD. This MH1 domain is found in SMAD1, SMAD5 and SMAD9, all closely related 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 bone morphogenetic proteins (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 = 124

>gnl|CDD|199811 cd00049, MH1, N-terminal Mad Homology 1 (MH1) domain

 Score = 76.5 bits (188), Expect = 9e-20
 Identities = 42/68 (61%), Positives = 51/68 (75%), Gaps = 1/68 (1%)

Query: 10 PIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP-NTKCVTIPRLQ 68
          PIVK+LLGWK+G  E+K+++KAVKSLVKKLK+   LD LEKAITTQ    +KCVTIPR  
Sbjct: 1  PIVKRLLGWKQGGEEEKWAKKAVKSLVKKLKEKKQLDSLEKAITTQGGVPSKCVTIPRSL 60

Query: 69 FEDLQQSG 76
             LQ + 
Sbjct: 61 DGRLQVAH 68

The MH1 is a small DNA-binding domain present in SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. MH1 binds to the DNA major groove in an unusual manner via a beta hairpin structure. It negatively regulates the functions of the MH2 domain, the C-terminal domain of SMAD. Receptor-regulated SMAD proteins (R-SMADs, including SMAD1, SMAD2, SMAD3, SMAD5, and SMAD9) are activated by phosphorylation by transforming growth factor (TGF)-beta type I receptors. The active R-SMAD associates with a common mediator SMAD (Co-SMAD or SMAD4) and other cofactors, which together translocate to the nucleus to regulate gene expression. The inhibitory or antagonistic SMADs (I-SMADs, including SMAD6 and SMAD7) negatively regulate TGF-beta signaling by competing with R-SMADs for type I receptor or Co-SMADs. MH1 domains of R-SMAD and SMAD4 contain a nuclear localization signal as well as DNA-binding activity. The activated R-SMAD/SMAD4 complex then binds with very low affinity to a DNA sequence CAGAC called SMAD-binding element (SBE) via the MH1 domain. Length = 121

>gnl|CDD|217397 pfam03165, MH1, MH1 domain

 Score = 52.4 bits (126), Expect = 2e-10
 Identities = 27/50 (54%), Positives = 35/50 (70%), Gaps = 2/50 (4%)

Query: 29 EKAVKSLVKKLKKSNG-LDELEKAITTQ-DPNTKCVTIPRLQFEDLQQSG 76
          +KAV+SL+KKLKK    L+ELE A+ ++  P TKCVTIPR     LQ +G
Sbjct: 2  KKAVESLLKKLKKKKQQLEELELAVESRGGPPTKCVTIPRSLDGRLQVAG 51

The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related proteins such as Smads. This domain is separated from the MH2 domain by a non-conserved linker region. The crystal structure of the MH1 domain shows that a highly conserved 11 residue beta hairpin is used to bind the DNA consensus sequence GNCN in the major groove, shown to be vital for the transcriptional activation of target genes. Not all examples of MH1 can bind to DNA however. Smad2 cannot bind DNA and has a large insertion within the hairpin that presumably abolishes DNA binding. A basic helix (H2) in MH1 with the nuclear localisation signal KKLKK has been shown to be essential for Smad3 nuclear import. Smads also use the MH1 domain to interact with transcription factors such as Jun, TFE3, Sp1, and Runx. Length = 103

>gnl|CDD|214708 smart00523, DWA, Domain A in dwarfin family proteins

 Score = 51.6 bits (124), Expect = 4e-10
 Identities = 24/55 (43%), Positives = 37/55 (67%), Gaps = 2/55 (3%)

Query: 23 GEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQ-DPNTKCVTIPRLQFEDLQQSG 76
           E+K+++KA +SL+KKLKK   L+EL +A+ ++  P T+CV IPR     LQ + 
Sbjct: 1  VEEKWAKKATESLLKKLKK-KQLEELLQAVESKGGPPTRCVLIPRSLDGRLQVAH 54

Length = 109

>gnl|CDD|199816 cd10492, MH1_SMAD_4, N-terminal Mad Homology 1 (MH1) domain in SMAD4

 Score = 48.6 bits (116), Expect = 7e-09
 Identities = 25/58 (43%), Positives = 39/58 (67%), Gaps = 2/58 (3%)

