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Conserved domains on  [gi|1717508354|ref|NP_001358979|]
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thy-1 membrane glycoprotein isoform 2 precursor [Homo sapiens]

Protein Classification

immunoglobulin domain-containing family protein( domain architecture ID 34076)

immunoglobulin (Ig) domain-containing family protein is a member of a large superfamily containing cell surface antigen receptors, co-receptors and co-stimulatory molecules of the immune system, molecules involved in antigen presentation to lymphocytes, cell adhesion molecules, certain cytokine receptors and intracellular muscle proteins; immunoglobulin domains are typically divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 9-106 2.66e-19

Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of this group are components of immunoglobulin, neuroglia, cell surface glycoproteins, including T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, including butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E, and D strands in one sheet and A', G, F, C, C' and C" in the other. The structures in C1-set are smaller than those in the V-set; they have one beta sheet that is formed by strands A, B, E, and D and the other by strands G, F, C, and C'. Moreover, a C1-set Ig domain contains a short C' strand (three residues) and lacks A' and C" strand. Unlike other Ig domain sets, C2-set structures do not have a D strand. Like the V-set Ig domains, members of the I-set have a discontinuous A strand, but lack a C" strand.


The actual alignment was detected with superfamily member cd20948:

Pssm-ID: 472250  Cd Length: 76  Bit Score: 76.38  E-value: 2.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   9 LLLTVDQSLRLDCRHENTSSSPIQYEFSLTRETKKHVLFgtvgvpehtyrsrtnftskynmkvlyLSAFTSKDEGTYTCA 88
Cdd:cd20948     5 TYYLSGENLNLSCHAASNPPAQYSWTINGTFQTSSQELF--------------------------LPAITENNEGTYTCS 58

                          90
                  ....*....|....*...
gi 1717508354  89 LHHSGHSPPISSQNVTVL 106
Cdd:cd20948    59 AHNSLTGKNISLVLSVTV 76
 
Name Accession Description Interval E-value
IgC2_CEACAM5-like cd20948
Fifth immunoglobulin (Ig)-like domain of the carcinoembryonic antigen (CEA) related cell ...
 9-106 2.66e-19

Fifth immunoglobulin (Ig)-like domain of the carcinoembryonic antigen (CEA) related cell adhesion molecule 5 (CEACAM5) and similar domains; member of the C2-set IgSF domains; The members here are composed of the fifth immunoglobulin (Ig)-like domain of the carcinoembryonic antigen (CEA) related cell adhesion molecule 5 (CEACAM5) and similar domains. The CEA family is a group of anchored or secreted glycoproteins, expressed by epithelial cells, leukocytes, endothelial cells and placenta. The CEA family is divided into the CEACAM and pregnancy-specific glycoprotein (PSG) subfamilies. Carcinoembryonic antigen-related cell adhesion molecule 5 (CEACAM5), also known as CD66e (Cluster of Differentiation 66e), is a cell surface glycoprotein that plays a role in cell adhesion, intracellular signaling and tumor progression. Diseases associated with CEACAM5 include lung cancer and rectum cancer. IgSF domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. This group belongs to the C2-set of IgSF domains, having A, B, and E strands in one beta-sheet and A', G, F, C' in the other. Unlike other Ig domain sets, the C2-set lacks the D strand.


Pssm-ID: 409540  Cd Length: 76  Bit Score: 76.38  E-value: 2.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   9 LLLTVDQSLRLDCRHENTSSSPIQYEFSLTRETKKHVLFgtvgvpehtyrsrtnftskynmkvlyLSAFTSKDEGTYTCA 88
Cdd:cd20948     5 TYYLSGENLNLSCHAASNPPAQYSWTINGTFQTSSQELF--------------------------LPAITENNEGTYTCS 58

                          90
                  ....*....|....*...
gi 1717508354  89 LHHSGHSPPISSQNVTVL 106
Cdd:cd20948    59 AHNSLTGKNISLVLSVTV 76
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 9-100 3.96e-06

Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-protein and protein-ligand interactions.


