NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|827343185|pdb|4YAQ|H]
View 

Chain H, PG9_N100FY Fab heavy chain

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 3-135 2.74e-58

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: 180.58  E-value: 2.74e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H        3 LVESGGGVVQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSEKYHADSVWGRLSISRDNSKDTLYLQM 82
Cdd:cd04981   2 LQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQL 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
4YAQ_H       83 NSLRVEDTATYFCVREAGGPDyrngyy**dfydgyynYHYMDVWGKGTTVTVS 135
Cdd:cd04981  82 NSLTSEDTAVYYCARGLGGYG----------------YSYFDYWGQGTTVTVS 118
IgC1_CH1_IgEG cd21817
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy epsilon and ...
 141-234 2.98e-46

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy epsilon and gamma chain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of epsilon and gamma chains. It belongs to a family composed of the first immunoglobulin constant-1 set domain of alpha, delta, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


:

Pssm-ID: 409622  Cd Length: 94  Bit Score: 149.14  E-value: 2.98e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      141 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICN 220
Cdd:cd21817   1 APSVFPLAPCCKSTNGSSVTLGCLVTGYFPEPVTVTWNSGSLTSGVKTFPAVLQSSGLYTTSSQVTVPSSSWGSQTFTCN 80

                        90
                ....*....|....
4YAQ_H      221 VNHKPSNTKVDKKV 234
Cdd:cd21817  81 VEHKPSSTKVDKKI 94
 
Name Accession Description Interval E-value
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 3-135 2.74e-58

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: 180.58  E-value: 2.74e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H        3 LVESGGGVVQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSEKYHADSVWGRLSISRDNSKDTLYLQM 82
Cdd:cd04981   2 LQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQL 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
4YAQ_H       83 NSLRVEDTATYFCVREAGGPDyrngyy**dfydgyynYHYMDVWGKGTTVTVS 135
Cdd:cd04981  82 NSLTSEDTAVYYCARGLGGYG----------------YSYFDYWGQGTTVTVS 118
IgC1_CH1_IgEG cd21817
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy epsilon and ...
 141-234 2.98e-46

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy epsilon and gamma chain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of epsilon and gamma chains. It belongs to a family composed of the first immunoglobulin constant-1 set domain of alpha, delta, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


Pssm-ID: 409622  Cd Length: 94  Bit Score: 149.14  E-value: 2.98e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      141 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICN 220
Cdd:cd21817   1 APSVFPLAPCCKSTNGSSVTLGCLVTGYFPEPVTVTWNSGSLTSGVKTFPAVLQSSGLYTTSSQVTVPSSSWGSQTFTCN 80

                        90
                ....*....|....
4YAQ_H      221 VNHKPSNTKVDKKV 234
Cdd:cd21817  81 VEHKPSSTKVDKKI 94
IGv smart00406
Immunoglobulin V-Type;
16-97 2.55e-32

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 113.25  E-value: 2.55e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H          16 SLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSeKYHADSVWGRLSISRDNSKDTLYLQMNSLRVEDTATYFC 95
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNGS-SYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
4YAQ_H          96 VR 97
Cdd:smart00406  80 AV 81
C1-set pfam07654
Immunoglobulin C1-set domain;
144-224 3.87e-14

Immunoglobulin C1-set domain;


Pssm-ID: 462221  Cd Length: 85  Bit Score: 65.73  E-value: 3.87e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H        144 VFPLAPSSKSTsGGTAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSGLYSLSSV-VTVPSSSLGTQTYICN 220
Cdd:pfam07654   1 VYVFPPSPEEL-GKPNTLTCLVTGFYPPDITVTWlkNGQEVTEGVKTTPPSPNSDWTYQLSSYlTVTPSDWESGDEYTCR 79


                  ....
4YAQ_H        221 VNHK 224
Cdd:pfam07654  80 VEHE 83
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 11-134 3.25e-09