Query: 11 IVKKLLGWKKGDGEDKYSEKAVKSLVKKLK-KSNGLDELEKAITTQDPN-TKCVTIPR 66
          IV  L+  ++G   + ++++A++SLVKKLK K + LD L  AIT+   + +KCVTI R
Sbjct: 6  IVHSLMCHRQGGESESFAKRAIESLVKKLKDKRDELDSLITAITSNGAHPSKCVTIQR 63

The MH1 is a small DNA-binding domain present in SMAD (small mothers against decapentaplegic) family of proteins, which are signal transducers and transcriptional modulators that mediate multiple signaling pathways. MH1 binds to the DNA major groove in an unusual manner via a beta hairpin structure. It negatively regulates the functions of the MH2 domain, the C-terminal domain of SMAD. This MH1 belongs to SMAD4, a common mediator SMAD (co-SMAD), which belongs to the Dwarfin family of proteins and is involved in many cell functions such as differentiation, apoptosis, gastrulation, embryonic development and 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 and pancreatic carcinoma, as well as in juvenile polyposis syndrome (JPS). Length = 125

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	91
KOG3701|consensus	411		99.97
cd00049	121	MH1 MH1 is a small DNA binding domain, binding in	99.96
smart00523	109	DWA Domain A in dwarfin family proteins.	99.92
PF03165	103	MH1: MH1 domain; InterPro: IPR003619 Mammalian dwa	99.89
PF07624	76	PSD2: Protein of unknown function (DUF1585); Inter	84.32

>KOG3701|consensus

Probab=99.97  E-value=2.3e-32  Score=223.27  Aligned_cols=86  Identities=44%  Similarity=0.611  Sum_probs=82.7

Q ss_pred             CCCCCCCCHHHHHHHhhhcc-CCCcchhHHHHHHHHHHHhhhc-CcHHHHHHHHhcCCC-CCcceeecccccccccccCc
Q psy13847          1 MTSLFPFTPPIVKKLLGWKK-GDGEDKYSEKAVKSLVKKLKKS-NGLDELEKAITTQDP-NTKCVTIPRLQFEDLQQSGV   77 (91)
Q Consensus         1 ~~~~~~~~~~~Vk~LL~wkq-g~eeek~aeKAIkSLVKKLKk~-~~le~Le~Altt~~~-~tkCVTIpRslDGRLQVs~r   77 (91)
                      ++++++|+.|+|+.||+|+| |++||+|++||++|||||||++ +.||+|++||++++. +++||||||+|||||||+||
T Consensus         1 ~~~~~~~~~p~v~~~~~~r~~~~~~e~~~~ka~~slvkklk~~~~~le~l~~av~s~g~~~~~CvtiprslD~Rlq~~~r   80 (411)
T KOG3701|consen    1 TSSLLPFTGPAVKDLLGPRQLGGEDEKFAEKAVESLVKKLKDKKGELENLIKAVESPGTKPTGCVTIPRSLDGRLQVAHR   80 (411)
T ss_pred             CCcccCCCCcchhhccCccccCchhHHHHHHHHHHHHHHhhcccchHHHHHHHhcCCCCCCCceEECCCCCCccccccCC
Confidence            57899999999999999999 9999999999999999999998 899999999999995 69999999999999999999


Q ss_pred             CCCceEEee
Q psy13847         78 CSSPVALSW   86 (91)
Q Consensus        78 KglPhviy~   86 (91)
                      ||||||||-
T Consensus        81 kg~Phviy~   89 (411)
T KOG3701|consen   81 KGFPHVIYC   89 (411)
T ss_pred             CCCCceEEE
Confidence            999999994

>cd00049 MH1 MH1 is a small DNA binding domain, binding in an unusal way involving a beta hairpin structure binding to the major groove

Probab=99.96  E-value=1.9e-29  Score=178.01  Aligned_cols=76  Identities=46%  Similarity=0.632  Sum_probs=71.9

