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Conserved domains on  [gi|1808736441|pdb|6SSP|L]
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Chain L, NANOBODY 21

Protein Classification

immunoglobulin heavy chain variable domain-containing protein( domain architecture ID 10141748)

immunoglobulin heavy chain variable domain-containing protein similar to immunoglobulin heavy chains

CATH:  2.60.40.10
Gene Ontology:  GO:0003823
PubMed:  9571064|9541533
SCOP:  3000071

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 3-128 7.35e-63

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: 187.90  E-value: 7.35e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        3 QLQESGGGLVQAGGSLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSLGSTYYADSVKGRITISRDNAKNTVYLQ 82
Cdd:cd04981   1 QLQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
6SSP_L       83 MNSLKPEDTAVYYCAAGRDADptifailrSEYPFDYWGQGTQVTVS 128
Cdd:cd04981  81 LNSLTSEDTAVYYCARGLGGY--------GYSYFDYWGQGTTVTVS 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 ...
 3-128 7.35e-63

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: 187.90  E-value: 7.35e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        3 QLQESGGGLVQAGGSLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSLGSTYYADSVKGRITISRDNAKNTVYLQ 82
Cdd:cd04981   1 QLQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
6SSP_L       83 MNSLKPEDTAVYYCAAGRDADptifailrSEYPFDYWGQGTQVTVS 128
Cdd:cd04981  81 LNSLTSEDTAVYYCARGLGGY--------GYSYFDYWGQGTTVTVS 118
IGv smart00406
Immunoglobulin V-Type;
17-97 9.72e-32

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 107.85  E-value: 9.72e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L          17 SLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSlGSTYYADSVKGRITISRDNAKNTVYLQMNSLKPEDTAVYYC 96
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSN-GSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   .
6SSP_L          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 ...
 11-127 6.95e-11

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


Pssm-ID: 462230  Cd Length: 109  Bit Score: 55.54  E-value: 6.95e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L         11 LVQAGGSLRLSCAASGF-TFDDYTIGWFRQAPGKEREGVSLISSSLGSTYyadSVKGRITISRDNAKNTVYLQMNSLKPE 89
Cdd:pfam07686   7 TVALGGSVTLPCTYSSSmSEASTSVYWYRQPPGKGPTFLIAYYSNGSEEG---VKKGRFSGRGDPSNGDGSLTIQNLTLS 83

                          90       100       110
                  ....*....|....*....|....*....|....*...
6SSP_L         90 DTAVYYCAAGrdadptifailrsEYPFDYWGQGTQVTV 127
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 ...
 3-128 7.35e-63

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: 187.90  E-value: 7.35e-63
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        3 QLQESGGGLVQAGGSLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSLGSTYYADSVKGRITISRDNAKNTVYLQ 82
Cdd:cd04981   1 QLQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
6SSP_L       83 MNSLKPEDTAVYYCAAGRDADptifailrSEYPFDYWGQGTQVTVS 128
Cdd:cd04981  81 LNSLTSEDTAVYYCARGLGGY--------GYSYFDYWGQGTTVTVS 118
IGv smart00406
Immunoglobulin V-Type;
17-97 9.72e-32

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 107.85  E-value: 9.72e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L          17 SLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSlGSTYYADSVKGRITISRDNAKNTVYLQMNSLKPEDTAVYYC 96
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSN-GSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   .
6SSP_L          97 A 97
Cdd:smart00406  80 A 80
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 5-127 3.86e-23

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: 87.00  E-value: 3.86e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        5 QESGGGLVQAGGSLRLSCAASGFtFDDYTIGWFRQAPGKEREgvSLISSSLGSTYYADSVKGRITISRDNAKnTVYLQMN 84
Cdd:cd00099   3 QSPRSLSVQEGESVTLSCEVSSS-FSSTYIYWYRQKPGQGPE--FLIYLSSSKGKTKGGVPGRFSGSRDGTS-SFSLTIS 78

                        90       100       110       120
                ....*....|....*....|....*....|....*....|...
6SSP_L       85 SLKPEDTAVYYCAAGRdadptifailRSEYPFDYWGQGTQVTV 127
Cdd:cd00099  79 NLQPEDSGTYYCAVSE----------SGGTDKLTFGSGTRLTV 111
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 1-127 8.87e-20

