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Conserved domains on  [gi|20150827]
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Chain A, KB5-C20 T-Cell receptor alpha-chain

Protein Classification

T-cell receptor alpha chain V region( domain architecture ID 10141821)

T-cell receptor alpha chain V (variable) region participates in the antigen recognition of an alpha-beta T cell antigen-specific receptor essential to the immune response; it is present on the cell surface of T lymphocytes to recognize peptide-major histocompatibility (pMH) complexes displayed by antigen presenting cells (APC), a prerequisite for efficient T cell adaptive immunity against pathogens

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 3-109 6.23e-51

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar proteins; The members here are composed of the immunoglobulin (Ig) variable domain of the alpha chain of alpha/beta T-cell antigen receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are composed of alpha and beta, or gamma and delta polypeptide chains with variable (V) and constant (C) regions. This group represents the variable domain of the alpha chain of TCRs and also includes the variable domain of delta chains of TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The variable domain of TCRs is responsible for antigen recognition, and is located at the N-terminus of the receptor. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize MHC independently of the bound peptide. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


:

Pssm-ID: 409372 [Multi-domain]  Cd Length: 109  Bit Score: 156.28  E-value: 6.23e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   3 VRQSPQSLTVWEGETAILNCSYEDSTFNYFPWYQQFPGEGPALLISIRSVSDKKEDGRFTIFFNKREKKLSLHITDSQPG 82
Cdd:cd04983   1 VTQSPQSLSVQEGENVTLNCNYSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKKGRFSATLDKSRKSSSLHISAAQLS 80

                        90       100
                ....*....|....*....|....*...
gi 20150827  83 DSATYFCAAR-YQGGRALIFGTGTTVSV 109
Cdd:cd04983  81 DSAVYFCALSeSGGTGKLTFGKGTRLTV 108
 
Name Accession Description Interval E-value
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 3-109 6.23e-51

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar proteins; The members here are composed of the immunoglobulin (Ig) variable domain of the alpha chain of alpha/beta T-cell antigen receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are composed of alpha and beta, or gamma and delta polypeptide chains with variable (V) and constant (C) regions. This group represents the variable domain of the alpha chain of TCRs and also includes the variable domain of delta chains of TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The variable domain of TCRs is responsible for antigen recognition, and is located at the N-terminus of the receptor. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize MHC independently of the bound peptide. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409372 [Multi-domain]  Cd Length: 109  Bit Score: 156.28  E-value: 6.23e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   3 VRQSPQSLTVWEGETAILNCSYEDSTFNYFPWYQQFPGEGPALLISIRSVSDKKEDGRFTIFFNKREKKLSLHITDSQPG 82
Cdd:cd04983   1 VTQSPQSLSVQEGENVTLNCNYSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKKGRFSATLDKSRKSSSLHISAAQLS 80

                        90       100
                ....*....|....*....|....*...
gi 20150827  83 DSATYFCAAR-YQGGRALIFGTGTTVSV 109
Cdd:cd04983  81 DSAVYFCALSeSGGTGKLTFGKGTRLTV 108
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 5-109 3.02e-20

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 78.65  E-value: 3.02e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827     5 QSPQSLTVWEGETAILNCSY---EDSTFNYFPWYQQFPGEGPALLISIRSVSDK--KEDGRFTIFFNKREKKLSLHITDS 79
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYsssMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 20150827    80 QPGDSATYFCAARYQGgrALIFGTGTTVSV 109
Cdd:pfam07686  81 TLSDSGTYTCAVIPSG--EGVFGKGTRLTV 108
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 7-109 1.64e-14

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: 63.29  E-value: 1.64e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827      7 PQSLTVWEGETAILNCSYEDSTFNYFPWYQQfpgeGPALLIsirsvsdkkEDGRFTIFFNKRekKLSLHITDSQPGDSAT 86
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQ----GGKLLA---------ESGRFSVSRSGS--TSTLTISNVTPEDSGT 65

                           90       100
                   ....*....|....*....|...
gi 20150827     87 YFCAARYQGGraLIFGtGTTVSV 109
Cdd:smart00410  66 YTCAATNSSG--SASS-GTTLTV 85
 
Name Accession Description Interval E-value
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 3-109 6.23e-51

