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Conserved domains on  [gi|261823998|ref|NP_001159848|]
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membrane-spanning 4-domains subfamily A member 6C isoform 2 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
CD20 super family cl04401
CD20-like family; This family includes the CD20 protein and the beta subunit of the high ...
50-95 3.36e-07

CD20-like family; This family includes the CD20 protein and the beta subunit of the high affinity receptor for IgE Fc. The high affinity receptor for IgE is a tetrameric structure consisting of a single IgE-binding alpha subunit, a single beta subunit, and two disulfide-linked gamma subunits. The alpha subunit of Fc epsilon RI and most Fc receptors are homologous members of the Ig superfamily. By contrast, the beta and gamma subunits from Fc epsilon RI are not homologous to the Ig superfamily. Both molecules have four putative transmembrane segments and a probably topology where both amino- and carboxy termini protrude into the cytoplasm. This family also includes LR8 like proteins from humans, mice and rats. The function of the human LR8 protein is unknown although it is known to be strongly expressed in the lung fibroblasts. This family also includes sarcospan is a transmembrane component of dystrophin-associated glycoprotein. Loss of the sarcoglycan complex and sarcospan alone is sufficient to cause muscular dystrophy. The role of the sarcoglycan complex and sarcospan is thought to be to strengthen the dystrophin axis connecting the basement membrane with the cytoskeleton.


The actual alignment was detected with superfamily member pfam04103:

Pssm-ID: 397979  Cd Length: 156  Bit Score: 46.09  E-value: 3.36e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 261823998   50 AIQIMCAVTVLALGIILASVPPvpyfnsvfSVLLKSGYPFIGALFV 95
Cdd:pfam04103   4 VVQILLGLLSIVLGFILLSVSS--------STLLASGYPFWGGIIF 41
 
Name Accession Description Interval E-value
CD20 pfam04103
CD20-like family; This family includes the CD20 protein and the beta subunit of the high ...
50-95 3.36e-07

CD20-like family; This family includes the CD20 protein and the beta subunit of the high affinity receptor for IgE Fc. The high affinity receptor for IgE is a tetrameric structure consisting of a single IgE-binding alpha subunit, a single beta subunit, and two disulfide-linked gamma subunits. The alpha subunit of Fc epsilon RI and most Fc receptors are homologous members of the Ig superfamily. By contrast, the beta and gamma subunits from Fc epsilon RI are not homologous to the Ig superfamily. Both molecules have four putative transmembrane segments and a probably topology where both amino- and carboxy termini protrude into the cytoplasm. This family also includes LR8 like proteins from humans, mice and rats. The function of the human LR8 protein is unknown although it is known to be strongly expressed in the lung fibroblasts. This family also includes sarcospan is a transmembrane component of dystrophin-associated glycoprotein. Loss of the sarcoglycan complex and sarcospan alone is sufficient to cause muscular dystrophy. The role of the sarcoglycan complex and sarcospan is thought to be to strengthen the dystrophin axis connecting the basement membrane with the cytoskeleton.


Pssm-ID: 397979  Cd Length: 156  Bit Score: 46.09  E-value: 3.36e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 261823998   50 AIQIMCAVTVLALGIILASVPPvpyfnsvfSVLLKSGYPFIGALFV 95
Cdd:pfam04103   4 VVQILLGLLSIVLGFILLSVSS--------STLLASGYPFWGGIIF 41
 
Name Accession Description Interval E-value
CD20 pfam04103
CD20-like family; This family includes the CD20 protein and the beta subunit of the high ...
50-95 3.36e-07

CD20-like family; This family includes the CD20 protein and the beta subunit of the high affinity receptor for IgE Fc. The high affinity receptor for IgE is a tetrameric structure consisting of a single IgE-binding alpha subunit, a single beta subunit, and two disulfide-linked gamma subunits. The alpha subunit of Fc epsilon RI and most Fc receptors are homologous members of the Ig superfamily. By contrast, the beta and gamma subunits from Fc epsilon RI are not homologous to the Ig superfamily. Both molecules have four putative transmembrane segments and a probably topology where both amino- and carboxy termini protrude into the cytoplasm. This family also includes LR8 like proteins from humans, mice and rats. The function of the human LR8 protein is unknown although it is known to be strongly expressed in the lung fibroblasts. This family also includes sarcospan is a transmembrane component of dystrophin-associated glycoprotein. Loss of the sarcoglycan complex and sarcospan alone is sufficient to cause muscular dystrophy. The role of the sarcoglycan complex and sarcospan is thought to be to strengthen the dystrophin axis connecting the basement membrane with the cytoskeleton.


Pssm-ID: 397979  Cd Length: 156  Bit Score: 46.09  E-value: 3.36e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 261823998   50 AIQIMCAVTVLALGIILASVPPvpyfnsvfSVLLKSGYPFIGALFV 95
Cdd:pfam04103   4 VVQILLGLLSIVLGFILLSVSS--------STLLASGYPFWGGIIF 41
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.19
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
  • Marchler-Bauer A et al. (2015), "CDD: NCBI's conserved domain database.", Nucleic Acids Res.43(D)222-6.
  • Marchler-Bauer A et al. (2011), "CDD: a Conserved Domain Database for the functional annotation of proteins.", Nucleic Acids Res.39(D)225-9.
  • Marchler-Bauer A, Bryant SH (2004), "CD-Search: protein domain annotations on the fly.", Nucleic Acids Res.32(W)327-331.
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