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Conserved domains on  [gi|569000538|ref|XP_006524457|]
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trem-like transcript 6 protein isoform X1 [Mus musculus]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 10542315)

immunoglobulin (Ig) domain-containing protein adopts a fold comprised of a sandwich of two beta sheets, similar to Homo sapiens T-cell antigen CD7 and voltage-gated sodium channel beta3 subunit Ig Domain

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-121 7.33e-18

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: 77.50  E-value: 7.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538   24 QKPELLRAQEGETVSLTCWYDSLY--HSDEKIWCKQIDN-----LCYLFVSKS---AEKPRFLIQQSSRFNFFTVTMTKL 93
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMseASTSVYWYRQPPGkgptfLIAYYSNGSeegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*...
gi 569000538   94 KMSDSGIYHCGIAVNTRIIYLRSIHLVV 121
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
 
Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-121 7.33e-18

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: 77.50  E-value: 7.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538   24 QKPELLRAQEGETVSLTCWYDSLY--HSDEKIWCKQIDN-----LCYLFVSKS---AEKPRFLIQQSSRFNFFTVTMTKL 93
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMseASTSVYWYRQPPGkgptfLIAYYSNGSeegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*...
gi 569000538   94 KMSDSGIYHCGIAVNTRIIYLRSIHLVV 121
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 26-105 9.75e-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: 77.05  E-value: 9.75e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  26 PELLRAQEGETVSLTCWYDSLYHSDEKIWCKQIDNLCYLFVSKSA--EKPRFLIQQSSRFNFFTVTMTKLKMSDSGIYHC 103
Cdd:cd05716    4 PEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLVSSEGvvPGGRISLTDDPDNGVFTVTLNQLRKEDAGWYWC 83


                 ..
gi 569000538 104 GI 105
Cdd:cd05716   84 GV 85
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 26-121 1.28e-09

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: 54.05  E-value: 1.28e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538    26 PELLRAQEGETVSLTCWYDSlYHSDEKIWCKQIDNLcylfvskSAEKPRFLIQQSSrfNFFTVTMTKLKMSDSGIYHCgI 105
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASG-SPPPEVTWYKQGGKL-------LAESGRFSVSRSG--STSTLTISNVTPEDSGTYTC-A 69

                           90
                   ....*....|....*.
gi 569000538   106 AVNTRIIYLRSIHLVV 121
Cdd:smart00410  70 ATNSSGSASSGTTLTV 85
 
Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-121 7.33e-18

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: 77.50  E-value: 7.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538   24 QKPELLRAQEGETVSLTCWYDSLY--HSDEKIWCKQIDN-----LCYLFVSKS---AEKPRFLIQQSSRFNFFTVTMTKL 93
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMseASTSVYWYRQPPGkgptfLIAYYSNGSeegVKKGRFSGRGDPSNGDGSLTIQNL 80

                          90       100
                  ....*....|....*....|....*...
gi 569000538   94 KMSDSGIYHCGIAVNTRIIYLRSIHLVV 121
Cdd:pfam07686  81 TLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
IgV_pIgR_like cd05716
Immunoglobulin (Ig)-like domain in the polymeric Ig receptor (pIgR) and similar proteins; The ...
 26-105 9.75e-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: 77.05  E-value: 9.75e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  26 PELLRAQEGETVSLTCWYDSLYHSDEKIWCKQIDNLCYLFVSKSA--EKPRFLIQQSSRFNFFTVTMTKLKMSDSGIYHC 103
Cdd:cd05716    4 PEVVTGVEGGSVTIQCPYPPKYASSRKYWCKWGSEGCQTLVSSEGvvPGGRISLTDDPDNGVFTVTLNQLRKEDAGWYWC 83


                 ..
gi 569000538 104 GI 105
Cdd:cd05716   84 GV 85
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 26-121 1.28e-09

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: 54.05  E-value: 1.28e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538    26 PELLRAQEGETVSLTCWYDSlYHSDEKIWCKQIDNLcylfvskSAEKPRFLIQQSSrfNFFTVTMTKLKMSDSGIYHCgI 105
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASG-SPPPEVTWYKQGGKL-------LAESGRFSVSRSG--STSTLTISNVTPEDSGTYTC-A 69

