Psyllid ID: psy11998

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-----
MGFKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
cccEEEEEEEccEEEEcccccccccccccccccccEEEEEEEEEccccccEEEEEccEEEEEEcccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccEEEEEEccEEEEEccccccEEEccccccccccccccEEEcccccEEccccccccccccccccccccccccccEEEEEcEEccccccccccccccccEEEEEEccccc
cccEEEEEccEEEccccccccccccccccccccccEEEEEEEEEcccccEEEEccccEEEEEEcccccccEEEcEcccccccccccccccccHHHHHHHHHHcccEEcccccccccccccccccccccccccccccccEEEEEccccEEEEEcccccEEEEccccccccccccEEEEcccccEEEEEcHHHHHHHHHcccccccccccccEEEEEcccccccccccccHHHcccEEEEEEEEccc
MGFKIREILKFYYWVAHLSNVhlffspagerrpgewcKLAYWELSHrvgrlypvvtpyihvfwaqpcgdglcletlatgnnsapsgngphhvpdavRRTRTKIGLVVesrrlnpsfgavcpytkasgcgyvpgrdrqgltlsleadgvwaynrseapvfvnspglddpgpptllvyrippghclnifdpalpprlresfpapptgpvdpnsirisfakgwgpkysrqeitaCPAWLEVLLVPAAC
MGFKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNsapsgngphhvpdavRRTRTKIGLvvesrrlnpsfgaVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRESFpapptgpvdpnSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
MGFKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSpglddpgpptllVYRIPPGHCLNIFDPALPPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
**FKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLAT********************TRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPAL********************IRISFAKGWGPKYSRQEITACPAWLEVLLVP***
*****REILKFYYWVAH***********GERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETL**********************TRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPA***********PPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
MGFKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
*GFKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGN********PHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGFKIREILKFYYWVAHLSNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPAAC
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query245 2.2.26 [Sep-21-2011]
O43541496 Mothers against decapenta no N/A 0.677 0.334 0.430 2e-38
O35182495 Mothers against decapenta yes N/A 0.669 0.331 0.430 1e-37
Q9W734431 Mothers against decapenta yes N/A 0.697 0.396 0.430 2e-37
O15105426 Mothers against decapenta no N/A 0.706 0.406 0.355 5e-29
O35253426 Mothers against decapenta no N/A 0.706 0.406 0.355 7e-29
O88406426 Mothers against decapenta yes N/A 0.706 0.406 0.355 7e-29
P45896393 Dwarfin sma-3 OS=Caenorha yes N/A 0.697 0.435 0.281 2e-11
O70436467 Mothers against decapenta no N/A 0.722 0.379 0.275 1e-10
Q62432467 Mothers against decapenta no N/A 0.722 0.379 0.275 1e-10
Q1W668467 Mothers against decapenta no N/A 0.722 0.379 0.275 1e-10
>sp|O43541|SMAD6_HUMAN Mothers against decapentaplegic homolog 6 OS=Homo sapiens GN=SMAD6 PE=1 SV=2 Back     alignment and function desciption
 Score =  159 bits (402), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 90/209 (43%), Positives = 109/209 (52%), Gaps = 43/209 (20%)

Query: 32  RPGEWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHH 91
           +P  WC +AYWE   RVGRLY V    + +F+  P G G CL  L     S         
Sbjct: 327 KPSHWCSVAYWEHRTRVGRLYAVYDQAVSIFYDLPQGSGFCLGQLNLEQRS--------- 377

Query: 92  VPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAY 151
             ++VRRTR+KIG                                 G+ LS E DGVWAY
Sbjct: 378 --ESVRRTRSKIGF--------------------------------GILLSKEPDGVWAY 403

Query: 152 NRSEAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRESFPAPPTGPVDPNS 211
           NR E P+FVNSP LD PG   L+V ++PPG+ + +FD           P    GP DPNS
Sbjct: 404 NRGEHPIFVNSPTLDAPGGRALVVRKVPPGYSIKVFDFERSGLQHAPEPDAADGPYDPNS 463

