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Conserved domains on  [gi|1488192460|ref|NP_938169|]
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novel immune-type receptor 3d precursor [Danio rerio]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 10058136)

immunoglobulin (Ig) domain-containing protein adopts a fold comprised of a sandwich of two beta sheets and may function in cell adhesion and pattern recognition; similar to Homo sapiens T cell receptor beta variable 30

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 24-130 2.29e-14

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: 66.59  E-value: 2.29e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  24 IHQQPL-VVAELGSSVTLPCFHSDDFITT-ISWYKHSAGKKPLLIAHSAPNSGRVTyqnaFNNTNRFFITIASG-SYNLS 100
Cdd:cd00099     1 VTQSPRsLSVQEGESVTLSCEVSSSFSSTyIYWYRQKPGQGPEFLIYLSSSKGKTK----GGVPGRFSGSRDGTsSFSLT 76

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1488192460 101 ILHLEKEDFATYYCAKF---FLNIMMFGEGTIL 130
Cdd:cd00099    77 ISNLQPEDSGTYYCAVSesgGTDKLTFGSGTRL 109
 
Name Accession Description Interval E-value
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 24-130 2.29e-14

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: 66.59  E-value: 2.29e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  24 IHQQPL-VVAELGSSVTLPCFHSDDFITT-ISWYKHSAGKKPLLIAHSAPNSGRVTyqnaFNNTNRFFITIASG-SYNLS 100
Cdd:cd00099     1 VTQSPRsLSVQEGESVTLSCEVSSSFSSTyIYWYRQKPGQGPEFLIYLSSSKGKTK----GGVPGRFSGSRDGTsSFSLT 76

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1488192460 101 ILHLEKEDFATYYCAKF---FLNIMMFGEGTIL 130
Cdd:cd00099    77 ISNLQPEDSGTYYCAVSesgGTDKLTFGSGTRL 109
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 26-130 3.51e-11

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: 58.24  E-value: 3.51e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  26 QQPLVV-AELGSSVTLPC----FHSDDfITTISWYKHSAGKKP-LLIAHSAPNSGRVTYQNAFnntnRFFITIASGSYNL 99
Cdd:pfam07686   1 QTPREVtVALGGSVTLPCtyssSMSEA-STSVYWYRQPPGKGPtFLIAYYSNGSEEGVKKGRF----SGRGDPSNGDGSL 75

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1488192460 100 SILHLEKEDFATYYCAKFFLNIMMFGEGTIL 130
Cdd:pfam07686  76 TIQNLTLSDSGTYTCAVIPSGEGVFGKGTRL 106
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 27-132 1.91e-07

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: 47.50  E-value: 1.91e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460   27 QPLVVAELGSSVTLPCFHSDDFITTISWYKHsaGKKPLLiahsapnsgrvtyqnafnNTNRFFITIASGSYNLSILHLEK 106
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQ--GGKLLA------------------ESGRFSVSRSGSTSTLTISNVTP 60

                           90       100
                   ....*....|....*....|....*.
gi 1488192460  107 EDFATYYCAkfFLNIMMFGEGTILLH 132
Cdd:smart00410  61 EDSGTYTCA--ATNSSGSASSGTTLT 84
 
Name Accession Description Interval E-value
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 24-130 2.29e-14

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: 66.59  E-value: 2.29e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  24 IHQQPL-VVAELGSSVTLPCFHSDDFITT-ISWYKHSAGKKPLLIAHSAPNSGRVTyqnaFNNTNRFFITIASG-SYNLS 100
Cdd:cd00099     1 VTQSPRsLSVQEGESVTLSCEVSSSFSSTyIYWYRQKPGQGPEFLIYLSSSKGKTK----GGVPGRFSGSRDGTsSFSLT 76

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1488192460 101 ILHLEKEDFATYYCAKF---FLNIMMFGEGTIL 130
Cdd:cd00099    77 ISNLQPEDSGTYYCAVSesgGTDKLTFGSGTRL 109
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 26-130 3.51e-11