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar proteins; The members here are composed of the immunoglobulin (Ig) variable domain of the alpha chain of alpha/beta T-cell antigen receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are composed of alpha and beta, or gamma and delta polypeptide chains with variable (V) and constant (C) regions. This group represents the variable domain of the alpha chain of TCRs and also includes the variable domain of delta chains of TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The variable domain of TCRs is responsible for antigen recognition, and is located at the N-terminus of the receptor. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize MHC independently of the bound peptide. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409372 [Multi-domain]  Cd Length: 109  Bit Score: 156.28  E-value: 6.23e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   3 VRQSPQSLTVWEGETAILNCSYEDSTFNYFPWYQQFPGEGPALLISIRSVSDKKEDGRFTIFFNKREKKLSLHITDSQPG 82
Cdd:cd04983   1 VTQSPQSLSVQEGENVTLNCNYSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKKGRFSATLDKSRKSSSLHISAAQLS 80

                        90       100
                ....*....|....*....|....*...
gi 20150827  83 DSATYFCAAR-YQGGRALIFGTGTTVSV 109
Cdd:cd04983  81 DSAVYFCALSeSGGTGKLTFGKGTRLTV 108
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 3-109 1.86e-33

Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin variable domain (IgV). The IgV family contains the standard Ig superfamily V-set AGFCC'C"/DEB domain topology, and are components of immunoglobulin (Ig) and T cell receptors. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. Within the variable domain, there are regions of even more variability called the hypervariable or complementarity-determining regions (CDRs) which are responsible for antigen binding. A predominant feature of most Ig domains is the disulfide bridge connecting 2 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" strands in the other.


Pssm-ID: 409355 [Multi-domain]  Cd Length: 111  Bit Score: 112.04  E-value: 1.86e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   3 VRQSPQSLTVWEGETAILNCSYEDS-TFNYFPWYQQFPGEGPALLISIRSVSDK---KEDGRFTIFFNKrEKKLSLHITD 78
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEVSSSfSSTYIYWYRQKPGQGPEFLIYLSSSKGKtkgGVPGRFSGSRDG-TSSFSLTISN 79

                        90       100       110
                ....*....|....*....|....*....|..
gi 20150827  79 SQPGDSATYFCAARYQGGRA-LIFGTGTTVSV 109
Cdd:cd00099  80 LQPEDSGTYYCAVSESGGTDkLTFGSGTRLTV 111
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 2-111 2.91e-20

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here are composed of the immunoglobulin (Ig) variable (V) domain of the delta chain of gamma/delta T-cell receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are heterodimers consisting of alpha and beta chains or gamma and delta chains. Each chain contains a variable (V) and a constant (C) region. The majority of T cells contain alpha/beta TCRs, but a small subset contain gamma/delta TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma/delta TCRs recognize intact protein antigens; they recognize protein antigens directly and without antigen processing, and MHC independently of the bound peptide. Gamma/delta T cells can also be stimulated by non-peptide antigens such as small phosphate- or amine-containing compounds. The variable domain of gamma/delta TCRs is responsible for antigen recognition and is located at the N-terminus of the receptor. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409503  Cd Length: 112  Bit Score: 78.72  E-value: 2.91e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   2 QVRQSPQSLTVWEGETAILNCSYEDSTFNYFP-WYQQFPGEGPALLISIRSVSDKKEDGRFTIFFNKREKKLSLHITDSQ 80
Cdd:cd07706   1 KVTQAQPDVSVQVGEEVTLNCRYETSWTNYYLfWYKQLPSGEMTFLIRQDSSEQNAKSGRYSVNFQKAQKSISLTISALQ 80

                        90       100       110
                ....*....|....*....|....*....|..
gi 20150827  81 PGDSATYFCAARYQGGR-ALIFGTGTTVSVSP 111
Cdd:cd07706  81 LEDSAKYFCALSLPYDTdKLIFGKGTRLTVEP 112
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 5-109 3.02e-20

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 78.65  E-value: 3.02e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827     5 QSPQSLTVWEGETAILNCSY---EDSTFNYFPWYQQFPGEGPALLISIRSVSDK--KEDGRFTIFFNKREKKLSLHITDS 79
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYsssMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100       110
                  ....*....|....*....|....*....|
gi 20150827    80 QPGDSATYFCAARYQGgrALIFGTGTTVSV 109
Cdd:pfam07686  81 TLSDSGTYTCAVIPSG--EGVFGKGTRLTV 108
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 3-109 1.43e-19