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: 78.37  E-value: 8.87e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        1 QVQLQESGGGLVQAGGSLRLSCAASGFTFDDYTIGWFRQAPGkereGVSLISSSLGSTyYADSVKGRITISRDNAKNTVY 80
Cdd:cd16095   1 ETQLEESGGGSHPAGKTLSLKCQTSGFQFNTSQLSWYLWVPG----HAPLWLTSLDHI-STKVSEDRITSSREDTNSQIF 75

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
6SSP_L       81 LQMNSLKPEDTAVYYCAA----GRDADPTIFailrseypfdywGQGTQVTV 127
Cdd:cd16095  76 LQIKGLGLRDSGQYHCARrvgyGDDTDKLIF------------GPGTDVIV 114
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 13-100 5.14e-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: 61.23  E-value: 5.14e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       13 QAGGSLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSLGSTYYADSVKGRITISRDNAKNTVYLQMNSLKPEDTA 92
Cdd:cd04982  11 EESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLTITNLEKEDSA 90


                ....*...
6SSP_L       93 VYYCAAGR 100
Cdd:cd04982  91 TYYCAYWE 98
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 7-127 9.34e-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: 59.83  E-value: 9.34e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L           7 SGGGLVQAGGSLRLSCAASGFTfdDYTIGWFRQAPgkeregvSLISSSlgstyyadsvkGRITISRDNakNTVYLQMNSL 86
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSP--PPEVTWYKQGG-------KLLAES-----------GRFSVSRSG--STSTLTISNV 58

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|.
6SSP_L          87 KPEDTAVYYCAAgrdadptifailrSEYPFDYWGqGTQVTV 127
Cdd:smart00410  59 TPEDSGTYTCAA-------------TNSSGSASS-GTTLTV 85
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 12-127 6.32e-12

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: 58.05  E-value: 6.32e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       12 VQAGGSLRLSCAASGFTFDDytIGWFRQAPGKEREgvSLISSSLGSTYYAdsvKGRITISRDNAKNTVYLQMNSLKPEDT 91
Cdd:cd04983  10 VQEGENVTLNCNYSTSTFYY--LFWYRQYPGQGPQ--FLIYISSDSGNKK---KGRFSATLDKSRKSSSLHISAAQLSDS 82

                        90       100       110
                ....*....|....*....|....*....|....*....
6SSP_L       92 AVYYCAAgRDADPT---IFailrseypfdywGQGTQVTV 127
Cdd:cd04983  83 AVYFCAL-SESGGTgklTF------------GKGTRLTV 108
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 4-127 1.46e-11

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: 57.46  E-value: 1.46e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        4 LQESGGGLVQAGGSLRLSCAASGFTfDDYTIGWFR--QAPGKER--EGVSLISSSLGSTYYADSVKGRITISRDNAKNTV 79
Cdd:cd07700   2 LQTPGSLLVQTNQTVKMSCEAKTSP-KNTRIYWLRqrQAPSKDShfEFLASWDPSKGIVYGEGVDQEKLIILSDSDSSRY 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*...
6SSP_L       80 YLQMNSLKPEDTAVYYCAagrdadptifAILRSEYPFdywGQGTQVTV 127
Cdd:cd07700  81 ILSLMSVKPEDSGTYFCM----------TVGSPELIF---GTGTKLSV 115
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 11-127 6.95e-11

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


Pssm-ID: 462230  Cd Length: 109  Bit Score: 55.54  E-value: 6.95e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L         11 LVQAGGSLRLSCAASGF-TFDDYTIGWFRQAPGKEREGVSLISSSLGSTYyadSVKGRITISRDNAKNTVYLQMNSLKPE 89
Cdd:pfam07686   7 TVALGGSVTLPCTYSSSmSEASTSVYWYRQPPGKGPTFLIAYYSNGSEEG---VKKGRFSGRGDPSNGDGSLTIQNLTLS 83

                          90       100       110
                  ....*....|....*....|....*....|....*...
6SSP_L         90 DTAVYYCAAGrdadptifailrsEYPFDYWGQGTQVTV 127
Cdd:pfam07686  84 DSGTYTCAVI-------------PSGEGVFGKGTRLTV 108
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 12-127 1.90e-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: 54.00  E-value: 1.90e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       12 VQAGGSLRLSCAASGFTFDDYTIGWFRQAPGKEREGVSLISSSLGStyyadSVKGRITISRDNakNTVYLQMNSLKPEDT 91
Cdd:cd04984  10 VSPGETVTITCTGSSGNISGNYVNWYQQKPGSAPRYLIYEDKHRPS-----GIPDRFSGSKSG--NTASLTISGAQTEDE 82

