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Conserved domains on  [gi|486897|gb|S36293|]
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T-cell receptor gamma chain precursor - sheep (fragment)

Protein Classification

IgV_TCR_gamma and Ig domain-containing protein( domain architecture ID 10141820)

IgV_TCR_gamma and Ig domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 22-134 2.87e-54

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: 168.70  E-value: 2.87e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    22 VEQAQISPSTEVKKSITIHCKIESTDFESEAVYWYRQKRHQALEHLVYVISTTTAARHQVDGKNKIEARKDARMFTSTLT 101
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLT 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 486897   102 VNFVEKEDVGIYYCAGWRKG----IKVFGEGTKLVVI 134
Cdd:cd04982  81 ITNLEKEDSATYYCAYWESGsgyyIKVFGSGTKLIVT 117
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 146-202 6.64e-21

Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of this group are components of immunoglobulin, neuroglia, cell surface glycoproteins, including T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, including butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E, and D strands in one sheet and A', G, F, C, C' and C" in the other. The structures in C1-set are smaller than those in the V-set; they have one beta sheet that is formed by strands A, B, E, and D and the other by strands G, F, C, and C'. Moreover, a C1-set Ig domain contains a short C' strand (three residues) and lacks A' and C" strand. Unlike other Ig domain sets, C2-set structures do not have a D strand. Like the V-set Ig domains, members of the I-set have a discontinuous A strand, but lack a C" strand.


The actual alignment was detected with superfamily member cd07697:

Pssm-ID: 472250  Cd Length: 98  Bit Score: 83.08  E-value: 6.64e-21
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 486897   146 PKPTIFFPSVEEVKRHSAGTHLCLLQNFFPDAIKVQWKEKNGNTILESHQGNIIKTN 202
Cdd:cd07697   2 PKPTIFLPSIAETEKQKAGTYLCLLENFFPDVIKIHWREKKSDTILESQEGNTEKTK 58
 
Name Accession Description Interval E-value
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 22-134 2.87e-54

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: 168.70  E-value: 2.87e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    22 VEQAQISPSTEVKKSITIHCKIESTDFESEAVYWYRQKRHQALEHLVYVISTTTAARHQVDGKNKIEARKDARMFTSTLT 101
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLT 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 486897   102 VNFVEKEDVGIYYCAGWRKG----IKVFGEGTKLVVI 134
Cdd:cd04982  81 ITNLEKEDSATYYCAYWESGsgyyIKVFGSGTKLIVT 117
IgC1_TCR_gamma cd07697
T cell receptor (TCR) gamma chain constant immunoglobulin domain; member of the C1-set of Ig ...
 146-202 6.64e-21

T cell receptor (TCR) gamma chain constant immunoglobulin domain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the immunoglobulin (Ig) constant (C) 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 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.


Pssm-ID: 409494  Cd Length: 98  Bit Score: 83.08  E-value: 6.64e-21
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 486897   146 PKPTIFFPSVEEVKRHSAGTHLCLLQNFFPDAIKVQWKEKNGNTILESHQGNIIKTN 202
Cdd:cd07697   2 PKPTIFLPSIAETEKQKAGTYLCLLENFFPDVIKIHWREKKSDTILESQEGNTEKTK 58
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 35-133 4.42e-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: 57.47  E-value: 4.42e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897      35 KSITIHCKI-ESTDFESEAVYWYRQKRHQALEHLVYVISTTtaaRHQVDGKNKIEARKDARMFTSTLTVNFVEKEDVGIY 113
Cdd:pfam07686  12 GSVTLPCTYsSSMSEASTSVYWYRQPPGKGPTFLIAYYSNG---SEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDSGTY 88

                          90       100
                  ....*....|....*....|
gi 486897     114 YCAGWRKGIKVFGEGTKLVV 133
Cdd:pfam07686  89 TCAVIPSGEGVFGKGTRLTV 108
IGv smart00406
Immunoglobulin V-Type;
36-116 5.54e-10

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 53.93  E-value: 5.54e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897       36 SITIHCKIESTDFESEAVYWYRQKRHQALEHLVYVISTTTA-------ARHQVDGKNkieARKDArmftsTLTVNFVEKE 108
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNGSSyyqesykGRFTISKDT---SKNDV-----SLTISNLRVE 72


