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Conserved domains on  [gi|65333910|gb|AAY42315|]
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T-cell receptor gamma, partial [Danio rerio]

Protein Classification

immunoglobulin domain-containing family protein( domain architecture ID 34076)

immunoglobulin (Ig) domain-containing family protein is a member of a large superfamily containing cell surface antigen receptors, co-receptors and co-stimulatory molecules of the immune system, molecules involved in antigen presentation to lymphocytes, cell adhesion molecules, certain cytokine receptors and intracellular muscle proteins; immunoglobulin domains are typically divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 22-138 2.01e-32

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 cd04982:

Pssm-ID: 472250  Cd Length: 117  Bit Score: 116.31  E-value: 2.01e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  22 LDQGSKALVKAAGKTVYLPCKVTGLESSN-YVHWYQVKDGKAPSRLLYISIDGAVVRDDKnPQTNDFTVDK---TRLYDL 97
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVSGIDFSTtYIHWYRQKPGQALERLLYVSSTSAVRKDSG-KTKNKFEARKdvgKSTSTL 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 65333910  98 KLSDTQSKHAAVYFCASWEYDSrtgSGWIKRFGSGTRLIVT 138
Cdd:cd04982  80 TITNLEKEDSATYYCAYWESGS---GYYIKVFGSGTKLIVT 117
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 156-237 1.41e-06

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 cd00098:

Pssm-ID: 472250  Cd Length: 95  Bit Score: 45.91  E-value: 1.41e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910 156 KANEKPAALCQAKDMFPDLVSFKWEKKSSSGGwTEVSNDQIVEHSHNEDPVTSMVILNT---PEDNIYRCTVTHEGSKDP 232
Cdd:cd00098  12 KGGGKVTLVCLVSGFYPKDITVTWLKNGVPLT-SGVSTSSPVEPNDGTYSVTSSLTVPPsdwDEGATYTCVVTHESLKSP 90


                ....*
gi 65333910 233 QQIEI 237
Cdd:cd00098  91 LSKTW 95
 
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 ...
 22-138 2.01e-32

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: 116.31  E-value: 2.01e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  22 LDQGSKALVKAAGKTVYLPCKVTGLESSN-YVHWYQVKDGKAPSRLLYISIDGAVVRDDKnPQTNDFTVDK---TRLYDL 97
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVSGIDFSTtYIHWYRQKPGQALERLLYVSSTSAVRKDSG-KTKNKFEARKdvgKSTSTL 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 65333910  98 KLSDTQSKHAAVYFCASWEYDSrtgSGWIKRFGSGTRLIVT 138
Cdd:cd04982  80 TITNLEKEDSATYYCAYWESGS---GYYIKVFGSGTKLIVT 117
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-138 1.63e-10

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: 1.63e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910    24 QGSKALVKAAGKTVYLPCKVTGLESSN--YVHWYQVKDGKAPSRLL--YISIDGAVVRDD-----KNPQTNDFTVdktRL 94
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMSEAstSVYWYRQPPGKGPTFLIayYSNGSEEGVKKGrfsgrGDPSNGDGSL---TI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 65333910    95 YDLKLSDTqskhaAVYFCASWEYDSRtgsgwikRFGSGTRLIVT 138
Cdd:pfam07686  78 QNLTLSDS-----GTYTCAVIPSGEG-------VFGKGTRLTVL 109
IGv smart00406
Immunoglobulin V-Type;
36-113 2.57e-08

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 50.46  E-value: 2.57e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910     36 TVYLPCKVTGLESSNY-VHWYQVKDGKAPSRLLYISIDGAV-----VRD----DKNPQTNDFTvdktrlydLKLSDTQSK 105
Cdd:smart00406   1 SVTLSCKFSGSTFSSYyVSWVRQPPGKGLEWLGYIGSNGSSyyqesYKGrftiSKDTSKNDVS--------LTISNLRVE 72


                   ....*...
gi 65333910    106 HAAVYFCA 113
Cdd:smart00406  73 DTGTYYCA 80
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 156-237 1.41e-06

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: 45.91  E-value: 1.41e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910 156 KANEKPAALCQAKDMFPDLVSFKWEKKSSSGGwTEVSNDQIVEHSHNEDPVTSMVILNT---PEDNIYRCTVTHEGSKDP 232
Cdd:cd00098  12 KGGGKVTLVCLVSGFYPKDITVTWLKNGVPLT-SGVSTSSPVEPNDGTYSVTSSLTVPPsdwDEGATYTCVVTHESLKSP 90


                ....*
gi 65333910 233 QQIEI 237
Cdd:cd00098  91 LSKTW 95
 
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 ...
 22-138 2.01e-32

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: 116.31  E-value: 2.01e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  22 LDQGSKALVKAAGKTVYLPCKVTGLESSN-YVHWYQVKDGKAPSRLLYISIDGAVVRDDKnPQTNDFTVDK---TRLYDL 97
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVSGIDFSTtYIHWYRQKPGQALERLLYVSSTSAVRKDSG-KTKNKFEARKdvgKSTSTL 79

