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Conserved domains on  [gi|569001224|ref|XP_006524792|]
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triggering receptor expressed on myeloid cells 1 isoform X3 [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 ...
 25-132 1.01e-17

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: 73.97  E-value: 1.01e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  25 EEERYDLVEGQTLTVKCPFNiMKYANSQKAWQRLPDGKepLTLVVTQRPFTRPsevhmGKFTLKHDPSEAMLQVQMTDLQ 104
Cdd:cd05716    3 GPEVVTGVEGGSVTIQCPYP-PKYASSRKYWCKWGSEG--CQTLVSSEGVVPG-----GRISLTDDPDNGVFTVTLNQLR 74

                         90       100
                 ....*....|....*....|....*...
gi 569001224 105 VTDSGLYRCVIYHPPndPVVLFHPVRLV 132
Cdd:cd05716   75 KEDAGWYWCGVGDDG--DRGLTVQVKLV 100
 
Name Accession Description Interval E-value
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 25-132 1.01e-17

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: 73.97  E-value: 1.01e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  25 EEERYDLVEGQTLTVKCPFNiMKYANSQKAWQRLPDGKepLTLVVTQRPFTRPsevhmGKFTLKHDPSEAMLQVQMTDLQ 104
Cdd:cd05716    3 GPEVVTGVEGGSVTIQCPYP-PKYASSRKYWCKWGSEG--CQTLVSSEGVVPG-----GRISLTDDPDNGVFTVTLNQLR 74

                         90       100
                 ....*....|....*....|....*...
gi 569001224 105 VTDSGLYRCVIYHPPndPVVLFHPVRLV 132
Cdd:cd05716   75 KEDAGWYWCGVGDDG--DRGLTVQVKLV 100
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 32-134 1.15e-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: 71.34  E-value: 1.15e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224   32 VEGQTLTVKCPF-NIMKYANSQKAWQRLPDGKEPlTLVVTQRPFTRPSEVHMGKFTLKHDPSEAMLQVQMTDLQVTDSGL 110
Cdd:pfam07686   9 ALGGSVTLPCTYsSSMSEASTSVYWYRQPPGKGP-TFLIAYYSNGSEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDSGT 87

                          90       100
                  ....*....|....*....|....
gi 569001224  111 YRCVIYhpPNDPVVLFHPVRLVVT 134
Cdd:pfam07686  88 YTCAVI--PSGEGVFGKGTRLTVL 109
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 32-133 9.86e-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: 42.11  E-value: 9.86e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224    32 VEGQTLTVKCPFNimKYANSQKAWQRlpDGKEPLTlvvtqrpftrpsevHMGKFTLKHDPSEAMLQvqMTDLQVTDSGLY 111
Cdd:smart00410   7 KEGESVTLSCEAS--GSPPPEVTWYK--QGGKLLA--------------ESGRFSVSRSGSTSTLT--ISNVTPEDSGTY 66

                           90       100
                   ....*....|....*....|..
gi 569001224   112 RCVIYhppNDPVVLFHPVRLVV 133
Cdd:smart00410  67 TCAAT---NSSGSASSGTTLTV 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 ...
 25-132 1.01e-17

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: 73.97  E-value: 1.01e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  25 EEERYDLVEGQTLTVKCPFNiMKYANSQKAWQRLPDGKepLTLVVTQRPFTRPsevhmGKFTLKHDPSEAMLQVQMTDLQ 104
Cdd:cd05716    3 GPEVVTGVEGGSVTIQCPYP-PKYASSRKYWCKWGSEG--CQTLVSSEGVVPG-----GRISLTDDPDNGVFTVTLNQLR 74

                         90       100
                 ....*....|....*....|....*...
gi 569001224 105 VTDSGLYRCVIYHPPndPVVLFHPVRLV 132
Cdd:cd05716   75 KEDAGWYWCGVGDDG--DRGLTVQVKLV 100
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 32-134 1.15e-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: 71.34  E-value: 1.15e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224   32 VEGQTLTVKCPF-NIMKYANSQKAWQRLPDGKEPlTLVVTQRPFTRPSEVHMGKFTLKHDPSEAMLQVQMTDLQVTDSGL 110
Cdd:pfam07686   9 ALGGSVTLPCTYsSSMSEASTSVYWYRQPPGKGP-TFLIAYYSNGSEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDSGT 87