                        90       100       110
                ....*....|....*....|....*....|....*.
6SSP_L       92 AVYYCAAGrDADPTIFailrseypfdywGQGTQVTV 127
Cdd:cd04984  83 ADYYCQVW-DSNSYVF------------GGGTKLTV 105
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 11-127 2.58e-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: 51.13  E-value: 2.58e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       11 LVQAGGSLRLSCAASgftfDDYT-IGWFRQAPGKEREgvsLISSSLGS--TYYADSVKGRITISRDNAKNTVyLQMNSLK 87
Cdd:cd05899   9 IKRRGQSVTLRCSQK----SGHDnMYWYRQDPGKGLQ---LLFYSYGGglNEEGDLPGDRFSASRPSLTRSS-LTIKSAE 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
6SSP_L       88 PEDTAVYYCAAGRDADPTifailrsEYpfdYWGQGTQVTV 127
Cdd:cd05899  81 PEDSAVYLCASSLGGGAD-------EA---YFGPGTRLTV 110
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 12-127 1.84e-07

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: 46.36  E-value: 1.84e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       12 VQAGGSLRLSCAASGfTFDDYTIGWFRQAPGKEREGVSLISSSLGSTyyadsVKGRITISRDNAKNTVYLQMNSLKPEDT 91
Cdd:cd07706  11 VQVGEEVTLNCRYET-SWTNYYLFWYKQLPSGEMTFLIRQDSSEQNA-----KSGRYSVNFQKAQKSISLTISALQLEDS 84

                        90       100       110
                ....*....|....*....|....*....|....*...
6SSP_L       92 AVYYCA--AGRDADPTIFailrseypfdywGQGTQVTV 127
Cdd:cd07706  85 AKYFCAlsLPYDTDKLIF------------GKGTRLTV 110
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 2-127 4.93e-05

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: 40.07  E-value: 4.93e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L        2 VQLQESGGGL-VQAGGSLRLSCAASGFTFDDYtIGWFRQAPGKEREgvSLISsslGSTYYADSVKGRITISRDNAKNTvy 80
Cdd:cd04980   1 IVMTQSPASLsVSPGERVTISCKASQSISSNY-LAWYQQKPGQAPK--LLIY---YASTLHSGVPSRFSGSGSGTDFT-- 72

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
6SSP_L       81 LQMNSLKPEDTAVYYCAAGRdadptifailrsEYPFDYwGQGTQVTV 127
Cdd:cd04980  73 LTISSVEPEDAAVYYCQQGY------------TFPYTF-GGGTKLEI 106
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 12-127 1.28e-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: 39.08  E-value: 1.28e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       12 VQAGGSLRLSCAASGFTFDDYTIGWFRQAPGKEregVSLISSSlGSTY---YADSVKGRItisrDNAKNTVYLQMNSLKP 88
Cdd:cd20988  10 VSVGKPVTLKCSMKGEAISNYYINWYRKTQGNT---MTFIYRE-GGIYgpgFKDNFRGDI----DSSNNLAVLKILEASE 81

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
6SSP_L       89 EDTAVYYCAA-----GRDADPTIFailrseypfdywGQGTQVTV 127
Cdd:cd20988  82 RDEGSYYCASdtpggGREYDPLIF------------GKGTYLTV 113
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 12-104 1.62e-03

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


Pssm-ID: 409381  Cd Length: 100  Bit Score: 35.84  E-value: 1.62e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L       12 VQAGGSLRLSCAASGfTFDDYTIGWFRQapgkEREGVSLISSSLGstyyaDSVKGRITISRDNAKNTVYLQMNSLKPEDT 91
Cdd:cd05716   9 GVEGGSVTIQCPYPP-KYASSRKYWCKW----GSEGCQTLVSSEG-----VVPGGRISLTDDPDNGVFTVTLNQLRKEDA 78

                        90
                ....*....|...
6SSP_L       92 AVYYCAAGRDADP 104
Cdd:cd05716  79 GWYWCGVGDDGDR 91
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 12-98 2.14e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 34.85  E-value: 2.14e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6SSP_L         12 VQAGGSLRLSCAASGFTFDDYTigWFRqapgkerEGVSLISSSlgstyyadsvkgriTISRDNAKNTVYLQMNSLKPEDT 91
Cdd:pfam13927  13 VREGETVTLTCEATGSPPPTIT--WYK-------NGEPISSGS--------------TRSRSLSGSNSTLTISNVTRSDA 69


                  ....*..
6SSP_L         92 AVYYCAA 98
Cdd:pfam13927  70 GTYTCVA 76
 
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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