Query: 212 IRISFAKGWGPKYSRQEITACPAWLEVLL 240
           +RISFAKGWGP YSRQ IT+CP WLE+LL
Sbjct: 464 VRISFAKGWGPCYSRQFITSCPCWLEILL 492
Antagonist of signaling by TGF-beta (transforming growth factor) type 1 receptor superfamily members; has been shown to inhibit selectively BMP (bone morphogenetic proteins) signaling by competing with the co-SMAD SMAD4 for receptor-activated SMAD1. SMAD6 is an inhibitory SMAD (I-SMAD) or antagonistic SMAD. Binds to regulatory elements in target promoter regions.
Homo sapiens (taxid: 9606)
>sp|O35182|SMAD6_MOUSE Mothers against decapentaplegic homolog 6 OS=Mus musculus GN=Smad6 PE=1 SV=1 Back     alignment and function description
>sp|Q9W734|SMAD6_CHICK Mothers against decapentaplegic homolog 6 OS=Gallus gallus GN=SMAD6 PE=2 SV=1 Back     alignment and function description
>sp|O15105|SMAD7_HUMAN Mothers against decapentaplegic homolog 7 OS=Homo sapiens GN=SMAD7 PE=1 SV=1 Back     alignment and function description
>sp|O35253|SMAD7_MOUSE Mothers against decapentaplegic homolog 7 OS=Mus musculus GN=Smad7 PE=1 SV=1 Back     alignment and function description
>sp|O88406|SMAD7_RAT Mothers against decapentaplegic homolog 7 OS=Rattus norvegicus GN=Smad7 PE=2 SV=2 Back     alignment and function description
>sp|P45896|SMA3_CAEEL Dwarfin sma-3 OS=Caenorhabditis elegans GN=sma-3 PE=2 SV=1 Back     alignment and function description
>sp|O70436|SMAD2_RAT Mothers against decapentaplegic homolog 2 OS=Rattus norvegicus GN=Smad2 PE=2 SV=1 Back     alignment and function description
>sp|Q62432|SMAD2_MOUSE Mothers against decapentaplegic homolog 2 OS=Mus musculus GN=Smad2 PE=1 SV=2 Back     alignment and function description
>sp|Q1W668|SMAD2_BOVIN Mothers against decapentaplegic homolog 2 OS=Bos taurus GN=SMAD2 PE=2 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query245
332021144191 Mothers against decapentaplegic-like pro 0.726 0.931 0.546 1e-49
242016959193 smad6, putative [Pediculus humanus corpo 0.677 0.860 0.536 2e-49
340712924 530 PREDICTED: hypothetical protein LOC10064 0.726 0.335 0.515 2e-48
383847837 435 PREDICTED: mothers against decapentapleg 0.730 0.411 0.513 6e-48
380021749 392 PREDICTED: mothers against decapentapleg 0.706 0.441 0.522 6e-48
350419603 466 PREDICTED: mothers against decapentapleg 0.702 0.369 0.524 7e-48
322796797294 hypothetical protein SINV_13413 [Solenop 0.808 0.673 0.479 2e-47
328782515281 PREDICTED: mothers against decapentapleg 0.706 0.615 0.522 2e-47
328712621 380 PREDICTED: mothers against decapentapleg 0.779 0.502 0.491 6e-47
307171515233 Mothers against decapentaplegic-like pro 0.718 0.755 0.491 2e-46
>gi|332021144|gb|EGI61529.1| Mothers against decapentaplegic-like protein 6 [Acromyrmex echinatior] Back     alignment and taxonomy information
 Score =  202 bits (513), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 117/214 (54%), Positives = 133/214 (62%), Gaps = 36/214 (16%)

Query: 35  EWCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHHVPD 94
           EWC LAYWEL  RVGRLYPV    ++VF +   GDGLCL TL             H+ P 
Sbjct: 6   EWCTLAYWELGGRVGRLYPVEPSTVNVFDSLHDGDGLCLATLVEN----------HNAPP 55

Query: 95  AVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRS 154
           AV+RTR+KIGL     R   S                    R GLTLS EADGVWAYNRS
Sbjct: 56  AVQRTRSKIGLGKSDLRNFFS--------------------RFGLTLSQEADGVWAYNRS 95

Query: 155 EAPVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRL------RESFPAPPTGPVD 208
           E+P+FVNSP LDDP   TLLVYR+PPG CLNIFD A   +L       ++     +GPVD
Sbjct: 96  ESPIFVNSPTLDDPESRTLLVYRVPPGFCLNIFDRAKIMQLPYGGGGGQAAGFTTSGPVD 155

Query: 209 PNSIRISFAKGWGPKYSRQEITACPAWLEVLLVP 242
            NS+RISFAKGWGPKYSRQE+T+CP WLEVLL P
Sbjct: 156 INSVRISFAKGWGPKYSRQEVTSCPCWLEVLLAP 189

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|242016959|ref|XP_002428962.1| smad6, putative [Pediculus humanus corporis] gi|212513791|gb|EEB16224.1| smad6, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|340712924|ref|XP_003395002.1| PREDICTED: hypothetical protein LOC100642241 [Bombus terrestris] Back     alignment and taxonomy information
>gi|383847837|ref|XP_003699559.1| PREDICTED: mothers against decapentaplegic homolog 6-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|380021749|ref|XP_003694720.1| PREDICTED: mothers against decapentaplegic homolog 6-like [Apis florea] Back     alignment and taxonomy information
>gi|350419603|ref|XP_003492241.1| PREDICTED: mothers against decapentaplegic homolog 6-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|322796797|gb|EFZ19224.1| hypothetical protein SINV_13413 [Solenopsis invicta] Back     alignment and taxonomy information
>gi|328782515|ref|XP_396816.3| PREDICTED: mothers against decapentaplegic homolog 6 [Apis mellifera] Back     alignment and taxonomy information
>gi|328712621|ref|XP_001942613.2| PREDICTED: mothers against decapentaplegic homolog 6-like [Acyrthosiphon pisum] Back     alignment and taxonomy information
>gi|307171515|gb|EFN63356.1| Mothers against decapentaplegic-like protein 6 [Camponotus floridanus] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query245
ZFIN|ZDB-GENE-011015-1453 smad6a "SMAD family member 6a" 0.440 0.238 0.522 4.9e-38
UNIPROTKB|E2RB30499 SMAD6 "Uncharacterized protein 0.416 0.204 0.547 1.7e-36
UNIPROTKB|F1SJJ2496 SMAD6 "Uncharacterized protein 0.416 0.205 0.533 2e-36
UNIPROTKB|E1BH37497 SMAD6 "Uncharacterized protein 0.416 0.205 0.533 2e-36
UNIPROTKB|O43541496 SMAD6 "Mothers against decapen 0.420 0.207 0.524 3.4e-36
UNIPROTKB|E1BQB1359 E1BQB1 "Uncharacterized protei 0.420 0.286 0.519 3.5e-36
UNIPROTKB|Q9W734431 SMAD6 "Mothers against decapen 0.420 0.238 0.519 1.2e-35
ZFIN|ZDB-GENE-050419-198486 smad6b "SMAD family member 6b" 0.440 0.222 0.513 1.2e-35
UNIPROTKB|E1C8F8433 E1C8F8 "Uncharacterized protei 0.420 0.237 0.519 1.3e-35
MGI|MGI:1336883495 Smad6 "SMAD family member 6" [ 0.412 0.204 0.524 2.1e-35
ZFIN|ZDB-GENE-011015-1 smad6a "SMAD family member 6a" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
 Score = 297 (109.6 bits), Expect = 4.9e-38, Sum P(2) = 4.9e-38
 Identities = 57/109 (52%), Positives = 71/109 (65%)