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here are composed of the immunoglobulin (Ig) variable domain of the beta chain of alpha/beta T-cell antigen receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are composed of alpha and beta, or gamma and delta, polypeptide chains with variable (V) and constant (C) regions. This group includes the variable domain of the alpha chain of alpha/beta TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The variable domain of TCRs is responsible for antigen recognition, and is located at the N-terminus of the receptor. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize MHC independently of the bound peptide. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409480  Cd Length: 110  Bit Score: 76.94  E-value: 1.43e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   3 VRQSPQSLTVWEGETAILNCSYEDSTFNYFpWYQQFPGEGPALLISIRSVSDKKEDGRFTI-FFNKREKK--LSLHITDS 79
Cdd:cd05899   1 VTQSPRYLIKRRGQSVTLRCSQKSGHDNMY-WYRQDPGKGLQLLFYSYGGGLNEEGDLPGDrFSASRPSLtrSSLTIKSA 79

                        90       100       110
                ....*....|....*....|....*....|.
gi 20150827  80 QPGDSATYFCAARYQGGRA-LIFGTGTTVSV 109
Cdd:cd05899  80 EPEDSAVYLCASSLGGGADeAYFGPGTRLTV 110
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 5-110 4.04e-15

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here are composed of the immunoglobulin (Ig) variable (V) domain of the gamma chain of gamma/delta T-cell receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are heterodimers consisting of alpha and beta chains or gamma and delta chains. Each chain contains a variable (V) and a constant (C) region. The majority of T cells contain alpha/beta TCRs, but a small subset contain gamma/delta TCRs. Alpha/beta TCRs recognize antigens as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize MHC independently of the bound peptide. Gamma/delta T cells can also be stimulated by non-peptide antigens such as small phosphate- or amine-containing compounds. The variable domain of gamma/delta TCRs is responsible for antigen recognition and is located at the N-terminus of the receptor. Members of this group contain the standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409371  Cd Length: 117  Bit Score: 65.46  E-value: 4.04e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   5 QSPQSLTVWEGETAILNCSYEDSTFN--YFPWYQQFPGEGPALLISIRSVSDKKED-----GRFTIFFNKREKKLSLHIT 77
Cdd:cd04982   3 QPQLSITREESKSVTISCKVSGIDFSttYIHWYRQKPGQALERLLYVSSTSAVRKDsgktkNKFEARKDVGKSTSTLTIT 82

                        90       100       110
                ....*....|....*....|....*....|....*
gi 20150827  78 DSQPGDSATYFCAA--RYQGGRALIFGTGTTVSVS 110
Cdd:cd04982  83 NLEKEDSATYYCAYweSGSGYYIKVFGSGTKLIVT 117
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 7-109 1.64e-14

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: 63.29  E-value: 1.64e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827      7 PQSLTVWEGETAILNCSYEDSTFNYFPWYQQfpgeGPALLIsirsvsdkkEDGRFTIFFNKRekKLSLHITDSQPGDSAT 86
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQ----GGKLLA---------ESGRFSVSRSGS--TSTLTISNVTPEDSGT 65

                           90       100
                   ....*....|....*....|...
gi 20150827     87 YFCAARYQGGraLIFGtGTTVSV 109
Cdd:smart00410  66 YTCAATNSSG--SASS-GTTLTV 85
IGv smart00406
Immunoglobulin V-Type;
17-90 1.99e-13

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 60.47  E-value: 1.99e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827     17 TAILNCSYEDSTF--NYFPWYQQFPGEGPALLISIRS----VSDKKEDGRFTIFFNKREKKLSLHITDSQPGDSATYFCA 90
Cdd:smart00406   1 SVTLSCKFSGSTFssYYVSWVRQPPGKGLEWLGYIGSngssYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYCA 80
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 2-109 2.88e-13

Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are composed of the immunoglobulin (Ig) light chain, kappa type, variable (V) domain. This group contains the standard Ig superfamily V-set AGFCC'C"/DEB domain topology. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. There are two types of light chains: kappa and lambda, each composed of a constant domain (CL) and a variable domain (VL). There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which seem to be functionally identical, and can associate with any of the heavy chains.