                   ....*...
gi 486897      109 DVGIYYCA 116
Cdd:smart00406  73 DTGTYYCA 80
C1-set pfam07654
Immunoglobulin C1-set domain;
149-195 2.49e-03

Immunoglobulin C1-set domain;


Pssm-ID: 462221  Cd Length: 85  Bit Score: 35.69  E-value: 2.49e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 486897     149 TIFFPSVEEVKRHSagTHLCLLQNFFPDAIKVQWKeKNGNTILESHQ 195
Cdd:pfam07654   2 YVFPPSPEELGKPN--TLTCLVTGFYPPDITVTWL-KNGQEVTEGVK 45
IGc1 smart00407
Immunoglobulin C-Type;
165-195 3.10e-03

Immunoglobulin C-Type;


Pssm-ID: 214651  Cd Length: 75  Bit Score: 35.37  E-value: 3.10e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 486897      165 THLCLLQNFFPDAIKVQWKeKNGNTILESHQ 195
Cdd:smart00407   3 TLVCLVSGFYPPDITVTWL-RNGQEVTEGVS 32
 
Name Accession Description Interval E-value
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 22-134 2.87e-54

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: 168.70  E-value: 2.87e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    22 VEQAQISPSTEVKKSITIHCKIESTDFESEAVYWYRQKRHQALEHLVYVISTTTAARHQVDGKNKIEARKDARMFTSTLT 101
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVSGIDFSTTYIHWYRQKPGQALERLLYVSSTSAVRKDSGKTKNKFEARKDVGKSTSTLT 80

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 486897   102 VNFVEKEDVGIYYCAGWRKG----IKVFGEGTKLVVI 134
Cdd:cd04982  81 ITNLEKEDSATYYCAYWESGsgyyIKVFGSGTKLIVT 117
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 22-133 9.41e-28

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: 100.87  E-value: 9.41e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    22 VEQAQISPSTEVKKSITIHCKIeSTDFESEAVYWYRQKRHQALEHLVYVISTTTAArhQVDGKNKIEARKDARMfTSTLT 101
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEV-SSSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKT--KGGVPGRFSGSRDGTS-SFSLT 76

                        90       100       110
                ....*....|....*....|....*....|....*
gi 486897   102 VNFVEKEDVGIYYCAGWRKG---IKVFGEGTKLVV 133
Cdd:cd00099  77 ISNLQPEDSGTYYCAVSESGgtdKLTFGSGTRLTV 111
IgC1_TCR_gamma cd07697
T cell receptor (TCR) gamma chain constant immunoglobulin domain; member of the C1-set of Ig ...
 146-202 6.64e-21

T cell receptor (TCR) gamma chain constant immunoglobulin domain; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the immunoglobulin (Ig) constant (C) 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 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.


Pssm-ID: 409494  Cd Length: 98  Bit Score: 83.08  E-value: 6.64e-21
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 486897   146 PKPTIFFPSVEEVKRHSAGTHLCLLQNFFPDAIKVQWKEKNGNTILESHQGNIIKTN 202
Cdd:cd07697   2 PKPTIFLPSIAETEKQKAGTYLCLLENFFPDVIKIHWREKKSDTILESQEGNTEKTK 58
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 22-133 3.87e-14

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: 65.37  E-value: 3.87e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    22 VEQAQISPSTEVKKSITIHCKIESTDFESeaVYWYRQKRHQALEHLVYVistTTAARHQVDGKNKIEARKDARMFtsTLT 101
Cdd:cd04983   1 VTQSPQSLSVQEGENVTLNCNYSTSTFYY--LFWYRQYPGQGPQFLIYI---SSDSGNKKKGRFSATLDKSRKSS--SLH 73

                        90       100       110
                ....*....|....*....|....*....|....*..
gi 486897   102 VNFVEKEDVGIYYCA-----GWRKGIkvFGEGTKLVV 133
Cdd:cd04983  74 ISAAQLSDSAVYFCAlsesgGTGKLT--FGKGTRLTV 108
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 28-133 1.14e-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: 59.01  E-value: 1.14e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    28 SPSTEVKKSITIHCKIESTDFESEAVYWYRQKRHQALEHLVYvistttAARHQVDGknkIEAR----KDARmfTSTLTVN 103
Cdd:cd04984   7 SLSVSPGETVTITCTGSSGNISGNYVNWYQQKPGSAPRYLIY------EDKHRPSG---IPDRfsgsKSGN--TASLTIS 75