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 65333910  98 KLSDTQSKHAAVYFCASWEYDSrtgSGWIKRFGSGTRLIVT 138
Cdd:cd04982  80 TITNLEKEDSATYYCAYWESGS---GYYIKVFGSGTKLIVT 117
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 22-137 3.96e-25

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: 97.02  E-value: 3.96e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  22 LDQGSKALVKAAGKTVYLPCKVTGLESSNYVHWYQVKDGKAPSRLLYISIDGAVVRDDKNPQtndFTV--DKTRLYDLKL 99
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEVSSSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKGGVPGR---FSGsrDGTSSFSLTI 77

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 65333910 100 SDTQSKHAAVYFCASWEydsrTGSGWIKRFGSGTRLIV 137
Cdd:cd00099  78 SNLQPEDSGTYYCAVSE----SGGTDKLTFGSGTRLTV 111
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 24-138 4.28e-13

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: 64.60  E-value: 4.28e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  24 QGSKALVKAAGKTVYLPCKVTGLeSSNYVHWYQVKDGKAPSRLLYISidgavvrDDKNPQTND-FTV--DKTRLY-DLKL 99
Cdd:cd04983   3 QSPQSLSVQEGENVTLNCNYSTS-TFYYLFWYRQYPGQGPQFLIYIS-------SDSGNKKKGrFSAtlDKSRKSsSLHI 74

                        90       100       110
                ....*....|....*....|....*....|....*....
gi 65333910 100 SDTQSKHAAVYFCASweydSRTGSGWIKRFGSGTRLIVT 138
Cdd:cd04983  75 SAAQLSDSAVYFCAL----SESGGTGKLTFGKGTRLTVE 109
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 34-137 1.09e-12

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: 63.25  E-value: 1.09e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  34 GKTVYLPCKV-TGLESSNYVHWYQVKDGKAPSRLLYISIDgavvRDDKNPQTNDFTVDKTRLYdLKLSDTQSKHAAVYFC 112
Cdd:cd04984  13 GETVTITCTGsSGNISGNYVNWYQQKPGSAPRYLIYEDKH----RPSGIPDRFSGSKSGNTAS-LTISGAQTEDEADYYC 87

                        90       100
                ....*....|....*....|....*
gi 65333910 113 ASWEydsrtGSGWIkrFGSGTRLIV 137
Cdd:cd04984  88 QVWD-----SNSYV--FGGGTKLTV 105
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 24-137 1.48e-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: 60.37  E-value: 1.48e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  24 QGSKALVKAAGKTVYLPCKVTglESSNYVHWYQVKDGKAPsRLLYISIDGaVVRDDKNPQTNDFTVDKTRLY--DLKLSD 101
Cdd:cd05899   3 QSPRYLIKRRGQSVTLRCSQK--SGHDNMYWYRQDPGKGL-QLLFYSYGG-GLNEEGDLPGDRFSASRPSLTrsSLTIKS 78

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 65333910 102 TQSKHAAVYFCASweydSRTGSGWIKRFGSGTRLIV 137
Cdd:cd05899  79 AEPEDSAVYLCAS----SLGGGADEAYFGPGTRLTV 110
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-138 1.63e-10

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: 1.63e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910    24 QGSKALVKAAGKTVYLPCKVTGLESSN--YVHWYQVKDGKAPSRLL--YISIDGAVVRDD-----KNPQTNDFTVdktRL 94
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMSEAstSVYWYRQPPGKGPTFLIayYSNGSEEGVKKGrfsgrGDPSNGDGSL---TI 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 65333910    95 YDLKLSDTqskhaAVYFCASWEYDSRtgsgwikRFGSGTRLIVT 138
Cdd:pfam07686  78 QNLTLSDS-----GTYTCAVIPSGEG-------VFGKGTRLTVL 109
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 22-135 8.03e-09

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: 52.39  E-value: 8.03e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  22 LDQGSKALVKAAGKTVYLPCKVTGLESSNYVHWYQVKDGKAPSRLLYisidGAVVRDDKNPQT-------NDFTvdktrl 94
Cdd:cd04980   3 MTQSPASLSVSPGERVTISCKASQSISSNYLAWYQQKPGQAPKLLIY----YASTLHSGVPSRfsgsgsgTDFT------ 72

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 65333910  95 ydLKLSDTQSKHAAVYFCASWEYDSRTgsgwikrFGSGTRL 135
Cdd:cd04980  73 --LTISSVEPEDAAVYYCQQGYTFPYT-------FGGGTKL 104
IGv smart00406
Immunoglobulin V-Type;
36-113 2.57e-08

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 50.46  E-value: 2.57e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910     36 TVYLPCKVTGLESSNY-VHWYQVKDGKAPSRLLYISIDGAV-----VRD----DKNPQTNDFTvdktrlydLKLSDTQSK 105
Cdd:smart00406   1 SVTLSCKFSGSTFSSYyVSWVRQPPGKGLEWLGYIGSNGSSyyqesYKGrftiSKDTSKNDVS--------LTISNLRVE 72


                   ....*...
gi 65333910    106 HAAVYFCA 113
Cdd:smart00406  73 DTGTYYCA 80
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 21-138 3.58e-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: 48.07  E-value: 3.58e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  21 KLDQGSKALVKAaGKTVYLPCKVTGLE-SSNYVHWYQVKDGKAPSRLLYISIDGAVVR---DDKNPQTndFTVDKTR--L 94
Cdd:cd04981   1 QLQESGPGLVKP-GQSLKLSCKASGFTfTSYGMGWVRQAPGKGLEWIGLIYPGGGDTYyadSFKGRFT--ITRDTSKstA 77

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 65333910  95 YdLKLSDTQSKHAAVYFCASWEYDSrtGSGWIKRFGSGTRLIVT 138
Cdd:cd04981  78 Y-LQLNSLTSEDTAVYYCARGLGGY--GYSYFDYWGQGTTVTVS 118
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 156-237 1.41e-06

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: 45.91  E-value: 1.41e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910 156 KANEKPAALCQAKDMFPDLVSFKWEKKSSSGGwTEVSNDQIVEHSHNEDPVTSMVILNT---PEDNIYRCTVTHEGSKDP 232
Cdd:cd00098  12 KGGGKVTLVCLVSGFYPKDITVTWLKNGVPLT-SGVSTSSPVEPNDGTYSVTSSLTVPPsdwDEGATYTCVVTHESLKSP 90


                ....*
gi 65333910 233 QQIEI 237
Cdd:cd00098  91 LSKTW 95
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 26-137 3.64e-04

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: 38.64  E-value: 3.64e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910     26 SKALVKAAGKTVYLPCKVTGlESSNYVHWYQvKDGKAPSRLLYISIDGavvrddknpQTNDFTvdktrlydLKLSDTQSK 105
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASG-SPPPEVTWYK-QGGKLLAESGRFSVSR---------SGSTST--------LTISNVTPE 61

                           90       100       110
                   ....*....|....*....|....*....|..
gi 65333910    106 HAAVYFCASWeydSRTGSGWikrfgSGTRLIV 137
Cdd:smart00410  62 DSGTYTCAAT---NSSGSAS-----SGTTLTV 85
IgC1_CH1_IgADEGM cd04985
CH1 domain (first constant Ig domain of the heavy chain) in immunoglobulin heavy alpha, delta, ...
 146-237 7.73e-04

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: 38.34  E-value: 7.73e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910 146 VTPKLSGYLNKANEKPAALCQAKDMFPDLVSFKWEKKSSSGGWTEVSNDQIVEHSHNEDPVTSMVIL---NTPEDNIYRC 222
Cdd:cd04985   4 VFPLQSATKSQSNGPVALGCLISDYFPESITVSWQKNTNSITSGFTRTFPVVLRSGGDYSCSSQLTVplqEWNSGEVYKC 83

                        90
                ....*....|....*
gi 65333910 223 TVTHEGSKDPQQIEI 237
Cdd:cd04985  84 QVQHSASNSKQEKDV 98
IgC1_TCR_gamma cd07697
T cell receptor (TCR) gamma chain constant immunoglobulin domain; member of the C1-set of Ig ...
 164-237 8.53e-04

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: 38.01  E-value: 8.53e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 65333910 164 LCQAKDMFPDLVSFKWEKKSSSggwtEVSNDQIVEHSHNEDPVTSMVILNTPED---NIYRCTVTHEGSKDPQQIEI 237
Cdd:cd07697  23 LCLLENFFPDVIKIHWREKKSD----TILESQEGNTEKTKDTYMKFSWLTVPKKslgKEHRCIYKHENNKNGVKQEI 95
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 21-140 4.50e-03

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: 36.34  E-value: 4.50e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 65333910  21 KLDQGSKALVKAAGKTVYLPCKVTGLESSNYVHWYQVKDGKAPSRLLYISIDGAVVRDDKnpqtndFTVD---KTRLYDL 97
Cdd:cd07706   1 KVTQAQPDVSVQVGEEVTLNCRYETSWTNYYLFWYKQLPSGEMTFLIRQDSSEQNAKSGR------YSVNfqkAQKSISL 74

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 65333910  98 KLSDTQSKHAAVYFCA---SWEYDSRTgsgwikrFGSGTRLIVtEP 140
Cdd:cd07706  75 TISALQLEDSAKYFCAlslPYDTDKLI-------FGKGTRLTV-EP 112
 
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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