Pssm-ID: 409369  Cd Length: 106  Bit Score: 60.48  E-value: 2.88e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   2 QVRQSPQSLTVWEGETAILNC-SYEDSTFNYFPWYQQFPGEGPALLISIRSVSDKKEDGRF------TIFfnkrekklSL 74
Cdd:cd04980   2 VMTQSPASLSVSPGERVTISCkASQSISSNYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFsgsgsgTDF--------TL 73

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 20150827  75 HITDSQPGDSATYFCaaryQGGR--ALIFGTGTTVSV 109
Cdd:cd04980  74 TISSVEPEDAAVYYC----QQGYtfPYTFGGGTKLEI 106
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 7-109 1.52e-12

Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of the immunoglobulin (Ig) light chain, lambda type, variable (V) domain. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. There are two types of light chains: kappa and lambda, each composed of a constant domain (CL) and a variable domain (VL). There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which seem to be functionally identical, and can associate with any of the heavy chains. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409373  Cd Length: 105  Bit Score: 58.63  E-value: 1.52e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   7 PQSLTVWEGETAILNCSYEDSTF--NYFPWYQQFPGEGPALLISIrsvSDKKEDG---RFTifFNKREKKLSLHITDSQP 81
Cdd:cd04984   5 PSSLSVSPGETVTITCTGSSGNIsgNYVNWYQQKPGSAPRYLIYE---DKHRPSGipdRFS--GSKSGNTASLTISGAQT 79

                        90       100
                ....*....|....*....|....*...
gi 20150827  82 GDSATYFCAARYqgGRALIFGTGTTVSV 109
Cdd:cd04984  80 EDEADYYCQVWD--SNSYVFGGGTKLTV 105
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 15-109 1.59e-10

T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the immunoglobulin (Ig) heavy chain (H), variable (V) domain of the T-cell receptor Mu. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which can associate with any of the heavy chains. This family includes alpha, gamma, delta, epsilon, and mu heavy chains. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409514  Cd Length: 115  Bit Score: 53.72  E-value: 1.59e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827  15 GETAILNCSYEDSTFN--YFPWYQQFPGEGPALLISIRSVSDKKEDGRFTIFFNKREKKLSLHITDSQPGDSATYFCAAR 92
Cdd:cd16095  15 GKTLSLKCQTSGFQFNtsQLSWYLWVPGHAPLWLTSLDHISTKVSEDRITSSREDTNSQIFLQIKGLGLRDSGQYHCARR 94

                        90       100
                ....*....|....*....|
gi 20150827  93 YQGG---RALIFGTGTTVSV 109
Cdd:cd16095  95 VGYGddtDKLIFGPGTDVIV 114
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 5-109 2.81e-08

Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The members here are composed of the immunoglobulin (Ig)-like domain in Cluster of Differentiation (CD) 8 beta. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation, and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alpha/alpha or alpha/beta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners, etc. Each CD8 subunit is comprised of an extracellular domain containing a V-type Ig-like domain, a single pass transmembrane portion, and a short intracellular domain. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409497  Cd Length: 116  Bit Score: 47.83  E-value: 2.81e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   5 QSPQSLTVWEGETAILNC---SYEDSTFNYfpWYQQFPGEGP-------ALLISIRSV--SDKKEDGRFTIFFNKREKKL 72
Cdd:cd07700   3 QTPGSLLVQTNQTVKMSCeakTSPKNTRIY--WLRQRQAPSKdshfeflASWDPSKGIvyGEGVDQEKLIILSDSDSSRY 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 20150827  73 SLHITDSQPGDSATYFCAAryQGGRALIFGTGTTVSV 109
Cdd:cd07700  81 ILSLMSVKPEDSGTYFCMT--VGSPELIFGTGTKLSV 115
IgV_PD1 cd16088
Immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1); The members here are ...
 6-93 2.93e-08

Immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1); The members here are composed of the immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1; also known as CD279/cluster of differentiation 279). PD1 is a cell surface receptor that is expressed on T cells and pro-B cells. The protein's structure includes an extracellular IgV domain followed by a transmembrane region and an intracellular tail. Activation of CD4+ T cells, CD8+ T cells, NKT cells, B cells, and monocytes induces PD-1 expression, immediately after which it binds two distinct ligands, PD-L1 (also known as B7-H1 or CD274/cluster of differentiation 274) and PD-L2, also known as B7-DC. PD-1 plays an important role in down regulating the immune system by preventing the activation of T-cells, reducing autoimmunity and promoting self-tolerance. The inhibitory effect of PD-1 is accomplished by promoting apoptosis in antigen specific T-cells in lymph nodes while simultaneously reducing apoptosis in regulatory T cells. A class of drugs that target PD-1, known as the PD-1 inhibitors, activate the immune system to attack tumors and treat cancer. Comparisons between the mouse PD-1 (mPD-1) and human PD-1 (hPD-1) reveals that unlike the mPD-1 which has a conventional IgSF V-set domain, hPD-1 lacks a C" strand, and instead the C' and D strands are connected by a long and flexible loop. In addition, the BC loop is not stabilized by disulfide bonding to the F strand of the ligand binding beta sheet. These differences result in different binding affinities of human and mouse PD-1 for their ligands.


