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Conserved domains on  [gi|728994|sp|P40259|]
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RecName: Full=B-cell antigen receptor complex-associated protein beta chain; AltName: Full=B-cell-specific glycoprotein B29; AltName: Full=Ig-beta; AltName: Full=Immunoglobulin-associated B29 protein; AltName: CD_antigen=CD79b; Flags: Precursor

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IgV_CD79b_beta cd16096
Immunoglobulin variable domain (IgV) Cluster of Differentiation (CD) 79B; The members here are ...
 46-142 1.66e-62

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: 190.16  E-value: 1.66e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    46 IWQSPRFIARKRGFTVKMHCYMNSaSGNVSWLWKQeMDENPQQLKLEKGRMEESQNESLATLTIQGIRFEDNGIYFCQQK 125
Cdd:cd16096   1 IWQHPRFAAKKRSSMVKFHCYTNY-SGVMTWFRKK-GNQRPQELFPEDGRISQTQNGSVYTLTIQNIQYEDNGIYFCQQK 78

                        90
                ....*....|....*...
gi 728994   126 CNNTS-EVYQGCGTELRV 142
Cdd:cd16096  79 CNSTEpDVTDGCGTELLV 96
ITAM super family cl02452
Immunoreceptor tyrosine-based activation motif; Motif that may be dually phosphorylated on ...
 193-212 4.00e-03

Immunoreceptor tyrosine-based activation motif; Motif that may be dually phosphorylated on tyrosine that links antigen receptors to downstream signalling machinery.


The actual alignment was detected with superfamily member smart00077:

Pssm-ID: 128390  Cd Length: 21  Bit Score: 33.90  E-value: 4.00e-03
                           10        20
                   ....*....|....*....|
gi 728994      193 DHTYEGLDIDQTATYEDIVT 212
Cdd:smart00077   1 DQLYQPLNKRQRDTYSDLNT 20
 
Name Accession Description Interval E-value
IgV_CD79b_beta cd16096
Immunoglobulin variable domain (IgV) Cluster of Differentiation (CD) 79B; The members here are ...
 46-142 1.66e-62

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: 190.16  E-value: 1.66e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    46 IWQSPRFIARKRGFTVKMHCYMNSaSGNVSWLWKQeMDENPQQLKLEKGRMEESQNESLATLTIQGIRFEDNGIYFCQQK 125
Cdd:cd16096   1 IWQHPRFAAKKRSSMVKFHCYTNY-SGVMTWFRKK-GNQRPQELFPEDGRISQTQNGSVYTLTIQNIQYEDNGIYFCQQK 78

                        90
                ....*....|....*...
gi 728994   126 CNNTS-EVYQGCGTELRV 142
Cdd:cd16096  79 CNSTEpDVTDGCGTELLV 96
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 50-142 9.80e-12

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: 59.06  E-value: 9.80e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994       50 PRFIARKRGFTVKMHCymnSASGN----VSWLWkqemdeNPQQLKLEKGRMEESQNESLATLTIQGIRFEDNGIYFCQQK 125
Cdd:smart00410   1 PPSVTVKEGESVTLSC---EASGSpppeVTWYK------QGGKLLAESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAAT 71

                           90
                   ....*....|....*..
gi 728994      126 cnNTSEVYQGcGTELRV 142
Cdd:smart00410  72 --NSSGSASS-GTTLTV 85
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 48-142 4.93e-10

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 55.16  E-value: 4.93e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994      48 QSPRFIARKRGFTVKMHC----YMNSASGNVSWLwKQEMDENPQQL----------KLEKGRME--ESQNESLATLTIQG 111
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCtyssSMSEASTSVYWY-RQPPGKGPTFLiayysngseeGVKKGRFSgrGDPSNGDGSLTIQN 79

                          90       100       110
                  ....*....|....*....|....*....|.
gi 728994     112 IRFEDNGIYFCQqkCNNTSEVYQGCGTELRV 142
Cdd:pfam07686  80 LTLSDSGTYTCA--VIPSGEGVFGKGTRLTV 108
ITAM smart00077
Immunoreceptor tyrosine-based activation motif; Motif that may be dually phosphorylated on ...
 193-212 4.00e-03

Immunoreceptor tyrosine-based activation motif; Motif that may be dually phosphorylated on tyrosine that links antigen receptors to downstream signalling machinery.


Pssm-ID: 128390  Cd Length: 21  Bit Score: 33.90  E-value: 4.00e-03
                           10        20
                   ....*....|....*....|
gi 728994      193 DHTYEGLDIDQTATYEDIVT 212
Cdd:smart00077   1 DQLYQPLNKRQRDTYSDLNT 20
 
Name Accession Description Interval E-value
IgV_CD79b_beta cd16096
Immunoglobulin variable domain (IgV) Cluster of Differentiation (CD) 79B; The members here are ...
 46-142 1.66e-62

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: 190.16  E-value: 1.66e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    46 IWQSPRFIARKRGFTVKMHCYMNSaSGNVSWLWKQeMDENPQQLKLEKGRMEESQNESLATLTIQGIRFEDNGIYFCQQK 125
Cdd:cd16096   1 IWQHPRFAAKKRSSMVKFHCYTNY-SGVMTWFRKK-GNQRPQELFPEDGRISQTQNGSVYTLTIQNIQYEDNGIYFCQQK 78

                        90
                ....*....|....*...
gi 728994   126 CNNTS-EVYQGCGTELRV 142
Cdd:cd16096  79 CNSTEpDVTDGCGTELLV 96
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 46-142 1.10e-18

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: 78.14  E-value: 1.10e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    46 IWQSPRFIARKRGFTVKMHCYMNSA--SGNVSWLwKQEMDENPQQL-----------KLEKGRMEESQN-ESLATLTIQG 111
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEVSSSfsSTYIYWY-RQKPGQGPEFLiylssskgktkGGVPGRFSGSRDgTSSFSLTISN 79

                        90       100       110
                ....*....|....*....|....*....|..
gi 728994   112 IRFEDNGIYFCQQKCN-NTSEVYQGCGTELRV 142
Cdd:cd00099  80 LQPEDSGTYYCAVSESgGTDKLTFGSGTRLTV 111
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 50-142 9.80e-12

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: 59.06  E-value: 9.80e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994       50 PRFIARKRGFTVKMHCymnSASGN----VSWLWkqemdeNPQQLKLEKGRMEESQNESLATLTIQGIRFEDNGIYFCQQK 125
Cdd:smart00410   1 PPSVTVKEGESVTLSC---EASGSpppeVTWYK------QGGKLLAESGRFSVSRSGSTSTLTISNVTPEDSGTYTCAAT 71

                           90
                   ....*....|....*..
gi 728994      126 cnNTSEVYQGcGTELRV 142
Cdd:smart00410  72 --NSSGSASS-GTTLTV 85
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 48-142 4.93e-10

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 55.16  E-value: 4.93e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994      48 QSPRFIARKRGFTVKMHC----YMNSASGNVSWLwKQEMDENPQQL----------KLEKGRME--ESQNESLATLTIQG 111
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCtyssSMSEASTSVYWY-RQPPGKGPTFLiayysngseeGVKKGRFSgrGDPSNGDGSLTIQN 79

                          90       100       110
                  ....*....|....*....|....*....|.
gi 728994     112 IRFEDNGIYFCQqkCNNTSEVYQGCGTELRV 142
Cdd:pfam07686  80 LTLSDSGTYTCA--VIPSGEGVFGKGTRLTV 108
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 48-142 3.97e-08

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: 49.97  E-value: 3.97e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    48 QSPRFIARKRGFTVKMHCYMNSASGNVSWlWKQEMDENPQ-------QLKLEKGRMEESQ------NESLATLTIQGIRF 114
Cdd:cd05899   3 QSPRYLIKRRGQSVTLRCSQKSGHDNMYW-YRQDPGKGLQllfysygGGLNEEGDLPGDRfsasrpSLTRSSLTIKSAEP 81

                        90       100       110
                ....*....|....*....|....*....|..
gi 728994   115 EDNGIYFC----QQkcnNTSEVYQGCGTELRV 142
Cdd:cd05899  82 EDSAVYLCasslGG---GADEAYFGPGTRLTV 110
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 48-142 2.99e-05

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: 41.99  E-value: 2.99e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    48 QSPRFIARKRGFTVKMHCY--MNSASGNVSWlWKQEMDENPQQL-----KLEKG---RMEESQNESLATLTIQGIRFEDN 117
Cdd:cd04980   5 QSPASLSVSPGERVTISCKasQSISSNYLAW-YQQKPGQAPKLLiyyasTLHSGvpsRFSGSGSGTDFTLTISSVEPEDA 83

                        90       100
                ....*....|....*....|....*
gi 728994   118 GIYFCQQkcNNTSEVYQGCGTELRV 142
Cdd:cd04980  84 AVYYCQQ--GYTFPYTFGGGTKLEI 106
IgI_2_Follistatin_like cd05736
Second immunoglobulin (Ig)-like domain of a Follistatin-related protein 5, and similar domains; ...
 50-125 1.31e-04

Second immunoglobulin (Ig)-like domain of a Follistatin-related protein 5, and similar domains; member of the I-set of Ig superfamily (IgSF) domains; The members here are composed of the second immunoglobulin (Ig)-like domain found in human Follistatin-related protein 5 (FSTL5) and a follistatin-like molecule encoded by the CNS-related Mahya gene. Mahya genes have been retained in certain Bilaterian branches during evolution. They are conserved in Hymenoptera and Deuterostomes, but are absent from other metazoan species such as fruit fly and nematode. Mahya proteins are secretory, with a follistatin-like domain (Kazal-type serine/threonine protease inhibitor domain and EF-hand calcium-binding domain), two Ig-like domains, and a novel C-terminal domain. Mahya may be involved in learning and memory and in processing of sensory information in Hymenoptera and vertebrates. Follistatin is a secreted, multidomain protein that binds activins with high affinity and antagonizes their signaling.


Pssm-ID: 409399 [Multi-domain]  Cd Length: 93  Bit Score: 39.94  E-value: 1.31e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    50 PRFIARKRGFTVKMHCYmnsASG----NVSWLwKQEMDENPQQLKlekgRMEESQNESlaTLTIQGIRFEDNGIYFCQQK 125
Cdd:cd05736   7 PEFQAKEPGVEASLRCH---AEGiplpRVQWL-KNGMDINPKLSK----QLTLIANGS--ELHISNVRYEDTGAYTCIAK 76
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 48-142 2.25e-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: 39.74  E-value: 2.25e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    48 QSPRFIARKRGFTVKMHCYMNSASGN--VSWL-WKQEMD----------ENP-------QQLKLEKGRMEESQNESLATL 107
Cdd:cd07700   3 QTPGSLLVQTNQTVKMSCEAKTSPKNtrIYWLrQRQAPSkdshfeflasWDPskgivygEGVDQEKLIILSDSDSSRYIL 82

                        90       100       110
                ....*....|....*....|....*....|....*
gi 728994   108 TIQGIRFEDNGIYFCQQKcnNTSEVYQGCGTELRV 142
Cdd:cd07700  83 SLMSVKPEDSGTYFCMTV--GSPELIFGTGTKLSV 115
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 58-142 6.00e-04

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: 38.21  E-value: 6.00e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    58 GFTVKMHCYMNSASGN---VSWlWKQEMDENPQQL-KLEKG-------RMEESQNESLATLTIQGIRFEDNGIYFCQqkC 126
Cdd:cd04984  13 GETVTITCTGSSGNISgnyVNW-YQQKPGSAPRYLiYEDKHrpsgipdRFSGSKSGNTASLTISGAQTEDEADYYCQ--V 89

                        90
                ....*....|....*.
gi 728994   127 NNTSEVYQGCGTELRV 142
Cdd:cd04984  90 WDSNSYVFGGGTKLTV 105
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 61-123 6.57e-04

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.


Pssm-ID: 409353 [Multi-domain]  Cd Length: 70  Bit Score: 37.31  E-value: 6.57e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 728994    61 VKMHCymnSASGN----VSWLWkqemdeNPQQLKLEKGRMEESQNESlATLTIQGIRFEDNGIYFCQ 123
Cdd:cd00096   1 VTLTC---SASGNppptITWYK------NGKPLPPSSRDSRRSELGN-GTLTISNVTLEDSGTYTCV 57
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 45-123 1.26e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 36.77  E-value: 1.26e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994      45 RIWQSPRFIARKRGFTVKMHCymnSASGN----VSWLWKQEMDENPQQLKlekgrmeESQNESLATLTIQGIRFEDNGIY 120
Cdd:pfam13927   3 VITVSPSSVTVREGETVTLTC---EATGSppptITWYKNGEPISSGSTRS-------RSLSGSNSTLTISNVTRSDAGTY 72


                  ...
gi 728994     121 FCQ 123
Cdd:pfam13927  73 TCV 75
I-set pfam07679
Immunoglobulin I-set domain;
48-123 1.32e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 36.85  E-value: 1.32e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994      48 QSPRFIARKRGFTVKMHCymnSASGN----VSWLwKQEmdenpQQLKlEKGRMEESQNESLATLTIQGIRFEDNGIYFCQ 123
Cdd:pfam07679   5 QKPKDVEVQEGESARFTC---TVTGTpdpeVSWF-KDG-----QPLR-SSDRFKVTYEGGTYTLTISNVQPDDSGKYTCV 74
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 51-122 2.00e-03

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: 36.69  E-value: 2.00e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    51 RFIARKR----GFTVKMHC-YMNSASGNVSWLwKQEMDENPQQL---------------KLEKGRMEESQNESLATLTIQ 110
Cdd:cd05720   2 RMSPRKRdaqlGQKVELVCeVLNSVPQGCSWL-FQPRGSAPQPTfllylsssnktkwaeGLDSKRFSGSRSGSSYVLTLK 80

                        90
                ....*....|..
gi 728994   111 GIRFEDNGIYFC 122
Cdd:cd05720  81 DFRKEDEGYYFC 92
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 48-122 2.03e-03

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: 36.96  E-value: 2.03e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    48 QSPRFIARKRGFTVKMHCYMNSASGN---VSWlWKQEMDENPQQL-------------KLEKGRMEESQ--NESLATLTI 109
Cdd:cd04982   3 QPQLSITREESKSVTISCKVSGIDFSttyIHW-YRQKPGQALERLlyvsstsavrkdsGKTKNKFEARKdvGKSTSTLTI 81

                        90
                ....*....|...
gi 728994   110 QGIRFEDNGIYFC 122
Cdd:cd04982  82 TNLEKEDSATYYC 94
ITAM smart00077
Immunoreceptor tyrosine-based activation motif; Motif that may be dually phosphorylated on ...
 193-212 4.00e-03

Immunoreceptor tyrosine-based activation motif; Motif that may be dually phosphorylated on tyrosine that links antigen receptors to downstream signalling machinery.


Pssm-ID: 128390  Cd Length: 21  Bit Score: 33.90  E-value: 4.00e-03
                           10        20
                   ....*....|....*....|
gi 728994      193 DHTYEGLDIDQTATYEDIVT 212
Cdd:smart00077   1 DQLYQPLNKRQRDTYSDLNT 20
IGv smart00406
Immunoglobulin V-Type;
60-124 4.17e-03

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 35.05  E-value: 4.17e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994       60 TVKMHC-YMNSASGNVSWLWKQE--------------MDENPQQLKLeKGR--MEESQNESLATLTIQGIRFEDNGIYFC 122
Cdd:smart00406   1 SVTLSCkFSGSTFSSYYVSWVRQppgkglewlgyigsNGSSYYQESY-KGRftISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   ..
gi 728994      123 QQ 124
Cdd:smart00406  80 AV 81
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 48-122 5.50e-03

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: 35.32  E-value: 5.50e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 728994    48 QSPRFIARKRGFTVKMHC-YMNSASGNVSWlWKQEMDENPQQL--------KLEKGRMEESQNES--LATLTIQGIRFED 116
Cdd:cd04983   3 QSPQSLSVQEGENVTLNCnYSTSTFYYLFW-YRQYPGQGPQFLiyissdsgNKKKGRFSATLDKSrkSSSLHISAAQLSD 81


                ....*.
gi 728994   117 NGIYFC 122
Cdd:cd04983  82 SAVYFC 87
 
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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