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: 58.24  E-value: 3.51e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  26 QQPLVV-AELGSSVTLPC----FHSDDfITTISWYKHSAGKKP-LLIAHSAPNSGRVTYQNAFnntnRFFITIASGSYNL 99
Cdd:pfam07686   1 QTPREVtVALGGSVTLPCtyssSMSEA-STSVYWYRQPPGKGPtFLIAYYSNGSEEGVKKGRF----SGRGDPSNGDGSL 75

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1488192460 100 SILHLEKEDFATYYCAKFFLNIMMFGEGTIL 130
Cdd:pfam07686  76 TIQNLTLSDSGTYTCAVIPSGEGVFGKGTRL 106
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 24-130 5.10e-10

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: 54.98  E-value: 5.10e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  24 IHQQP-LVVAELGSSVTLPCFHSDDFiTTISWYKHSAGKKPLLIAHSApNSGRVTYQNAFNNtnRFFITIASGSY-NLSI 101
Cdd:cd05899     1 VTQSPrYLIKRRGQSVTLRCSQKSGH-DNMYWYRQDPGKGLQLLFYSY-GGGLNEEGDLPGD--RFSASRPSLTRsSLTI 76

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1488192460 102 LHLEKEDFATYYCA---KFFLNIMMFGEGTIL 130
Cdd:cd05899    77 KSAEPEDSAVYLCAsslGGGADEAYFGPGTRL 108
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 26-130 5.40e-10

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: 54.97  E-value: 5.40e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  26 QQPLVVAElGSSVTLPCFHSDDFITTISWYKHSAGKKPLLIAHSAPNSGRVTyqnafNNTNRFFITIASGSYNLSILHLE 105
Cdd:cd04983     5 PQSLSVQE-GENVTLNCNYSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKK-----KGRFSATLDKSRKSSSLHISAAQ 78

                          90       100
                  ....*....|....*....|....*...
gi 1488192460 106 KEDFATYYCA---KFFLNIMMFGEGTIL 130
Cdd:cd04983    79 LSDSAVYFCAlseSGGTGKLTFGKGTRL 106
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 26-130 3.76e-08

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: 49.77  E-value: 3.76e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  26 QQPLVVAELGSSVTLPCFHSDDFIT--TISWYKHSAGKKPLLiahsapnsgrVTYQNafNNT-----NRFFITIASGSYN 98
Cdd:cd04984     4 QPSSLSVSPGETVTITCTGSSGNISgnYVNWYQQKPGSAPRY----------LIYED--KHRpsgipDRFSGSKSGNTAS 71

                          90       100       110
                  ....*....|....*....|....*....|..
gi 1488192460  99 LSILHLEKEDFATYYCAKFFLNIMMFGEGTIL 130
Cdd:cd04984    72 LTISGAQTEDEADYYCQVWDSNSYVFGGGTKL 103
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 32-130 3.95e-08

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: 49.70  E-value: 3.95e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  32 AELGSSVTLPCFHSDDFITT-ISWYKHSAGKKPLLIAHSAPNSgrvtyqnAFNNTNRFfitiaSGS-----YNLSILHLE 105
Cdd:cd04980    12 VSPGERVTISCKASQSISSNyLAWYQQKPGQAPKLLIYYASTL-------HSGVPSRF-----SGSgsgtdFTLTISSVE 79

                          90       100
                  ....*....|....*....|....*
gi 1488192460 106 KEDFATYYCAKFFLNIMMFGEGTIL 130
Cdd:cd04980    80 PEDAAVYYCQQGYTFPYTFGGGTKL 104
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 26-130 7.51e-08

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: 49.28  E-value: 7.51e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  26 QQPLVVAELGSSVTLPC-FHSDDFITT-ISWYKHSAGKKPLLIAHSApNSGRVTYQNAFNnTNRFFITIASG--SYNLSI 101
Cdd:cd04982     4 PQLSITREESKSVTISCkVSGIDFSTTyIHWYRQKPGQALERLLYVS-STSAVRKDSGKT-KNKFEARKDVGksTSTLTI 81

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1488192460 102 LHLEKEDFATYYCAKFFLN----IMMFGEGTIL 130
Cdd:cd04982    82 TNLEKEDSATYYCAYWESGsgyyIKVFGSGTKL 114
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 27-132 1.91e-07