Pssm-ID: 409509  Cd Length: 112  Bit Score: 47.89  E-value: 2.93e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   6 SPQSLTVWEGETAILNCSY-EDSTFNYFPWYQQFPGEGPALLISI-RSVSDKKEDGRFTIFFNKREKKLSLHITDSQPGD 83
Cdd:cd16088   5 SPALLVVTEGANATFTCSFsNTSESFVLNWYRLSPSNQTDKLAAFpEDRSQPGQDWRFRVTQLPNGRDFHMSVVRARRND 84

                        90
                ....*....|
gi 20150827  84 SATYFCAARY 93
Cdd:cd16088  85 SGTYLCGAIS 94
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 15-110 3.28e-08

Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the immunoglobulin (Ig) heavy chain (H), variable (V) domain. This group contains the standard Ig superfamily V-set AGFCC'C"/DEB domain topology. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which can associate with any of the heavy chains. This family includes alpha, gamma, delta, epsilon, and mu heavy chains.


Pssm-ID: 409370 [Multi-domain]  Cd Length: 118  Bit Score: 47.69  E-value: 3.28e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827  15 GETAILNCSYEDSTFN--YFPWYQQFPGEGP---ALLISIRSVSDKKED--GRFTIFFNKREKKLSLHITDSQPGDSATY 87
Cdd:cd04981  13 GQSLKLSCKASGFTFTsyGMGWVRQAPGKGLewiGLIYPGGGDTYYADSfkGRFTITRDTSKSTAYLQLNSLTSEDTAVY 92

                        90       100
                ....*....|....*....|....*.
gi 20150827  88 FCAARYQGGRALIF---GTGTTVSVS 110
Cdd:cd04981  93 YCARGLGGYGYSYFdywGQGTTVTVS 118
IgV_SIRP cd16097
Immunoglobulin (Ig)-like variable (V) domain of the Signal-Regulatory Protein (SIRP); The ...
 2-109 9.26e-06

Immunoglobulin (Ig)-like variable (V) domain of the Signal-Regulatory Protein (SIRP); The members here are composed of the immunoglobulin (Ig)-like domain of the Signal-Regulatory Protein (SIRP). The SIRPs belong to the "paired receptors" class of membrane proteins that comprise several genes coding for proteins with similar extracellular regions, but very different transmembrane/cytoplasmic regions with different (activating or inhibitory) signaling potentials. They are commonly on NK cells, but are also on many myeloid cells. Their extracellular region contains three immunoglobulin superfamily domains, a single V-set, and two C1-set IgSF domains. Their cytoplasmic tails that contain either ITIMs or transmembrane regions have positively charged residues that allow an association with adaptor proteins, such as DAP12/KARAP, containing ITAMs. There are 3 distinct SIRP members: alpha, beta, and gamma. SIRP alpha (also known as CD172a or SRC homology 2 domain-containing protein tyrosine phosphatase substrate 1/Shps-1) is a membrane receptor that interacts with a ligand CD47 expressed on many cells and gives an inhibitory signal through immunoreceptor tyrosine-based inhibition motifs in the cytoplasmic region that interact with phosphatases SHP-1 and SHP-2. SIRP beta has a short cytoplasmic region and associates with a transmembrane adapter protein DAP12 containing immunoreceptor tyrosine-based activation motifs to give an activating signal. SIRP gamma contains a very short cytoplasmic region lacking obvious signaling motifs, but also binds CD47 with much less affinity. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409516  Cd Length: 111  Bit Score: 41.39  E-value: 9.26e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   2 QVRQSPQSLTVWEGETAILNCSYEdSTFNYFPwYQQFPGEGPA-LLI---------SIRSVSDkkedgrftifFNKREK- 70
Cdd:cd16097   1 QVIQPEKSVSVAAGESATLHCTVT-SLIPVGP-IQWFRGAGPGrELIynqkeghfpRVTTVSD----------LTKRNNm 68