Q ss_pred             HHHHHHhhhcc-CCCcchhHHHHHHHHHHHhhhcCcHHHHHHHHhcCC-CCCcceeecccccccccccCcCCCceEEee
Q psy13847         10 PIVKKLLGWKK-GDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQD-PNTKCVTIPRLQFEDLQQSGVCSSPVALSW   86 (91)
Q Consensus        10 ~~Vk~LL~wkq-g~eeek~aeKAIkSLVKKLKk~~~le~Le~Altt~~-~~tkCVTIpRslDGRLQVs~rKglPhviy~   86 (91)
                      ++|++||+|+| |+++|+|++||++|||||||++.++|+|++||+++| .+|+||||||+ |||||++||+++|||+|-
T Consensus         1 ~~~~~ll~~~~~~~~~e~~~~k~~~sLlKkLKk~~~le~L~~AV~s~g~~~t~CV~i~r~-D~rl~~~~r~~~phv~~c   78 (121)
T cd00049           1 ALVKRLLGEKKIGGEEEKWKKKAAESLLKKLKKKIQLEELEDAVESRGGPPTRCVLIPRS-DGRLQVSHRKGLPHVIYC   78 (121)
T ss_pred             ChhHHhhcccccCcchHHHHHHHHHHHHHHHhcccCHHHHHHHHHcCCCCCCCeEEeccc-cccccccccCCCcceEEE
Confidence            47999999999 899999999999999999999779999999999998 56999999999 999999999999999993

MH1 is present in Smad proteins, an important family of proteins involved in TGF-beta signalling and frequent targets of tumorigenic mutations. Also known as Domain A in dwarfin family proteins.

>smart00523 DWA Domain A in dwarfin family proteins

Probab=99.92  E-value=1.2e-25  Score=156.44  Aligned_cols=63  Identities=41%  Similarity=0.543  Sum_probs=60.0

Q ss_pred             CcchhHHHHHHHHHHHhhhcCcHHHHHHHHhcCC-CCCcceeecccccccccccCcCCCceEEee
Q psy13847         23 GEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQD-PNTKCVTIPRLQFEDLQQSGVCSSPVALSW   86 (91)
Q Consensus        23 eeek~aeKAIkSLVKKLKk~~~le~Le~Altt~~-~~tkCVTIpRslDGRLQVs~rKglPhviy~   86 (91)
                      .+|+|++||++|||||||++ ++|+|++||+++| .+|+||||||++|||||||+|+++|||||-
T Consensus         1 ~~ek~~~k~~~sL~KklK~k-~le~L~~AV~s~g~~~t~CV~i~~~~dgrl~~~~~~~~phvi~c   64 (109)
T smart00523        1 VEEKWAKKATESLLKKLKKK-QLEELLQAVESKGGPPTRCVLIPRSLDGRLQVAHRKGLPHVLYC   64 (109)
T ss_pred             CcHHHHHHHHHHHHHHHHHH-HHHHHHHHHHcCCCCCCCeEEeCcccCcccccccCCCCCcEEEE
Confidence            47899999999999999997 9999999999999 689999999999999999999999999983

>PF03165 MH1: MH1 domain; InterPro: IPR003619 Mammalian dwarfins are phosphorylated in response to transforming growth factor beta and are implicated in control of cell growth []

Probab=99.89  E-value=1.9e-24  Score=148.48  Aligned_cols=58  Identities=53%  Similarity=0.662  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHhhhc-CcHHHHHHHHhcCC-CCCcceeecccccccccccCcCCCceEEe
Q psy13847         28 SEKAVKSLVKKLKKS-NGLDELEKAITTQD-PNTKCVTIPRLQFEDLQQSGVCSSPVALS   85 (91)
Q Consensus        28 aeKAIkSLVKKLKk~-~~le~Le~Altt~~-~~tkCVTIpRslDGRLQVs~rKglPhviy   85 (91)
                      .+|||+|||||||++ +++|+|++||+++| .+|+||||||++||||||++++++|||||
T Consensus         1 ~~k~~~sLlkkLK~~~~~le~L~~Av~s~g~~~t~CV~i~r~~dgrl~v~~~k~~phvl~   60 (103)
T PF03165_consen    1 CEKAIKSLLKKLKKKIGQLEELLKAVESRGDPPTKCVTIPRSLDGRLQVSGRKGLPHVLY   60 (103)
T ss_dssp             HHHHHHHHHHHHTTTCTHHHHHHHHHHCTTTSTS---EEE--TTS-EEETTEEE-HHHHH
T ss_pred             ChHHHHHHHHHHccccchHHHHHHHHhcCCCCCCCcEEecCccCccccccccccCceEEE
Confidence            489999999999998 89999999999886 89999999999999999999999999998

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 MH1 (MAD homology 1) domain is found at the amino terminus of MAD related proteins such as Smads. This domain is separated from the MH2 domain by a non-conserved linker region. The crystal structure of the MH1 domain shows that a highly conserved 11 residue beta hairpin is used to bind the DNA consensus sequence GNCN in the major groove, shown to be vital for the transcriptional activation of target genes. Not all examples of MH1 can bind to DNA however. Smad2 cannot bind DNA and has a large insertion within the hairpin that presumably abolishes DNA binding. A basic helix (H2) in MH1 with the nuclear localisation signal KKLKK has been shown to be essential for Smad3 nuclear import. Smads also use the MH1 domain to interact with transcription factors such as Jun, TFE3, Sp1, and Runx [, , ].; GO: 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3QSV_A 1MHD_A 1OZJ_A 3KMP_B.

>PF07624 PSD2: Protein of unknown function (DUF1585); InterPro: IPR011478 This entry represents a conserved region at the C terminus of a family of cytochrome-like proteins found in bacteria such as Rhodopirellula baltica and Solibacter usitatus

Probab=84.32  E-value=2.8  Score=26.69  Aligned_cols=49  Identities=24%  Similarity=0.297  Sum_probs=41.8

Q ss_pred             CCHHHHHHHhhhccCCCcchhHHHHHHHHHHHhhhc-CcHHHHHHHHhcC
Q psy13847          7 FTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKS-NGLDELEKAITTQ   55 (91)
Q Consensus         7 ~~~~~Vk~LL~wkqg~eeek~aeKAIkSLVKKLKk~-~~le~Le~Altt~   55 (91)
                      |....+++||.|--|.+.+---+.+|+.++.+++.. ..+.+|..+|.+.
T Consensus        23 ~~~~~~~kl~~YAlGR~~~~~D~~~i~~i~~~~~~~~y~~~~Li~~iv~S   72 (76)
T PF07624_consen   23 FARCFAEKLLTYALGRPLEFSDRCEIDRIVEAFKANGYRLRDLILAIVTS   72 (76)
T ss_pred             HHHHHHHHHHHHHcCCCCCcchHHHHHHHHHHHHHcCCCHHHHHHHHHcC
Confidence            455678999999999888777888999999999998 6799999988664

These proteins also contain IPR013036 from INTERPRO, IPR013039 from INTERPRO, IPR013042 from INTERPRO and IPR013043 from INTERPRO.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	91
1mhd_A	132	Crystal Structure Of A Smad Mh1 Domain Bound To Dna		1e-16
1ozj_A	144	Crystal Structure Of Smad3-mh1 Bound To Dna At 2.4		1e-16
3kmp_A	124	Crystal Structure Of Smad1-Mh1DNA COMPLEX Length =		5e-09

>pdb|1MHD|A Chain A, Crystal Structure Of A Smad Mh1 Domain Bound To Dna Length = 132

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/69 (59%), Positives = 49/69 (71%), Gaps = 3/69 (4%)
Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKA             LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60
Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

>pdb|1OZJ|A Chain A, Crystal Structure Of Smad3-mh1 Bound To Dna At 2.4 A Resolution Length = 144

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 41/69 (59%), Positives = 49/69 (71%), Gaps = 3/69 (4%)
Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAXXXXXXXXXXXNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKA             LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60
Query: 58 NTKCVTIPR 66
          NTKC+TIPR
Sbjct: 61 NTKCITIPR 69

>pdb|3KMP|A Chain A, Crystal Structure Of Smad1-Mh1DNA COMPLEX Length = 124

Iteration: 1
 Score = 56.2 bits (134), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 29/61 (47%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 7  FTPPIVKKLLGWKKGDGEDKYSEKAXXXXXXXXXXXNG-LDELEKAITTQDPNTKCVTIP 65
          FT P VK+LLGWK+GD E+K++EKA            G ++ELEKA++     + CVTIP
Sbjct: 1  FTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSCPGQPSNCVTIP 60
Query: 66 R 66
          R
Sbjct: 61 R 61
  Database: pdbaa

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	91
1ozj_A	144	SMAD 3; MAD homology domain 1, DNA recognition, TG	2e-29
3kmp_A	124	SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH	2e-25
3qsv_A	132	SMAD4, mothers against decapentaplegic homolog 4;	4e-21
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04

>1ozj_A SMAD 3; MAD homology domain 1, DNA recognition, TGF-beta signaling, zinc-binding module, transcription/DNA complex; 2.40A {Homo sapiens} SCOP: d.164.1.1 PDB: 1mhd_A* Length = 144

 Score =  101 bits (252), Expect = 2e-29
 Identities = 55/84 (65%), Positives = 64/84 (76%), Gaps = 3/84 (3%)

Query: 1  MTSLFPFTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDP 57
          M+S+ PFTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ 
Sbjct: 1  MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNV 60

Query: 58 NTKCVTIPRLQFEDLQQSGVCSSP 81
          NTKC+TIPR     LQ S     P
Sbjct: 61 NTKCITIPRSLDGRLQVSHRKGLP 84

>3kmp_A SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH1 domain, beta hairpin, nucleus, transcription; 2.70A {Mus musculus} Length = 124

 Score = 90.4 bits (224), Expect = 2e-25
 Identities = 41/76 (53%), Positives = 52/76 (68%), Gaps = 1/76 (1%)

Query: 7  FTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPNTKCVTIP 65
          FT P VK+LLGWK+GD E+K++EKAV +LVKKLKK  G ++ELEKA++     + CVTIP
Sbjct: 1  FTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSCPGQPSNCVTIP 60

Query: 66 RLQFEDLQQSGVCSSP 81
          R     LQ S     P
Sbjct: 61 RSLDGRLQVSHRKGLP 76

>3qsv_A SMAD4, mothers against decapentaplegic homolog 4; MH1, transcription factor, DNA binding; HET: DNA; 2.71A {Mus musculus} Length = 132

 Score = 79.6 bits (196), Expect = 4e-21
 Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 2/74 (2%)

Query: 10 PIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKSNG-LDELEKAITTQDPN-TKCVTIPRL 67
           IV  L+  ++G   + ++++A++SLVKKLK+    LD L  AITT   + +KCVTI R 
Sbjct: 10 SIVHSLMCHRQGGESETFAKRAIESLVKKLKEKKDELDSLITAITTNGAHPSKCVTIQRT 69

Query: 68 QFEDLQQSGVCSSP 81
              LQ +G    P
Sbjct: 70 LDGRLQVAGRKGFP 83

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

 Score = 37.5 bits (86), Expect = 2e-04
 Identities = 18/74 (24%), Positives = 25/74 (33%), Gaps = 16/74 (21%)

Query: 3   SLFPFTPPIVKKLLG--WKKGDGEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTK 60
           S+FP +  I   LL   W      D      V  L K       L  +EK      P   
Sbjct: 379 SVFPPSAHIPTILLSLIWFDVIKSD--VMVVVNKLHKY-----SL--VEK-----QPKES 424

Query: 61  CVTIPRLQFEDLQQ 74
            ++IP +  E   +
Sbjct: 425 TISIPSIYLELKVK 438

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	91
1ozj_A	144	SMAD 3; MAD homology domain 1, DNA recognition, TG	100.0
3kmp_A	124	SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH	100.0
3qsv_A	132	SMAD4, mothers against decapentaplegic homolog 4;	100.0

>1ozj_A SMAD 3; MAD homology domain 1, DNA recognition, TGF-beta signaling, zinc-binding module, transcription/DNA complex; 2.40A {Homo sapiens} SCOP: d.164.1.1 PDB: 1mhd_A*

Probab=100.00  E-value=1.4e-40  Score=239.97  Aligned_cols=86  Identities=64%  Similarity=0.910  Sum_probs=77.0

Q ss_pred             CCCCCCCCHHHHHHHhhhccCC---CcchhHHHHHHHHHHHhhhcCcHHHHHHHHhcCCCCCcceeecccccccccccCc
Q psy13847          1 MTSLFPFTPPIVKKLLGWKKGD---GEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGV   77 (91)
Q Consensus         1 ~~~~~~~~~~~Vk~LL~wkqg~---eeek~aeKAIkSLVKKLKk~~~le~Le~Altt~~~~tkCVTIpRslDGRLQVs~r   77 (91)
                      |++||+|++|+||+||||+||+   +||+|++|||+|||||||++++||+|++||+++|.+|+||||||+|||||||+||
T Consensus         1 ~~~~~~~~~~~v~~ll~~~~~~~~~~~e~~~~kai~sLvKkLK~~~~Le~L~~AV~s~g~~t~CV~iprsldgRlqv~~r   80 (144)
T 1ozj_A            1 MSSILPFTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNVNTKCITIPRSLDGRLQVSHR   80 (144)
T ss_dssp             ------CCCHHHHHHHTSCCCSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHCCTTSCCCEEECCTTSCEEETTE
T ss_pred             CCccccCCcHHHHHHHhhhccCCCcchHHHHHHHHHHHHHHhcccccHHHHHHHHhCCCCCCCeEEcccCCCccccccCc
Confidence            7899999999999999999665   8999999999999999999779999999999999899999999999999999999