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: 47.50  E-value: 1.91e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460   27 QPLVVAELGSSVTLPCFHSDDFITTISWYKHsaGKKPLLiahsapnsgrvtyqnafnNTNRFFITIASGSYNLSILHLEK 106
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQ--GGKLLA------------------ESGRFSVSRSGSTSTLTISNVTP 60

                           90       100
                   ....*....|....*....|....*.
gi 1488192460  107 EDFATYYCAkfFLNIMMFGEGTILLH 132
Cdd:smart00410  61 EDSGTYTCA--ATNSSGSASSGTTLT 84
IGv smart00406
Immunoglobulin V-Type;
37-115 5.11e-07

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 46.22  E-value: 5.11e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460   37 SVTLPC-FHSDDF-ITTISWYKHSAGKKPLLIaHSAPNSGRVTYQNAFnnTNRFFIT--IASGSYNLSILHLEKEDFATY 112
Cdd:smart00406   1 SVTLSCkFSGSTFsSYYVSWVRQPPGKGLEWL-GYIGSNGSSYYQESY--KGRFTISkdTSKNDVSLTISNLRVEDTGTY 77


                   ...
gi 1488192460  113 YCA 115
Cdd:smart00406  78 YCA 80
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 35-116 3.51e-06

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: 44.61  E-value: 3.51e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  35 GSSVTLPCFHSDDFIT--TISWYKHSAGKKPLLIAHSAPNSGRVTYQNAFnnTNRFFITIASGS---YnLSILHLEKEDF 109
Cdd:cd04981    13 GQSLKLSCKASGFTFTsyGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSF--KGRFTITRDTSKstaY-LQLNSLTSEDT 89


                  ....*..
gi 1488192460 110 ATYYCAK 116
Cdd:cd04981    90 AVYYCAR 96
Ig_SLAM-like_N cd16842
N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule ...
 30-112 5.54e-05

N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family; The members here are composed of the N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family and similar proteins. The SLAM family is a group of immune-cell specific receptors that can regulate both adaptive and innate immune responses. Members of this group include proteins such as CD84, SLAM (CD150), Ly-9 (CD229), NTB-A (ly-108, SLAM6), 19A (CRACC), and SLAMF9. The genes coding for the SLAM family are nested on chromosome 1, in humans at 1q23, and in mice at 1H2. The SLAM family is a subset of the CD2 family, which also includes CD2 and CD58 located on chromosome 1 at 1p13 in humans. In mice, CD2 is located on chromosome 3, and there is no CD58 homolog. The SLAM family proteins are organized as an extracellular domain with either two or four Ig-like domains, a single transmembrane segment, and a cytoplasmic region having Tyr-based motifs. The extracellular domain is organized as a membrane-distal Ig variable (IgV) domain that is responsible for ligand recognition and a membrane-proximal truncated Ig constant-2 (IgC2) domain.


Pssm-ID: 409517  Cd Length: 102  Bit Score: 40.77  E-value: 5.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  30 VVAELGSSVTLPCFHSDDF-ITTISWykhSAGKKPLLIAHSAPNSGRVTYQNAfNNTNRffITIASGSYNLSILHLEKED 108
Cdd:cd16842     3 VNGILGGSVTFPLNISDGQeIENITW---SFKTSLAVIAPGEGGAPEIIITDK-SYKER--LNISQNDYSLQISNLTMED 76


                  ....
gi 1488192460 109 FATY 112
Cdd:cd16842    77 AGSY 80
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 27-130 1.87e-03

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: 36.73  E-value: 1.87e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  27 QPLVVAELGSSVTLPC-FHSDDFITTISWYKH-SAGKKPLLIAHSApnsgrvTYQNAFNNTNRFFITIASGSYNLSILHL 104
Cdd:cd07706     6 QPDVSVQVGEEVTLNCrYETSWTNYYLFWYKQlPSGEMTFLIRQDS------SEQNAKSGRYSVNFQKAQKSISLTISAL 79

                          90       100
                  ....*....|....*....|....*....
gi 1488192460 105 EKEDFATYYCAKFFL---NIMMFGEGTIL 130
Cdd:cd07706    80 QLEDSAKYFCALSLPydtDKLIFGKGTRL 108
IgV_1_PVR_like cd05718
First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 ...
 28-114 2.79e-03