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
gi 20150827  71 KLSLHITDSQPGDSATYFCaARYQGGRA----LIFGTGTTVSV 109
Cdd:cd16097  69 DFSIRISNITPADAGTYYC-VKFRKGSPddveFKSGAGTELSV 110
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 5-96 1.10e-05

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: 40.64  E-value: 1.10e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827     5 QSPQSLTVWEGETAILNCSY-EDSTFNYFPWYQqfpgEGPALLISIRSVSDkkedgrftiffNKREKKLSLHITDSQPGD 83
Cdd:pfam00047   1 SAPPTVTVLEGDSATLTCSAsTGSPGPDVTWSK----EGGTLIESLKVKHD-----------NGRTTQSSLLISNVTKED 65

                          90
                  ....*....|...
gi 20150827    84 SATYFCAARYQGG 96
Cdd:pfam00047  66 AGTYTCVVNNPGG 78
IgI_5_Robo cd20952
Fifth Ig-like domain of Roundabout (Robo) homolog 1/2, and similar domains; a member of the ...
 3-99 1.71e-05

Fifth Ig-like domain of Roundabout (Robo) homolog 1/2, and similar domains; a member of the I-set of IgSF domains; The members here are composed of the fifth Ig-like domain of Roundabout (Robo) homolog 1/2 and similar domains. Robo receptors play a role in the development of the central nervous system (CNS), and are receptors of Slit protein. Slit is a repellant secreted by the neural cells in the midline. Slit acts through Robo to prevent most neurons from crossing the midline from either side. Three mammalian Robo homologs (Robo1, -2, and -3), and three mammalian Slit homologs (Slit-1,-2, -3), have been identified. Commissural axons, which cross the midline, express low levels of Robo; longitudinal axons, which avoid the midline, express high levels of Robo. Robo1, -2, and -3 are expressed by commissural neurons in the vertebrate spinal cord and Slits 1, -2, -3 are expressed at the ventral midline. Robo-3 is a divergent member of the Robo family which instead of being a positive regulator of slit responsiveness, antagonizes slit responsiveness in precrossing axons. The Slit-Robo interaction is mediated by the second leucine-rich repeat (LRR) domain of Slit and the two N-terminal Ig domains of Robo, Ig1 and Ig2. The primary Robo binding site for Slit2 has been shown by surface plasmon resonance experiments and mutational analysis to be is the Ig1 domain, while the Ig2 domain has been proposed to harbor a weak secondary binding site. The fifth Ig-like domain of Robo 1 and 2 is a member of the I-set Ig domains, having A-B-E-D strands in one beta-sheet and A'-G-F-C-C' in the other. Like the V-set Ig domains, members of the I-set have a discontinuous A strand but lack a C" strand. I-set domains are found in several cell adhesion molecules (such as VCAM, ICAM, and MADCAM), and are also present in numerous other diverse protein families, including several tyrosine-protein kinase receptors


Pssm-ID: 409544 [Multi-domain]  Cd Length: 87  Bit Score: 40.17  E-value: 1.71e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   3 VRQSPQSLTVWEGETAILNCSYEDSTFNYFPWYQQ---FPGEGPallisirsvsdkkedgRFTIFFNKrekklSLHITDS 79
Cdd:cd20952   2 ILQGPQNQTVAVGGTVVLNCQATGEPVPTISWLKDgvpLLGKDE----------------RITTLENG-----SLQIKGA 60

                        90       100
                ....*....|....*....|
gi 20150827  80 QPGDSATYFCAARYQGGRAL 99
Cdd:cd20952  61 EKSDTGEYTCVALNLSGEAT 80
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 2-92 3.90e-05

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 39.09  E-value: 3.90e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827     2 QVRQSPQSLTVWEGETAILNCSYEDSTFNYFPWYQQfpgegpallisirsvsDKKEDGRFTIFFNKREKKLSLHITDSQP 81
Cdd:pfam13927   3 VITVSPSSVTVREGETVTLTCEATGSPPPTITWYKN----------------GEPISSGSTRSRSLSGSNSTLTISNVTR 66

                          90
                  ....*....|.
gi 20150827    82 GDSATYFCAAR 92
Cdd:pfam13927  67 SDAGTYTCVAS 77
IgI_titin_I1-like cd20951
Immunoglobulin domain I1 of the titin I-band and similar proteins; a member of the I-set of ...
 7-98 1.11e-04