Query:   133 GRDRQGLTLSLEADGVWAYNRSEAPVFVNSXXXXXXXXXXXXVYRIPPGHCLNIFDPALP 192
             G+   G+ LS E DGVWAYNRS+ P+FVNS            V R+ PG+ + +FD    
Sbjct:   341 GKIGHGILLSKEPDGVWAYNRSQHPIFVNSPTLEHHPYLSLTVRRVMPGYSIKVFDYEKS 400

Query:   193 PRLRE-SFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLL 240
              +++  S P  P GP DPNS+RISFAKGWGP YSRQ IT+CP WLE+LL
Sbjct:   401 CQMQPASHPVHPEGPYDPNSVRISFAKGWGPCYSRQFITSCPCWLEILL 449
GO:0005622 "intracellular" evidence=IEA
GO:0005667 "transcription factor complex" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=IEA
GO:0007179 "transforming growth factor beta receptor signaling pathway" evidence=IEA
GO:0006351 "transcription, DNA-dependent" evidence=IEA
GO:0005634 "nucleus" evidence=IEA
UNIPROTKB|E2RB30 SMAD6 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1SJJ2 SMAD6 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|E1BH37 SMAD6 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|O43541 SMAD6 "Mothers against decapentaplegic homolog 6" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E1BQB1 E1BQB1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q9W734 SMAD6 "Mothers against decapentaplegic homolog 6" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-050419-198 smad6b "SMAD family member 6b" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E1C8F8 E1C8F8 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
MGI|MGI:1336883 Smad6 "SMAD family member 6" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query245
cd10496165 cd10496, MH2_I-SMAD, C-terminal Mad Homology 2 (MH 1e-72
cd10499174 cd10499, MH2_SMAD_6, C-terminal Mad Homology 2 (MH 2e-60
pfam03166179 pfam03166, MH2, MH2 domain 7e-44
smart00524171 smart00524, DWB, Domain B in dwarfin family protei 5e-42
cd00050170 cd00050, MH2, C-terminal Mad Homology 2 (MH2) doma 9e-38
cd10500171 cd10500, MH2_SMAD_7, C-terminal Mad Homology 2 (MH 1e-36
cd10495182 cd10495, MH2_R-SMAD, C-terminal Mad Homology 2 (MH 2e-22
cd10985191 cd10985, MH2_SMAD_2_3, C-terminal Mad Homology 2 ( 6e-12
cd10498222 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH 3e-11
cd10497201 cd10497, MH2_SMAD_1_5_9, C-terminal Mad Homology 2 2e-10
>gnl|CDD|199821 cd10496, MH2_I-SMAD, C-terminal Mad Homology 2 (MH2) domain in Inhibitory SMADs Back     alignment and domain information 
 Score =  218 bits (558), Expect = 1e-72
 Identities = 96/206 (46%), Positives = 112/206 (54%), Gaps = 43/206 (20%)

Query: 36  WCKLAYWELSHRVGRLYPVVTPYIHVFWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDA 95
           WC +AYWEL  RVGRLYPV  P +++F   P GDG CL  L    N            +A
Sbjct: 1   WCTIAYWELRERVGRLYPVKQPAVNIFDDLPKGDGFCLGALNRQGN----------ASEA 50

Query: 96  VRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSE 155
           V R R+KIGL                                G+TLS E DGVW YNRSE
Sbjct: 51  VARVRSKIGL--------------------------------GVTLSREPDGVWIYNRSE 78

Query: 156 APVFVNSPGLDDPGPPTLLVYRIPPGHCLNIFDPALPPRLRE-SFPAPPTGPVDPNSIRI 214
            P+FVNSP LD P    LLV ++PPG+ L +FD      L+       P GPVDPNS+RI
Sbjct: 79  YPIFVNSPTLDSPPSRNLLVTKVPPGYSLKVFDYERAALLQRRDDHFSPQGPVDPNSVRI 138

Query: 215 SFAKGWGPKYSRQEITACPAWLEVLL 240
           SF KGWGP YSRQ IT+CP WLE+LL
Sbjct: 139 SFVKGWGPNYSRQFITSCPCWLEILL 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 Back     alignment and domain information
>gnl|CDD|217398 pfam03166, MH2, MH2 domain Back     alignment and domain information
>gnl|CDD|197770 smart00524, DWB, Domain B in dwarfin family proteins Back     alignment and domain information
>gnl|CDD|199819 cd00050, MH2, C-terminal Mad Homology 2 (MH2) domain Back     alignment and domain information
>gnl|CDD|199825 cd10500, MH2_SMAD_7, C-terminal Mad Homology 2 (MH2) domain in SMAD7 Back     alignment and domain information
>gnl|CDD|199820 cd10495, MH2_R-SMAD, C-terminal Mad Homology 2 (MH2) domain in receptor regulated SMADs Back     alignment and domain information
>gnl|CDD|199826 cd10985, MH2_SMAD_2_3, C-terminal Mad Homology 2 (MH2) domain in SMAD2 and SMAD3 Back     alignment and domain information
>gnl|CDD|199823 cd10498, MH2_SMAD_4, C-terminal Mad Homology 2 (MH2) domain in SMAD4 Back     alignment and domain information
>gnl|CDD|199822 cd10497, MH2_SMAD_1_5_9, C-terminal Mad Homology 2 (MH2) domain in SMAD1, SMAD5 and SMAD9 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 245
cd00050176 MH2 MH2 domain; C terminal domain of SMAD family p 100.0
smart00524171 DWB Domain B in dwarfin family proteins. 100.0
PF03166181 MH2: MH2 domain; InterPro: IPR001132 Mammalian dwa 100.0
KOG3701|consensus411 100.0
PF10401180 IRF-3: Interferon-regulatory factor 3; InterPro: I 97.05
>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 Back     alignment and domain information 
Probab=100.00  E-value=1.2e-71  Score=478.80  Aligned_cols=168  Identities=44%  Similarity=0.795  Sum_probs=160.7

Q ss_pred             CCCCceeEEEEEeeccccccceeeeCCeEEE--EeCCCCCCceeeccccCCCCCCCCCCCCCCCChhHHHHHHhcccchh
Q psy11998         31 RRPGEWCKLAYWELSHRVGRLYPVVTPYIHV--FWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVE  108 (245)
Q Consensus        31 ~~~~~WC~iaY~El~~rVGe~f~~~~~~v~V--f~dp~~~~rfcLg~lsnv~~~~~~~~~~~~r~~~v~~tR~~IG~~~~  108 (245)
                      .+|++||+||||||++||||+|++++|+++|  |+||++++|||||+|+|+           +|++++++||+|||+   
T Consensus         2 ~~~~~WCsIaY~El~~RVGe~f~~~~~~~~VDGf~d~~~~~rfcLg~lsn~-----------~R~~~ve~~R~~IG~---   67 (176)
T cd00050           2 SEPEHWCSIAYYELNTRVGETFKVSGPNITVDGFTDPSNGSRFCLGQLSNV-----------NRNETVEKTRRHIGK---   67 (176)
T ss_pred             CCCCceEEEEEEEccceecccEeccCCcEEEEecccCCCCCEEEecccCCC-----------CCcHHHHHHHHhccC---
Confidence            5789999999999999999999999988888  999999999999999999           999999999999999   


Q ss_pred             hccCCCCCCCccCcccCCCCCCCCCCCCCCeEEEEECCeEEEEecCCCceeecCCCCCCCCC-CCcceEEcCCCCEEEEe
Q psy11998        109 SRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPGP-PTLLVYRIPPGHCLNIF  187 (245)
Q Consensus       109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gi~L~~~~~~Vw~~n~S~~pIFV~Sp~ln~~~~-~~~tV~KIppG~slKIF  187 (245)
                                                   ||+|++++|+||++|+|++|||||||+||.+.+ ++++||||+||++||||
T Consensus        68 -----------------------------Gv~L~~~~g~Vw~~~~S~~~VFVqS~~l~~~~~~~~~~V~Kv~pg~~lKvF  118 (176)
T cd00050          68 -----------------------------GVQLSYENGEVWAYNLSDHPIFVQSPTLDYPLGRPLLTVHKVPPGYSLKVF  118 (176)
T ss_pred             -----------------------------CEEEEEeCCeEEEEEcCCCCEEEcCCCCCcccCCCCcceEEeCCCCEEEEe
Confidence                                         999999999999999999999999999999965 69999999999999999


