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Conserved domains on  [gi|2771039027|pdb|8K3L|H]
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Chain H, NB3

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 ...
 3-126 2.05e-56

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: 170.95  E-value: 2.05e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        3 QLQESGGGLVQAGGSLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAVINADGVSTYYADSVKGRFTISQDNAKNTVYLQ 82
Cdd:cd04981   1 QLQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
8K3L_H       83 MNSLKPEDTAIYHCAANHFFDYSRDplataeYNYWGQGTQVTVS 126
Cdd:cd04981  81 LNSLTSEDTAVYYCARGLGGYGYSY------FDYWGQGTTVTVS 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 ...
 3-126 2.05e-56

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: 170.95  E-value: 2.05e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        3 QLQESGGGLVQAGGSLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAVINADGVSTYYADSVKGRFTISQDNAKNTVYLQ 82
Cdd:cd04981   1 QLQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
8K3L_H       83 MNSLKPEDTAIYHCAANHFFDYSRDplataeYNYWGQGTQVTVS 126
Cdd:cd04981  81 LNSLTSEDTAVYYCARGLGGYGYSY------FDYWGQGTTVTVS 118
IGv smart00406
Immunoglobulin V-Type;
17-97 9.92e-28

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 97.45  E-value: 9.92e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H          17 SLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAVINADGvSTYYADSVKGRFTISQDNAKNTVYLQMNSLKPEDTAIYHC 96
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNG-SSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   .
8K3L_H          97 A 97
Cdd:smart00406  80 A 80
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 11-125 1.54e-12

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: 59.39  E-value: 1.54e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H         11 LVQAGGSLRLSC-AASGLPYRTVFMGWFRQGPGKEREgVAVINADGVSTYYADsvKGRFTISQDNAKNTVYLQMNSLKPE 89
Cdd:pfam07686   7 TVALGGSVTLPCtYSSSMSEASTSVYWYRQPPGKGPT-FLIAYYSNGSEEGVK--KGRFSGRGDPSNGDGSLTIQNLTLS 83

                          90       100       110
                  ....*....|....*....|....*....|....*.
8K3L_H         90 DTAIYHCAANhffdysrdplaTAEYNYWGQGTQVTV 125
Cdd:pfam07686  84 DSGTYTCAVI-----------PSGEGVFGKGTRLTV 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 ...
 3-126 2.05e-56

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: 170.95  E-value: 2.05e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        3 QLQESGGGLVQAGGSLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAVINADGVSTYYADSVKGRFTISQDNAKNTVYLQ 82
Cdd:cd04981   1 QLQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
8K3L_H       83 MNSLKPEDTAIYHCAANHFFDYSRDplataeYNYWGQGTQVTVS 126
Cdd:cd04981  81 LNSLTSEDTAVYYCARGLGGYGYSY------FDYWGQGTTVTVS 118
IGv smart00406
Immunoglobulin V-Type;
17-97 9.92e-28

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 97.45  E-value: 9.92e-28
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H          17 SLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAVINADGvSTYYADSVKGRFTISQDNAKNTVYLQMNSLKPEDTAIYHC 96
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNG-SSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   .
8K3L_H          97 A 97
Cdd:smart00406  80 A 80
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 5-125 3.93e-20

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: 78.92  E-value: 3.93e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        5 QESGGGLVQAGGSLRLSCAASGLpYRTVFMGWFRQGPGKEREgvAVINADGVSTYYADSVKGRFTISQDNAKnTVYLQMN 84
Cdd:cd00099   3 QSPRSLSVQEGESVTLSCEVSSS-FSSTYIYWYRQKPGQGPE--FLIYLSSSKGKTKGGVPGRFSGSRDGTS-SFSLTIS 78

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
8K3L_H       85 SLKPEDTAIYHCAANHffDYSRDPLataeynYWGQGTQVTV 125
Cdd:cd00099  79 NLQPEDSGTYYCAVSE--SGGTDKL------TFGSGTRLTV 111
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 1-125 3.89e-15