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: 53.23  E-value: 3.25e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H         11 VQPGSSLRLSCAASGFDFSR-QGMHWVRQAPGQGLEWVaFIKYDGSEKYHADSvwGRLSISRDNSKDTLYLQMNSLRVED 89
Cdd:pfam07686   8 VALGGSVTLPCTYSSSMSEAsTSVYWYRQPPGKGPTFL-IAYYSNGSEEGVKK--GRFSGRGDPSNGDGSLTIQNLTLSD 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
4YAQ_H         90 TATYFCVreaggpdyrngyy**dfydgyYNYHYMDVWGKGTTVTV 134
Cdd:pfam07686  85 SGTYTCA---------------------VIPSGEGVFGKGTRLTV 108
IGc1 smart00407
Immunoglobulin C-Type;
158-223 1.23e-06

Immunoglobulin C-Type;


Pssm-ID: 214651  Cd Length: 75  Bit Score: 45.00  E-value: 1.23e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
4YAQ_H         158 TAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGT-QTYICNVNH 223
Cdd:smart00407   1 KATLVCLVSGFYPPDITVTWlrNGQEVTEGVSTTDPLKNSDGTYFLSSYLTVPASTWESgDVYTCQVTH 69
 
Name Accession Description Interval E-value
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 3-135 2.74e-58

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: 180.58  E-value: 2.74e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H        3 LVESGGGVVQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSEKYHADSVWGRLSISRDNSKDTLYLQM 82
Cdd:cd04981   2 LQESGPGLVKPGQSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQL 81

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|...
4YAQ_H       83 NSLRVEDTATYFCVREAGGPDyrngyy**dfydgyynYHYMDVWGKGTTVTVS 135
Cdd:cd04981  82 NSLTSEDTAVYYCARGLGGYG----------------YSYFDYWGQGTTVTVS 118
IgC1_CH1_IgEG cd21817
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy epsilon and ...
 141-234 2.98e-46

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy epsilon and gamma chain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of epsilon and gamma chains. It belongs to a family composed of the first immunoglobulin constant-1 set domain of alpha, delta, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


Pssm-ID: 409622  Cd Length: 94  Bit Score: 149.14  E-value: 2.98e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      141 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICN 220
Cdd:cd21817   1 APSVFPLAPCCKSTNGSSVTLGCLVTGYFPEPVTVTWNSGSLTSGVKTFPAVLQSSGLYTTSSQVTVPSSSWGSQTFTCN 80

                        90
                ....*....|....
4YAQ_H      221 VNHKPSNTKVDKKV 234
Cdd:cd21817  81 VEHKPSSTKVDKKI 94
IGv smart00406
Immunoglobulin V-Type;
16-97 2.55e-32

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 113.25  E-value: 2.55e-32
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H          16 SLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSeKYHADSVWGRLSISRDNSKDTLYLQMNSLRVEDTATYFC 95
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNGS-SYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
4YAQ_H          96 VR 97
Cdd:smart00406  80 AV 81
IgC1_CH1_IgADEGM cd04985
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, delta, ...
 141-234 1.45e-31

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, delta, epsilon, gamma, and mu chains; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of alpha, delta, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


Pssm-ID: 409374  Cd Length: 98  Bit Score: 111.91  E-value: 1.45e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      141 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW---NSGALTSGVHTFPAVLQSSGLYSLSSVVTV-PSSSLGTQT 216
Cdd:cd04985   1 APTVFPLQSATKSQSNGPVALGCLISDYFPESITVSWqknTNSITSGFTRTFPVVLRSGGDYSCSSQLTVpLQEWNSGEV 80

                        90
                ....*....|....*...
4YAQ_H      217 YICNVNHKPSNTKVDKKV 234
Cdd:cd04985  81 YKCQVQHSASNSKQEKDV 98
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 10-134 6.49e-18

Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin variable domain (IgV). The IgV family contains the standard Ig superfamily V-set AGFCC'C"/DEB domain topology, and are components of immunoglobulin (Ig) and T cell receptors. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. Within the variable domain, there are regions of even more variability called the hypervariable or complementarity-determining regions (CDRs) which are responsible for antigen binding. A predominant feature of most Ig domains is the disulfide bridge connecting 2 beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E and, D strands in one sheet and A', G, F, C, C', and C" strands in the other.


