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Conserved domains on  [gi|187960059|ref|NP_055469|]
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syndecan-3 [Homo sapiens]

Protein Classification

syndecan( domain architecture ID 10470665)

syndecan is a cell surface proteoglycan that may bear both heparan sulfate and chondroitin sulfate and may link the cytoskeleton to the interstitial matrix

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
Syndecan super family cl20212
Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are ...
378-440 8.82e-18

Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are implicated in the binding of extracellular matrix components and growth factors.


The actual alignment was detected with superfamily member pfam01034:

Pssm-ID: 460035  Cd Length: 63  Bit Score: 77.05  E-value: 8.82e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 187960059  378 SILERKEVLVAVIVGGVVGALFAAFLVTLLIYRMKKKDEGSYTLEEPKQASVTYQKPDKQEEF 440
Cdd:pfam01034   1 SIFERPEVLAAVIGGGVVGLLFAVLLVMFLVYRMKKKDEGSYALDEPKQANNYYTKAPTKEEF 63
PHA03247 super family cl33720
large tegument protein UL36; Provisional
111-358 1.98e-05

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 47.24  E-value: 1.98e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  111 PAVLPTTNI-QPVGTPFEELPSERPTLEPATSPLVVTEVPEE-PSQRATTVSTTMATTAATSTGDPTVATVPATVATATP 188
Cdd:PHA03247 2690 PTVGSLTSLaDPPPPPPTPEPAPHALVSATPLPPGPAAARQAsPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAP 2769
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  189 STPAAPPFTATTAVIRTTGVRRLLPLPLTTVATARATTPeAPSPPTTAAVLDTEAPTPRLVSTATSRPRALPRPattqeP 268
Cdd:PHA03247 2770 APPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPP-AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP-----P 2843
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  269 DIPERSTLPLGTTAPGpTEVAQTPTPETFLTTIRDEPEVPVSGGPSGDFELPEEETTQPDTANEVVAVGGAAAKASSPPg 348
Cdd:PHA03247 2844 GPPPPSLPLGGSVAPG-GDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQP- 2921
                         250
                  ....*....|
gi 187960059  349 TLPKGARPGP 358
Cdd:PHA03247 2922 QPPPPPQPQP 2931
 
Name Accession Description Interval E-value
Syndecan pfam01034
Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are ...
378-440 8.82e-18

Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are implicated in the binding of extracellular matrix components and growth factors.


Pssm-ID: 460035  Cd Length: 63  Bit Score: 77.05  E-value: 8.82e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 187960059  378 SILERKEVLVAVIVGGVVGALFAAFLVTLLIYRMKKKDEGSYTLEEPKQASVTYQKPDKQEEF 440
Cdd:pfam01034   1 SIFERPEVLAAVIGGGVVGLLFAVLLVMFLVYRMKKKDEGSYALDEPKQANNYYTKAPTKEEF 63
PHA03247 PHA03247
large tegument protein UL36; Provisional
111-358 1.98e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 47.24  E-value: 1.98e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  111 PAVLPTTNI-QPVGTPFEELPSERPTLEPATSPLVVTEVPEE-PSQRATTVSTTMATTAATSTGDPTVATVPATVATATP 188
Cdd:PHA03247 2690 PTVGSLTSLaDPPPPPPTPEPAPHALVSATPLPPGPAAARQAsPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAP 2769
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  189 STPAAPPFTATTAVIRTTGVRRLLPLPLTTVATARATTPeAPSPPTTAAVLDTEAPTPRLVSTATSRPRALPRPattqeP 268
Cdd:PHA03247 2770 APPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPP-AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP-----P 2843
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  269 DIPERSTLPLGTTAPGpTEVAQTPTPETFLTTIRDEPEVPVSGGPSGDFELPEEETTQPDTANEVVAVGGAAAKASSPPg 348
Cdd:PHA03247 2844 GPPPPSLPLGGSVAPG-GDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQP- 2921
                         250
                  ....*....|
gi 187960059  349 TLPKGARPGP 358
Cdd:PHA03247 2922 QPPPPPQPQP 2931
4.1m smart00294
putative band 4.1 homologues' binding motif;
408-426 1.57e-04

putative band 4.1 homologues' binding motif;


Pssm-ID: 128590  Cd Length: 19  Bit Score: 38.66  E-value: 1.57e-04
                           10
                   ....*....|....*....
gi 187960059   408 IYRMKKKDEGSYTLEEPKQ 426
Cdd:smart00294   1 MYRYKHRDEGSYHTHEPKG 19
 
Name Accession Description Interval E-value
Syndecan pfam01034
Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are ...
378-440 8.82e-18

Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are implicated in the binding of extracellular matrix components and growth factors.