                        90       100       110
                ....*....|....*....|....*....|
gi 486897   104 FVEKEDVGIYYCAGWRKGIKVFGEGTKLVV 133
Cdd:cd04984  76 GAQTEDEADYYCQVWDSNSYVFGGGTKLTV 105
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 24-131 1.15e-11

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: 58.94  E-value: 1.15e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    24 QAQISPSTEVKKSITIHCKiESTDFESEAVYWYRQKRHQALEHLVYVISTttaaRHqvdgkNKIEARkdarmFTS----- 98
Cdd:cd04980   5 QSPASLSVSPGERVTISCK-ASQSISSNYLAWYQQKPGQAPKLLIYYAST----LH-----SGVPSR-----FSGsgsgt 69

                        90       100       110
                ....*....|....*....|....*....|....*
gi 486897    99 --TLTVNFVEKEDVGIYYCAGWRKGIKVFGEGTKL 131
Cdd:cd04980  70 dfTLTISSVEPEDAAVYYCQQGYTFPYTFGGGTKL 104
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 22-133 3.14e-11

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: 58.06  E-value: 3.14e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    22 VEQaqiSPSTEVKK---SITIHCkIESTDFESeaVYWYRQKRHQALEHLVY-------VISTTTAARHQVDGKNKIEark 91
Cdd:cd05899   1 VTQ---SPRYLIKRrgqSVTLRC-SQKSGHDN--MYWYRQDPGKGLQLLFYsyggglnEEGDLPGDRFSASRPSLTR--- 71

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*
gi 486897    92 darmftSTLTVNFVEKEDVGIYYCA---GWRKGIKVFGEGTKLVV 133
Cdd:cd05899  72 ------SSLTIKSAEPEDSAVYLCAsslGGGADEAYFGPGTRLTV 110
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 35-133 4.42e-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: 57.47  E-value: 4.42e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897      35 KSITIHCKI-ESTDFESEAVYWYRQKRHQALEHLVYVISTTtaaRHQVDGKNKIEARKDARMFTSTLTVNFVEKEDVGIY 113
Cdd:pfam07686  12 GSVTLPCTYsSSMSEASTSVYWYRQPPGKGPTFLIAYYSNG---SEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDSGTY 88

                          90       100
                  ....*....|....*....|
gi 486897     114 YCAGWRKGIKVFGEGTKLVV 133
Cdd:pfam07686  89 TCAVIPSGEGVFGKGTRLTV 108
IGv smart00406
Immunoglobulin V-Type;
36-116 5.54e-10

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 53.93  E-value: 5.54e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897       36 SITIHCKIESTDFESEAVYWYRQKRHQALEHLVYVISTTTA-------ARHQVDGKNkieARKDArmftsTLTVNFVEKE 108
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNGSSyyqesykGRFTISKDT---SKNDV-----SLTISNLRVE 72


                   ....*...
gi 486897      109 DVGIYYCA 116
Cdd:smart00406  73 DTGTYYCA 80
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 29-133 7.01e-10

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: 54.62  E-value: 7.01e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    29 PSTEVKK---SITIHCKIESTDFESEAVYWYRQKRHQALEHLVYVISTTTAARHQVDGKNKIEARKDARMFTSTLTVNFV 105
Cdd:cd04981   5 SGPGLVKpgqSLKLSCKASGFTFTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQLNSL 84

                        90       100       110
                ....*....|....*....|....*....|...
gi 486897   106 EKEDVGIYYCA-----GWRKGIKVFGEGTKLVV 133
Cdd:cd04981  85 TSEDTAVYYCArglggYGYSYFDYWGQGTTVTV 117
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 21-135 1.03e-09

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: 54.06  E-value: 1.03e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    21 KVEQAQISPSTEVKKSITIHCKIEsTDFESEAVYWYRQKRHQaleHLVYVISTTTAARHQVDGKNKIEARKDARMFTstL 100
Cdd:cd07706   1 KVTQAQPDVSVQVGEEVTLNCRYE-TSWTNYYLFWYKQLPSG---EMTFLIRQDSSEQNAKSGRYSVNFQKAQKSIS--L 74