Immunoglobulin domain I1 of the titin I-band and similar proteins; a member of the I-set of IgSF domains; The members here are composed of the immunoglobulin domain I1 of the titin I-band and similar proteins. Titin is a key component in the assembly and functioning of vertebrate striated muscles. By providing connections at the level of individual microfilaments, it contributes to the fine balance of forces between the two halves of the sarcomere. The Ig superfamily (IgSF) is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. The two sheets are linked together by a conserved disulfide bond between B strand and F strand. 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. The Ig I1 domain of the titin I-band is a member of the I-set Ig domains, having A-B-E-D strands in one beta-sheet and A'-G-F-C-C' in the other. Like the V-set Ig domains, members of the I-set have a discontinuous A strand but lack a C" strand. I-set domains are found in several cell adhesion molecules (such as VCAM, ICAM, and MADCAM), and are also present in numerous other diverse protein families, including several tyrosine-protein kinase receptors, the hemolymph protein hemolin, the muscle proteins titin, telokin, and twitchin, the neuronal adhesion molecule axonin-1, and the signaling molecule semaphorin 4D that is involved in axonal guidance, immune function and angiogenesis.


Pssm-ID: 409543 [Multi-domain]  Cd Length: 94  Bit Score: 38.17  E-value: 1.11e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   7 PQSLTVWEGETAILNCsyedsTFNYFP-----WYQqfpgEGPALlisirsvsDKKEDGRFTIFFNKREKKlSLHITDSQP 81
Cdd:cd20951   7 LQSHTVWEKSDAKLRV-----EVQGKPdpevkWYK----NGVPI--------DPSSIPGKYKIESEYGVH-VLHIRRVTV 68

                        90
                ....*....|....*..
gi 20150827  82 GDSATYFCAARYQGGRA 98
Cdd:cd20951  69 EDSAVYSAVAKNIHGEA 85
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 4-110 1.76e-04

Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The members here are composed of the immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins. pIgR delivers dimeric IgA and pentameric IgM to mucosal secretions. Polymeric immunoglobulin (pIgs) are the first defense against pathogens and toxins. IgA and IgM can form polymers via an 18-residue extension at their C-termini referred to as the tailpiece. pIgR transports pIgs across mucosal epithelia into mucosal secretions. Human pIgR is a glycosylated type I transmembrane protein, comprised of a 620-residue extracellular region, a 23-residue transmembrane region, and a 103-residue cytoplasmic tail. The extracellular region contains five domains that share sequence similarity with Ig variable (v) regions. This group also contains the Ig-like extracellular domains of other receptors such as NK cell receptor Nkp44 and myeloid receptors, among others.


Pssm-ID: 409381  Cd Length: 100  Bit Score: 37.76  E-value: 1.76e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   4 RQSPQSLTVWEGETAILNCSYEDSTFNYFPWYQQFPGEGPALLISIRSVsdkKEDGRFTIFFNKREKKLSLHITDSQPGD 83
Cdd:cd05716   1 SVGPEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLVSSEGV---VPGGRISLTDDPDNGVFTVTLNQLRKED 77

                        90       100
                ....*....|....*....|....*..
gi 20150827  84 SATYFCAAryqgGRALIFGTGTTVSVS 110
Cdd:cd05716  78 AGWYWCGV----GDDGDRGLTVQVKLV 100
IgV_CD33 cd05712
Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic ...
 5-109 1.84e-04

Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic acid-binding Ig-like lectins); The members here are composed of the immunoglobulin (Ig) domain at the N-terminus of Cluster of Differentiation (CD) 33 and related Siglecs (sialic acid-binding Ig-like lectins). Siglec refers to a structurally related protein family that specifically recognizes sialic acid in oligosaccharide chains of glycoproteins and glycolipids. Siglecs are type I transmembrane proteins, organized as an extracellular module composed of Ig-like domains, an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains, followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG, the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11.


Pssm-ID: 409377  Cd Length: 119  Bit Score: 37.75  E-value: 1.84e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   5 QSPQSLTVWEGETAILNCS------YEDSTFNYFPWYQQFPGEG---PALLISIRSVSDKKEDGRFTIFFNKREKKLSLH 75
Cdd:cd05712   4 QMPKSVTVQEGLCVLIPCSfsypadYWVSNPVHGYWYRGGPYPKyrpPVATNNRTREVHESTQGRFRLLGDPGKKNCSLS 83

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 20150827  76 ITDSQPGDSATYFcaARYQGGRALIF---GTGTTVSV 109
Cdd:cd05712  84 ISDARPEDSGKYF--FRVERGDSNKYsylSNQLSLTV 118
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 8-109 1.68e-03

Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the immunoglobulin (Ig) variable (V) domain of the gamma/delta T-cell receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are heterodimers consisting of alpha and beta chains or gamma and delta chains. Each chain contains a variable (V) and a constant (C) region. The majority of T cells contain alpha/beta TCRs, but a small subset contain gamma/delta TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma/delta TCRs recognize intact protein antigens; they recognize protein antigens directly and without antigen processing, and MHC independently of the bound peptide. Gamma/delta T cells can also be stimulated by non-peptide antigens such as small phosphate- or amine-containing compounds. The variable domain of gamma/delta TCRs is responsible for antigen recognition and is located at the N-terminus of the receptor. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409580  Cd Length: 114  Bit Score: 35.23  E-value: 1.68e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   8 QSLTVWEGETAILNCSYE-DSTFNYFP-WYQQFPGEGPALLISIRSVSDKKEDGRFTIFFNKREKKLSLHITDSQPGDSA 85
Cdd:cd20988   6 QTVTVSVGKPVTLKCSMKgEAISNYYInWYRKTQGNTMTFIYREGGIYGPGFKDNFRGDIDSSNNLAVLKILEASERDEG 85

                        90       100
                ....*....|....*....|....*...
gi 20150827  86 TYFCAARYQGGRA----LIFGTGTTVSV 109
Cdd:cd20988  86 SYYCASDTPGGGReydpLIFGKGTYLTV 113
I-set pfam07679
Immunoglobulin I-set domain;
5-98 4.63e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 33.77  E-value: 4.63e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827     5 QSPQSLTVWEGETAILNCsyedstfnyfpwyqQFPGEgPALLIS-IRSVSDKKEDGRFTIFFNkrEKKLSLHITDSQPGD 83
Cdd:pfam07679   5 QKPKDVEVQEGESARFTC--------------TVTGT-PDPEVSwFKDGQPLRSSDRFKVTYE--GGTYTLTISNVQPDD 67

                          90
                  ....*....|....*
gi 20150827    84 SATYFCAARYQGGRA 98
Cdd:pfam07679  68 SGKYTCVATNSAGEA 82
IgV_1_Necl_like cd05717
First (N-terminal) immunoglobulin (Ig)-like domain of the nectin-like molecules; member of the ...
 8-89 9.68e-03

First (N-terminal) immunoglobulin (Ig)-like domain of the nectin-like molecules; member of the V-set of Ig superfamily (IgSF) domains; The members here are composed of the N-terminal immunoglobulin (Ig)-like domain of the nectin-like molecules Necl-1 (also known as cell adhesion molecule 3 (CADM3)), Necl-2 (CADM1), Necl-3 (CADM2), and similar proteins. At least five nectin-like molecules have been identified (Necl-1 to Necl-5). They all have an extracellular region containing three Ig-like domains, a transmembrane region, and a cytoplasmic region. The N-terminal Ig-like domain of the extracellular region belongs to the V-type subfamily of Ig domains, is essential to cell-cell adhesion, and plays a part in the interaction with the envelope glycoprotein D of various viruses. Necl-1, Necl-2, and Necl-3 have Ca(2+)-independent homophilic and heterophilic cell-cell adhesion activity. Necl-1 is specifically expressed in neural tissue, and is important to the formation of synapses, axon bundles, and myelinated axons. Necl-2 is expressed in a wide variety of tissues and is a putative tumour suppressor gene which is downregulated in aggressive neuroblastoma. Necl-3 accumulates in central and peripheral nervous system tissue and has been shown to selectively interact with oligodendrocytes. This group also contains Class-I MHC-restricted T-cell-associated molecule (CRTAM), whose expression pattern is consistent with its expression in Class-I MHC-restricted T-cells.


Pssm-ID: 409382  Cd Length: 94  Bit Score: 32.87  E-value: 9.68e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 20150827   8 QSLTVWEGETAILNCSYEDSTFNYFPWY---QQ--FPGEGPALlisirsvsdkkEDGRFTIfFNKREKKLSLHITDSQPG 82
Cdd:cd05717   4 QDVTVVEGETLTLKCQVSLRDDSSLQWLnpnGQtiYFNDKRAL-----------RDSRYQL-LNHSASELSISVSNVTLS 71


                ....*..
gi 20150827  83 DSATYFC 89
Cdd:cd05717  72 DEGVYTC 78
 
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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