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Conserved domains on  [gi|1330095101|gb|AUQ32912|]
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T cell receptor alpha chain, partial [Labrus bergylta]

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 ...
 39-140 2.30e-30

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 cd04983:

Pssm-ID: 472250 [Multi-domain]  Cd Length: 109  Bit Score: 109.28  E-value: 2.30e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  39 SLEGSTVTLSYSYpELSTSNYFFWYRQHPGKQPQFIISHSSTGRLISDpvSGLSVTMREDEKHLDLQISSAALTDSAVYY 118
Cdd:cd04983    10 VQEGENVTLNCNY-STSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKK--GRFSATLDKSRKSSSLHISAAQLSDSAVYF 86

                          90       100
                  ....*....|....*....|...
gi 1330095101 119 CAV-NNQGAGKLYFSTGTKLTVT 140
Cdd:cd04983    87 CALsESGGTGKLTFGKGTRLTVE 109
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 147-205 2.77e-03

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 cd07688:

Pssm-ID: 472250  Cd Length: 83  Bit Score: 36.01  E-value: 2.77e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1330095101 147 PSYHKL---QGNNSTACLATGFTqiNEVNETLFKGTEAVRISD---------GSVYTQvAVLTTEDTKQKC 205
Cdd:cd07688     2 PAVYQLkdpRSSDISVCLFTDFD--SQTNVTKSMDSETVFITNktvldmksmDSKSNG-AVAWSNQSDFEC 69
 
Name Accession Description Interval E-value
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 39-140 2.30e-30

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: 109.28  E-value: 2.30e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  39 SLEGSTVTLSYSYpELSTSNYFFWYRQHPGKQPQFIISHSSTGRLISDpvSGLSVTMREDEKHLDLQISSAALTDSAVYY 118
Cdd:cd04983    10 VQEGENVTLNCNY-STSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKK--GRFSATLDKSRKSSSLHISAAQLSDSAVYF 86

                          90       100
                  ....*....|....*....|...
gi 1330095101 119 CAV-NNQGAGKLYFSTGTKLTVT 140
Cdd:cd04983    87 CALsESGGTGKLTFGKGTRLTVE 109
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 41-140 4.85e-13

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: 63.63  E-value: 4.85e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  41 EGSTVTL--SYSYPELSTSNYFFWYRQHPGKQPQFIISHSSTGR---LISDPVSGLSVTMREDekhLDLQISSAALTDSA 115
Cdd:pfam07686  10 LGGSVTLpcTYSSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSeegVKKGRFSGRGDPSNGD---GSLTIQNLTLSDSG 86

                          90       100
                  ....*....|....*....|....*
gi 1330095101 116 VYYCAVNnqGAGKLYFSTGTKLTVT 140
Cdd:pfam07686  87 TYTCAVI--PSGEGVFGKGTRLTVL 109
IGv smart00406
Immunoglobulin V-Type;
44-121 6.21e-10

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 54.31  E-value: 6.21e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101   44 TVTLS--YSYPELStSNYFFWYRQHPGKQPQFIISHSSTG-RLISDPVSG-LSVTMREDEKHLDLQISSAALTDSAVYYC 119
Cdd:smart00406   1 SVTLSckFSGSTFS-SYYVSWVRQPPGKGLEWLGYIGSNGsSYYQESYKGrFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 1330095101  120 AV 121
Cdd:smart00406  80 AV 81
IgC_TCR_alpha cd07688
Immunoglobulin (Ig) constant domain the alpha chain of alpha/beta T-cell antigen receptors ...
 147-205 2.77e-03

Immunoglobulin (Ig) constant domain the alpha chain of alpha/beta T-cell antigen receptors (TCRs); The members here are composed of the constant 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 includes the variable domain of the alpha chain. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The antigen binding site is formed by the variable domains of the alpha and beta chains, located at the N-terminus of each chain. Alpha/beta TCRs recognize antigens differently from gamma/delta TCRs.