Pssm-ID: 409355 [Multi-domain]  Cd Length: 111  Bit Score: 76.60  E-value: 6.49e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       10 VVQPGSSLRLSCAASGFdFSRQGMHWVRQAPGQGLEWVafIKYDGSEKYHADSVWGRLSISRDNSKDtLYLQMNSLRVED 89
Cdd:cd00099   9 SVQEGESVTLSCEVSSS-FSSTYIYWYRQKPGQGPEFL--IYLSSSKGKTKGGVPGRFSGSRDGTSS-FSLTISNLQPED 84

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
4YAQ_H       90 TATYFCVREAGGPDyrngyy**dfydgyynyhYMDVWGKGTTVTV 134
Cdd:cd00099  85 SGTYYCAVSESGGT------------------DKLTFGSGTRLTV 111
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 12-95 5.89e-16

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: 71.63  E-value: 5.89e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       12 QPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSEKYHADSVWGRLSISRDNSKDTLYLQMNSLRVEDTA 91
Cdd:cd04982  11 EESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLTITNLEKEDSA 90


                ....
4YAQ_H       92 TYFC 95
Cdd:cd04982  91 TYYC 94
IgC1_CH1_IgA cd21818
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy alpha chain; ...
 142-223 2.41e-14

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy alpha chain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of alpha chains. It belongs to a family composed of the first immunoglobulin constant-1 set domain of alpha, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


Pssm-ID: 409623  Cd Length: 94  Bit Score: 66.76  E-value: 2.41e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      142 PSVFPLApSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSS-LGTQTYICN 220
Cdd:cd21818   2 PTVFPLS-LCPSLSSDPVVIGCLVQGFFPEPVNVTWNYSGKGGTARNFPAMLASGGRYTQSSQLTLPADQcPEGEAYKCS 80


                ...
4YAQ_H      221 VNH 223
Cdd:cd21818  81 VQH 83
IgC1_CH1_IgM cd21819
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy mu chain; ...
 142-236 3.00e-14

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy mu chain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of mu chains. It belongs to a family composed of the first immunoglobulin constant-1 set domain of alpha, delta, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


Pssm-ID: 409624  Cd Length: 95  Bit Score: 66.58  E-value: 3.00e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      142 PSVFPLAPSSkSTSGGTAALGCLVKDYFPEPVTVSWNSG--ALTSGVHTFPAVLqSSGLYSLSSVVTVPSSSLGTQTYI- 218
Cdd:cd21819   2 PTLFPLVSCG-SSTSDPVTVGCLATDFLPDSITFSWTDDnnSLTTGVKTYPSVL-TGGTYTASSQLQVPESEWKSKENFy 79

                        90
                ....*....|....*...
4YAQ_H      219 CNVNHkpSNTKVDKKVEP 236
Cdd:cd21819  80 CKVEH--PGGNKEVPVPK 95
C1-set pfam07654
Immunoglobulin C1-set domain;
144-224 3.87e-14

Immunoglobulin C1-set domain;


Pssm-ID: 462221  Cd Length: 85  Bit Score: 65.73  E-value: 3.87e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H        144 VFPLAPSSKSTsGGTAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSGLYSLSSV-VTVPSSSLGTQTYICN 220
Cdd:pfam07654   1 VYVFPPSPEEL-GKPNTLTCLVTGFYPPDITVTWlkNGQEVTEGVKTTPPSPNSDWTYQLSSYlTVTPSDWESGDEYTCR 79


                  ....
4YAQ_H        221 VNHK 224
Cdd:pfam07654  80 VEHE 83
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 3-103 6.04e-13

