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Conserved domains on  [gi|157819461|ref|NP_001102315|]
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immunoglobulin iota chain precursor [Rattus norvegicus]

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 ...
 22-118 8.84e-37

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 cd04984:

Pssm-ID: 472250  Cd Length: 105  Bit Score: 121.41  E-value: 8.84e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  22 VLHQPPSASSFLGTSIRLTCALSsNHNIGIYSIYWYQQRPGHPPTFLLRFfshsDKLQGPKIPPRFSGSKDtaRNLGYLS 101
Cdd:cd04984    1 VLTQPSSLSVSPGETVTITCTGS-SGNISGNYVNWYQQKPGSAPRYLIYE----DKHRPSGIPDRFSGSKS--GNTASLT 73

                         90
                 ....*....|....*..
gi 157819461 102 ISDLQPEDEAVYYCAVG 118
Cdd:cd04984   74 ISGAQTEDEADYYCQVW 90
 
Name Accession Description Interval E-value
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 22-118 8.84e-37

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: 121.41  E-value: 8.84e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  22 VLHQPPSASSFLGTSIRLTCALSsNHNIGIYSIYWYQQRPGHPPTFLLRFfshsDKLQGPKIPPRFSGSKDtaRNLGYLS 101
Cdd:cd04984    1 VLTQPSSLSVSPGETVTITCTGS-SGNISGNYVNWYQQKPGSAPRYLIYE----DKHRPSGIPDRFSGSKS--GNTASLT 73

                         90
                 ....*....|....*..
gi 157819461 102 ISDLQPEDEAVYYCAVG 118
Cdd:cd04984   74 ISGAQTEDEADYYCQVW 90
IGv smart00406
Immunoglobulin V-Type;
36-117 1.00e-26

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 95.14  E-value: 1.00e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461    36 SIRLTCALSSNHNIGiYSIYWYQQRPGHPPTFLLRFFSHSDKLQGPKIPPRFSGSKDTARNLGYLSISDLQPEDEAVYYC 115
Cdd:smart00406   1 SVTLSCKFSGSTFSS-YYVSWVRQPPGKGLEWLGYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 157819461   116 AV 117
Cdd:smart00406  80 AV 81
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 33-118 6.40e-25

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: 91.37  E-value: 6.40e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461   33 LGTSIRLTCALSSNHNIGIYSIYWYQQRPGHPPTFLLRFFshSDKLQGPKIPPRFSGSKDTARNLGYLSISDLQPEDEAV 112
Cdd:pfam07686  10 LGGSVTLPCTYSSSMSEASTSVYWYRQPPGKGPTFLIAYY--SNGSEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDSGT 87


                  ....*.
gi 157819461  113 YYCAVG 118
Cdd:pfam07686  88 YTCAVI 93
 
Name Accession Description Interval E-value
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 22-118 8.84e-37

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: 121.41  E-value: 8.84e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  22 VLHQPPSASSFLGTSIRLTCALSsNHNIGIYSIYWYQQRPGHPPTFLLRFfshsDKLQGPKIPPRFSGSKDtaRNLGYLS 101
Cdd:cd04984    1 VLTQPSSLSVSPGETVTITCTGS-SGNISGNYVNWYQQKPGSAPRYLIYE----DKHRPSGIPDRFSGSKS--GNTASLT 73

                         90
                 ....*....|....*..
gi 157819461 102 ISDLQPEDEAVYYCAVG 118
Cdd:cd04984   74 ISGAQTEDEADYYCQVW 90
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 23-126 5.16e-27

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: 96.63  E-value: 5.16e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  23 LHQPP-SASSFLGTSIRLTCALSSNhnIGIYSIYWYQQRPGHPPTFLLRFFSHSDKLQGpKIPPRFSGSKDTArNLGYLS 101
Cdd:cd00099    1 VTQSPrSLSVQEGESVTLSCEVSSS--FSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKG-GVPGRFSGSRDGT-SSFSLT 76

                         90       100
                 ....*....|....*....|....*
gi 157819461 102 ISDLQPEDEAVYYCAVGLRSWEKEK 126
Cdd:cd00099   77 ISNLQPEDSGTYYCAVSESGGTDKL 101
IGv smart00406
Immunoglobulin V-Type;
36-117 1.00e-26