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 486897   101 TVNFVEKEDVGIYYCA--GWRKGIK-VFGEGTKLVVIP 135
Cdd:cd07706  75 TISALQLEDSAKYFCAlsLPYDTDKlIFGKGTRLTVEP 112
IgC1_L cd07699
Immunoglobulin light chain Constant domain; member of the C1-set of Ig superfamily (IgSF) ...
 146-190 9.10e-07

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: 45.53  E-value: 9.10e-07
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*
gi 486897   146 PKPTIFFPSVEEVKRHSAgTHLCLLQNFFPDAIKVQWKeKNGNTI 190
Cdd:cd07699   2 PSVTIFPPSSEELSSGKA-TLVCLINKFYPGFATVTWK-VDGSTV 44
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 35-134 2.37e-06

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: 44.75  E-value: 2.37e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897    35 KSITIHC--KIESTdfeSEAVYWYRQKR----HQALEHLVYVISTTTAARHQVDGKNKIEARKDARMFTSTLTVNFVEKE 108
Cdd:cd07700  14 QTVKMSCeaKTSPK---NTRIYWLRQRQapskDSHFEFLASWDPSKGIVYGEGVDQEKLIILSDSDSSRYILSLMSVKPE 90

                        90       100
                ....*....|....*....|....*.
gi 486897   109 DVGIYYCAGWRKGIKVFGEGTKLVVI 134
Cdd:cd07700  91 DSGTYFCMTVGSPELIFGTGTKLSVV 116
IgC1_TCR_beta cd05769
T cell receptor (TCR) beta chain constant immunoglobulin domain; member of the C1-set of Ig ...
 146-188 3.72e-06

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: 44.29  E-value: 3.72e-06
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 486897   146 PKPTIFFPSVEEVKRHSAGTHLCLLQNFFPDAIKVQWKeKNGN 188
Cdd:cd05769   3 PTVALFPPSEAEIRNKRKATLVCLATGFYPDHVSLSWK-VNGK 44
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 28-133 4.74e-06

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: 43.26  E-value: 4.74e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486897       28 SPSTEVK--KSITIHCKIEStdFESEAVYWYRQKrhqaLEHLVYVistttaARHQVDGKNkiearkdarmFTSTLTVNFV 105
Cdd:smart00410   1 PPSVTVKegESVTLSCEASG--SPPPEVTWYKQG----GKLLAES------GRFSVSRSG----------STSTLTISNV 58

                           90       100
                   ....*....|....*....|....*...
gi 486897      106 EKEDVGIYYCAGWRKGIKVFGeGTKLVV 133
Cdd:smart00410  59 TPEDSGTYTCAATNSSGSASS-GTTLTV 85
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 147-190 4.94e-05

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: 40.52  E-value: 4.94e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 486897   147 KPTIFFPSVEEVKRHSAgTHLCLLQNFFPDAIKVQWKeKNGNTI 190
Cdd:cd00098   1 TVTLLPPSPEEKGGGKV-TLVCLVSGFYPKDITVTWL-KNGVPL 42
C1-set pfam07654
Immunoglobulin C1-set domain;
149-195 2.49e-03

Immunoglobulin C1-set domain;


Pssm-ID: 462221  Cd Length: 85  Bit Score: 35.69  E-value: 2.49e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 486897     149 TIFFPSVEEVKRHSagTHLCLLQNFFPDAIKVQWKeKNGNTILESHQ 195
Cdd:pfam07654   2 YVFPPSPEELGKPN--TLTCLVTGFYPPDITVTWL-KNGQEVTEGVK 45
IGc1 smart00407
Immunoglobulin C-Type;
165-195 3.10e-03

Immunoglobulin C-Type;


Pssm-ID: 214651  Cd Length: 75  Bit Score: 35.37  E-value: 3.10e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 486897      165 THLCLLQNFFPDAIKVQWKeKNGNTILESHQ 195
Cdd:smart00407   3 TLVCLVSGFYPPDITVTWL-RNGQEVTEGVS 32
IgC1_CH3_IgAGD_CH4_IgAEM cd05768
CH3 domain (third constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, gamma, ...
 146-186 6.36e-03

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: 35.00  E-value: 6.36e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|.
gi 486897   146 PKPTIFFPSVEEVKRHSAGTHLCLLQNFFPDAIKVQWKEKN 186
Cdd:cd05768   1 PSVYLLPPPEEELSLNETVTLTCLVKGFYPEDIFVSWLQNG 41
 
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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