                           90
                   ....*....|....*.
gi 569000538   106 AVNTRIIYLRSIHLVV 121
Cdd:smart00410  70 ATNSSGSASSGTTLTV 85
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 23-103 1.92e-05

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: 43.09  E-value: 1.92e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  23 TQKPELLRAQEGETVSLTCWYDSLYHSDEKIWCKQIDN-----LCYLFVSKSAEKPRF---LIQQSSRFNFFTVTMTKLK 94
Cdd:cd00099    2 TQSPRSLSVQEGESVTLSCEVSSSFSSTYIYWYRQKPGqgpefLIYLSSSKGKTKGGVpgrFSGSRDGTSSFSLTISNLQ 81


                 ....*....
gi 569000538  95 MSDSGIYHC 103
Cdd:cd00099   82 PEDSGTYYC 90
IgC2_CD160 cd21392
Immunoglobulin Constant-2 domain of Cluster of Differentiation 160 (CD160); CD160 is expressed ...
 29-103 2.13e-04

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: 40.08  E-value: 2.13e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  29 LRAQEGETVSLTCwydSLYHSDEK------IWCKQIDNLCYLFVSKSAEKPRFLIQQ---SSRFNFFTVTMTKLKMSDSG 99
Cdd:cd21392    7 SASQEGGRLNLTC---TVWHKKEEaeglivFWCKDRSNDCSPETSLKQLRLKRDPESdgvTERSSQLVFTINQVTPSDSG 83


                 ....
gi 569000538 100 IYHC 103
Cdd:cd21392   84 TYQC 87
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 23-103 3.66e-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: 39.18  E-value: 3.66e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  23 TQKPELLRAQEGETVSLTC-----WYDSLYhsdekiWCKQIdnlcylfvskSAEKPRFLIQQSS--------RFNF---- 85
Cdd:cd04983    2 TQSPQSLSVQEGENVTLNCnystsTFYYLF------WYRQY----------PGQGPQFLIYISSdsgnkkkgRFSAtldk 65

                         90       100
                 ....*....|....*....|..
gi 569000538  86 ----FTVTMTKLKMSDSGIYHC 103
Cdd:cd04983   66 srksSSLHISAAQLSDSAVYFC 87
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 23-103 1.83e-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: 37.37  E-value: 1.83e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  23 TQKPELLRAQEGETVSLTCWYDSLYHSDEKIWCKQidnlcylfvsKSAEKPRFLIQQSS--------RFNF------FTV 88
Cdd:cd04980    4 TQSPASLSVSPGERVTISCKASQSISSNYLAWYQQ----------KPGQAPKLLIYYAStlhsgvpsRFSGsgsgtdFTL 73

                         90
                 ....*....|....*
gi 569000538  89 TMTKLKMSDSGIYHC 103
Cdd:cd04980   74 TISSVEPEDAAVYYC 88
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 23-103 3.18e-03

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: 36.73  E-value: 3.18e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538  23 TQKPELLRAQEGETVSLTCWYDSLYHSDEKIWCKQIDNLCYLFV------SKSAEKPRFLIQQSSRFNFFTVTMTKLKMS 96
Cdd:cd07706    3 TQAQPDVSVQVGEEVTLNCRYETSWTNYYLFWYKQLPSGEMTFLirqdssEQNAKSGRYSVNFQKAQKSISLTISALQLE 82


                 ....*..
gi 569000538  97 DSGIYHC 103
Cdd:cd07706   83 DSAKYFC 89
I-set pfam07679
Immunoglobulin I-set domain;
23-108 3.91e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 36.08  E-value: 3.91e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 569000538   23 TQKPELLRAQEGETVSLTC-----------WydslYHSDEKIwckqidnlcylfvsksAEKPRFLIQQSSrfNFFTVTMT 91
Cdd:pfam07679   4 TQKPKDVEVQEGESARFTCtvtgtpdpevsW----FKDGQPL----------------RSSDRFKVTYEG--GTYTLTIS 61

                          90
                  ....*....|....*..
gi 569000538   92 KLKMSDSGIYHCgIAVN 108
Cdd:pfam07679  62 NVQPDDSGKYTC-VATN 77
 
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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