Pssm-ID: 460035  Cd Length: 63  Bit Score: 77.05  E-value: 8.82e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 187960059  378 SILERKEVLVAVIVGGVVGALFAAFLVTLLIYRMKKKDEGSYTLEEPKQASVTYQKPDKQEEF 440
Cdd:pfam01034   1 SIFERPEVLAAVIGGGVVGLLFAVLLVMFLVYRMKKKDEGSYALDEPKQANNYYTKAPTKEEF 63
PHA03247 PHA03247
large tegument protein UL36; Provisional
111-358 1.98e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 47.24  E-value: 1.98e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  111 PAVLPTTNI-QPVGTPFEELPSERPTLEPATSPLVVTEVPEE-PSQRATTVSTTMATTAATSTGDPTVATVPATVATATP 188
Cdd:PHA03247 2690 PTVGSLTSLaDPPPPPPTPEPAPHALVSATPLPPGPAAARQAsPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAP 2769
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  189 STPAAPPFTATTAVIRTTGVRRLLPLPLTTVATARATTPeAPSPPTTAAVLDTEAPTPRLVSTATSRPRALPRPattqeP 268
Cdd:PHA03247 2770 APPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPP-AAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPP-----P 2843
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  269 DIPERSTLPLGTTAPGpTEVAQTPTPETFLTTIRDEPEVPVSGGPSGDFELPEEETTQPDTANEVVAVGGAAAKASSPPg 348
Cdd:PHA03247 2844 GPPPPSLPLGGSVAPG-GDVRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQP- 2921
                         250
                  ....*....|
gi 187960059  349 TLPKGARPGP 358
Cdd:PHA03247 2922 QPPPPPQPQP 2931
4.1m smart00294
putative band 4.1 homologues' binding motif;
408-426 1.57e-04

putative band 4.1 homologues' binding motif;


Pssm-ID: 128590  Cd Length: 19  Bit Score: 38.66  E-value: 1.57e-04
                           10
                   ....*....|....*....
gi 187960059   408 IYRMKKKDEGSYTLEEPKQ 426
Cdd:smart00294   1 MYRYKHRDEGSYHTHEPKG 19
PHA03247 PHA03247
large tegument protein UL36; Provisional
133-317 8.73e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.85  E-value: 8.73e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  133 RPTLEPATSPLVVTEVPEEPSQRATTVSTTMATTAATSTGdPTVATVPATVATATPSTPAAPPFTATTAVIRTTGVRrll 212
Cdd:PHA03247 2685 RRAARPTVGSLTSLADPPPPPPTPEPAPHALVSATPLPPG-PAAARQASPALPAAPAPPAVPAGPATPGGPARPARP--- 2760
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  213 PLPLTTVATARATTPEAPSPPTTAAVLDTEAPTPRLVSTATSRPRALPRPATTQEPDIPERSTlPLGTTAPgPTEVAQTP 292
Cdd:PHA03247 2761 PTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAAS-PAGPLPP-PTSAQPTA 2838
                         170       180
                  ....*....|....*....|....*..
gi 187960059  293 TPetfLTTIRDEPEVPVSGG--PSGDF 317
Cdd:PHA03247 2839 PP---PPPGPPPPSLPLGGSvaPGGDV 2862
PRK12323 PRK12323
DNA polymerase III subunit gamma/tau;
152-377 3.57e-03

DNA polymerase III subunit gamma/tau;


Pssm-ID: 237057 [Multi-domain]  Cd Length: 700  Bit Score: 39.86  E-value: 3.57e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059 152 PSQRATTVSTTMATTAATSTGDPTVATVPATVATATPSTPAAPPftattaVIRTTGVRRLLPLPLTTVATARATTPEAPS 231
Cdd:PRK12323 375 ATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARA------VAAAPARRSPAPEALAAARQASARGPGGAP 448
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059 232 PPTTAAVLDTEAPTPRLVSTATSRPRALPRPATTQEP---------DIPERSTLPLGTTAPGPTEVAQTPTPETFLTTIR 302
Cdd:PRK12323 449 APAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPaaapapaddDPPPWEELPPEFASPAPAQPDAAPAGWVAESIPD 528
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 187960059 303 depevPVSGGPSGDFELPEEETTQ---PDTANEVVAVGGAAAKASSPPGTLPKGARPGPGLldnaidsgssAAQLPQK 377
Cdd:PRK12323 529 -----PATADPDDAFETLAPAPAAapaPRAAAATEPVVAPRPPRASASGLPDMFDGDWPAL----------AARLPVR 591
PHA03247 PHA03247
large tegument protein UL36; Provisional
101-314 4.68e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 39.54  E-value: 4.68e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  101 PDVALAVSTTPAVLPTTNIQPVGTPFEELPSERPTLEPAT-SPLVVTEVPEEPSQRATTVSTTMATTAATSTGDPTVATV 179
Cdd:PHA03247 2787 AVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGpLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRP 2866
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 187960059  180 PATVATATPSTPAAPPftattavirttgVRRLLPLPLTTVATARATTPEAPSPPTTAAVLDTEAPTPRLVSTATSRPrAL 259
Cdd:PHA03247 2867 PSRSPAAKPAAPARPP------------VRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQP-PP 2933
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 187960059  260 PRPATTQEPDIPERSTLPLGTTAP-------GPTEVAQTPTPETFLTTIRDEPEVPVSGGPS 314
Cdd:PHA03247 2934 PPPPRPQPPLAPTTDPAGAGEPSGavpqpwlGALVPGRVAVPRFRVPQPAPSREAPASSTPP 2995
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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