Pssm-ID: 395002  Cd Length: 86  Bit Score: 42.57  E-value: 3.96e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   9 LLLTVDQSLRLDCRHeNTSSSPIQYEFSLTRETKKHVLFGTvgvpeHTYRSRTNFTskynmkvLYLSAFTSKDEGTYTCA 88
Cdd:pfam00047   6 VTVLEGDSATLTCSA-STGSPGPDVTWSKEGGTLIESLKVK-----HDNGRTTQSS-------LLISNVTKEDAGTYTCV 72

                          90
                  ....*....|..
gi 1717508354  89 LHHSGHSPPISS 100
Cdd:pfam00047  73 VNNPGGSATLST 84
IGv smart00406
Immunoglobulin V-Type;
16-88 5.04e-04

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 36.59  E-value: 5.04e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   16 SLRLDCRHENTSSSpiQYEFSLTRETKKHVL-------FGTVGVPEHTYRSRTNFTSKY--NMKVLYLSAFTSKDEGTYT 86
Cdd:smart00406   1 SVTLSCKFSGSTFS--SYYVSWVRQPPGKGLewlgyigSNGSSYYQESYKGRFTISKDTskNDVSLTISNLRVEDTGTYY 78


                   ..
gi 1717508354   87 CA 88
Cdd:smart00406  79 CA 80
 
Name Accession Description Interval E-value
IgC2_CEACAM5-like cd20948
Fifth immunoglobulin (Ig)-like domain of the carcinoembryonic antigen (CEA) related cell ...
 9-106 2.66e-19

Fifth immunoglobulin (Ig)-like domain of the carcinoembryonic antigen (CEA) related cell adhesion molecule 5 (CEACAM5) and similar domains; member of the C2-set IgSF domains; The members here are composed of the fifth immunoglobulin (Ig)-like domain of the carcinoembryonic antigen (CEA) related cell adhesion molecule 5 (CEACAM5) and similar domains. The CEA family is a group of anchored or secreted glycoproteins, expressed by epithelial cells, leukocytes, endothelial cells and placenta. The CEA family is divided into the CEACAM and pregnancy-specific glycoprotein (PSG) subfamilies. Carcinoembryonic antigen-related cell adhesion molecule 5 (CEACAM5), also known as CD66e (Cluster of Differentiation 66e), is a cell surface glycoprotein that plays a role in cell adhesion, intracellular signaling and tumor progression. Diseases associated with CEACAM5 include lung cancer and rectum cancer. IgSF domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. This group belongs to the C2-set of IgSF domains, having A, B, and E strands in one beta-sheet and A', G, F, C' in the other. Unlike other Ig domain sets, the C2-set lacks the D strand.


Pssm-ID: 409540  Cd Length: 76  Bit Score: 76.38  E-value: 2.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   9 LLLTVDQSLRLDCRHENTSSSPIQYEFSLTRETKKHVLFgtvgvpehtyrsrtnftskynmkvlyLSAFTSKDEGTYTCA 88
Cdd:cd20948     5 TYYLSGENLNLSCHAASNPPAQYSWTINGTFQTSSQELF--------------------------LPAITENNEGTYTCS 58

                          90
                  ....*....|....*...
gi 1717508354  89 LHHSGHSPPISSQNVTVL 106
Cdd:cd20948    59 AHNSLTGKNISLVLSVTV 76
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 9-100 3.96e-06

Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-protein and protein-ligand interactions.


Pssm-ID: 395002  Cd Length: 86  Bit Score: 42.57  E-value: 3.96e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   9 LLLTVDQSLRLDCRHeNTSSSPIQYEFSLTRETKKHVLFGTvgvpeHTYRSRTNFTskynmkvLYLSAFTSKDEGTYTCA 88
Cdd:pfam00047   6 VTVLEGDSATLTCSA-STGSPGPDVTWSKEGGTLIESLKVK-----HDNGRTTQSS-------LLISNVTKEDAGTYTCV 72

                          90
                  ....*....|..
gi 1717508354  89 LHHSGHSPPISS 100
Cdd:pfam00047  73 VNNPGGSATLST 84
IGv smart00406
Immunoglobulin V-Type;
16-88 5.04e-04

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 36.59  E-value: 5.04e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   16 SLRLDCRHENTSSSpiQYEFSLTRETKKHVL-------FGTVGVPEHTYRSRTNFTSKY--NMKVLYLSAFTSKDEGTYT 86
Cdd:smart00406   1 SVTLSCKFSGSTFS--SYYVSWVRQPPGKGLewlgyigSNGSSYYQESYKGRFTISKDTskNDVSLTISNLRVEDTGTYY 78


                   ..
gi 1717508354   87 CA 88
Cdd:smart00406  79 CA 80
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 15-105 8.90e-04

Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.


Pssm-ID: 214653 [Multi-domain]  Cd Length: 85  Bit Score: 36.33  E-value: 8.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1717508354   15 QSLRLDCRhentSSSPIQYEFSLTRETKKHVLfgtvgvpehtYRSRTNFTSKYNMKVLYLSAFTSKDEGTYTCALHHSGH 94
Cdd:smart00410  10 ESVTLSCE----ASGSPPPEVTWYKQGGKLLA----------ESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSG 75

                           90
                   ....*....|.
gi 1717508354   95 SpPISSQNVTV 105
Cdd:smart00410  76 S-ASSGTTLTV 85
 
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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