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Conserved domains on  [gi|31559837|ref|NP_848911|]
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triggering receptor expressed in myeloid cells 4 isoform a precursor [Mus musculus]

Protein Classification

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 26-105 1.73e-18

Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of this group are components of immunoglobulin, neuroglia, cell surface glycoproteins, including T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, including butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E, and D strands in one sheet and A', G, F, C, C' and C" in the other. The structures in C1-set are smaller than those in the V-set; they have one beta sheet that is formed by strands A, B, E, and D and the other by strands G, F, C, and C'. Moreover, a C1-set Ig domain contains a short C' strand (three residues) and lacks A' and C" strand. Unlike other Ig domain sets, C2-set structures do not have a D strand. Like the V-set Ig domains, members of the I-set have a discontinuous A strand, but lack a C" strand.


The actual alignment was detected with superfamily member cd05716:

Pssm-ID: 472250  Cd Length: 100  Bit Score: 77.44  E-value: 1.73e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  26 PELLRTQEGETVSVTCWYDSLYHSSEKIWCKQIDNLCYPFVSKSA--EKPRFLIQQSSRFNFFTVTMTKLKMSDSGIYHC 103
Cdd:cd05716   4 PEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLVSSEGvvPGGRISLTDDPDNGVFTVTLNQLRKEDAGWYWC 83


                ..
gi 31559837 104 GI 105
Cdd:cd05716  84 GV 85
 
Name Accession Description Interval E-value
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 26-105 1.73e-18

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: 77.44  E-value: 1.73e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  26 PELLRTQEGETVSVTCWYDSLYHSSEKIWCKQIDNLCYPFVSKSA--EKPRFLIQQSSRFNFFTVTMTKLKMSDSGIYHC 103
Cdd:cd05716   4 PEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLVSSEGvvPGGRISLTDDPDNGVFTVTLNQLRKEDAGWYWC 83


                ..
gi 31559837 104 GI 105
Cdd:cd05716  84 GV 85
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-119 1.67e-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: 72.49  E-value: 1.67e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837    24 QNPELLRTQEGETVSVTCWYDSLY--HSSEKIWCKQIDN-----LCYPFVSKS---AEKPRFLIQQSSRFNFFTVTMTKL 93
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMseASTSVYWYRQPPGkgptfLIAYYSNGSeegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*.
gi 31559837    94 KMSDSGIYHCGIVANNTSVYLRNIHL 119
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRL 106
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 26-111 5.31e-06

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: 43.26  E-value: 5.31e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837     26 PELLRTQEGETVSVTCWYDSlYHSSEKIWCKQIDNLcypfvskSAEKPRFLIQQSSrfNFFTVTMTKLKMSDSGIYHCgi 105
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASG-SPPPEVTWYKQGGKL-------LAESGRFSVSRSG--STSTLTISNVTPEDSGTYTC-- 68


                   ....*.
gi 31559837    106 VANNTS 111
Cdd:smart00410  69 AATNSS 74
 
Name Accession Description Interval E-value
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 26-105 1.73e-18

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: 77.44  E-value: 1.73e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  26 PELLRTQEGETVSVTCWYDSLYHSSEKIWCKQIDNLCYPFVSKSA--EKPRFLIQQSSRFNFFTVTMTKLKMSDSGIYHC 103
Cdd:cd05716   4 PEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLVSSEGvvPGGRISLTDDPDNGVFTVTLNQLRKEDAGWYWC 83


                ..
gi 31559837 104 GI 105
Cdd:cd05716  84 GV 85
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-119 1.67e-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: 72.49  E-value: 1.67e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837    24 QNPELLRTQEGETVSVTCWYDSLY--HSSEKIWCKQIDN-----LCYPFVSKS---AEKPRFLIQQSSRFNFFTVTMTKL 93
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMseASTSVYWYRQPPGkgptfLIAYYSNGSeegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*.
gi 31559837    94 KMSDSGIYHCGIVANNTSVYLRNIHL 119
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRL 106
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 26-111 5.31e-06

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: 43.26  E-value: 5.31e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837     26 PELLRTQEGETVSVTCWYDSlYHSSEKIWCKQIDNLcypfvskSAEKPRFLIQQSSrfNFFTVTMTKLKMSDSGIYHCgi 105
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASG-SPPPEVTWYKQGGKL-------LAESGRFSVSRSG--STSTLTISNVTPEDSGTYTC-- 68


                   ....*.
gi 31559837    106 VANNTS 111
Cdd:smart00410  69 AATNSS 74
IgC2_CD160 cd21392
Immunoglobulin Constant-2 domain of Cluster of Differentiation 160 (CD160); CD160 is expressed ...
 29-114 6.13e-05

Immunoglobulin Constant-2 domain of Cluster of Differentiation 160 (CD160); CD160 is expressed at the cell surface as a tightly disulfide-linked multimer and is tightly associated with peripheral blood NK cells and CD8 T lymphocytes with cytolytic effector activity. Structurally similar to The B and T lymphocyte attenuator (BTLA), which appears to act as a negative regulator of T cell activation and growth. CD160 is a ligand for HVEM (herpes virus entry mediator), and considered a proposed immune checkpoint inhibitor with anti-cancer activity along with anti-PD-1 antibodies. CD160 has also been proposed as a potential target in cases of human pathological ocular and tumor neoangiogenesis that do not respond or become resistant to existing antiangiogenic drugs.


Pssm-ID: 409621  Cd Length: 119  Bit Score: 41.24  E-value: 6.13e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  29 LRTQEGETVSVTCwydSLYHSSEK------IWCKQIDNLCYPFVSKSAEKPRFLIQQ---SSRFNFFTVTMTKLKMSDSG 99
Cdd:cd21392   7 SASQEGGRLNLTC---TVWHKKEEaeglivFWCKDRSNDCSPETSLKQLRLKRDPESdgvTERSSQLVFTINQVTPSDSG 83

                        90
                ....*....|....*
gi 31559837 100 IYHCGIVANNTSVYL 114
Cdd:cd21392  84 TYQCCARSQKPEIHL 98
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 23-103 4.84e-04

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: 38.47  E-value: 4.84e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  23 TQNPELLRTQEGETVSVTCWYDSLYHSSEKIWCKQidnlcypfvsKSAEKPRFLIQQSS-----------RF-------N 84
Cdd:cd00099   2 TQSPRSLSVQEGESVTLSCEVSSSFSSTYIYWYRQ----------KPGQGPEFLIYLSSskgktkggvpgRFsgsrdgtS 71

                        90
                ....*....|....*....
gi 31559837  85 FFTVTMTKLKMSDSGIYHC 103
Cdd:cd00099  72 SFSLTISNLQPEDSGTYYC 90
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 23-103 1.96e-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: 36.86  E-value: 1.96e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  23 TQNPELLRTQEGETVSVTCWYDSLyhSSEKI-WCKQidnlcYPfvsksAEKPRFLIQQSS--------RFNF-------- 85
Cdd:cd04983   2 TQSPQSLSVQEGENVTLNCNYSTS--TFYYLfWYRQ-----YP-----GQGPQFLIYISSdsgnkkkgRFSAtldksrks 69

                        90
                ....*....|....*...
gi 31559837  86 FTVTMTKLKMSDSGIYHC 103
Cdd:cd04983  70 SSLHISAAQLSDSAVYFC 87
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 23-103 7.76e-03

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: 35.06  E-value: 7.76e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 31559837  23 TQNPELLRTQEGETVSVTCWYDSLYHSSEKIWCKQidnlcypfvsKSAEKPRFLIQQSS--------RFNF------FTV 88
Cdd:cd04980   4 TQSPASLSVSPGERVTISCKASQSISSNYLAWYQQ----------KPGQAPKLLIYYAStlhsgvpsRFSGsgsgtdFTL 73

                        90
                ....*....|....*
gi 31559837  89 TMTKLKMSDSGIYHC 103
Cdd:cd04980  74 TISSVEPEDAAVYYC 88
 
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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