Q ss_pred             CCCC-chhhhhcCCCCCCccccCc---eeEEeeeecCCCCCCCCCcccCCeEEEEEec
Q psy11998        188 DPAL-PPRLRESFPAPPTGPVDPN---SIRISFAKGWGPKYSRQEITACPAWLEVLLV  241 (245)
Q Consensus       188 d~~~-~~~L~qs~~~~~~gvydL~---~IRISFVKGWG~eY~RQ~ITstPCWIEIhL~  241 (245)
                      |+++ +++|+++.+++++++|||+   .||||||||||++|+||+||+||||||||||
T Consensus       119 d~~~f~~~l~~~~~~~~~~~~~l~~~c~iriSFvKGWG~~Y~Rq~it~tPCWiEi~l~  176 (176)
T cd00050         119 DFEQFEQLLRQAAGSTFDGVYDLRRMCTIRISFVKGWGEDYPRQDITSTPCWIEVHLN  176 (176)
T ss_pred             CHHHHHHHHHhhhcccCccHHHHHhhceEEEEEeccccccccccccCCCceEEEEEcC
Confidence            9999 6677888889999999995   5999999999999999999999999999997

>smart00524 DWB Domain B in dwarfin family proteins Back     alignment and domain information
>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 [] Back     alignment and domain information
>KOG3701|consensus Back     alignment and domain information
>PF10401 IRF-3: Interferon-regulatory factor 3; InterPro: IPR019471 This is the interferon-regulatory factor 3 chain of the hetero-dimeric structure which also contains the shorter chain CREB-binding protein Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query245
1khx_A227 Crystal Structure Of A Phosphorylated Smad2 Length 4e-10
1dev_A196 Crystal Structure Of Smad2 Mh2 Domain Bound To The 6e-10
1u7v_A198 Crystal Structure Of The Phosphorylated Smad2SMAD4 2e-09
1mk2_A206 Smad3 Sbd Complex Length = 206 2e-09
1u7f_A198 Crystal Structure Of The Phosphorylated Smad3SMAD4 2e-09
1mjs_A197 Mh2 Domain Of Transcriptional Factor Smad3 Length = 2e-09
1khu_A218 Smad1 Crystal Structure Reveals The Details Of Bmp 3e-08
3gmj_D245 Crystal Structure Of Mad Mh2 Domain Length = 245 3e-08
3dit_A188 Crystal Structure Of Mad Mh2 Domain Length = 188 4e-08
1dd1_A268 Crystal Structure Analysis Of The Smad4 Active Frag 8e-05
1u7v_B236 Crystal Structure Of The Phosphorylated Smad2SMAD4 8e-05
1mr1_A235 Crystal Structure Of A Smad4-Ski Complex Length = 2 8e-05
1u7f_B239 Crystal Structure Of The Phosphorylated Smad3SMAD4 9e-05
1ygs_A234 Crystal Structure Of The Smad4 Tumor Suppressor C-T 9e-05
1g88_A268 S4afl3arg515 Mutant Length = 268 4e-04
>pdb|1KHX|A Chain A, Crystal Structure Of A Phosphorylated Smad2 Length = 227 Back     alignment and structure 
Iteration: 1

 Score = 61.6 bits (148), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 61/229 (26%), Positives = 86/229 (37%), Gaps = 52/229 (22%)
Query: 20  NVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHV--FWAQPCGDGLCLETLA 77
           N  L   P     P  WC +AY+EL+ RVG  +    P + V  F      +  CL  L+
Sbjct: 18  NHSLDLQPVTYSEPAFWCSIAYYELNQRVGETFHASQPSLTVDGFTDPSNSERFCLGLLS 77
Query: 78  TGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQ 137
             N +A            V  TR  IG                                +
Sbjct: 78  NVNRNA-----------TVEMTRRHIG--------------------------------R 94
Query: 138 GLTLSLEADGVWAYNRSEAPVFVNSXXXXXXXX-XXXXVYRIPPGHCLNIFDPA-----L 191
           G+ L      V+A   S++ +FV S             V +IPPG  L IF+       L
Sbjct: 95  GVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQEFAALL 154
Query: 192 PPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLL 240
              + + F A         +IR+SF KGWG +Y RQ +T+ P W+E+ L
Sbjct: 155 AQSVNQGFEAV-YQLTRMCTIRMSFVKGWGAEYRRQTVTSTPCWIELHL 202
>pdb|1DEV|A Chain A, Crystal Structure Of Smad2 Mh2 Domain Bound To The Smad- Binding Domain Of Sara Length = 196 Back     alignment and structure
>pdb|1U7V|A Chain A, Crystal Structure Of The Phosphorylated Smad2SMAD4 Heterotrimeric Complex Length = 198 Back     alignment and structure
>pdb|1MK2|A Chain A, Smad3 Sbd Complex Length = 206 Back     alignment and structure
>pdb|1U7F|A Chain A, Crystal Structure Of The Phosphorylated Smad3SMAD4 Heterotrimeric Complex Length = 198 Back     alignment and structure
>pdb|1MJS|A Chain A, Mh2 Domain Of Transcriptional Factor Smad3 Length = 197 Back     alignment and structure
>pdb|1KHU|A Chain A, Smad1 Crystal Structure Reveals The Details Of Bmp Signaling Pathway Length = 218 Back     alignment and structure
>pdb|3GMJ|D Chain D, Crystal Structure Of Mad Mh2 Domain Length = 245 Back     alignment and structure
>pdb|3DIT|A Chain A, Crystal Structure Of Mad Mh2 Domain Length = 188 Back     alignment and structure
>pdb|1DD1|A Chain A, Crystal Structure Analysis Of The Smad4 Active Fragment Length = 268 Back     alignment and structure
>pdb|1U7V|B Chain B, Crystal Structure Of The Phosphorylated Smad2SMAD4 Heterotrimeric Complex Length = 236 Back     alignment and structure
>pdb|1MR1|A Chain A, Crystal Structure Of A Smad4-Ski Complex Length = 235 Back     alignment and structure
>pdb|1U7F|B Chain B, Crystal Structure Of The Phosphorylated Smad3SMAD4 Heterotrimeric Complex Length = 239 Back     alignment and structure
>pdb|1YGS|A Chain A, Crystal Structure Of The Smad4 Tumor Suppressor C-Terminal Domain Length = 234 Back     alignment and structure
>pdb|1G88|A Chain A, S4afl3arg515 Mutant Length = 268 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query245
1khx_A227 SMAD2; TGF-beta signaling, phosphorylation, recept 3e-40
3gmj_D245 Protein mothers against DPP; MH2,SMAD,MAD, cytopla 1e-36
1ygs_A234 SMAD4; tumor suppressor C-terminal domain, TGF-bet 3e-36
1dd1_A268 SMAD4; B-sheet sandwich helix-turn-helix, signalin 9e-35
>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 Back     alignment and structure
 Score =  137 bits (345), Expect = 3e-40
 Identities = 62/233 (26%), Positives = 88/233 (37%), Gaps = 52/233 (22%)

Query: 19  SNVHLFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHV--FWAQPCGDGLCLETL 76
            N  L   P     P  WC +AY+EL+ RVG  +    P + V  F      +  CL  L
Sbjct: 17  VNHSLDLQPVTYSEPAFWCSIAYYELNQRVGETFHASQPSLTVDGFTDPSNSERFCLGLL 76

Query: 77  ATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDR 136
           +  N +             V  TR  IG                                
Sbjct: 77  SNVNRN-----------ATVEMTRRHIG-------------------------------- 93

Query: 137 QGLTLSLEADGVWAYNRSEAPVFVNSPGLDDP-GPPTLLVYRIPPGHCLNIFD-----PA 190
           +G+ L      V+A   S++ +FV SP  +   G     V +IPPG  L IF+       
Sbjct: 94  RGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQEFAAL 153

Query: 191 LPPRLRESFPAPPTGPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPA 243
           L   + + F A         +IR+SF KGWG +Y RQ +T+ P W+E+ L   
Sbjct: 154 LAQSVNQGFEAV-YQLTRMCTIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGP 205
>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental protein, nucleus, phosphoprotein, transcription; 2.80A {Drosophila melanogaster} Length = 245 Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query245
3gmj_D245 Protein mothers against DPP; MH2,SMAD,MAD, cytopla 100.0
1khx_A227 SMAD2; TGF-beta signaling, phosphorylation, recept 100.0
1dd1_A268 SMAD4; B-sheet sandwich helix-turn-helix, signalin 100.0
1ygs_A234 SMAD4; tumor suppressor C-terminal domain, TGF-bet 100.0
3a77_A242 IRF-3, interferon regulatory factor 3; phosphoryla 95.96
3dsh_A246 IRF-5, interferon regulatory factor 5; phosphoacti 94.81
>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental protein, nucleus, phosphoprotein, transcription; 2.80A {Drosophila melanogaster} Back     alignment and structure
Probab=100.00  E-value=2e-71  Score=496.64  Aligned_cols=178  Identities=30%  Similarity=0.513  Sum_probs=163.0

Q ss_pred             eccCCCCCCCCCceeEEEEEeeccccccceeeeCCeEEE--EeCCCCC-CceeeccccCCCCCCCCCCCCCCCChhHHHH
Q psy11998         23 LFFSPAGERRPGEWCKLAYWELSHRVGRLYPVVTPYIHV--FWAQPCG-DGLCLETLATGNNSAPSGNGPHHVPDAVRRT   99 (245)
Q Consensus        23 ~~~~~~~~~~~~~WC~iaY~El~~rVGe~f~~~~~~v~V--f~dp~~~-~rfcLg~lsnv~~~~~~~~~~~~r~~~v~~t   99 (245)
                      ..++|+.++++++||+||||||++||||+|+|++++|+|  |+||+++ +|||||+|+|+           +|++++++|
T Consensus        38 ~~~~~v~y~ep~~WcsIaYyEln~RVGe~F~a~~~sv~IDGf~dps~~~~RfcLg~lsNv-----------~R~~~ve~t  106 (245)
T 3gmj_D           38 GDVAQVSYSEPAFWASIAYYELNCRVGEVFHCNNNSVIVDGFTNPSNNSDRCCLGQLSNV-----------NRNSTIENT  106 (245)
T ss_dssp             ---------CCSCSEEEEEEETTEEEEEEEEECSSEEEEESSCCCCTTTSEEEGGGCCCT-----------TCCHHHHHH
T ss_pred             CccccccccCCCceeEEEEeecCceeccceeecCCeEEEeCCcCCCCCCCceeecCccCC-----------CCcHHHHHH
Confidence            468899999999999999999999999999999999999  9999987 99999999999           999999999