Q ss_pred             CCCceEEee
Q psy13847         78 CSSPVALSW   86 (91)
Q Consensus        78 KglPhviy~   86 (91)
                      ||+|||||-
T Consensus        81 k~~PHVi~c   89 (144)
T 1ozj_A           81 KGLPHVIYC   89 (144)
T ss_dssp             EECHHHHHH
T ss_pred             cCCCeeEEE
Confidence            999999983

>3kmp_A SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH1 domain, beta hairpin, nucleus, transcription; 2.70A {Mus musculus} SCOP: d.164.1.1

Probab=100.00  E-value=1.4e-39  Score=229.43  Aligned_cols=79  Identities=51%  Similarity=0.767  Sum_probs=77.2

Q ss_pred             CCHHHHHHHhhhccCCCcchhHHHHHHHHHHHhhh-cCcHHHHHHHHhcCCCCCcceeecccccccccccCcCCCceEEe
Q psy13847          7 FTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKK-SNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVALS   85 (91)
Q Consensus         7 ~~~~~Vk~LL~wkqg~eeek~aeKAIkSLVKKLKk-~~~le~Le~Altt~~~~tkCVTIpRslDGRLQVs~rKglPhviy   85 (91)
                      ||||+|++||||+||++||+|++|||+|||||||+ +++||+|++||++++.+|+||||||++||||||+||||+|||||
T Consensus         1 ~~~~~v~~ll~~~~~~~~~~~~~kav~sL~KklK~~~~~Le~L~~Av~~~~~~s~CV~ipr~ldgrlqv~~~k~~Phvi~   80 (124)
T 3kmp_A            1 FTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSCPGQPSNCVTIPRSLDGRLQVSHRKGLPHVIY   80 (124)
T ss_dssp             CCCHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHTTSTTHHHHHHHHHHCTTSCCCCCEEECCSSSCEEETTEEECHHHHH
T ss_pred             CCchhhhHHhhhhcCCchhhHHHHHHHHHHHHHHhccchHHHHHHHHhCCCCCCCeEEeccccccccccCCcccCceeeE
Confidence            68999999999999999999999999999999999 49999999999999999999999999999999999999999998

>3qsv_A SMAD4, mothers against decapentaplegic homolog 4; MH1, transcription factor, DNA binding; HET: DNA; 2.71A {Mus musculus}

Probab=100.00  E-value=6.7e-39  Score=228.38  Aligned_cols=82  Identities=35%  Similarity=0.457  Sum_probs=78.9

Q ss_pred             CCCCCHHHHHHHhhhccCCCcchhHHHHHHHHHHHhhhc-CcHHHHHHHHhcCC-CCCcceeecccccccccccCcCCCc
Q psy13847          4 LFPFTPPIVKKLLGWKKGDGEDKYSEKAVKSLVKKLKKS-NGLDELEKAITTQD-PNTKCVTIPRLQFEDLQQSGVCSSP   81 (91)
Q Consensus         4 ~~~~~~~~Vk~LL~wkqg~eeek~aeKAIkSLVKKLKk~-~~le~Le~Altt~~-~~tkCVTIpRslDGRLQVs~rKglP   81 (91)
                      ...|++|+|++|||||||+|||+|++|||+|||||||++ ++||+|++||++++ .+|+||||||++||||||+||||+|
T Consensus         4 ~~~~~~~~v~~Ll~~k~g~e~ek~~~ka~~sLvKkLK~k~~~Le~L~~Av~s~g~~~s~CV~ipr~ldgrlqv~~rk~~P   83 (132)
T 3qsv_A            4 SNDACLSIVHSLMCHRQGGESETFAKRAIESLVKKLKEKKDELDSLITAITTNGAHPSKCVTIQRTLDGRLQVAGRKGFP   83 (132)
T ss_dssp             CSSCHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTTSSCCCCCEEECCTTSCEEETTEEECH
T ss_pred             cccCcchhhhhhhccccCchhHHHHHHHHHHHHHHHhcccchHHHHHHHHhCCCCCCCCeEEeeccccccccccccccCc
Confidence            455899999999999999999999999999999999997 89999999999998 7999999999999999999999999