                          90       100
                  ....*....|....*....|....
gi 569001224  111 YRCVIYhpPNDPVVLFHPVRLVVT 134
Cdd:pfam07686  88 YTCAVI--PSGEGVFGKGTRLTVL 109
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 32-133 9.86e-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: 42.11  E-value: 9.86e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224    32 VEGQTLTVKCPFNimKYANSQKAWQRlpDGKEPLTlvvtqrpftrpsevHMGKFTLKHDPSEAMLQvqMTDLQVTDSGLY 111
Cdd:smart00410   7 KEGESVTLSCEAS--GSPPPEVTWYK--QGGKLLA--------------ESGRFSVSRSGSTSTLT--ISNVTPEDSGTY 66

                           90       100
                   ....*....|....*....|..
gi 569001224   112 RCVIYhppNDPVVLFHPVRLVV 133
Cdd:smart00410  67 TCAAT---NSSGSASSGTTLTV 85
IGv smart00406
Immunoglobulin V-Type;
36-113 1.18e-04

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 38.90  E-value: 1.18e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224    36 TLTVKCPFNIMKYANSQKAWQRLPDGKePLTLVVTQRPFTR---PSEVhMGKFTLKHDPSEAMLQVQMTDLQVTDSGLYR 112
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPPGK-GLEWLGYIGSNGSsyyQESY-KGRFTISKDTSKNDVSLTISNLRVEDTGTYY 78


                   .
gi 569001224   113 C 113
Cdd:smart00406  79 C 79
IgV_H_TCR_mu cd16095
T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the ...
 34-114 2.79e-04

T-cell receptor Mu, Heavy chain, variable (V) domain; The members here are composed of the immunoglobulin (Ig) heavy chain (H), variable (V) domain of the T-cell receptor Mu. The basic structure of Ig molecules is a tetramer of two light chains and two heavy chains linked by disulfide bonds. In Ig, each chain is composed of one variable domain (IgV) and one or more constant domains (IgC); these names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. There are five types of heavy chains (alpha, gamma, delta, epsilon, and mu), which determines the type of immunoglobulin formed: IgA, IgG, IgD, IgE, and IgM, respectively. In higher vertebrates, there are two types of light chain, designated kappa and lambda, which can associate with any of the heavy chains. This family includes alpha, gamma, delta, epsilon, and mu heavy chains. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409514  Cd Length: 115  Bit Score: 38.70  E-value: 2.79e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  34 GQTLTVKCPFNIMKYANSQKAWQRLPDGKEPLTLVVTQRPFTRPSEvhmGKFTLKHDPSEAMLQVQMTDLQVTDSGLYRC 113
Cdd:cd16095   15 GKTLSLKCQTSGFQFNTSQLSWYLWVPGHAPLWLTSLDHISTKVSE---DRITSSREDTNSQIFLQIKGLGLRDSGQYHC 91


                 .
gi 569001224 114 V 114
Cdd:cd16095   92 A 92
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 33-113 4.96e-04

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: 37.64  E-value: 4.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  33 EGQTLTVKCPFNIMKYANSQkaWQRLPDGKEPlTLVVTQRPFTRpsEVHMGKFTLKHDPSEAMLQVQMTDLQVTDSGLYR 112
Cdd:cd04983   12 EGENVTLNCNYSTSTFYYLF--WYRQYPGQGP-QFLIYISSDSG--NKKKGRFSATLDKSRKSSSLHISAAQLSDSAVYF 86


                 .
gi 569001224 113 C 113
Cdd:cd04983   87 C 87
IgV_1_Necl_like cd05717
First (N-terminal) immunoglobulin (Ig)-like domain of the nectin-like molecules; member of the ...
 31-124 8.29e-04

First (N-terminal) immunoglobulin (Ig)-like domain of the nectin-like molecules; member of the V-set of Ig superfamily (IgSF) domains; The members here are composed of the N-terminal immunoglobulin (Ig)-like domain of the nectin-like molecules Necl-1 (also known as cell adhesion molecule 3 (CADM3)), Necl-2 (CADM1), Necl-3 (CADM2), and similar proteins. At least five nectin-like molecules have been identified (Necl-1 to Necl-5). They all have an extracellular region containing three Ig-like domains, a transmembrane region, and a cytoplasmic region. The N-terminal Ig-like domain of the extracellular region belongs to the V-type subfamily of Ig domains, is essential to cell-cell adhesion, and plays a part in the interaction with the envelope glycoprotein D of various viruses. Necl-1, Necl-2, and Necl-3 have Ca(2+)-independent homophilic and heterophilic cell-cell adhesion activity. Necl-1 is specifically expressed in neural tissue, and is important to the formation of synapses, axon bundles, and myelinated axons. Necl-2 is expressed in a wide variety of tissues and is a putative tumour suppressor gene which is downregulated in aggressive neuroblastoma. Necl-3 accumulates in central and peripheral nervous system tissue and has been shown to selectively interact with oligodendrocytes. This group also contains Class-I MHC-restricted T-cell-associated molecule (CRTAM), whose expression pattern is consistent with its expression in Class-I MHC-restricted T-cells.


Pssm-ID: 409382  Cd Length: 94  Bit Score: 37.11  E-value: 8.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  31 LVEGQTLTVKCpfNIMKYANSQKAWQRlPDGKeplTLVVTQRPFTRPSEVHMgkftLKHDPSEamLQVQMTDLQVTDSGL 110
Cdd:cd05717    8 VVEGETLTLKC--QVSLRDDSSLQWLN-PNGQ---TIYFNDKRALRDSRYQL----LNHSASE--LSISVSNVTLSDEGV 75

                         90
                 ....*....|....
gi 569001224 111 YRCVIYhppNDPVV 124
Cdd:cd05717   76 YTCLHY---TDPVS 86
Ig_Aggrecan cd05900
Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), ...
 32-117 3.55e-03

Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan; The members here are composed of the immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), aggrecan. In CSPGs, the Ig-like domain is followed by hyaluronan (HA)-binding tandem repeats, and a C-terminal region with epidermal growth factor-like, lectin-like, and complement regulatory protein-like domains. Separating these N- and C-terminal regions is a nonhomologous glycosaminoglycan attachment region. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggrecan has a wide distribution in connective tissue and extracellular matrices. Members of the vertebrate HPLN (hyaluronan/HA and proteoglycan binding link) protein family are physically linked adjacent to CSPG genes.


Pssm-ID: 409481  Cd Length: 123  Bit Score: 35.69  E-value: 3.55e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  32 VEGQTLTVKCPFNIMKYANSQKA----------WQRLPDGKEPLTLVVTQRPFTRPSEvHMGKFTLKHDP---SEAMLQV 98
Cdd:cd05900   10 VLGSSLLIPCYFQDPIAKDPGAPtvaplsprikWSFISKEKESVLLVATEGKVRVNTE-YLDRVSLPNYPaipSDATLEI 88

                         90
                 ....*....|....*....
gi 569001224  99 QmtDLQVTDSGLYRCVIYH 117
Cdd:cd05900   89 T--ELRSNDSGTYRCEVMH 105
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 33-126 6.81e-03

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: 34.62  E-value: 6.81e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569001224  33 EGQTLTVKCPFNiMKYANSQKAWQRLPDGKEPLTLVVTQRPFTRPSEVHMGKFTL-KHDPSEAMLQVqmTDLQVTDSGLY 111
Cdd:cd00099   12 EGESVTLSCEVS-SSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKGGVPGRFSGsRDGTSSFSLTI--SNLQPEDSGTY 88

                         90
                 ....*....|....*
gi 569001224 112 RCVIYHPPNDPVVLF 126
Cdd:cd00099   89 YCAVSESGGTDKLTF 103
 
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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