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Conserved domains on  [gi|136500|sp|P06320|]
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RecName: Full=T-cell receptor beta chain V region CTL-F3; Flags: Precursor

Protein Classification

T-cell receptor beta chain V region( domain architecture ID 10147293)

T-cell receptor beta chain V (variable) region participates in the antigen recognition of an alpha-beta T cell antigen-specific receptor essential to the immune response; it is present on the cell surface of T lymphocytes to recognize peptide-major histocompatibility (pMH) complexes displayed by antigen presenting cells (APC), a prerequisite for efficient T cell adaptive immunity against pathogens

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 23-133 3.24e-49

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: 152.82  E-value: 3.24e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    23 VIQTPRHKVTGKGQEATLWCEPISGHSAVFWYRQTIVQGLEFLTYFRNQAPIDDSGMPKERFSAQMPNQSHSTLKIQSTQ 102
Cdd:cd05899   1 VTQSPRYLIKRRGQSVTLRCSQKSGHDNMYWYRQDPGKGLQLLFYSYGGGLNEEGDLPGDRFSASRPSLTRSSLTIKSAE 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 136500   103 PQDSAVYLCASSLsTGVSYEQYFGPGTRLTV 133
Cdd:cd05899  81 PEDSAVYLCASSL-GGGADEAYFGPGTRLTV 110
 
Name Accession Description Interval E-value
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 23-133 3.24e-49

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: 152.82  E-value: 3.24e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    23 VIQTPRHKVTGKGQEATLWCEPISGHSAVFWYRQTIVQGLEFLTYFRNQAPIDDSGMPKERFSAQMPNQSHSTLKIQSTQ 102
Cdd:cd05899   1 VTQSPRYLIKRRGQSVTLRCSQKSGHDNMYWYRQDPGKGLQLLFYSYGGGLNEEGDLPGDRFSASRPSLTRSSLTIKSAE 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 136500   103 PQDSAVYLCASSLsTGVSYEQYFGPGTRLTV 133
Cdd:cd05899  81 PEDSAVYLCASSL-GGGADEAYFGPGTRLTV 110
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 25-134 4.56e-16

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: 68.64  E-value: 4.56e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500      25 QTPRHKVTGKGQEATLWCE----PISGHSAVFWYRQTIVQGLEFL-TYFRNQAPIddsGMPKERFSAQM-PNQSHSTLKI 98
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTysssMSEASTSVYWYRQPPGKGPTFLiAYYSNGSEE---GVKKGRFSGRGdPSNGDGSLTI 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 136500      99 QSTQPQDSAVYLCAsslsTGVSYEQYFGPGTRLTVL 134
Cdd:pfam07686  78 QNLTLSDSGTYTCA----VIPSGEGVFGKGTRLTVL 109
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 35-133 2.07e-08

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: 48.27  E-value: 2.07e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500       35 GQEATLWCEPIS-GHSAVFWYRQtivqGLEFLTYfrnqapiddsgmpKERFSAQmPNQSHSTLKIQSTQPQDSAVYLCAS 113
Cdd:smart00410   9 GESVTLSCEASGsPPPEVTWYKQ----GGKLLAE-------------SGRFSVS-RSGSTSTLTISNVTPEDSGTYTCAA 70

                           90       100
                   ....*....|....*....|
gi 136500      114 SLSTGvsyeQYFGpGTRLTV 133
Cdd:smart00410  71 TNSSG----SASS-GTTLTV 85
 
Name Accession Description Interval E-value
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 23-133 3.24e-49

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: 152.82  E-value: 3.24e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    23 VIQTPRHKVTGKGQEATLWCEPISGHSAVFWYRQTIVQGLEFLTYFRNQAPIDDSGMPKERFSAQMPNQSHSTLKIQSTQ 102
Cdd:cd05899   1 VTQSPRYLIKRRGQSVTLRCSQKSGHDNMYWYRQDPGKGLQLLFYSYGGGLNEEGDLPGDRFSASRPSLTRSSLTIKSAE 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 136500   103 PQDSAVYLCASSLsTGVSYEQYFGPGTRLTV 133
Cdd:cd05899  81 PEDSAVYLCASSL-GGGADEAYFGPGTRLTV 110
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 23-133 9.16e-30

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: 103.57  E-value: 9.16e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    23 VIQTPRHKVTGKGQEATLWCEPIS--GHSAVFWYRQTIVQGLEFLTYFRNQAPIDdSGMPKERFSAQMPNQSHSTLKIQS 100
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEVSSsfSSTYIYWYRQKPGQGPEFLIYLSSSKGKT-KGGVPGRFSGSRDGTSSFSLTISN 79

                        90       100       110
                ....*....|....*....|....*....|...
gi 136500   101 TQPQDSAVYLCASSLStGVSYEQYFGPGTRLTV 133
Cdd:cd00099  80 LQPEDSGTYYCAVSES-GGTDKLTFGSGTRLTV 111
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 23-133 1.01e-20

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: 80.39  E-value: 1.01e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    23 VIQTPRHKVTGKGQEATLWCE-PISGHSAVFWYRQTIVQGLEFLTYfrnqAPIDDSGMPKERFSAQM-PNQSHSTLKIQS 100
Cdd:cd04983   1 VTQSPQSLSVQEGENVTLNCNySTSTFYYLFWYRQYPGQGPQFLIY----ISSDSGNKKKGRFSATLdKSRKSSSLHISA 76

                        90       100       110
                ....*....|....*....|....*....|...
gi 136500   101 TQPQDSAVYLCASSLStGVSYEQYFGPGTRLTV 133
Cdd:cd04983  77 AQLSDSAVYFCALSES-GGTGKLTFGKGTRLTV 108
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 49-133 5.53e-17

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: 71.24  E-value: 5.53e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    49 SAVFWYRQTIVQGLEFLTYFRNQAP-IDDSGMPKERFSA-QMPNQSHSTLKIQSTQPQDSAVYLCASSLSTGVSYEQYFG 126
Cdd:cd04982  30 TYIHWYRQKPGQALERLLYVSSTSAvRKDSGKTKNKFEArKDVGKSTSTLTITNLEKEDSATYYCAYWESGSGYYIKVFG 109


                ....*..
gi 136500   127 PGTRLTV 133
Cdd:cd04982 110 SGTKLIV 116
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 25-134 4.56e-16

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: 68.64  E-value: 4.56e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500      25 QTPRHKVTGKGQEATLWCE----PISGHSAVFWYRQTIVQGLEFL-TYFRNQAPIddsGMPKERFSAQM-PNQSHSTLKI 98
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTysssMSEASTSVYWYRQPPGKGPTFLiAYYSNGSEE---GVKKGRFSGRGdPSNGDGSLTI 77

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 136500      99 QSTQPQDSAVYLCAsslsTGVSYEQYFGPGTRLTVL 134
Cdd:pfam07686  78 QNLTLSDSGTYTCA----VIPSGEGVFGKGTRLTVL 109
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 35-133 1.85e-11

Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of the immunoglobulin (Ig) light chain, lambda type, variable (V) domain. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. There are two types of light chains: kappa and lambda, each composed of a constant domain (CL) and a variable domain (VL). There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which seem to be functionally identical, and can associate with any of the heavy chains. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409373  Cd Length: 105  Bit Score: 56.70  E-value: 1.85e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    35 GQEATLWCEPISGHSA---VFWYRQTIVQGLEFLTYFRNQAPiddSGMPkERFSAQMPNQShSTLKIQSTQPQDSAVYLC 111
Cdd:cd04984  13 GETVTITCTGSSGNISgnyVNWYQQKPGSAPRYLIYEDKHRP---SGIP-DRFSGSKSGNT-ASLTISGAQTEDEADYYC 87

                        90       100
                ....*....|....*....|..
gi 136500   112 ASSLSTGVsyeqYFGPGTRLTV 133
Cdd:cd04984  88 QVWDSNSY----VFGGGTKLTV 105
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 24-133 1.31e-09

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: 52.07  E-value: 1.31e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    24 IQTPRHKVTGKGQEATLWCEP--ISGHSAVFWYRQTivQGL------EFLTYFR-NQAPIDDSGMPKERFSAQMPNQSHS 94
Cdd:cd07700   2 LQTPGSLLVQTNQTVKMSCEAktSPKNTRIYWLRQR--QAPskdshfEFLASWDpSKGIVYGEGVDQEKLIILSDSDSSR 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 136500    95 -TLKIQSTQPQDSAVYLCAsslsTGVSYEQYFGPGTRLTV 133
Cdd:cd07700  80 yILSLMSVKPEDSGTYFCM----TVGSPELIFGTGTKLSV 115
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 35-133 2.07e-08

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: 48.27  E-value: 2.07e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500       35 GQEATLWCEPIS-GHSAVFWYRQtivqGLEFLTYfrnqapiddsgmpKERFSAQmPNQSHSTLKIQSTQPQDSAVYLCAS 113
Cdd:smart00410   9 GESVTLSCEASGsPPPEVTWYKQ----GGKLLAE-------------SGRFSVS-RSGSTSTLTISNVTPEDSGTYTCAA 70

                           90       100
                   ....*....|....*....|
gi 136500      114 SLSTGvsyeQYFGpGTRLTV 133
Cdd:smart00410  71 TNSSG----SASS-GTTLTV 85
IGv smart00406
Immunoglobulin V-Type;
38-112 2.50e-08

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 47.76  E-value: 2.50e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500       38 ATLWCEpISGHS----AVFWYRQTIVQGLEFLTYFRNQAPIDDSGMPKERFSAQM-PNQSHSTLKIQSTQPQDSAVYLCA 112
Cdd:smart00406   2 VTLSCK-FSGSTfssyYVSWVRQPPGKGLEWLGYIGSNGSSYYQESYKGRFTISKdTSKNDVSLTISNLRVEDTGTYYCA 80
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 23-133 6.06e-07

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: 44.69  E-value: 6.06e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    23 VIQTPRHKVTGKGQEATLWCEP--ISGHSAVFWYRQTIVQGLEFLTYFRNQApidDSGMPkERFSAqmpnqSHS----TL 96
Cdd:cd04980   3 MTQSPASLSVSPGERVTISCKAsqSISSNYLAWYQQKPGQAPKLLIYYASTL---HSGVP-SRFSG-----SGSgtdfTL 73

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 136500    97 KIQSTQPQDSAVYLCASSLSTGVSyeqyFGPGTRLTV 133
Cdd:cd04980  74 TISSVEPEDAAVYYCQQGYTFPYT----FGGGTKLEI 106
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 35-133 8.79e-07

Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the immunoglobulin (Ig) heavy chain (H), variable (V) domain. This group contains the standard Ig superfamily V-set AGFCC'C"/DEB domain topology. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which can associate with any of the heavy chains. This family includes alpha, gamma, delta, epsilon, and mu heavy chains.


Pssm-ID: 409370 [Multi-domain]  Cd Length: 118  Bit Score: 44.61  E-value: 8.79e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    35 GQEATLWCEpISGHS----AVFWYRQTIVQGLEFL-TYFRNQAPIDDSGMPKERFSAQmPNQSHST--LKIQSTQPQDSA 107
Cdd:cd04981  13 GQSLKLSCK-ASGFTftsyGMGWVRQAPGKGLEWIgLIYPGGGDTYYADSFKGRFTIT-RDTSKSTayLQLNSLTSEDTA 90

                        90       100
                ....*....|....*....|....*..
gi 136500   108 VYLCASSL-STGVSYEQYFGPGTRLTV 133
Cdd:cd04981  91 VYYCARGLgGYGYSYFDYWGQGTTVTV 117
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 35-133 6.17e-06

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: 42.51  E-value: 6.17e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    35 GQEATLWC--EPISGHSAVFWYRQTIVQGLEFLTYFRNQAPIDDSGmpkeRFSAQ-MPNQSHSTLKIQSTQPQDSAVYLC 111
Cdd:cd07706  14 GEEVTLNCryETSWTNYYLFWYKQLPSGEMTFLIRQDSSEQNAKSG----RYSVNfQKAQKSISLTISALQLEDSAKYFC 89

                        90       100
                ....*....|....*....|..
gi 136500   112 ASSLStGVSYEQYFGPGTRLTV 133
Cdd:cd07706  90 ALSLP-YDTDKLIFGKGTRLTV 110
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 27-127 2.58e-04

Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; The members here are composed of the immunoglobulin (Ig)-like variable domain of the Cluster of Differentiation (CD) 8 alpha. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation, and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alpha/alpha or alpha/beta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners, etc. Each CD8 subunit is comprised of an extracellular domain containing a V-type Ig-like domain, a single pass transmembrane portion, and a short intracellular domain. The Ig domain of CD8 alpha binds to antibodies. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409385  Cd Length: 110  Bit Score: 37.85  E-value: 2.58e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    27 PRHKVTGKGQEATLWCEPI-SGHSAVFWYRQT--IVQGLEFLTYFR-NQAPIDDSGMPKERFSAqMPNQSHSTLKIQSTQ 102
Cdd:cd05720   5 PRKRDAQLGQKVELVCEVLnSVPQGCSWLFQPrgSAPQPTFLLYLSsSNKTKWAEGLDSKRFSG-SRSGSSYVLTLKDFR 83

                        90       100
                ....*....|....*....|....*
gi 136500   103 PQDSAVYLCaSSLSTGVSYEQYFGP 127
Cdd:cd05720  84 KEDEGYYFC-SVISNSVLYFSSFVP 107
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 23-111 3.92e-04

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 36.77  E-value: 3.92e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500      23 VIQTPRHKVTGKGQEATLWCEpISGHSA--VFWYRqtivqglefltyfrnqapiDDSGMPKERFSAQMPNQSHSTLKIQS 100
Cdd:pfam13927   4 ITVSPSSVTVREGETVTLTCE-ATGSPPptITWYK-------------------NGEPISSGSTRSRSLSGSNSTLTISN 63

                          90
                  ....*....|.
gi 136500     101 TQPQDSAVYLC 111
Cdd:pfam13927  64 VTRSDAGTYTC 74
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 35-133 1.86e-03

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: 35.61  E-value: 1.86e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    35 GQEATLWC----EPISGHSaVFWYRQTivQGlEFLTYFRNQAPIDDSGMpKERFSAQMPNQSH-STLKIQSTQPQDSAVY 109
Cdd:cd20988  13 GKPVTLKCsmkgEAISNYY-INWYRKT--QG-NTMTFIYREGGIYGPGF-KDNFRGDIDSSNNlAVLKILEASERDEGSY 87

                        90       100
                ....*....|....*....|....*.
gi 136500   110 LCASSLSTGVSYEQ--YFGPGTRLTV 133
Cdd:cd20988  88 YCASDTPGGGREYDplIFGKGTYLTV 113
IgV_PD1 cd16088
Immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1); The members here are ...
 26-113 7.29e-03

Immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1); The members here are composed of the immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1; also known as CD279/cluster of differentiation 279). PD1 is a cell surface receptor that is expressed on T cells and pro-B cells. The protein's structure includes an extracellular IgV domain followed by a transmembrane region and an intracellular tail. Activation of CD4+ T cells, CD8+ T cells, NKT cells, B cells, and monocytes induces PD-1 expression, immediately after which it binds two distinct ligands, PD-L1 (also known as B7-H1 or CD274/cluster of differentiation 274) and PD-L2, also known as B7-DC. PD-1 plays an important role in down regulating the immune system by preventing the activation of T-cells, reducing autoimmunity and promoting self-tolerance. The inhibitory effect of PD-1 is accomplished by promoting apoptosis in antigen specific T-cells in lymph nodes while simultaneously reducing apoptosis in regulatory T cells. A class of drugs that target PD-1, known as the PD-1 inhibitors, activate the immune system to attack tumors and treat cancer. Comparisons between the mouse PD-1 (mPD-1) and human PD-1 (hPD-1) reveals that unlike the mPD-1 which has a conventional IgSF V-set domain, hPD-1 lacks a C" strand, and instead the C' and D strands are connected by a long and flexible loop. In addition, the BC loop is not stabilized by disulfide bonding to the F strand of the ligand binding beta sheet. These differences result in different binding affinities of human and mouse PD-1 for their ligands.


Pssm-ID: 409509  Cd Length: 112  Bit Score: 34.02  E-value: 7.29e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 136500    26 TPRHKVTGKGQEATLWCE--PISGHSAVFWYRQTIVQGLEFLTYFRNqapidDSGMPKE--RFSA-QMPNQSHSTLKIQS 100
Cdd:cd16088   5 SPALLVVTEGANATFTCSfsNTSESFVLNWYRLSPSNQTDKLAAFPE-----DRSQPGQdwRFRVtQLPNGRDFHMSVVR 79

                        90
                ....*....|...
gi 136500   101 TQPQDSAVYLCAS 113
Cdd:cd16088  80 ARRNDSGTYLCGA 92
 
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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