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 95.14  E-value: 1.00e-26
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461    36 SIRLTCALSSNHNIGiYSIYWYQQRPGHPPTFLLRFFSHSDKLQGPKIPPRFSGSKDTARNLGYLSISDLQPEDEAVYYC 115
Cdd:smart00406   1 SVTLSCKFSGSTFSS-YYVSWVRQPPGKGLEWLGYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 157819461   116 AV 117
Cdd:smart00406  80 AV 81
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 33-118 6.40e-25

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: 91.37  E-value: 6.40e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461   33 LGTSIRLTCALSSNHNIGIYSIYWYQQRPGHPPTFLLRFFshSDKLQGPKIPPRFSGSKDTARNLGYLSISDLQPEDEAV 112
Cdd:pfam07686  10 LGGSVTLPCTYSSSMSEASTSVYWYRQPPGKGPTFLIAYY--SNGSEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDSGT 87


                  ....*.
gi 157819461  113 YYCAVG 118
Cdd:pfam07686  88 YTCAVI 93
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 26-122 2.60e-19

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: 76.93  E-value: 2.60e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  26 PPSASSFLGTSIRLTCALSSnhnIGIYSIYWYQQRPGHPPTFLLRFFSHSdklqGPKIPPRFSGSKDTARNLGYLSISDL 105
Cdd:cd04983    5 PQSLSVQEGENVTLNCNYST---STFYYLFWYRQYPGQGPQFLIYISSDS----GNKKKGRFSATLDKSRKSSSLHISAA 77

                         90
                 ....*....|....*..
gi 157819461 106 QPEDEAVYYCAVGLRSW 122
Cdd:cd04983   78 QLSDSAVYFCALSESGG 94
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 23-121 4.09e-18

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: 73.86  E-value: 4.09e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  23 LHQPPSAS-SFLGTSIRLTCALSSNHNigiySIYWYQQRPGHPPTFLLRFFSHSDKLQGPKIPPRFSGSKDTARNlGYLS 101
Cdd:cd05899    1 VTQSPRYLiKRRGQSVTLRCSQKSGHD----NMYWYRQDPGKGLQLLFYSYGGGLNEEGDLPGDRFSASRPSLTR-SSLT 75

                         90       100
                 ....*....|....*....|
gi 157819461 102 ISDLQPEDEAVYYCAVGLRS 121
Cdd:cd05899   76 IKSAEPEDSAVYLCASSLGG 95
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 23-126 3.95e-17

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here are composed of the immunoglobulin (Ig) variable (V) domain of the gamma chain of gamma/delta T-cell receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are heterodimers consisting of alpha and beta chains or gamma and delta chains. Each chain contains a variable (V) and a constant (C) region. The majority of T cells contain alpha/beta TCRs, but a small subset contain gamma/delta TCRs. Alpha/beta TCRs recognize antigens as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize MHC independently of the bound peptide. Gamma/delta T cells can also be stimulated by non-peptide antigens such as small phosphate- or amine-containing compounds. The variable domain of gamma/delta TCRs is responsible for antigen recognition and is located at the N-terminus of the receptor. Members of this group contain the standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409371  Cd Length: 117  Bit Score: 71.63  E-value: 3.95e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  23 LHQPP-SASSFLGTSIRLTCALSSNHNIGIYsIYWYQQRPGHPPTFLLRFFSHS-DKLQGPKIPPRFSGSKDTARNLGYL 100
Cdd:cd04982    1 LEQPQlSITREESKSVTISCKVSGIDFSTTY-IHWYRQKPGQALERLLYVSSTSaVRKDSGKTKNKFEARKDVGKSTSTL 79

                         90       100
                 ....*....|....*....|....*.
gi 157819461 101 SISDLQPEDEAVYYCAvglrSWEKEK 126
Cdd:cd04982   80 TITNLEKEDSATYYCA----YWESGS 101
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 26-115 1.72e-15

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: 67.03  E-value: 1.72e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  26 PPSASSFLGTSIRLTCALSSNhnIGIYSIYWYQQRPGHPPTFLLRFFSHSDklqgPKIPPRFSGSkdtarnlGY-----L 100
Cdd:cd04980    7 PASLSVSPGERVTISCKASQS--ISSNYLAWYQQKPGQAPKLLIYYASTLH----SGVPSRFSGS-------GSgtdftL 73

                         90
                 ....*....|....*
gi 157819461 101 SISDLQPEDEAVYYC 115
Cdd:cd04980   74 TISSVEPEDAAVYYC 88
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 21-120 1.54e-14

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: 65.02  E-value: 1.54e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  21 PVLHQPpsassflGTSIRLTCAlSSNHNIGIYSIYWYQQRPGHPPTFL-LRFFSHSDKLQGPKIPPRFSGSKDTARNLGY 99
Cdd:cd04981    7 PGLVKP-------GQSLKLSCK-ASGFTFTSYGMGWVRQAPGKGLEWIgLIYPGGGDTYYADSFKGRFTITRDTSKSTAY 78

                         90       100
                 ....*....|....*....|.
gi 157819461 100 LSISDLQPEDEAVYYCAVGLR 120
Cdd:cd04981   79 LQLNSLTSEDTAVYYCARGLG 99
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 26-126 1.67e-11

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: 1.67e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461    26 PPSASSFLGTSIRLTCALSSNHNigiYSIYWYQQrpghpptfllrffshsdKLQGPKIPPRFSGSKDTarNLGYLSISDL 105
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPP---PEVTWYKQ-----------------GGKLLAESGRFSVSRSG--STSTLTISNV 58

                           90       100
                   ....*....|....*....|.
gi 157819461   106 QPEDEAVYYCAVGLRSWEKEK 126
Cdd:smart00410  59 TPEDSGTYTCAATNSSGSASS 79
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 27-120 1.64e-10

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: 54.45  E-value: 1.64e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  27 PSASSFLGTSIRLTCALSSNHNIgiYSIYWYQQRPGHPPTFLLRffshSDKLQGPKIPPRFSGSKDTARNLGYLSISDLQ 106
Cdd:cd07706    7 PDVSVQVGEEVTLNCRYETSWTN--YYLFWYKQLPSGEMTFLIR----QDSSEQNAKSGRYSVNFQKAQKSISLTISALQ 80

                         90
                 ....*....|....
gi 157819461 107 PEDEAVYYCAVGLR 120
Cdd:cd07706   81 LEDSAKYFCALSLP 94
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 24-116 4.77e-10

Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the immunoglobulin (Ig) variable (V) domain of the gamma/delta T-cell receptors (TCRs). TCRs mediate antigen recognition by T lymphocytes, and are heterodimers consisting of alpha and beta chains or gamma and delta chains. Each chain contains a variable (V) and a constant (C) region. The majority of T cells contain alpha/beta TCRs, but a small subset contain gamma/delta TCRs. Alpha/beta TCRs recognize antigen as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma/delta TCRs recognize intact protein antigens; they recognize protein antigens directly and without antigen processing, and MHC independently of the bound peptide. Gamma/delta T cells can also be stimulated by non-peptide antigens such as small phosphate- or amine-containing compounds. The variable domain of gamma/delta TCRs is responsible for antigen recognition and is located at the N-terminus of the receptor. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409580  Cd Length: 114  Bit Score: 53.33  E-value: 4.77e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  24 HQPPSASsfLGTSIRLTCALSSNhNIGIYSIYWYQQRPGHPPTFLLRffshSDKLQGPKIPPRFSGSKDTARNLGYLSIS 103
Cdd:cd20988    5 HQTVTVS--VGKPVTLKCSMKGE-AISNYYINWYRKTQGNTMTFIYR----EGGIYGPGFKDNFRGDIDSSNNLAVLKIL 77

                         90
                 ....*....|...
gi 157819461 104 DLQPEDEAVYYCA 116
Cdd:cd20988   78 EASERDEGSYYCA 90
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 34-117 2.38e-06

Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an extracellular Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin. This group also contains the Ig domain of sodium channel subunit beta-2 (SCN2B), and of epithelial V-like antigen 1 (EVA). EVA, also known as myelin protein zero-like 2, is an adhesion molecule, which may play a role in structural organization of the thymus and early lymphocyte development. SCN2B subunits play a role in determining sodium channel density and function in neurons,and in control of electrical excitability in the brain.


Pssm-ID: 409380  Cd Length: 117  Bit Score: 43.57  E-value: 2.38e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  34 GTSIRLTCALSSNHNIG-IYSIYW-YQQRPGHPPTFLlrFFSHSDKLQGPKIPP---RFSGSKDTARNLGYLSISDLQPE 108
Cdd:cd05715   14 GSDVRLTCTFTSCYTVGdAFSVTWtYQPEGGNTTESM--FHYSKGKPYILKVGRfkdRVSWAGNPSKKDASIVISNLQFS 91


                 ....*....
gi 157819461 109 DEAVYYCAV 117
Cdd:cd05715   92 DNGTYTCDV 100
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 23-116 1.23e-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: 41.67  E-value: 1.23e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  23 LHQPPSaSSFLGT--SIRLTC-ALSSNHNIGIYsiyWYQQRPGHPPTFLLRFFSHSDKLQGPKI-----PPRFSGSKDTA 94
Cdd:cd07700    1 LLQTPG-SLLVQTnqTVKMSCeAKTSPKNTRIY---WLRQRQAPSKDSHFEFLASWDPSKGIVYgegvdQEKLIILSDSD 76

                         90       100
                 ....*....|....*....|..
gi 157819461  95 RNLGYLSISDLQPEDEAVYYCA 116
Cdd:cd07700   77 SSRYILSLMSVKPEDSGTYFCM 98
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 33-117 2.19e-05

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


Pssm-ID: 409385  Cd Length: 110  Bit Score: 40.93  E-value: 2.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  33 LGTSIRLTCALSsnhNIGIYSIYWYQQRPGHP--PTFLLrFFSHSdklQGPKIPP-----RFSGSKDTarNLGYLSISDL 105
Cdd:cd05720   12 LGQKVELVCEVL---NSVPQGCSWLFQPRGSApqPTFLL-YLSSS---NKTKWAEgldskRFSGSRSG--SSYVLTLKDF 82

                         90
                 ....*....|..
gi 157819461 106 QPEDEAVYYCAV 117
Cdd:cd05720   83 RKEDEGYYFCSV 94
IgV_1_PVR_like cd05718
First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 ...
 26-115 1.00e-03

First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 and necl-5), and similar domains; The members here are composed of the first immunoglobulin (Ig) domain of poliovirus receptor (PVR, also known as CD155 and nectin-like protein 5 (necl-5)). Poliovirus (PV) binds to its cellular receptor (PVR/CD155) to initiate infection. CD155 is a membrane-anchored, single-span glycoprotein; its extracellular region has three Ig-like domains. There are four different isotypes of CD155 (referred to as alpha, beta, gamma, and delta), that result from alternate splicing of the CD155 mRNA, and have identical extracellular domains. CD155-beta and CD155-gamma are secreted; CD155-alpha and CD155-delta are membrane-bound and function as PV receptors. The virus recognition site is contained in the amino-terminal domain, D1. Having the virus attachment site on the receptor distal from the plasma membrane may be important for successful initiation of infection of cells by the virus. CD155 binds in the poliovirus "canyon" with a footprint similar to that of the intercellular adhesion molecule-1 receptor on human rhinoviruses. This group also includes the first Ig-like domain of nectin-1 (also known as poliovirus receptor related protein(PVRL)1; CD111), nectin-3 (also known as PVRL 3), nectin-4 (also known as PVRL4; LNIR receptor)and DNAX accessory molecule 1 (DNAM-1; CD226).


Pssm-ID: 409383  Cd Length: 113  Bit Score: 36.27  E-value: 1.00e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  26 PPSASSFLGTSIRLTCALSSNHNIGIYSIYWyqQRPGHPPTFLLRFFSHSdklQGPKIP----PRFSG-SKDTARNLGYL 100
Cdd:cd05718    6 PTEVTGFLGGSVTLPCSLTSPGTTKITQVTW--MKIGAGSSQNVAVFHPQ---YGPSVPnpyaERVEFlAARLGLRNATL 80

                         90
                 ....*....|....*
gi 157819461 101 SISDLQPEDEAVYYC 115
Cdd:cd05718   81 RIRNLRVEDEGNYIC 95
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 21-115 2.13e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 34.85  E-value: 2.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461   21 PVLHQPPSASS-FLGTSIRLTCALSSNHNigiYSIYWYqqrpghpptfllrffshsdkLQGPKIPPRFSGSKDTARNLGY 99
Cdd:pfam13927   2 PVITVSPSSVTvREGETVTLTCEATGSPP---PTITWY--------------------KNGEPISSGSTRSRSLSGSNST 58

                          90
                  ....*....|....*.
gi 157819461  100 LSISDLQPEDEAVYYC 115
Cdd:pfam13927  59 LTISNVTRSDAGTYTC 74
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 34-116 6.05e-03

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: 34.46  E-value: 6.05e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  34 GTSIRLTCAlSSNHNIGIYSIYWYQQRPGHPPTFLLRFFSHSDKLQGPKIpprfSGSKDTARNLGYLSISDLQPEDEAVY 113
Cdd:cd16095   15 GKTLSLKCQ-TSGFQFNTSQLSWYLWVPGHAPLWLTSLDHISTKVSEDRI----TSSREDTNSQIFLQIKGLGLRDSGQY 89


                 ...
gi 157819461 114 YCA 116
Cdd:cd16095   90 HCA 92
IgV_EVA1 cd05880
Immunoglobulin (Ig)-like domain of epithelial V-like antigen (EVA) 1; The members here are ...
 34-117 6.91e-03

Immunoglobulin (Ig)-like domain of epithelial V-like antigen (EVA) 1; The members here are composed of the immunoglobulin (Ig) domain of epithelial V-like antigen 1 (EVA 1). EVA is also known as myelin protein zero-like 2. EVA is an adhesion molecule and may play a role in the structural organization of the thymus and early lymphocyte development.


Pssm-ID: 409464  Cd Length: 116  Bit Score: 34.03  E-value: 6.91e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  34 GTSIRLTCALSSNHNIG-IYSIYW-YQQRPGHPPTFLlrFFSHSDKLQGP--KIPPRFSGSKDTARNLGYLSISDLQPED 109
Cdd:cd05880   14 GTDVRLKCTFSSSAPIGdTLVITWnFRPLDGGREESV--FYYHKRPYPPPdgRFKGRVVWDGNIMRRDASILIWQLQPTD 91


                 ....*...
gi 157819461 110 EAVYYCAV 117
Cdd:cd05880   92 NGTYTCQV 99
IgV_CD33 cd05712
Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic ...
 26-114 8.09e-03

Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic acid-binding Ig-like lectins); The members here are composed of the immunoglobulin (Ig) domain at the N-terminus of Cluster of Differentiation (CD) 33 and related Siglecs (sialic acid-binding Ig-like lectins). Siglec refers to a structurally related protein family that specifically recognizes sialic acid in oligosaccharide chains of glycoproteins and glycolipids. Siglecs are type I transmembrane proteins, organized as an extracellular module composed of Ig-like domains, an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains, followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG, the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11.


Pssm-ID: 409377  Cd Length: 119  Bit Score: 33.90  E-value: 8.09e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157819461  26 PPSASSFLGTSIRLTCALS----SNHNIGIYSiYWYQQRPGhPPTFLLRFFSHSDKLQGPKIPPRFSGSKDTARNLGYLS 101
Cdd:cd05712    6 PKSVTVQEGLCVLIPCSFSypadYWVSNPVHG-YWYRGGPY-PKYRPPVATNNRTREVHESTQGRFRLLGDPGKKNCSLS 83

                         90
                 ....*....|...
gi 157819461 102 ISDLQPEDEAVYY 114
Cdd:cd05712   84 ISDARPEDSGKYF 96
 
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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