Pssm-ID: 409485  Cd Length: 83  Bit Score: 36.01  E-value: 2.77e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1330095101 147 PSYHKL---QGNNSTACLATGFTqiNEVNETLFKGTEAVRISD---------GSVYTQvAVLTTEDTKQKC 205
Cdd:cd07688     2 PAVYQLkdpRSSDISVCLFTDFD--SQTNVTKSMDSETVFITNktvldmksmDSKSNG-AVAWSNQSDFEC 69
 
Name Accession Description Interval E-value
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 39-140 2.30e-30

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: 109.28  E-value: 2.30e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  39 SLEGSTVTLSYSYpELSTSNYFFWYRQHPGKQPQFIISHSSTGRLISDpvSGLSVTMREDEKHLDLQISSAALTDSAVYY 118
Cdd:cd04983    10 VQEGENVTLNCNY-STSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKK--GRFSATLDKSRKSSSLHISAAQLSDSAVYF 86

                          90       100
                  ....*....|....*....|...
gi 1330095101 119 CAV-NNQGAGKLYFSTGTKLTVT 140
Cdd:cd04983    87 CALsESGGTGKLTFGKGTRLTVE 109
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 41-139 2.62e-27

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: 101.26  E-value: 2.62e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  41 EGSTVTLSYSYPELSTSNYFFWYRQHPGKQPQFIISHSSTGRLISDPVSGLSVTMREDEKHLDLQISSAALTDSAVYYCA 120
Cdd:cd00099    12 EGESVTLSCEVSSSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKGGVPGRFSGSRDGTSSFSLTISNLQPEDSGTYYCA 91

                          90       100
                  ....*....|....*....|
gi 1330095101 121 V-NNQGAGKLYFSTGTKLTV 139
Cdd:cd00099    92 VsESGGTDKLTFGSGTRLTV 111
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 41-139 1.02e-17

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: 76.17  E-value: 1.02e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  41 EGSTVTLSYSypelSTSNY--FFWYRQHPGKQPQFIISHSSTG--RLISDPVSGLSVTmREDEKHLDLQISSAALTDSAV 116
Cdd:cd05899    12 RGQSVTLRCS----QKSGHdnMYWYRQDPGKGLQLLFYSYGGGlnEEGDLPGDRFSAS-RPSLTRSSLTIKSAEPEDSAV 86

                          90       100
                  ....*....|....*....|....
gi 1330095101 117 YYCAVN-NQGAGKLYFSTGTKLTV 139
Cdd:cd05899    87 YLCASSlGGGADEAYFGPGTRLTV 110
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 29-141 7.52e-16

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: 71.40  E-value: 7.52e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  29 ELTPVKNEEYSLEGSTVTLSYSYPELSTSNYFFWYRQHPGKQPQFIISHSSTGRlisDPVSG-LSVTMREDEKHLDLQIS 107
Cdd:cd07706     1 KVTQAQPDVSVQVGEEVTLNCRYETSWTNYYLFWYKQLPSGEMTFLIRQDSSEQ---NAKSGrYSVNFQKAQKSISLTIS 77

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1330095101 108 SAALTDSAVYYCAVNNQG-AGKLYFSTGTKLTVTP 141
Cdd:cd07706    78 ALQLEDSAKYFCALSLPYdTDKLIFGKGTRLTVEP 112
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 41-140 3.23e-13

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: 64.31  E-value: 3.23e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  41 EGSTVTLS--YSYPELSTSnYFFWYRQHPGKQPQFIISHSSTGRLI--SDPVSGLSVTMREDEKHL-DLQISSAALTDSA 115
Cdd:cd04982    12 ESKSVTISckVSGIDFSTT-YIHWYRQKPGQALERLLYVSSTSAVRkdSGKTKNKFEARKDVGKSTsTLTITNLEKEDSA 90

                          90       100
                  ....*....|....*....|....*..
gi 1330095101 116 VYYCAVNNQGAGKLY--FSTGTKLTVT 140
Cdd:cd04982    91 TYYCAYWESGSGYYIkvFGSGTKLIVT 117
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 41-140 4.85e-13