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: 63.35  E-value: 6.04e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H        3 LVESGGGVVQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAfikydGSEKYHADSVWGRLSISRDNSKDTLYLQM 82
Cdd:cd16095   4 LEESGGGSHPAGKTLSLKCQTSGFQFNTSQLSWYLWVPGHAPLWLT-----SLDHISTKVSEDRITSSREDTNSQIFLQI 78

                        90       100
                ....*....|....*....|.
4YAQ_H       83 NSLRVEDTATYFCVREAGGPD 103
Cdd:cd16095  79 KGLGLRDSGQYHCARRVGYGD 99
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 6-104 1.36e-10

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: 56.36  E-value: 1.36e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H           6 SGGGVVQPGSSLRLSCAASGFDFSRqgMHWVRQapgqGLEWVAFIkydgsekyhadsvwGRLSISRDNSkdTLYLQMNSL 85
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPE--VTWYKQ----GGKLLAES--------------GRFSVSRSGS--TSTLTISNV 58

                           90
                   ....*....|....*....
4YAQ_H          86 RVEDTATYFCVREAGGPDY 104
Cdd:smart00410  59 TPEDSGTYTCAATNSSGSA 77
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 143-234 1.53e-10

Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, classical Ig-like domains resembling the antibody constant domain. Members of the IgC1 family are components of immunoglobulin, T-cell receptors, CD1 cell surface glycoproteins, secretory glycoproteins A/C, and major histocompatibility complex (MHC) class I/II molecules. In immunoglobulins, each chain is composed of one variable domain (IgV) and one or more IgC domains. These names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. The IgV domain is responsible for antigen binding, while the IgC domain is involved in oligomerization and molecular interactions. 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 strands by G, F, C, and C'.


Pssm-ID: 409354  Cd Length: 95  Bit Score: 56.31  E-value: 1.53e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      143 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQ-TYIC 219
Cdd:cd00098   1 TVTLLPPSPEEKGGGKVTLVCLVSGFYPKDITVTWlkNGVPLTSGVSTSSPVEPNDGTYSVTSSLTVPPSDWDEGaTYTC 80

                        90
                ....*....|....*
4YAQ_H      220 NVNHKPSNTKVDKKV 234
Cdd:cd00098  81 VVTHESLKSPLSKTW 95
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 11-134 3.05e-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: 53.04  E-value: 3.05e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       11 VQPGSSLRLSC--AASGFDfsrqGMHWVRQAPGQGLEWVaFIKYDGSEKYHAdsvwGRLSISRDNSKDTLYLQMNSLRVE 88
Cdd:cd04983  10 VQEGENVTLNCnySTSTFY----YLFWYRQYPGQGPQFL-IYISSDSGNKKK----GRFSATLDKSRKSSSLHISAAQLS 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*..
4YAQ_H       89 DTATYFC-VREAGGpdyrngyy**dfydgyyNYHYmdVWGKGTTVTV 134
Cdd:cd04983  81 DSAVYFCaLSESGG-----------------TGKL--TFGKGTRLTV 108
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 11-134 3.25e-09

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: 53.23  E-value: 3.25e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H         11 VQPGSSLRLSCAASGFDFSR-QGMHWVRQAPGQGLEWVaFIKYDGSEKYHADSvwGRLSISRDNSKDTLYLQMNSLRVED 89
Cdd:pfam07686   8 VALGGSVTLPCTYSSSMSEAsTSVYWYRQPPGKGPTFL-IAYYSNGSEEGVKK--GRFSGRGDPSNGDGSLTIQNLTLSD 84

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
4YAQ_H         90 TATYFCVreaggpdyrngyy**dfydgyYNYHYMDVWGKGTTVTV 134
Cdd:pfam07686  85 SGTYTCA---------------------VIPSGEGVFGKGTRLTV 108
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 10-101 7.57e-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: 52.28  E-value: 7.57e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       10 VVQPGSSLRLSCA-ASGFDFsrqgMHWVRQAPGQGLEWVAFIkYDGSEKYHADSVWGRLSISRdNSKDTLYLQMNSLRVE 88
Cdd:cd05899   9 IKRRGQSVTLRCSqKSGHDN----MYWYRQDPGKGLQLLFYS-YGGGLNEEGDLPGDRFSASR-PSLTRSSLTIKSAEPE 82