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: 66.05  E-value: 3.89e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        1 QVQLQESGGGLVQAGGSLRLSCAASGLPYRTVFMGWFRQGPGKeregvAVINADGVSTYYADSVKGRFTISQDNAKNTVY 80
Cdd:cd16095   1 ETQLEESGGGSHPAGKTLSLKCQTSGFQFNTSQLSWYLWVPGH-----APLWLTSLDHISTKVSEDRITSSREDTNSQIF 75

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
8K3L_H       81 LQMNSLKPEDTAIYHCAANHFFDYSRDPLAtaeynyWGQGTQVTV 125
Cdd:cd16095  76 LQIKGLGLRDSGQYHCARRVGYGDDTDKLI------FGPGTDVIV 114
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 13-97 1.25e-12

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: 59.68  E-value: 1.25e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H       13 QAGGSLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAVINADGVSTYYADSVKGRFTISQDNAKNTVYLQMNSLKPEDTA 92
Cdd:cd04982  11 EESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLTITNLEKEDSA 90


                ....*
8K3L_H       93 IYHCA 97
Cdd:cd04982  91 TYYCA 95
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 11-125 1.54e-12

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: 59.39  E-value: 1.54e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H         11 LVQAGGSLRLSC-AASGLPYRTVFMGWFRQGPGKEREgVAVINADGVSTYYADsvKGRFTISQDNAKNTVYLQMNSLKPE 89
Cdd:pfam07686   7 TVALGGSVTLPCtYSSSMSEASTSVYWYRQPPGKGPT-FLIAYYSNGSEEGVK--KGRFSGRGDPSNGDGSLTIQNLTLS 83

                          90       100       110
                  ....*....|....*....|....*....|....*.
8K3L_H         90 DTAIYHCAANhffdysrdplaTAEYNYWGQGTQVTV 125
Cdd:pfam07686  84 DSGTYTCAVI-----------PSGEGVFGKGTRLTV 108
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 7-125 2.82e-12

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: 57.90  E-value: 2.82e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H           7 SGGGLVQAGGSLRLSCAASGLPYRTVFmgWFRQGPGKeregvavinadgvstyyaDSVKGRFTISQDNakNTVYLQMNSL 86
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPEVT--WYKQGGKL------------------LAESGRFSVSRSG--STSTLTISNV 58

                           90       100       110
                   ....*....|....*....|....*....|....*....
8K3L_H          87 KPEDTAIYHCAANhffdysrdplaTAEYNYWGqGTQVTV 125
Cdd:smart00410  59 TPEDSGTYTCAAT-----------NSSGSASS-GTTLTV 85
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 4-98 2.53e-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: 53.61  E-value: 2.53e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        4 LQESGGGLVQAGGSLRLSCAASGLPYRTVFMgWFR--QGPGKER--EGVAVINADGVSTYYADSVKGRFTISQDNAKNTV 79
Cdd:cd07700   2 LQTPGSLLVQTNQTVKMSCEAKTSPKNTRIY-WLRqrQAPSKDShfEFLASWDPSKGIVYGEGVDQEKLIILSDSDSSRY 80

                        90
                ....*....|....*....
8K3L_H       80 YLQMNSLKPEDTAIYHCAA 98
Cdd:cd07700  81 ILSLMSVKPEDSGTYFCMT 99
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 12-125 4.41e-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: 52.85  E-value: 4.41e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H       12 VQAGGSLRLSCAASGLPYRTVFMGWFRQGPGKEREGVAvinadGVSTYYADSVKGRFTISQDNakNTVYLQMNSLKPEDT 91
Cdd:cd04984  10 VSPGETVTITCTGSSGNISGNYVNWYQQKPGSAPRYLI-----YEDKHRPSGIPDRFSGSKSG--NTASLTISGAQTEDE 82

                        90       100       110
                ....*....|....*....|....*....|....
8K3L_H       92 AIYHCAANHFFDYsrdplataeynYWGQGTQVTV 125
Cdd:cd04984  83 ADYYCQVWDSNSY-----------VFGGGTKLTV 105
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 11-125 6.15e-09

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: 49.97  E-value: 6.15e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H       11 LVQAGGSLRLSCAASgLPYRTVFmgWFRQGPGKEREGVAVINaDGVSTYYADSVKGRFTISQDNAKNTVyLQMNSLKPED 90
Cdd:cd05899   9 IKRRGQSVTLRCSQK-SGHDNMY--WYRQDPGKGLQLLFYSY-GGGLNEEGDLPGDRFSASRPSLTRSS-LTIKSAEPED 83

                        90       100       110
                ....*....|....*....|....*....|....*
8K3L_H       91 TAIYHCAANHFFDYsrDPLataeynYWGQGTQVTV 125
Cdd:cd05899  84 SAVYLCASSLGGGA--DEA------YFGPGTRLTV 110
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 12-125 6.21e-09

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: 49.96  E-value: 6.21e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H       12 VQAGGSLRLSCAASGLPYRTVFmgWFRQGPGKEREgvAVINADGVSTYYAdsvKGRFTISQDNAKNTVYLQMNSLKPEDT 91
Cdd:cd04983  10 VQEGENVTLNCNYSTSTFYYLF--WYRQYPGQGPQ--FLIYISSDSGNKK---KGRFSATLDKSRKSSSLHISAAQLSDS 82

                        90       100       110
                ....*....|....*....|....*....|....
8K3L_H       92 AIYHCAAnhffdysRDPLATAEYnYWGQGTQVTV 125
Cdd:cd04983  83 AVYFCAL-------SESGGTGKL-TFGKGTRLTV 108
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 12-125 6.82e-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: 39.42  E-value: 6.82e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H       12 VQAGGSLRLSCAasglpYRTV----FMGWFRQGPGKERegVAVINADgvsTYYADSVKGRFTISQDNAKNTVYLQMNSLK 87
Cdd:cd07706  11 VQVGEEVTLNCR-----YETSwtnyYLFWYKQLPSGEM--TFLIRQD---SSEQNAKSGRYSVNFQKAQKSISLTISALQ 80

                        90       100       110
                ....*....|....*....|....*....|....*...
8K3L_H       88 PEDTAIYHCAANHFFDysRDPLAtaeynyWGQGTQVTV 125
Cdd:cd07706  81 LEDSAKYFCALSLPYD--TDKLI------FGKGTRLTV 110
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 2-125 3.23e-04

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: 37.37  E-value: 3.23e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        2 VQLQESGGGL-VQAGGSLRLSCAASGLPYRTvFMGWFRQGPGKeregvavinADGVSTYYADS----VKGRFTISQDNAK 76
Cdd:cd04980   1 IVMTQSPASLsVSPGERVTISCKASQSISSN-YLAWYQQKPGQ---------APKLLIYYASTlhsgVPSRFSGSGSGTD 70

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*....
8K3L_H       77 NTvyLQMNSLKPEDTAIYHCAANHFFDYSrdplataeynyWGQGTQVTV 125
Cdd:cd04980  71 FT--LTISSVEPEDAAVYYCQQGYTFPYT-----------FGGGTKLEI 106
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 12-125 4.72e-04

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: 37.15  E-value: 4.72e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H       12 VQAGGSLRLSCAASGLPYRTVFMGWFRQGPGKE-----REGvavinadgvsTYYADSVKGRFTISQDNAKNTVYLQMNSL 86
Cdd:cd20988  10 VSVGKPVTLKCSMKGEAISNYYINWYRKTQGNTmtfiyREG----------GIYGPGFKDNFRGDIDSSNNLAVLKILEA 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
8K3L_H       87 KPEDTAIYHCAANHFFDYS-RDPLataeynYWGQGTQVTV 125
Cdd:cd20988  80 SERDEGSYYCASDTPGGGReYDPL------IFGKGTYLTV 113
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 5-100 5.15e-04