Q ss_pred             eEEe
Q psy13847         82 VALS   85 (91)
Q Consensus        82 hviy   85 (91)
                      ||||
T Consensus        84 Hvi~   87 (132)
T 3qsv_A           84 HVIY   87 (132)
T ss_dssp             HHHH
T ss_pred             ceeE
Confidence            9998

---

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
d1ozja_	126	d.164.1.1 (A:) SMAD MH1 domain {Human (Homo sapien	2e-28

>d1ozja_ d.164.1.1 (A:) SMAD MH1 domain {Human (Homo sapiens) [TaxId: 9606]} Length = 126

class: Alpha and beta proteins (a+b)
fold: SMAD MH1 domain
superfamily: SMAD MH1 domain
family: SMAD MH1 domain
domain: SMAD MH1 domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 96.8 bits (241), Expect = 2e-28
 Identities = 52/78 (66%), Positives = 59/78 (75%), Gaps = 3/78 (3%)

Query: 7  FTPPIVKKLLGWKKGDG---EDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVT 63
          FTPPIVK+LLGWKKG+    E+K+ EKAVKSLVKKLKK+  LDELEKAITTQ+ NTKC+T
Sbjct: 1  FTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNVNTKCIT 60

Query: 64 IPRLQFEDLQQSGVCSSP 81
          IPR     LQ S     P
Sbjct: 61 IPRSLDGRLQVSHRKGLP 78

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	91
d1ozja_	126	SMAD MH1 domain {Human (Homo sapiens) [TaxId: 9606	100.0

>d1ozja_ d.164.1.1 (A:) SMAD MH1 domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: SMAD MH1 domain
superfamily: SMAD MH1 domain
family: SMAD MH1 domain
domain: SMAD MH1 domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.7e-40  Score=229.97  Aligned_cols=79  Identities=66%  Similarity=0.909  Sum_probs=77.2

Q ss_pred             CCHHHHHHHhhhccCC---CcchhHHHHHHHHHHHhhhcCcHHHHHHHHhcCCCCCcceeecccccccccccCcCCCceE
Q psy13847          7 FTPPIVKKLLGWKKGD---GEDKYSEKAVKSLVKKLKKSNGLDELEKAITTQDPNTKCVTIPRLQFEDLQQSGVCSSPVA   83 (91)
Q Consensus         7 ~~~~~Vk~LL~wkqg~---eeek~aeKAIkSLVKKLKk~~~le~Le~Altt~~~~tkCVTIpRslDGRLQVs~rKglPhv   83 (91)
                      ||||+|+||||||||+   |||+|++|||+||||||||++++|+|++|++++|.+|+|||||||+|||+||+||||+|||
T Consensus         1 ~~~~~v~rll~~k~g~~~~eee~~~~kAi~sLvKkLKk~~~le~L~~Av~s~g~~t~CV~Iprsldgrl~v~~rk~~Phv   80 (126)
T d1ozja_           1 FTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKTGQLDELEKAITTQNVNTKCITIPRSLDGRLQVSHRKGLPHV   80 (126)
T ss_dssp             CCCHHHHHHHTSCCCSCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHCCTTSCCCEEECCTTSCEEETTEEECHHH
T ss_pred             CCcHHHHHHHHhhccCCCcchHHHHHHHHHHHHHHHhccchHHHHHHHHHCCCCCCCCEEeecCCCccccccCCCCCCee
Confidence            8999999999999986   7999999999999999999899999999999999999999999999999999999999999


Q ss_pred             Ee
Q psy13847         84 LS   85 (91)
Q Consensus        84 iy   85 (91)
                      ||
T Consensus        81 i~   82 (126)
T d1ozja_          81 IY   82 (126)
T ss_dssp             HH
T ss_pred             EE
Confidence            98