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Conserved domains on  [gi|27729422|gb|AAO19002|]
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immunoglobulin heavy chain variable region, partial [Mus musculus]

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 ...
 1-107 1.39e-50

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 cd04981:

Pssm-ID: 472250 [Multi-domain]  Cd Length: 118  Bit Score: 155.55  E-value: 1.39e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   1 GGLVQPGESLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTYYPDTMERRFIISRDNTKKTLYLQMSSLRS 80
Cdd:cd04981   7 PGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQLNSLTS 86

                        90       100       110
                ....*....|....*....|....*....|..
gi 27729422  81 EDTALYYCARHGAW-----FAYWGQGTLVTVS 107
Cdd:cd04981  87 EDTAVYYCARGLGGygysyFDYWGQGTTVTVS 118
 
Name Accession Description Interval E-value
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 1-107 1.39e-50

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: 155.55  E-value: 1.39e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   1 GGLVQPGESLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTYYPDTMERRFIISRDNTKKTLYLQMSSLRS 80
Cdd:cd04981   7 PGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQLNSLTS 86

                        90       100       110
                ....*....|....*....|....*....|..
gi 27729422  81 EDTALYYCARHGAW-----FAYWGQGTLVTVS 107
Cdd:cd04981  87 EDTAVYYCARGLGGygysyFDYWGQGTTVTVS 118
IGv smart00406
Immunoglobulin V-Type;
9-90 2.66e-24

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 87.82  E-value: 2.66e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422      9 SLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSdGGSTYYPDTMERRFIISRDNTKKTLYLQMSSLRSEDTALYYC 88
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGS-NGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 27729422     89 AR 90
Cdd:smart00406  80 AV 81
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 3-106 6.84e-10

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: 51.69  E-value: 6.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422     3 LVQPGESLKLSCE-SNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTYYPdtmERRFIISRDNTKKTLYLQMSSLRSE 81
Cdd:pfam07686   7 TVALGGSVTLPCTySSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEEGVK---KGRFSGRGDPSNGDGSLTIQNLTLS 83

                          90       100
                  ....*....|....*....|....*
gi 27729422    82 DTALYYCARHGAWFAYWGQGTLVTV 106
Cdd:pfam07686  84 DSGTYTCAVIPSGEGVFGKGTRLTV 108
 
Name Accession Description Interval E-value
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 1-107 1.39e-50

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: 155.55  E-value: 1.39e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   1 GGLVQPGESLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTYYPDTMERRFIISRDNTKKTLYLQMSSLRS 80
Cdd:cd04981   7 PGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQLNSLTS 86

                        90       100       110
                ....*....|....*....|....*....|..
gi 27729422  81 EDTALYYCARHGAW-----FAYWGQGTLVTVS 107
Cdd:cd04981  87 EDTAVYYCARGLGGygysyFDYWGQGTTVTVS 118
IGv smart00406
Immunoglobulin V-Type;
9-90 2.66e-24

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 87.82  E-value: 2.66e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422      9 SLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSdGGSTYYPDTMERRFIISRDNTKKTLYLQMSSLRSEDTALYYC 88
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGS-NGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 27729422     89 AR 90
Cdd:smart00406  80 AV 81
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 3-106 2.05e-18

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: 73.91  E-value: 2.05e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   3 LVQPGESLKLSCESnEYEFPSHDMSWVRKTPEKRLELVaaINSDGGSTYYPDTMERRFIISRDNTKkTLYLQMSSLRSED 82
Cdd:cd00099   9 SVQEGESVTLSCEV-SSSFSSTYIYWYRQKPGQGPEFL--IYLSSSKGKTKGGVPGRFSGSRDGTS-SFSLTISNLQPED 84

                        90       100
                ....*....|....*....|....*..
gi 27729422  83 TALYYCA---RHGAWFAYWGQGTLVTV 106
Cdd:cd00099  85 SGTYYCAvseSGGTDKLTFGSGTRLTV 111
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 3-106 1.31e-14

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: 63.84  E-value: 1.31e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   3 LVQPGESLKLSCESNEyefpSHD-MSWVRKTPEKRLELVAAINSdGGSTYYPDTMERRFIISRdNTKKTLYLQMSSLRSE 81
Cdd:cd05899   9 IKRRGQSVTLRCSQKS----GHDnMYWYRQDPGKGLQLLFYSYG-GGLNEEGDLPGDRFSASR-PSLTRSSLTIKSAEPE 82

                        90       100
                ....*....|....*....|....*...
gi 27729422  82 DTALYYCA---RHGAWFAYWGQGTLVTV 106
Cdd:cd05899  83 DSAVYLCAsslGGGADEAYFGPGTRLTV 110
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 3-106 2.56e-13

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: 60.21  E-value: 2.56e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422      3 LVQPGESLKLSCESNEyeFPSHDMSWVRKTPEKrlelvaaINSDGgstyypdtmerRFIISRDNTkkTLYLQMSSLRSED 82
Cdd:smart00410   5 TVKEGESVTLSCEASG--SPPPEVTWYKQGGKL-------LAESG-----------RFSVSRSGS--TSTLTISNVTPED 62

                           90       100
                   ....*....|....*....|....
gi 27729422     83 TALYYCARHGAWFAYWGqGTLVTV 106
Cdd:smart00410  63 SGTYTCAATNSSGSASS-GTTLTV 85
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 3-106 1.28e-10

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: 53.99  E-value: 1.28e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   3 LVQPGESLKLSCESNEyeFPSHD-MSWVRK----TPEKRLELVAAINSDGGSTYYPDTMERRFIISRDNTKKTLYLQMSS 77
Cdd:cd07700   9 LVQTNQTVKMSCEAKT--SPKNTrIYWLRQrqapSKDSHFEFLASWDPSKGIVYGEGVDQEKLIILSDSDSSRYILSLMS 86

                        90       100
                ....*....|....*....|....*....
gi 27729422  78 LRSEDTALYYCARHGAWFAYWGQGTLVTV 106
Cdd:cd07700  87 VKPEDSGTYFCMTVGSPELIFGTGTKLSV 115
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 4-106 6.13e-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: 51.69  E-value: 6.13e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   4 VQPGESLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAainsdGGSTYYPDTMERRFIISRDNTkkTLYLQMSSLRSEDT 83
Cdd:cd04984  10 VSPGETVTITCTGSSGNISGNYVNWYQQKPGSAPRYLI-----YEDKHRPSGIPDRFSGSKSGN--TASLTISGAQTEDE 82

                        90       100
                ....*....|....*....|...
gi 27729422  84 ALYYCARHGAWFAYWGQGTLVTV 106
Cdd:cd04984  83 ADYYCQVWDSNSYVFGGGTKLTV 105
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 3-106 6.84e-10

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: 51.69  E-value: 6.84e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422     3 LVQPGESLKLSCE-SNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTYYPdtmERRFIISRDNTKKTLYLQMSSLRSE 81
Cdd:pfam07686   7 TVALGGSVTLPCTySSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEEGVK---KGRFSGRGDPSNGDGSLTIQNLTLS 83

                          90       100
                  ....*....|....*....|....*
gi 27729422    82 DTALYYCARHGAWFAYWGQGTLVTV 106
Cdd:pfam07686  84 DSGTYTCAVIPSGEGVFGKGTRLTV 108
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 1-90 3.22e-09

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: 50.25  E-value: 3.22e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   1 GGLVQPGESLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSDggstyYPDTMERRFIISRDNTKKTLYLQMSSLRS 80
Cdd:cd16095   9 GGSHPAGKTLSLKCQTSGFQFNTSQLSWYLWVPGHAPLWLTSLDHI-----STKVSEDRITSSREDTNSQIFLQIKGLGL 83

                        90
                ....*....|
gi 27729422  81 EDTALYYCAR 90
Cdd:cd16095  84 RDSGQYHCAR 93
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 5-107 8.27e-09

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: 8.27e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   5 QPGESLKLSCESNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTYYPDTMERRFIISRDNTKKTLYLQMSSLRSEDTA 84
Cdd:cd04982  11 EESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLTITNLEKEDSA 90

                        90       100
                ....*....|....*....|....*..
gi 27729422  85 LYYCARHGAWFAYW----GQGTLVTVS 107
Cdd:cd04982  91 TYYCAYWESGSGYYikvfGSGTKLIVT 117
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 4-106 4.24e-08

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: 47.27  E-value: 4.24e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   4 VQPGESLKLSCE----SNEYEFpshdmsWVRKTPEKRLELVAAINSDGGSTyypdtMERRFIISRDNTKKTLYLQMSSLR 79
Cdd:cd04983  10 VQEGENVTLNCNystsTFYYLF------WYRQYPGQGPQFLIYISSDSGNK-----KKGRFSATLDKSRKSSSLHISAAQ 78

                        90       100       110
                ....*....|....*....|....*....|
gi 27729422  80 SEDTALYYCA---RHGAWFAYWGQGTLVTV 106
Cdd:cd04983  79 LSDSAVYFCAlseSGGTGKLTFGKGTRLTV 108
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 4-102 4.34e-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: 41.99  E-value: 4.34e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   4 VQPGESLKLSCESNEyEFPSHDMSWVRKTPEK--RLELVAAINSDGGStyyPDtmerRFIISRDNTKKTLylQMSSLRSE 81
Cdd:cd04980  12 VSPGERVTISCKASQ-SISSNYLAWYQQKPGQapKLLIYYASTLHSGV---PS----RFSGSGSGTDFTL--TISSVEPE 81

                        90       100
                ....*....|....*....|..
gi 27729422  82 DTALYYCaRHGAWFAY-WGQGT 102
Cdd:cd04980  82 DAAVYYC-QQGYTFPYtFGGGT 102
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 4-106 2.53e-05

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: 40.20  E-value: 2.53e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 27729422   4 VQPGESLKLSCeSNEYEFPSHDMSWVRKTPEKRLELVAAINSDGGSTyypdtMERRFIISRDNTKKTLYLQMSSLRSEDT 83
Cdd:cd07706  11 VQVGEEVTLNC-RYETSWTNYYLFWYKQLPSGEMTFLIRQDSSEQNA-----KSGRYSVNFQKAQKSISLTISALQLEDS 84

                        90       100
                ....*....|....*....|....*.
gi 27729422  84 ALYYCARHGAWFA---YWGQGTLVTV 106
Cdd:cd07706  85 AKYFCALSLPYDTdklIFGKGTRLTV 110
 
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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