First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 and necl-5), and similar domains; The members here are composed of the first immunoglobulin (Ig) domain of poliovirus receptor (PVR, also known as CD155 and nectin-like protein 5 (necl-5)). Poliovirus (PV) binds to its cellular receptor (PVR/CD155) to initiate infection. CD155 is a membrane-anchored, single-span glycoprotein; its extracellular region has three Ig-like domains. There are four different isotypes of CD155 (referred to as alpha, beta, gamma, and delta), that result from alternate splicing of the CD155 mRNA, and have identical extracellular domains. CD155-beta and CD155-gamma are secreted; CD155-alpha and CD155-delta are membrane-bound and function as PV receptors. The virus recognition site is contained in the amino-terminal domain, D1. Having the virus attachment site on the receptor distal from the plasma membrane may be important for successful initiation of infection of cells by the virus. CD155 binds in the poliovirus "canyon" with a footprint similar to that of the intercellular adhesion molecule-1 receptor on human rhinoviruses. This group also includes the first Ig-like domain of nectin-1 (also known as poliovirus receptor related protein(PVRL)1; CD111), nectin-3 (also known as PVRL 3), nectin-4 (also known as PVRL4; LNIR receptor)and DNAX accessory molecule 1 (DNAM-1; CD226).


Pssm-ID: 409383  Cd Length: 113  Bit Score: 36.27  E-value: 2.79e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  28 PLVVAELGSSVTLPC-FHS--DDFITTISWYKHSAGKKPLLIAHSaPNSGrVTYQNAFnnTNRFFITIASGSYN---LSI 101
Cdd:cd05718     7 TEVTGFLGGSVTLPCsLTSpgTTKITQVTWMKIGAGSSQNVAVFH-PQYG-PSVPNPY--AERVEFLAARLGLRnatLRI 82

                          90
                  ....*....|...
gi 1488192460 102 LHLEKEDFATYYC 114
Cdd:cd05718    83 RNLRVEDEGNYIC 95
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 29-115 2.81e-03

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: 36.22  E-value: 2.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  29 LVVAELGSSVTLPCFHSDDFI-TTISWYKHSAGKKPLLIAhsapnsgrvtyQNAFNNTNRFFITI--ASGSYNLSILHLE 105
Cdd:cd05716     6 VVTGVEGGSVTIQCPYPPKYAsSRKYWCKWGSEGCQTLVS-----------SEGVVPGGRISLTDdpDNGVFTVTLNQLR 74

                          90
                  ....*....|
gi 1488192460 106 KEDFATYYCA 115
Cdd:cd05716    75 KEDAGWYWCG 84
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 50-130 2.98e-03

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: 36.27  E-value: 2.98e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  50 TTISWYK----HSAGKKPLLIAHSAPNSGRVTYQNAFNNTNRFFITIASGSYNLSILHLEKEDFATYYCAKFFLNIMMFG 125
Cdd:cd07700    29 TRIYWLRqrqaPSKDSHFEFLASWDPSKGIVYGEGVDQEKLIILSDSDSSRYILSLMSVKPEDSGTYFCMTVGSPELIFG 108


                  ....*
gi 1488192460 126 EGTIL 130
Cdd:cd07700   109 TGTKL 113
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 31-127 7.06e-03

Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; The members here are composed of the immunoglobulin (Ig)-like variable domain of the Cluster of Differentiation (CD) 8 alpha. 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. The Ig domain of CD8 alpha binds to antibodies. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409385  Cd Length: 110  Bit Score: 35.15  E-value: 7.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1488192460  31 VAELGSSVTLPCFHSDDFITTISWY---KHSAGKKPLLIAHSAPNsgRVTYQNAFNnTNRFFITIASGSYNLSILHLEKE 107
Cdd:cd05720     9 DAQLGQKVELVCEVLNSVPQGCSWLfqpRGSAPQPTFLLYLSSSN--KTKWAEGLD-SKRFSGSRSGSSYVLTLKDFRKE 85

                          90       100
                  ....*....|....*....|
gi 1488192460 108 DFATYYCAKFFLNIMMFGEG 127
Cdd:cd05720    86 DEGYYFCSVISNSVLYFSSF 105
 
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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