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


Pssm-ID: 395002  Cd Length: 86  Bit Score: 36.40  E-value: 5.15e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H          5 QESGGGLVQAGGSLRLSCAASGLPYRTVFMgWFRQGPGKERegvavinadgvSTYYADSVKGRFTISqdnakntvyLQMN 84
Cdd:pfam00047   1 SAPPTVTVLEGDSATLTCSASTGSPGPDVT-WSKEGGTLIE-----------SLKVKHDNGRTTQSS---------LLIS 59

                          90
                  ....*....|....*.
8K3L_H         85 SLKPEDTAIYHCAANH 100
Cdd:pfam00047  60 NVTKEDAGTYTCVVNN 75
IgI_5_Robo cd20952
Fifth Ig-like domain of Roundabout (Robo) homolog 1/2, and similar domains; a member of the ...
 4-98 7.28e-04

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


Pssm-ID: 409544 [Multi-domain]  Cd Length: 87  Bit Score: 36.32  E-value: 7.28e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H        4 LQESGGGLVQAGGSLRLSCAASGLPYRTVfmGWFRQGpgkeregvavinadgvstyYADSVKG-RFTIsQDNAKntvyLQ 82
Cdd:cd20952   3 LQGPQNQTVAVGGTVVLNCQATGEPVPTI--SWLKDG-------------------VPLLGKDeRITT-LENGS----LQ 56

                        90
                ....*....|....*.
8K3L_H       83 MNSLKPEDTAIYHCAA 98
Cdd:cd20952  57 IKGAEKSDTGEYTCVA 72
I-set pfam07679
Immunoglobulin I-set domain;
12-98 1.35e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 35.31  E-value: 1.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
8K3L_H         12 VQAGGSLRLSCAASGLPYRTVfmGWFRQGpgkeregvAVINADgvstyyadsvkGRFTISQDNakNTVYLQMNSLKPEDT 91
Cdd:pfam07679  12 VQEGESARFTCTVTGTPDPEV--SWFKDG--------QPLRSS-----------DRFKVTYEG--GTYTLTISNVQPDDS 68


                  ....*..
8K3L_H         92 AIYHCAA 98
Cdd:pfam07679  69 GKYTCVA 75
IgC1_CD1 cd21029
Immunoglobulin domain of Cluster of Differentiation (CD) 1; member of the C1-set of Ig ...
 16-60 2.27e-03

Immunoglobulin domain of Cluster of Differentiation (CD) 1; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the immunoglobulin domain of Cluster of Differentiation (CD) 1. CD1 family of transmembrane glycoproteins, are structurally related to the major histocompatibility complex (MHC) proteins and form heterodimers with beta-2-microglobulin. They mediate the presentation of primarily lipid and glycolipid antigens of self or microbial origin to T cells. The human genome contains five CD1 family genes (CD1a, CD1b, CD1c, CD1d, and CD1e) organized in a cluster on chromosome 1. The CD1 family members are thought to differ in their cellular localization and specificity for particular lipid ligands. CD1a localizes to the plasma membrane and to recycling vesicles of the early endocytic system. Alternative splicing results in multiple transcript variants. Immunoglobulin (Ig) domain of major histocompatibility complex (MHC) class I alpha chain. Class I MHC proteins bind antigenic peptide fragments and present them to CD8+ T lymphocytes. Class I molecules consist of a transmembrane alpha chain and a small chain called the beta-2-microglobulin. The alpha chain contains three extracellular domains, two of which fold together to form the peptide-binding cleft (alpha1 and alpha2), and one which has an Ig fold (alpha3). Peptide binding to class I molecules occurs in the endoplasmic reticulum (ER) and involves both chaperones and dedicated factors to assist in peptide loading. Class I MHC molecules are expressed on most nucleated cells. C1-set Ig domains have one beta sheet that is formed by strands A, B, E, and D and the other strands by G, F, C, and C'.


Pssm-ID: 409620  Cd Length: 93  Bit Score: 34.99  E-value: 2.27e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*....
8K3L_H       16 GSLRLSCAASGLPYRTVFMGWFR----QGPGKEREGVaVINADGvsTYY 60
Cdd:cd21029  16 GHLQLSCHVTGFYPRPIEVTWLRdgqeQMDGTQSGGI-LPNHDG--TYQ 61
 
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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