                        90
                ....*....|...
4YAQ_H       89 DTATYFCVREAGG 101
Cdd:cd05899  83 DSAVYLCASSLGG 95
IGc1 smart00407
Immunoglobulin C-Type;
158-223 1.23e-06

Immunoglobulin C-Type;


Pssm-ID: 214651  Cd Length: 75  Bit Score: 45.00  E-value: 1.23e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
4YAQ_H         158 TAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGT-QTYICNVNH 223
Cdd:smart00407   1 KATLVCLVSGFYPPDITVTWlrNGQEVTEGVSTTDPLKNSDGTYFLSSYLTVPASTWESgDVYTCQVTH 69
IgC1_CH3_IgAGD_CH4_IgAEM cd05768
CH3 domain (third constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, gamma, ...
 142-180 1.87e-06

CH3 domain (third constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, gamma, and delta chains, and CH4 domain (fourth constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, epsilon, and mu chains; member of the C1-set of I; The members here are composed of the third and fourth immunoglobulin constant domain (IgC) of alpha, delta, gamma and alpha, epsilon, and mu heavy chains, respectively. This domain is found on the Fc fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns.


Pssm-ID: 409425  Cd Length: 105  Bit Score: 45.40  E-value: 1.87e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
4YAQ_H      142 PSVFPLAPSSKS-TSGGTAALGCLVKDYFPEPVTVSWNSG 180
Cdd:cd05768   1 PSVYLLPPPEEElSLNETVTLTCLVKGFYPEDIFVSWLQN 40
IgC1_L cd07699
Immunoglobulin light chain Constant domain; member of the C1-set of Ig superfamily (IgSF) ...
 142-236 1.96e-06

Immunoglobulin light chain Constant domain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the immunoglobulin (Ig) light chain constant (C) domain. 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 determine the type of immunoglobulin: 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: 409496  Cd Length: 99  Bit Score: 45.14  E-value: 1.96e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      142 PSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGT-QTYI 218
Cdd:cd07699   2 PSVTIFPPSSEELSSGKATLVCLINKFYPGFATVTWkvDGSTVSSGVTTSKTEQQSDNTYSMSSYLTLSSSDWNKhKVYT 81

                        90
                ....*....|....*...
4YAQ_H      219 CNVNHKPSNTKVDKKVEP 236
Cdd:cd07699  82 CEVTHEGLSSTITKSFNR 99
IgC1_CH1_IgD cd16092
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin delta chain; member ...
 141-229 4.48e-06

CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin delta chain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the first immunoglobulin constant-1 set domain of delta chains. It belongs to a family composed of the first immunoglobulin constant-1 set domain of alpha, delta, epsilon, gamma, and mu heavy chains. This domain is found on the Fab antigen-binding fragment. 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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). Ig molecules are modular proteins, in which the variable and constant domains have clear, conserved sequence patterns. This group belongs to the C1-set of IgSF domains, which are classical Ig-like domains resembling the antibody constant domain. C1-set domains are found almost exclusively in molecules involved in the immune system, such as in immunoglobulin light and heavy chains, in the major histocompatibility complex (MHC) class I and II complex molecules, and in various T-cell receptors.


Pssm-ID: 319341  Cd Length: 96  Bit Score: 44.06  E-value: 4.48e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H      141 GPSVFPLAPSSKSTSGGT-AALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYIC 219
Cdd:cd16092   1 APDVFPIISGCRHPKDNSpVVLACLITGYHPTSVTVTWYMGTQSQPQRTFPEIQRRDSYYMTSSQLSTPLQQWRQGEYKC 80

                        90
                ....*....|
4YAQ_H      220 NVNHKPSNTK 229
Cdd:cd16092  81 VVQHTASKSK 90
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 11-95 2.42e-05

