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Conserved domains on  [gi|37910|emb|CAA26733|]
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unnamed protein product, partial [Homo sapiens]

Protein Classification

immunoglobulin kappa light chain variable domain-containing protein( domain architecture ID 10141732)

immunoglobulin kappa light chain variable domain-containing protein similar to the kappa IV human light chain Len, a protein isolated from a multiple myeloma patient

CATH:  2.60.40.10
Gene Ontology:  GO:0019814|GO:0006955
PubMed:  9571064|23842991|3681981|7932691|10436082
SCOP:  3000071

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 22-132 1.34e-68

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: 201.85  E-value: 1.34e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     22 IVMTQSPDSLAVSLGERATINCKSSQSILYssdnkNYLAWYQQKPGQPPKLLIYWASTRESGVPDRFSGSGSGTDFTLTI 101
Cdd:cd04980   1 IVMTQSPASLSVSPGERVTISCKASQSISS-----NYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFSGSGSGTDFTLTI 75

                        90       100       110
                ....*....|....*....|....*....|.
gi 37910    102 SSLQAEDVAVYYCQQYYNLPWTFGQGTKVEI 132
Cdd:cd04980  76 SSVEPEDAAVYYCQQGYTFPYTFGGGTKLEI 106
 
Name Accession Description Interval E-value
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 22-132 1.34e-68

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: 201.85  E-value: 1.34e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     22 IVMTQSPDSLAVSLGERATINCKSSQSILYssdnkNYLAWYQQKPGQPPKLLIYWASTRESGVPDRFSGSGSGTDFTLTI 101
Cdd:cd04980   1 IVMTQSPASLSVSPGERVTISCKASQSISS-----NYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFSGSGSGTDFTLTI 75

                        90       100       110
                ....*....|....*....|....*....|.
gi 37910    102 SSLQAEDVAVYYCQQYYNLPWTFGQGTKVEI 132
Cdd:cd04980  76 SSVEPEDAAVYYCQQGYTFPYTFGGGTKLEI 106
IGv smart00406
Immunoglobulin V-Type;
39-116 4.51e-19

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 75.50  E-value: 4.51e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910        39 ATINCKSSQSilysSDNKNYLAWYQQKPGQPPKLLIYWASTR----ESGVPDRFSGSG--SGTDFTLTISSLQAEDVAVY 112
Cdd:smart00406   2 VTLSCKFSGS----TFSSYYVSWVRQPPGKGLEWLGYIGSNGssyyQESYKGRFTISKdtSKNDVSLTISNLRVEDTGTY 77


                   ....
gi 37910       113 YCQQ 116
Cdd:smart00406  78 YCAV 81
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 26-132 4.72e-19

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: 76.34  E-value: 4.72e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910       26 QSPDSLAVSLGERATINCKSSqsiLYSSDNKNYLAWYQQKPGQPPKLLI-YWASTRESGV-PDRFSGSG--SGTDFTLTI 101
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYS---SSMSEASTSVYWYRQPPGKGPTFLIaYYSNGSEEGVkKGRFSGRGdpSNGDGSLTI 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 37910      102 SSLQAEDVAVYYCQQYYNLPWTFGQGTKVEI 132
Cdd:pfam07686  78 QNLTLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
 
Name Accession Description Interval E-value
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 22-132 1.34e-68

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: 201.85  E-value: 1.34e-68
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     22 IVMTQSPDSLAVSLGERATINCKSSQSILYssdnkNYLAWYQQKPGQPPKLLIYWASTRESGVPDRFSGSGSGTDFTLTI 101
Cdd:cd04980   1 IVMTQSPASLSVSPGERVTISCKASQSISS-----NYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFSGSGSGTDFTLTI 75

                        90       100       110
                ....*....|....*....|....*....|.
gi 37910    102 SSLQAEDVAVYYCQQYYNLPWTFGQGTKVEI 132
Cdd:cd04980  76 SSVEPEDAAVYYCQQGYTFPYTFGGGTKLEI 106
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 23-130 1.62e-40

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: 130.66  E-value: 1.62e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     23 VMTQsPDSLAVSLGERATINCKSSQSilysSDNKNYLAWYQQKPGQPPKLLIYWASTRESGVPDRFSGSGSGTDFTLTIS 102
Cdd:cd04984   1 VLTQ-PSSLSVSPGETVTITCTGSSG----NISGNYVNWYQQKPGSAPRYLIYEDKHRPSGIPDRFSGSKSGNTASLTIS 75

                        90       100
                ....*....|....*....|....*...
gi 37910    103 SLQAEDVAVYYCQQYYNLPWTFGQGTKV 130
Cdd:cd04984  76 GAQTEDEADYYCQVWDSNSYVFGGGTKL 103
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 24-132 4.79e-36

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: 119.75  E-value: 4.79e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     24 MTQSPDSLAVSLGERATINCKSSqsilySSDNKNYLAWYQQKPGQPPKLLIYWASTRES---GVPDRFSGSGSG-TDFTL 99
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEVS-----SSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKtkgGVPGRFSGSRDGtSSFSL 75

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 37910    100 TISSLQAEDVAVYYCQQYYNL---PWTFGQGTKVEI 132
Cdd:cd00099  76 TISNLQPEDSGTYYCAVSESGgtdKLTFGSGTRLTV 111
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 25-133 1.78e-22

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: 85.01  E-value: 1.78e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     25 TQSPDSLAVSLGERATINCKssqsilYSSDNKNYLAWYQQKPGQPPKLLIYWASTRESGVPDRFSGS--GSGTDFTLTIS 102
Cdd:cd04983   2 TQSPQSLSVQEGENVTLNCN------YSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKKGRFSATldKSRKSSSLHIS 75

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 37910    103 SLQAEDVAVYYC-----QQYYNLpwTFGQGTKVEIK 133
Cdd:cd04983  76 AAQLSDSAVYFCalsesGGTGKL--TFGKGTRLTVE 109
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 25-129 1.19e-21

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: 83.10  E-value: 1.19e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     25 TQSPDSLAVSLGERATINCkssqsilYSSDNKNYLAWYQQKPGQPPKLLIYWAS---TRESGVP-DRFSGSG-SGTDFTL 99
Cdd:cd05899   2 TQSPRYLIKRRGQSVTLRC-------SQKSGHDNMYWYRQDPGKGLQLLFYSYGgglNEEGDLPgDRFSASRpSLTRSSL 74

                        90       100       110
                ....*....|....*....|....*....|....
gi 37910    100 TISSLQAEDVAVYYC----QQYYNlPWTFGQGTK 129
Cdd:cd05899  75 TIKSAEPEDSAVYLCasslGGGAD-EAYFGPGTR 107
IGv smart00406
Immunoglobulin V-Type;
39-116 4.51e-19

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 75.50  E-value: 4.51e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910        39 ATINCKSSQSilysSDNKNYLAWYQQKPGQPPKLLIYWASTR----ESGVPDRFSGSG--SGTDFTLTISSLQAEDVAVY 112
Cdd:smart00406   2 VTLSCKFSGS----TFSSYYVSWVRQPPGKGLEWLGYIGSNGssyyQESYKGRFTISKdtSKNDVSLTISNLRVEDTGTY 77


                   ....
gi 37910       113 YCQQ 116
Cdd:smart00406  78 YCAV 81
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 26-132 4.72e-19

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: 76.34  E-value: 4.72e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910       26 QSPDSLAVSLGERATINCKSSqsiLYSSDNKNYLAWYQQKPGQPPKLLI-YWASTRESGV-PDRFSGSG--SGTDFTLTI 101
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYS---SSMSEASTSVYWYRQPPGKGPTFLIaYYSNGSEEGVkKGRFSGRGdpSNGDGSLTI 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 37910      102 SSLQAEDVAVYYCQQYYNLPWTFGQGTKVEI 132
Cdd:pfam07686  78 QNLTLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 28-132 3.25e-15

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: 65.99  E-value: 3.25e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910        28 PDSLAVSLGERATINCKssqsilYSSDNKNYLAWYQQKPgqppKLLIYwastresgvPDRFSGSGSGTDFTLTISSLQAE 107
Cdd:smart00410   1 PPSVTVKEGESVTLSCE------ASGSPPPEVTWYKQGG----KLLAE---------SGRFSVSRSGSTSTLTISNVTPE 61

                           90       100
                   ....*....|....*....|....*
gi 37910       108 DVAVYYCQQYYNLPWTFGqGTKVEI 132
Cdd:smart00410  62 DSGTYTCAATNSSGSASS-GTTLTV 85
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 24-129 1.40e-14

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: 65.08  E-value: 1.40e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     24 MTQSPDSLAVSLGERATINCKssqsiLYSSDNKN-YLAWYQQKPGQPPKLLIYWAST----RESG-VPDRFSGS--GSGT 95
Cdd:cd04982   1 LEQPQLSITREESKSVTISCK-----VSGIDFSTtYIHWYRQKPGQALERLLYVSSTsavrKDSGkTKNKFEARkdVGKS 75

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 37910     96 DFTLTISSLQAEDVAVYYCQ--QYYNLPWT--FGQGTK 129
Cdd:cd04982  76 TSTLTITNLEKEDSATYYCAywESGSGYYIkvFGSGTK 113
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 25-132 1.01e-11

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: 57.53  E-value: 1.01e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     25 TQSPDSLAVSLGERATINCKSSqsilySSDNKNYLAWYQQKPGQPPKLLIYWASTRESGVPDRFSGSGSGTD--FTLTIS 102
Cdd:cd07706   3 TQAQPDVSVQVGEEVTLNCRYE-----TSWTNYYLFWYKQLPSGEMTFLIRQDSSEQNAKSGRYSVNFQKAQksISLTIS 77

                        90       100       110
                ....*....|....*....|....*....|...
gi 37910    103 SLQAEDVAVYYCQQYYNLP---WTFGQGTKVEI 132
Cdd:cd07706  78 ALQLEDSAKYFCALSLPYDtdkLIFGKGTRLTV 110
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 27-114 2.24e-06

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: 43.63  E-value: 2.24e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     27 SPDSLAVSLGERATINCKssqsILYSSDNKnyLAWYQQKPGQPPKL--LIYWASTRESGVPD-----RFSGSGSGTDFTL 99
Cdd:cd05720   4 SPRKRDAQLGQKVELVCE----VLNSVPQG--CSWLFQPRGSAPQPtfLLYLSSSNKTKWAEgldskRFSGSRSGSSYVL 77

                        90
                ....*....|....*
gi 37910    100 TISSLQAEDVAVYYC 114
Cdd:cd05720  78 TLKDFRKEDEGYYFC 92
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 33-130 1.41e-05

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: 41.53  E-value: 1.41e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     33 VSLGERATINCKSSQSILYSsdnkNYLAWYQQKPGQPPKLL-IYWASTRESGVPDRFSG-------SGSGTdFTLTISSL 104
Cdd:cd04981  10 VKPGQSLKLSCKASGFTFTS----YGMGWVRQAPGKGLEWIgLIYPGGGDTYYADSFKGrftitrdTSKST-AYLQLNSL 84

                        90       100       110
                ....*....|....*....|....*....|.
gi 37910    105 QAEDVAVYYC--QQYYNLPWTF---GQGTKV 130
Cdd:cd04981  85 TSEDTAVYYCarGLGGYGYSYFdywGQGTTV 115
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 35-133 2.80e-05

Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The members here are composed of the immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins. pIgR delivers dimeric IgA and pentameric IgM to mucosal secretions. Polymeric immunoglobulin (pIgs) are the first defense against pathogens and toxins. IgA and IgM can form polymers via an 18-residue extension at their C-termini referred to as the tailpiece. pIgR transports pIgs across mucosal epithelia into mucosal secretions. Human pIgR is a glycosylated type I transmembrane protein, comprised of a 620-residue extracellular region, a 23-residue transmembrane region, and a 103-residue cytoplasmic tail. The extracellular region contains five domains that share sequence similarity with Ig variable (v) regions. This group also contains the Ig-like extracellular domains of other receptors such as NK cell receptor Nkp44 and myeloid receptors, among others.


Pssm-ID: 409381  Cd Length: 100  Bit Score: 40.46  E-value: 2.80e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     35 LGERATINCkssqsiLYSSDNKNYLAWYQQKPGQPPKLLIywaSTRESGVPDRFSGSGSGTD--FTLTISSLQAEDVAVY 112
Cdd:cd05716  11 EGGSVTIQC------PYPPKYASSRKYWCKWGSEGCQTLV---SSEGVVPGGRISLTDDPDNgvFTVTLNQLRKEDAGWY 81

                        90       100
                ....*....|....*....|.
gi 37910    113 YCQQYynLPWTFGQGTKVEIK 133
Cdd:cd05716  82 WCGVG--DDGDRGLTVQVKLV 100
IgV_SIRP cd16097
Immunoglobulin (Ig)-like variable (V) domain of the Signal-Regulatory Protein (SIRP); The ...
 24-133 3.38e-05

Immunoglobulin (Ig)-like variable (V) domain of the Signal-Regulatory Protein (SIRP); The members here are composed of the immunoglobulin (Ig)-like domain of the Signal-Regulatory Protein (SIRP). The SIRPs belong to the "paired receptors" class of membrane proteins that comprise several genes coding for proteins with similar extracellular regions, but very different transmembrane/cytoplasmic regions with different (activating or inhibitory) signaling potentials. They are commonly on NK cells, but are also on many myeloid cells. Their extracellular region contains three immunoglobulin superfamily domains, a single V-set, and two C1-set IgSF domains. Their cytoplasmic tails that contain either ITIMs or transmembrane regions have positively charged residues that allow an association with adaptor proteins, such as DAP12/KARAP, containing ITAMs. There are 3 distinct SIRP members: alpha, beta, and gamma. SIRP alpha (also known as CD172a or SRC homology 2 domain-containing protein tyrosine phosphatase substrate 1/Shps-1) is a membrane receptor that interacts with a ligand CD47 expressed on many cells and gives an inhibitory signal through immunoreceptor tyrosine-based inhibition motifs in the cytoplasmic region that interact with phosphatases SHP-1 and SHP-2. SIRP beta has a short cytoplasmic region and associates with a transmembrane adapter protein DAP12 containing immunoreceptor tyrosine-based activation motifs to give an activating signal. SIRP gamma contains a very short cytoplasmic region lacking obvious signaling motifs, but also binds CD47 with much less affinity. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409516  Cd Length: 111  Bit Score: 40.23  E-value: 3.38e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     24 MTQSPDSLAVSLGERATINCKSSQSILYSSdnknyLAWYqqKPGQPPKLLIYwaSTRESGVPdRFSGSGSGT-----DFT 98
Cdd:cd16097   2 VIQPEKSVSVAAGESATLHCTVTSLIPVGP-----IQWF--RGAGPGRELIY--NQKEGHFP-RVTTVSDLTkrnnmDFS 71

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 37910     99 LTISSLQAEDVAVYYCQQY-----YNLPWTFGQGTKVEIK 133
Cdd:cd16097  72 IRISNITPADAGTYYCVKFrkgspDDVEFKSGAGTELSVR 111
IgV_CD79b_beta cd16096
Immunoglobulin variable domain (IgV) Cluster of Differentiation (CD) 79B; The members here are ...
 53-119 5.31e-05

Immunoglobulin variable domain (IgV) Cluster of Differentiation (CD) 79B; The members here are composed of the immunoglobulin variable domain (IgV) of the Cluster of Differentiation (CD) 79B (also known as CD79b molecule, immunoglobulin-associated beta (Ig-beta), and B29). The B lymphocyte antigen receptor is a multimeric complex that includes the antigen-specific component, surface immunoglobulin (Ig). Surface Ig non-covalently associates with two other proteins, Ig-alpha and Ig-beta, which are necessary for expression and function of the B-cell antigen receptor. This gene encodes the Ig-beta protein of the B-cell antigen component. Alternatively spliced transcript variants encoding different isoforms have been described. Members of the IgV family 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. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409515  Cd Length: 96  Bit Score: 39.55  E-value: 5.31e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 37910     53 SDNKNYLAWYQQKPGQPPKLLIywastRESGvpdRFSGSGSGTDFTLTISSLQAEDVAVYYCQQYYN 119
Cdd:cd16096  22 TNYSGVMTWFRKKGNQRPQELF-----PEDG---RISQTQNGSVYTLTIQNIQYEDNGIYFCQQKCN 80
IgV_PD1 cd16088
Immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1); The members here are ...
 25-121 2.52e-04

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


Pssm-ID: 409509  Cd Length: 112  Bit Score: 37.87  E-value: 2.52e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     25 TQSPDSLAVSLGERATINCKssqsilYSSDNKNY-LAWYQQKPG-QPPKLLIYWASTRESGVPDRFSGSG--SGTDFTLT 100
Cdd:cd16088   3 TFSPALLVVTEGANATFTCS------FSNTSESFvLNWYRLSPSnQTDKLAAFPEDRSQPGQDWRFRVTQlpNGRDFHMS 76

                        90       100
                ....*....|....*....|.
gi 37910    101 ISSLQAEDVAVYYCQQYYNLP 121
Cdd:cd16088  77 VVRARRNDSGTYLCGAISLAP 97
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 23-115 3.57e-04

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 36.77  E-value: 3.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910       23 VMTQSPDSLAVSLGERATINCKSSqsilysSDNKNYLAWYqqKPGQPpklliywasTRESGVPDRFSGSGSGTdftLTIS 102
Cdd:pfam13927   3 VITVSPSSVTVREGETVTLTCEAT------GSPPPTITWY--KNGEP---------ISSGSTRSRSLSGSNST---LTIS 62

                          90
                  ....*....|...
gi 37910      103 SLQAEDVAVYYCQ 115
Cdd:pfam13927  63 NVTRSDAGTYTCV 75
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 26-129 5.53e-04

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: 37.04  E-value: 5.53e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910     26 QSPDSLAVSLGERATINCKSSQSilySSDNKNYlaWYQQKPGQPP----KLLIYWASTR-----ESGVPDRFS--GSGSG 94
Cdd:cd07700   3 QTPGSLLVQTNQTVKMSCEAKTS---PKNTRIY--WLRQRQAPSKdshfEFLASWDPSKgivygEGVDQEKLIilSDSDS 77

                        90       100       110
                ....*....|....*....|....*....|....*
gi 37910     95 TDFTLTISSLQAEDVAVYYCQQYYNLPWTFGQGTK 129
Cdd:cd07700  78 SRYILSLMSVKPEDSGTYFCMTVGSPELIFGTGTK 112
I-set pfam07679
Immunoglobulin I-set domain;
23-115 1.77e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 35.31  E-value: 1.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 37910       23 VMTQSPDSLAVSLGERATINCKSS----QSIlyssdnknylAWYqqKPGQPpklliywasTRESgvpDRFSGSGSGTDFT 98
Cdd:pfam07679   2 KFTQKPKDVEVQEGESARFTCTVTgtpdPEV----------SWF--KDGQP---------LRSS---DRFKVTYEGGTYT 57

                          90
                  ....*....|....*..
gi 37910       99 LTISSLQAEDVAVYYCQ 115
Cdd:pfam07679  58 LTISNVQPDDSGKYTCV 74
 
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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