Q ss_pred             HHhcccchhhccCCCCCCCccCcccCCCCCCCCCCCCCCeEEEEECCeEEEEecCCCceeecCCCCCCC-CCCCcceEEc
Q psy11998        100 RTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDP-GPPTLLVYRI  178 (245)
Q Consensus       100 R~~IG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gi~L~~~~~~Vw~~n~S~~pIFV~Sp~ln~~-~~~~~tV~KI  178 (245)
                      |+|||+                                ||+|++++|+||++|+|++|||||||+||.+ +.++++||||
T Consensus       107 R~~IG~--------------------------------GV~L~~~~G~V~~~nlS~~~IFVqS~~~n~~~g~~~~tV~KI  154 (245)
T 3gmj_D          107 RRHIGK--------------------------------GVHLYYVTGEVYAECLSDSAIFVQSRNCNYQHGFHPSTVCKI  154 (245)
T ss_dssp             HHHHTT--------------------------------CEEEEEETTEEEEEECSSSCEEEEEHHHHHHTTCCTTCCEEE
T ss_pred             HHHHhc--------------------------------CeEEEEECCEEEEEecCCCcEEECCCcccccCCCCccceEEe
Confidence            999999                                9999999999999999999999999999986 4689999999


Q ss_pred             CCCCEEEEeCCCC-chhhhhcCCCCCCccccCce---eEEeeeecCCCCCCCCCcccCCeEEEEEeccC
Q psy11998        179 PPGHCLNIFDPAL-PPRLRESFPAPPTGPVDPNS---IRISFAKGWGPKYSRQEITACPAWLEVLLVPA  243 (245)
Q Consensus       179 ppG~slKIFd~~~-~~~L~qs~~~~~~gvydL~~---IRISFVKGWG~eY~RQ~ITstPCWIEIhL~~~  243 (245)
                      +||+++||||+++ +++|+|+++++++++|+|++   ||||||||||++|+||+||+||||||||||.|
T Consensus       155 ~pg~slKiFd~~~fa~~L~qs~~~g~~~v~~L~~~CtiRiSFvKGWG~~Y~Rq~ItstPCWiEI~L~~p  223 (245)
T 3gmj_D          155 PPGCSLKIFNNQEFAQLLSQSVNNGFEAVYELTKMCTIRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGP  223 (245)
T ss_dssp             CTTCEEEEECHHHHHHHHHHTTTTCSHHHHHHGGGGEEEEEESSCCSTTSSCCSGGGSSSEEEEEEHHH
T ss_pred             CCCCeEEEeCHHHHHHHHHHHhhcCCchhhhhhhcceeeeEeecCcCcccccCCcccCCEEEEEEcChH
Confidence            9999999999998 88899999999999999765   99999999999999999999999999999865
>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 Back     alignment and structure
>1dd1_A SMAD4; B-sheet sandwich helix-turn-helix, signaling protein; 2.62A {Homo sapiens} SCOP: b.26.1.1 PDB: 1g88_A Back     alignment and structure
>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* Back     alignment and structure
>3a77_A IRF-3, interferon regulatory factor 3; phosphorylated protein, activator, antiviral defense, DNA-BI HOST-virus interaction, nucleus, phosphoprotein; HET: SEP; 1.80A {Homo sapiens} PDB: 1j2f_A 1qwt_A 1zoq_A Back     alignment and structure
>3dsh_A IRF-5, interferon regulatory factor 5; phosphoactivation induced dimerization, DNA-binding, nucleus transcription, transcription regulation; 2.00A {Homo sapiens} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 245
d1mjsa_190 b.26.1.1 (A:) Smad3 MH2 domain {Human (Homo sapien 3e-51
d1ygsa_225 b.26.1.1 (A:) Smad4 tumor suppressor C-terminal do 2e-44
>d1mjsa_ b.26.1.1 (A:) Smad3 MH2 domain {Human (Homo sapiens) [TaxId: 9606]} Length = 190 Back     information, alignment and structure

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 =  163 bits (414), Expect = 3e-51
 Identities = 59/219 (26%), Positives = 86/219 (39%), Gaps = 52/219 (23%)

Query: 33  PGEWCKLAYWELSHRVGRLYPVVTPYIHV--FWAQPCGDGLCLETLATGNNSAPSGNGPH 90
           P  WC ++Y+EL+ RVG  +    P + V  F      +  CL  L+  N +        
Sbjct: 1   PAFWCSISYYELNQRVGETFHASQPSMTVDGFTDPSNSERFCLGLLSNVNRN-------- 52

Query: 91  HVPDAVRRTRTKIGLVVESRRLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWA 150
               AV  TR  IG                                +G+ L      V+A
Sbjct: 53  ---AAVELTRRHIG--------------------------------RGVRLYYIGGEVFA 77

Query: 151 YNRSEAPVFVNSPGLDDP-GPPTLLVYRIPPGHCLNIFDPA-----LPPRLRESFPAPPT 204
              S++ +FV SP  +   G     V +IPPG  L IF+       L   + + F A   
Sbjct: 78  ECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQEFAALLAQSVNQGFEAV-Y 136