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


Pssm-ID: 409497  Cd Length: 116  Bit Score: 42.44  E-value: 2.42e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       11 VQPGSSLRLSCAASGFdFSRQGMHWVR--QAPG--QGLEWVAFIKYDGSEKYHADSVWGRLSISRDNSKDTLYLQMNSLR 86
Cdd:cd07700  10 VQTNQTVKMSCEAKTS-PKNTRIYWLRqrQAPSkdSHFEFLASWDPSKGIVYGEGVDQEKLIILSDSDSSRYILSLMSVK 88


                ....*....
4YAQ_H       87 VEDTATYFC 95
Cdd:cd07700  89 PEDSGTYFC 97
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 11-95 3.40e-05

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: 41.68  E-value: 3.40e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       11 VQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVafIKYDgseKYHADSVWGRLSISrdNSKDTLYLQMNSLRVEDT 90
Cdd:cd04984  10 VSPGETVTITCTGSSGNISGNYVNWYQQKPGSAPRYL--IYED---KHRPSGIPDRFSGS--KSGNTASLTISGAQTEDE 82


                ....*
4YAQ_H       91 ATYFC 95
Cdd:cd04984  83 ADYYC 87
IgC1_TCR_beta cd05769
T cell receptor (TCR) beta chain constant immunoglobulin domain; member of the C1-set of Ig ...
 140-197 1.22e-04

T cell receptor (TCR) beta chain constant immunoglobulin domain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the T cell receptor (TCR) beta chain constant immunoglobulin domain. 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 beta chain. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. The antigen binding site is formed by the variable domains of the alpha and beta chains, located at the N-terminus of each chain. Alpha/beta TCRs recognize antigens differently from gamma/delta TCRs.


Pssm-ID: 409426 [Multi-domain]  Cd Length: 116  Bit Score: 40.44  E-value: 1.22e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
4YAQ_H      140 KGPSVFPLAPSSKSTSG-GTAALGCLVKDYFPEPVTVSW--NSGALTSGVHTFPAVLQSSG 197
Cdd:cd05769   1 TPPTVALFPPSEAEIRNkRKATLVCLATGFYPDHVSLSWkvNGKEVKDGVATDPQALRENT 61
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 11-96 3.01e-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: 39.30  E-value: 3.01e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
4YAQ_H       11 VQPGSSLRLSCAASGfDFSRQGMHWVRQAPGQGlewVAFIKYDGSEKYHADSvwGRLSISRDNSKDTLylQMNSLRVEDT 90
Cdd:cd04980  12 VSPGERVTISCKASQ-SISSNYLAWYQQKPGQA---PKLLIYYASTLHSGVP--SRFSGSGSGTDFTL--TISSVEPEDA 83


                ....*.
4YAQ_H       91 ATYFCV 96
Cdd:cd04980  84 AVYYCQ 89
IgC1_CH2_IgE cd05847
CH2 domain (second constant Ig domain of the heavy chain) in immunoglobulin E (IgE); member of ...
 142-177 4.84e-03

CH2 domain (second constant Ig domain of the heavy chain) in immunoglobulin E (IgE); member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the second constant domain of the heavy chain of immunoglobulin E (IgE). The basic structure of immunoglobulin (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 is composed of a constant domain and a variable domain. There are five types of heavy chains: alpha, delta, epsilon, gamma, and mu, all consisting of a variable domain (VH) with three (alpha, delta, and gamma) or four (epsilon and mu) constant domains (CH1 to CH4). The different classes of antibodies vary in their heavy chains; the IgE class has the epsilon type. This domain (Cepsilon2) of IgE is in place of the flexible hinge region found in IgG.


Pssm-ID: 409434  Cd Length: 97  Bit Score: 35.47  E-value: 4.84e-03
                        10        20        30
                ....*....|....*....|....*....|....*..
4YAQ_H      142 PSVFPLAPSSKSTSG-GTAALGCLVKDYFPEPVTVSW 177
Cdd:cd05847   1 PTVQILHSSCASTLTsETIQLLCLISGYTPSTIEVEW 37
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH