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Conserved domains on  [gi|5921623|gb|AAD56271|]
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myosin-reactive immunoglobulin light chain variable region, 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 ...
 2-106 1.71e-60

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: 180.28  E-value: 1.71e-60
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    2 IVMTQSPSLLSASTGDRVTISCRMSQGISS-YLAWYQQKPGKAPELLIYAASTLQSGVPSRFSGSGSGTDFTLTISCLQS 80
Cdd:cd04980   1 IVMTQSPASLSVSPGERVTISCKASQSISSnYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFSGSGSGTDFTLTISSVEP 80

                        90       100
                ....*....|....*....|....*.
gi 5921623   81 EDFATYYCQQYYSFPPTFGQGTKVEI 106
Cdd:cd04980  81 EDAAVYYCQQGYTFPYTFGGGTKLEI 106
 
Name Accession Description Interval E-value
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 2-106 1.71e-60

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: 180.28  E-value: 1.71e-60
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    2 IVMTQSPSLLSASTGDRVTISCRMSQGISS-YLAWYQQKPGKAPELLIYAASTLQSGVPSRFSGSGSGTDFTLTISCLQS 80
Cdd:cd04980   1 IVMTQSPASLSVSPGERVTISCKASQSISSnYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFSGSGSGTDFTLTISSVEP 80

                        90       100
                ....*....|....*....|....*.
gi 5921623   81 EDFATYYCQQYYSFPPTFGQGTKVEI 106
Cdd:cd04980  81 EDAAVYYCQQGYTFPYTFGGGTKLEI 106
IGv smart00406
Immunoglobulin V-Type;
19-90 3.75e-18

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 72.41  E-value: 3.75e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623      19 VTISCRMSQG--ISSYLAWYQQKPGKAPELLIY----AASTLQSGVPSRFSGSG--SGTDFTLTISCLQSEDFATYYCQQ 90
Cdd:smart00406   2 VTLSCKFSGStfSSYYVSWVRQPPGKGLEWLGYigsnGSSYYQESYKGRFTISKdtSKNDVSLTISNLRVEDTGTYYCAV 81
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 6-106 4.11e-16

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: 67.87  E-value: 4.11e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623      6 QSPSLLSASTGDRVTISCRMS---QGISSYLAWYQQKPGKAPELLIYAASTLQ--SGVPSRFSGSG--SGTDFTLTISCL 78
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSssmSEASTSVYWYRQPPGKGPTFLIAYYSNGSeeGVKKGRFSGRGdpSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*...
gi 5921623     79 QSEDFATYYCQQYYSFPPTFGQGTKVEI 106
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
 
Name Accession Description Interval E-value
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 2-106 1.71e-60

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: 180.28  E-value: 1.71e-60
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    2 IVMTQSPSLLSASTGDRVTISCRMSQGISS-YLAWYQQKPGKAPELLIYAASTLQSGVPSRFSGSGSGTDFTLTISCLQS 80
Cdd:cd04980   1 IVMTQSPASLSVSPGERVTISCKASQSISSnYLAWYQQKPGQAPKLLIYYASTLHSGVPSRFSGSGSGTDFTLTISSVEP 80

                        90       100
                ....*....|....*....|....*.
gi 5921623   81 EDFATYYCQQYYSFPPTFGQGTKVEI 106
Cdd:cd04980  81 EDAAVYYCQQGYTFPYTFGGGTKLEI 106
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 3-104 2.34e-35

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: 116.79  E-value: 2.34e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    3 VMTQSPSLlSASTGDRVTISCRMSQGISS--YLAWYQQKPGKAPELLIYAASTLQSGVPSRFSGSGSGTDFTLTISCLQS 80
Cdd:cd04984   1 VLTQPSSL-SVSPGETVTITCTGSSGNISgnYVNWYQQKPGSAPRYLIYEDKHRPSGIPDRFSGSKSGNTASLTISGAQT 79

                        90       100
                ....*....|....*....|....
gi 5921623   81 EDFATYYCQQYYSFPPTFGQGTKV 104
Cdd:cd04984  80 EDEADYYCQVWDSNSYVFGGGTKL 103
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 4-106 3.04e-32

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: 108.96  E-value: 3.04e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    4 MTQSPSLLSASTGDRVTISCRMSQGISS-YLAWYQQKPGKAPELLIYAASTLQS---GVPSRFSGSGSG-TDFTLTISCL 78
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEVSSSFSStYIYWYRQKPGQGPEFLIYLSSSKGKtkgGVPGRFSGSRDGtSSFSLTISNL 80

                        90       100       110
                ....*....|....*....|....*....|.
gi 5921623   79 QSEDFATYYCQQYYS---FPPTFGQGTKVEI 106
Cdd:cd00099  81 QPEDSGTYYCAVSESggtDKLTFGSGTRLTV 111
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 5-107 3.33e-21

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: 80.78  E-value: 3.33e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    5 TQSPSLLSASTGDRVTISCRMSQGISSYLAWYQQKPGKAPELLIYAASTLQSGVPSRFSGS--GSGTDFTLTISCLQSED 82
Cdd:cd04983   2 TQSPQSLSVQEGENVTLNCNYSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKKGRFSATldKSRKSSSLHISAAQLSD 81

                        90       100
                ....*....|....*....|....*...
gi 5921623   83 FATYYC---QQYYSFPPTFGQGTKVEIK 107
Cdd:cd04983  82 SAVYFCalsESGGTGKLTFGKGTRLTVE 109
IGv smart00406
Immunoglobulin V-Type;
19-90 3.75e-18

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 72.41  E-value: 3.75e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623      19 VTISCRMSQG--ISSYLAWYQQKPGKAPELLIY----AASTLQSGVPSRFSGSG--SGTDFTLTISCLQSEDFATYYCQQ 90
Cdd:smart00406   2 VTLSCKFSGStfSSYYVSWVRQPPGKGLEWLGYigsnGSSYYQESYKGRFTISKdtSKNDVSLTISNLRVEDTGTYYCAV 81
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 5-103 9.88e-17

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: 69.23  E-value: 9.88e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    5 TQSPSLLSASTGDRVTISCRMSQGiSSYLAWYQQKPGKAPELLIYAAS---TLQSGVP-SRFSGSG-SGTDFTLTISCLQ 79
Cdd:cd05899   2 TQSPRYLIKRRGQSVTLRCSQKSG-HDNMYWYRQDPGKGLQLLFYSYGgglNEEGDLPgDRFSASRpSLTRSSLTIKSAE 80

                        90       100
                ....*....|....*....|....*..
gi 5921623   80 SEDFATYYC---QQYYSFPPTFGQGTK 103
Cdd:cd05899  81 PEDSAVYLCassLGGGADEAYFGPGTR 107
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 6-106 4.11e-16

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: 67.87  E-value: 4.11e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623      6 QSPSLLSASTGDRVTISCRMS---QGISSYLAWYQQKPGKAPELLIYAASTLQ--SGVPSRFSGSG--SGTDFTLTISCL 78
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSssmSEASTSVYWYRQPPGKGPTFLIAYYSNGSeeGVKKGRFSGRGdpSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*...
gi 5921623     79 QSEDFATYYCQQYYSFPPTFGQGTKVEI 106
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 8-106 2.48e-14

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: 62.52  E-value: 2.48e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623       8 PSLLSASTGDRVTISCRMSQGISSYLAWYQQKPgkapELLIYaastlqsgvPSRFSGSGSGTDFTLTISCLQSEDFATYY 87
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPPPEVTWYKQGG----KLLAE---------SGRFSVSRSGSTSTLTISNVTPEDSGTYT 67

                           90
                   ....*....|....*....
gi 5921623      88 CQQYYSFPPTFGqGTKVEI 106
Cdd:smart00410  68 CAATNSSGSASS-GTTLTV 85
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 5-106 1.04e-13

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: 61.77  E-value: 1.04e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    5 TQSPSLLSASTGDRVTISCRMSQGISSY-LAWYQQKPGKAPELLIYAASTLQSGVPSRFSGSGSGTD--FTLTISCLQSE 81
Cdd:cd07706   3 TQAQPDVSVQVGEEVTLNCRYETSWTNYyLFWYKQLPSGEMTFLIRQDSSEQNAKSGRYSVNFQKAQksISLTISALQLE 82

                        90       100
                ....*....|....*....|....*....
gi 5921623   82 DFATYYCqQYYSFPPT----FGQGTKVEI 106
Cdd:cd07706  83 DSAKYFC-ALSLPYDTdkliFGKGTRLTV 110
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 4-103 2.60e-13

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: 60.84  E-value: 2.60e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    4 MTQSPSLLSASTGDRVTISCRMSqGI---SSYLAWYQQKPGKAPELLIYAASTLQ----SGVPS-RFSGS--GSGTDFTL 73
Cdd:cd04982   1 LEQPQLSITREESKSVTISCKVS-GIdfsTTYIHWYRQKPGQALERLLYVSSTSAvrkdSGKTKnKFEARkdVGKSTSTL 79

                        90       100       110
                ....*....|....*....|....*....|....
gi 5921623   74 TISCLQSEDFATYYCQQYYSFPPT----FGQGTK 103
Cdd:cd04982  80 TITNLEKEDSATYYCAYWESGSGYyikvFGSGTK 113
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 7-88 1.24e-07

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: 45.94  E-value: 1.24e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    7 SPSLLSASTGDRVTISCRMSQGISSYLAWYQQKPGKA--PELLIYAASTLQSGVP-----SRFSGSGSGTDFTLTISCLQ 79
Cdd:cd05720   4 SPRKRDAQLGQKVELVCEVLNSVPQGCSWLFQPRGSApqPTFLLYLSSSNKTKWAegldsKRFSGSRSGSSYVLTLKDFR 83


                ....*....
gi 5921623   80 SEDFATYYC 88
Cdd:cd05720  84 KEDEGYYFC 92
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 16-104 4.26e-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: 44.61  E-value: 4.26e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623   16 GDRVTISCRMSQGI--SSYLAWYQQKPGKAPELL--IY---AASTLQSGVPSRFSGS--GSGTDFTLTISCLQSEDFATY 86
Cdd:cd04981  13 GQSLKLSCKASGFTftSYGMGWVRQAPGKGLEWIglIYpggGDTYYADSFKGRFTITrdTSKSTAYLQLNSLTSEDTAVY 92

                        90       100
                ....*....|....*....|...
gi 5921623   87 YCQQ-----YYSFPPTFGQGTKV 104
Cdd:cd04981  93 YCARglggyGYSYFDYWGQGTTV 115
IgV_CD79b_beta cd16096
Immunoglobulin variable domain (IgV) Cluster of Differentiation (CD) 79B; The members here are ...
 6-90 4.02e-06

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: 41.86  E-value: 4.02e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    6 QSPSLLSASTGDRVTISCRMSQgiSSYLAWYQQKPGKAPELLIyaastLQSGvpsRFSGSGSGTDFTLTISCLQSEDFAT 85
Cdd:cd16096   3 QHPRFAAKKRSSMVKFHCYTNY--SGVMTWFRKKGNQRPQELF-----PEDG---RISQTQNGSVYTLTIQNIQYEDNGI 72


                ....*
gi 5921623   86 YYCQQ 90
Cdd:cd16096  73 YFCQQ 77
IgV_PD1 cd16088
Immunoglobulin (Ig)-like domain of Programmed Cell Death 1 (PD1); The members here are ...
 5-97 2.63e-05

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: 39.80  E-value: 2.63e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    5 TQSPSLLSASTGDRVTISCRMSQGISSY-LAWYQQKPGKAPE-LLIYAASTLQSGVPSRFSGSG--SGTDFTLTISCLQS 80
Cdd:cd16088   3 TFSPALLVVTEGANATFTCSFSNTSESFvLNWYRLSPSNQTDkLAAFPEDRSQPGQDWRFRVTQlpNGRDFHMSVVRARR 82

                        90
                ....*....|....*..
gi 5921623   81 EDFATYYCQQYYSFPPT 97
Cdd:cd16088  83 NDSGTYLCGAISLAPKA 99
IgV_1_CD4 cd07690
First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of ...
 16-89 9.51e-05

First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of IgSF domains; The members here are composed of the first immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.


Pssm-ID: 409487  Cd Length: 97  Bit Score: 38.30  E-value: 9.51e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 5921623   16 GDRVTISCRMSQGISSYLAW---YQQKP-GKAPELLIYAASTLQSGVPSRFSGSGSGTdFTLTISCLQSEDFATYYCQ 89
Cdd:cd07690   9 GDTAELPCTASQKKSIQFHWknsNQIKIlGNQGSFLTKGPSKLNDRADSRRNLWDQGS-FPLIIKNLKIEDSDTYICE 85
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 6-88 2.18e-04

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: 37.38  E-value: 2.18e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    6 QSPSLLSASTGDRVTISCRMSQGISSYLAWYQQKPGKAPELLIyaaSTLQSGVPSRFSGSGSGTD--FTLTISCLQSEDF 83
Cdd:cd05716   2 VGPEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLV---SSEGVVPGGRISLTDDPDNgvFTVTLNQLRKEDA 78


                ....*
gi 5921623   84 ATYYC 88
Cdd:cd05716  79 GWYWC 83
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 12-107 4.21e-04

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: 36.77  E-value: 4.21e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623   12 SASTGDRVTISCRMSQGISS--YLAWYQQKPGKAPELLIYAASTLQSGVPSRFSGS--GSGTDFTLTISCLQSEDFATYY 87
Cdd:cd20988   9 TVSVGKPVTLKCSMKGEAISnyYINWYRKTQGNTMTFIYREGGIYGPGFKDNFRGDidSSNNLAVLKILEASERDEGSYY 88

                        90       100
                ....*....|....*....|....*..
gi 5921623   88 C-------QQYYSfPPTFGQGTKVEIK 107
Cdd:cd20988  89 CasdtpggGREYD-PLIFGKGTYLTVE 114
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 6-103 1.70e-03

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: 35.12  E-value: 1.70e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623    6 QSPSLLSASTGDRVTISCRM-SQGISSYLAWYQQKPGKAP----ELLIYAASTLQS----GVPSR---FSGSGSGTDFTL 73
Cdd:cd07700   3 QTPGSLLVQTNQTVKMSCEAkTSPKNTRIYWLRQRQAPSKdshfEFLASWDPSKGIvygeGVDQEkliILSDSDSSRYIL 82

                        90       100       110
                ....*....|....*....|....*....|
gi 5921623   74 TISCLQSEDFATYYCQQYYSFPPTFGQGTK 103
Cdd:cd07700  83 SLMSVKPEDSGTYFCMTVGSPELIFGTGTK 112
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 3-89 6.85e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 32.92  E-value: 6.85e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 5921623      3 VMTQSPSLLSASTGDRVTISCRMSQGISSYLAWYqqKPGKapelliyaasTLQSGVPSRFSGSGSGTdfTLTISCLQSED 82
Cdd:pfam13927   3 VITVSPSSVTVREGETVTLTCEATGSPPPTITWY--KNGE----------PISSGSTRSRSLSGSNS--TLTISNVTRSD 68


                  ....*..
gi 5921623     83 FATYYCQ 89
Cdd:pfam13927  69 AGTYTCV 75
 
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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