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: 63.63  E-value: 4.85e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  41 EGSTVTL--SYSYPELSTSNYFFWYRQHPGKQPQFIISHSSTGR---LISDPVSGLSVTMREDekhLDLQISSAALTDSA 115
Cdd:pfam07686  10 LGGSVTLpcTYSSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSeegVKKGRFSGRGDPSNGD---GSLTIQNLTLSDSG 86

                          90       100
                  ....*....|....*....|....*
gi 1330095101 116 VYYCAVNnqGAGKLYFSTGTKLTVT 140
Cdd:pfam07686  87 TYTCAVI--PSGEGVFGKGTRLTVL 109
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 42-139 2.04e-10

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: 56.32  E-value: 2.04e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  42 GSTVTLSYSYPELSTS-NYFFWYRQHPGKQPQFII-SHSSTGRLISDPVSGLSvtmreDEKHLDLQISSAALTDSAVYYC 119
Cdd:cd04984    13 GETVTITCTGSSGNISgNYVNWYQQKPGSAPRYLIyEDKHRPSGIPDRFSGSK-----SGNTASLTISGAQTEDEADYYC 87

                          90       100
                  ....*....|....*....|
gi 1330095101 120 AVNNqgAGKLYFSTGTKLTV 139
Cdd:cd04984    88 QVWD--SNSYVFGGGTKLTV 105
IGv smart00406
Immunoglobulin V-Type;
44-121 6.21e-10

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 54.31  E-value: 6.21e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101   44 TVTLS--YSYPELStSNYFFWYRQHPGKQPQFIISHSSTG-RLISDPVSG-LSVTMREDEKHLDLQISSAALTDSAVYYC 119
Cdd:smart00406   1 SVTLSckFSGSTFS-SYYVSWVRQPPGKGLEWLGYIGSNGsSYYQESYKGrFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 1330095101  120 AV 121
Cdd:smart00406  80 AV 81
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 42-140 4.31e-07

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: 4.31e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  42 GSTVTLS-----YSYpelsTSNYFFWYRQHPGKQPQFI--ISHSSTGRLISDPVSGlSVTMRED--EKHLDLQISSAALT 112
Cdd:cd04981    13 GQSLKLSckasgFTF----TSYGMGWVRQAPGKGLEWIglIYPGGGDTYYADSFKG-RFTITRDtsKSTAYLQLNSLTSE 87

                          90       100       110
                  ....*....|....*....|....*....|.
gi 1330095101 113 DSAVYYCAVNNQGAGKLYFS---TGTKLTVT 140
Cdd:cd04981    88 DTAVYYCARGLGGYGYSYFDywgQGTTVTVS 118
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 42-139 1.38e-06

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: 45.84  E-value: 1.38e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  42 GSTVTLSYSYPELSTSNYFFWYRQHPGKQPQFIIS-----HSSTGRLISDPVSGLSVTmredekhldLQISSAALTDSAV 116
Cdd:cd04980    15 GERVTISCKASQSISSNYLAWYQQKPGQAPKLLIYyastlHSGVPSRFSGSGSGTDFT---------LTISSVEPEDAAV 85

                          90       100
                  ....*....|....*....|....*
gi 1330095101 117 YYCavnnQGAGKLY--FSTGTKLTV 139
Cdd:cd04980    86 YYC----QQGYTFPytFGGGTKLEI 106
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 41-139 5.23e-06

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: 43.65  E-value: 5.23e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101   41 EGSTVTLS--YSYpelSTSNYFFWYRQHPgkqpqfiISHSSTGRlisdpvsglsVTMREDEKHLDLQISSAALTDSAVYY 118
Cdd:smart00410   8 EGESVTLSceASG---SPPPEVTWYKQGG-------KLLAESGR----------FSVSRSGSTSTLTISNVTPEDSGTYT 67

                           90       100
                   ....*....|....*....|.
gi 1330095101  119 CAVNNqgAGKLYFStGTKLTV 139
Cdd:smart00410  68 CAATN--SSGSASS-GTTLTV 85
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 42-139 2.04e-05

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: 42.54  E-value: 2.04e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  42 GSTVTLSYSYPELSTSNYF-FWYRQHPGKQPQFIISHSST-GRLISDPVSGlsvTMREDEKHLDLQISSAALTDSAVYYC 119
Cdd:cd20988    13 GKPVTLKCSMKGEAISNYYiNWYRKTQGNTMTFIYREGGIyGPGFKDNFRG---DIDSSNNLAVLKILEASERDEGSYYC 89

                          90       100
                  ....*....|....*....|....
gi 1330095101 120 AVNNQGAG----KLYFSTGTKLTV 139
Cdd:cd20988    90 ASDTPGGGreydPLIFGKGTYLTV 113
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 56-139 4.53e-05

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: 41.78  E-value: 4.53e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  56 TSNYFF------WYRQHPGKQPQFIISHSStgrlISDPVSGLSVTM-REDEK-HLDLQISSAALTDSAVYYCAvNNQGAG 127
Cdd:cd16095    24 TSGFQFntsqlsWYLWVPGHAPLWLTSLDH----ISTKVSEDRITSsREDTNsQIFLQIKGLGLRDSGQYHCA-RRVGYG 98

                          90
                  ....*....|....*.
gi 1330095101 128 ----KLYFSTGTKLTV 139
Cdd:cd16095    99 ddtdKLIFGPGTDVIV 114
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 44-139 5.50e-05

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: 41.67  E-value: 5.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  44 TVTLSYSYPELSTSNYFFWYRQHPGKQP----QFIISHSSTGRlisdPVSGLSVTMRE-------DEKHLDLQISSAALT 112
Cdd:cd07700    15 TVKMSCEAKTSPKNTRIYWLRQRQAPSKdshfEFLASWDPSKG----IVYGEGVDQEKliilsdsDSSRYILSLMSVKPE 90

                          90       100
                  ....*....|....*....|....*..
gi 1330095101 113 DSAVYYCAVnnQGAGKLYFSTGTKLTV 139
Cdd:cd07700    91 DSGTYFCMT--VGSPELIFGTGTKLSV 115
IgV_CD33 cd05712
Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic ...
 40-140 3.10e-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: 39.29  E-value: 3.10e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1330095101  40 LEGSTVTL--SYSYP---ELSTSNYFFWYRQHPGKQPQFIISHSSTGRLISDPVSGLSVTMRE-DEKHLDLQISSAALTD 113
Cdd:cd05712    12 QEGLCVLIpcSFSYPadyWVSNPVHGYWYRGGPYPKYRPPVATNNRTREVHESTQGRFRLLGDpGKKNCSLSISDARPED 91

                          90       100
                  ....*....|....*....|....*...
gi 1330095101 114 SAVYYCAVNNQGAGK-LYFSTGTKLTVT 140
Cdd:cd05712    92 SGKYFFRVERGDSNKySYLSNQLSLTVT 119
IgC_TCR_alpha cd07688
Immunoglobulin (Ig) constant domain the alpha chain of alpha/beta T-cell antigen receptors ...
 147-205 2.77e-03

Immunoglobulin (Ig) constant domain the alpha chain of alpha/beta T-cell antigen receptors (TCRs); The members here are composed of the constant 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 includes the variable domain of the alpha chain. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The antigen binding site is formed by the variable domains of the alpha and beta chains, located at the N-terminus of each chain. Alpha/beta TCRs recognize antigens differently from gamma/delta TCRs.


Pssm-ID: 409485  Cd Length: 83  Bit Score: 36.01  E-value: 2.77e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1330095101 147 PSYHKL---QGNNSTACLATGFTqiNEVNETLFKGTEAVRISD---------GSVYTQvAVLTTEDTKQKC 205
Cdd:cd07688     2 PAVYQLkdpRSSDISVCLFTDFD--SQTNVTKSMDSETVFITNktvldmksmDSKSNG-AVAWSNQSDFEC 69
 
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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