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Conserved domains on  [gi|40548378|ref|NP_002989|]
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syndecan-2 precursor [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 ...
 138-200 9.08e-23

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: 86.68  E-value: 9.08e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 40548378   138 SLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFY 200
Cdd:pfam01034   1 SIFERPEVLAAVIGGGVVGLLFAVLLVMFLVYRMKKKDEGSYALDEPKQANNYYTKAPTKEEF 63
 
Name Accession Description Interval E-value
Syndecan pfam01034
Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are ...
 138-200 9.08e-23

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: 86.68  E-value: 9.08e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 40548378   138 SLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFY 200
Cdd:pfam01034   1 SIFERPEVLAAVIGGGVVGLLFAVLLVMFLVYRMKKKDEGSYALDEPKQANNYYTKAPTKEEF 63
4.1m smart00294
putative band 4.1 homologues' binding motif;
169-185 1.39e-03

putative band 4.1 homologues' binding motif;


Pssm-ID: 128590  Cd Length: 19  Bit Score: 34.81  E-value: 1.39e-03
                           10
                   ....*....|....*..
gi 40548378    169 YRMRKKDEGSYDLGERK 185
Cdd:smart00294   2 YRYKHRDEGSYHTHEPK 18
 
Name Accession Description Interval E-value
Syndecan pfam01034
Syndecan domain; Syndecans are transmembrane heparin sulfate proteoglycans which are ...
 138-200 9.08e-23

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: 86.68  E-value: 9.08e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 40548378   138 SLFKRTEVLAAVIAGGVIGFLFAIFLILLLVYRMRKKDEGSYDLGERKPSSAAYQKAPTKEFY 200
Cdd:pfam01034   1 SIFERPEVLAAVIGGGVVGLLFAVLLVMFLVYRMKKKDEGSYALDEPKQANNYYTKAPTKEEF 63
4.1m smart00294
putative band 4.1 homologues' binding motif;
169-185 1.39e-03

putative band 4.1 homologues' binding motif;


Pssm-ID: 128590  Cd Length: 19  Bit Score: 34.81  E-value: 1.39e-03
                           10
                   ....*....|....*..
gi 40548378    169 YRMRKKDEGSYDLGERK 185
Cdd:smart00294   2 YRYKHRDEGSYHTHEPK 18
 
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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