Query: 205 GPVDPNSIRISFAKGWGPKYSRQEITACPAWLEVLLVPA 243
                 +IR+SF KGWG +Y RQ +T+ P W+E+ L   
Sbjct: 137 QLTRMCTIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGP 175
>d1ygsa_ b.26.1.1 (A:) Smad4 tumor suppressor C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 225 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query245
d1mjsa_190 Smad3 MH2 domain {Human (Homo sapiens) [TaxId: 960 100.0
d1ygsa_225 Smad4 tumor suppressor C-terminal domain {Human (H 100.0
d1qwta_239 Interferon regulatory factor 3 (IRF3), transactiva 96.42
>d1mjsa_ b.26.1.1 (A:) Smad3 MH2 domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
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=1.6e-70  Score=473.36  Aligned_cols=168  Identities=33%  Similarity=0.582  Sum_probs=150.9

Q ss_pred             CCceeEEEEEeeccccccceeeeCCeEEE--EeCCCCCCceeeccccCCCCCCCCCCCCCCCChhHHHHHHhcccchhhc
Q psy11998         33 PGEWCKLAYWELSHRVGRLYPVVTPYIHV--FWAQPCGDGLCLETLATGNNSAPSGNGPHHVPDAVRRTRTKIGLVVESR  110 (245)
Q Consensus        33 ~~~WC~iaY~El~~rVGe~f~~~~~~v~V--f~dp~~~~rfcLg~lsnv~~~~~~~~~~~~r~~~v~~tR~~IG~~~~~~  110 (245)
                      |++||+||||||++||||+|++++|+|+|  |+|+++++|||||.|+|+           +|++++++||+|||+     
T Consensus         1 p~~Wc~IaY~El~~rVGe~f~~~~p~v~VDGf~d~~~~~rfcLg~l~n~-----------~R~~~v~~~R~~IG~-----   64 (190)
T d1mjsa_           1 PAFWCSISYYELNQRVGETFHASQPSMTVDGFTDPSNSERFCLGLLSNV-----------NRNAAVELTRRHIGR-----   64 (190)
T ss_dssp             CCSSEEEEEEETTEECSCCEEECSSEEEEECCSSCCBTTEEECSSCCCT-----------TCCHHHHHHHHHHTT-----
T ss_pred             CcceeEEEEEecCCeeEccEEccCCEEEEecCcCCCCCCeeEecccCCC-----------CCcHHHHHHhhccCc-----
Confidence            68999999999999999999999999999  999999999999999999           999999999999999     


Q ss_pred             cCCCCCCCccCcccCCCCCCCCCCCCCCeEEEEECCeEEEEecCCCceeecCCCCCCCC-CCCcceEEcCCCCEEEEeCC
Q psy11998        111 RLNPSFGAVCPYTKASGCGYVPGRDRQGLTLSLEADGVWAYNRSEAPVFVNSPGLDDPG-PPTLLVYRIPPGHCLNIFDP  189 (245)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Gi~L~~~~~~Vw~~n~S~~pIFV~Sp~ln~~~-~~~~tV~KIppG~slKIFd~  189 (245)
                                                 ||+|++++|+||++|+|++|||||||+||.+. .++++|+||+||++|||||+
T Consensus        65 ---------------------------GV~L~~~~g~Vw~~~lS~~~VFVqS~~l~~~~~~~~~~V~Kv~pg~~lKvFd~  117 (190)
T d1mjsa_          65 ---------------------------GVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNN  117 (190)
T ss_dssp             ---------------------------CEEEEEETTEEEEEECSSSCEEEECHHHHTC-----CCCEEECTTCEEEEECH
T ss_pred             ---------------------------EEEEEEECCeEEEEEecCCCEEEcCCCCCCcCCCCCCceEEeCCCCeEEeeCh
Confidence                                       99999999999999999999999999999984 58899999999999999999


Q ss_pred             CC-chhhhhcCCCCCCccccCce---eEEeeeecCCCCCCCCCcccCCeEEEEEeccC
Q psy11998        190 AL-PPRLRESFPAPPTGPVDPNS---IRISFAKGWGPKYSRQEITACPAWLEVLLVPA  243 (245)
Q Consensus       190 ~~-~~~L~qs~~~~~~gvydL~~---IRISFVKGWG~eY~RQ~ITstPCWIEIhL~~~  243 (245)
                      ++ +++|+++.+++++++++|++   ||||||||||++|+||+||+||||||||||.+
T Consensus       118 ~~f~~~l~~~~~~~~~~~~~l~~~c~iRISFvKGWG~~Y~Rq~ItstPCWiEi~l~~p  175 (190)
T d1mjsa_         118 QEFAALLAQSVNQGFEAVYQLTRMCTIRMSFVKGWGAEYRRQTVTSTPCWIELHLNGP  175 (190)
T ss_dssp             HHHHHHHHHHHHHCHHHHHGGGGGGEEEEEESCCC-------CCTTSSSEEEEEEHHH
T ss_pred             HHHHHHHHHHhccCCCCccccccceEEEEEEEcccCCCccCCCCCcCCEEEEEecCCh
Confidence            99 67788888888999999875   99999999999999999999999999999975
>d1ygsa_ b.26.1.1 (A:) Smad4 tumor suppressor C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1qwta_ b.26.1.3 (A:) Interferon regulatory factor 3 (IRF3), transactivation domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure