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Conserved domains on  [gi|568910428|ref|XP_006496699|]
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CD48 antigen isoform X1 [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 ...
 29-124 3.64e-22

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 cd05775:

Pssm-ID: 472250  Cd Length: 98  Bit Score: 87.40  E-value: 3.64e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  29 PDINATTGSNVTLKIHKDPLgPYKRITWLHTKnQKILEYNYNSTKTIFESeFKGRVYLEENNGALHISNVRKEDKGTYYM 108
Cdd:cd05775    3 GEVYGALGGNVTLTISSLQD-DIDEIKWKKTK-DKIVEWENNIGPTYFGS-FKDRVLLDKESGSLTIKNLTKEDSGTYEL 79

                         90
                 ....*....|....*...
gi 568910428 109 RVL--RETENELKITLEV 124
Cdd:cd05775   80 EITstNGKVLSSKFTLEV 97
 
Name Accession Description Interval E-value
IgV_CD2_like_N cd05775
N-terminal immunoglobulin (Ig)-like domain of T-cell surface antigen CD2, and similar domains; ...
 29-124 3.64e-22

N-terminal immunoglobulin (Ig)-like domain of T-cell surface antigen CD2, and similar domains; The members here are composed of the N-terminal immunoglobulin (Ig)-like domain (or domain 1) of T-cell surface antigen Clusters of Differentiation (CD) 2 and similar proteins. CD2 is a T-cell specific surface glycoprotein and is critically important for mediating adhesion between T cells and antigen-presenting cells or between cytolytic T cells and target cells. CD2 is located on chromosome 1 at 1p13 in humans and on chromosome 3 in mice. CD2 contains an extracellular domain with two or Ig-like domains, a single transmembrane segment, and a cytoplasmic region rich in proline and basic residues.


Pssm-ID: 409431  Cd Length: 98  Bit Score: 87.40  E-value: 3.64e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  29 PDINATTGSNVTLKIHKDPLgPYKRITWLHTKnQKILEYNYNSTKTIFESeFKGRVYLEENNGALHISNVRKEDKGTYYM 108
Cdd:cd05775    3 GEVYGALGGNVTLTISSLQD-DIDEIKWKKTK-DKIVEWENNIGPTYFGS-FKDRVLLDKESGSLTIKNLTKEDSGTYEL 79

                         90
                 ....*....|....*...
gi 568910428 109 RVL--RETENELKITLEV 124
Cdd:cd05775   80 EITstNGKVLSSKFTLEV 97
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 31-110 6.62e-06

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: 43.99  E-value: 6.62e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428   31 INATTGSNVTLKIHKDPLGPYK--RITWL-----HTKNQKILEYNYNSTKTIFESEFKGRVYLEENNGALHISNVRKEDK 103
Cdd:pfam07686   6 VTVALGGSVTLPCTYSSSMSEAstSVYWYrqppgKGPTFLIAYYSNGSEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDS 85


                  ....*..
gi 568910428  104 GTYYMRV 110
Cdd:pfam07686  86 GTYTCAV 92
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 29-110 8.93e-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: 42.88  E-value: 8.93e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428    29 PDINATTGSNVTLKIHKDPLGPYkRITWLHTKNQKILeynYNSTKTIFESEfkgrvyleeNNGALHISNVRKEDKGTYYM 108
Cdd:smart00410   2 PSVTVKEGESVTLSCEASGSPPP-EVTWYKQGGKLLA---ESGRFSVSRSG---------STSTLTISNVTPEDSGTYTC 68


                   ..
gi 568910428   109 RV 110
Cdd:smart00410  69 AA 70
 
Name Accession Description Interval E-value
IgV_CD2_like_N cd05775
N-terminal immunoglobulin (Ig)-like domain of T-cell surface antigen CD2, and similar domains; ...
 29-124 3.64e-22

N-terminal immunoglobulin (Ig)-like domain of T-cell surface antigen CD2, and similar domains; The members here are composed of the N-terminal immunoglobulin (Ig)-like domain (or domain 1) of T-cell surface antigen Clusters of Differentiation (CD) 2 and similar proteins. CD2 is a T-cell specific surface glycoprotein and is critically important for mediating adhesion between T cells and antigen-presenting cells or between cytolytic T cells and target cells. CD2 is located on chromosome 1 at 1p13 in humans and on chromosome 3 in mice. CD2 contains an extracellular domain with two or Ig-like domains, a single transmembrane segment, and a cytoplasmic region rich in proline and basic residues.


Pssm-ID: 409431  Cd Length: 98  Bit Score: 87.40  E-value: 3.64e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  29 PDINATTGSNVTLKIHKDPLgPYKRITWLHTKnQKILEYNYNSTKTIFESeFKGRVYLEENNGALHISNVRKEDKGTYYM 108
Cdd:cd05775    3 GEVYGALGGNVTLTISSLQD-DIDEIKWKKTK-DKIVEWENNIGPTYFGS-FKDRVLLDKESGSLTIKNLTKEDSGTYEL 79

                         90
                 ....*....|....*...
gi 568910428 109 RVL--RETENELKITLEV 124
Cdd:cd05775   80 EITstNGKVLSSKFTLEV 97
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 31-110 6.62e-06

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: 43.99  E-value: 6.62e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428   31 INATTGSNVTLKIHKDPLGPYK--RITWL-----HTKNQKILEYNYNSTKTIFESEFKGRVYLEENNGALHISNVRKEDK 103
Cdd:pfam07686   6 VTVALGGSVTLPCTYSSSMSEAstSVYWYrqppgKGPTFLIAYYSNGSEEGVKKGRFSGRGDPSNGDGSLTIQNLTLSDS 85


                  ....*..
gi 568910428  104 GTYYMRV 110
Cdd:pfam07686  86 GTYTCAV 92
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 29-110 8.93e-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: 42.88  E-value: 8.93e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428    29 PDINATTGSNVTLKIHKDPLGPYkRITWLHTKNQKILeynYNSTKTIFESEfkgrvyleeNNGALHISNVRKEDKGTYYM 108
Cdd:smart00410   2 PSVTVKEGESVTLSCEASGSPPP-EVTWYKQGGKLLA---ESGRFSVSRSG---------STSTLTISNVTPEDSGTYTC 68


                   ..
gi 568910428   109 RV 110
Cdd:smart00410  69 AA 70
IgV_CEACAM_like cd05741
Immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion ...
 27-113 1.20e-05

Immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and similar proteins; The members here are composed of the immunoglobulin (Ig)-like domain in carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) and related domains. The CEA family is a group of anchored or secreted glycoproteins, expressed by epithelial cells, leukocytes, endothelial cells and placenta. The CEA family is divided into the CEACAM and pregnancy-specific glycoprotein (PSG) subfamilies. This group represents the CEACAM subfamily. CEACAM1 has many important cellular functions: it is a cell adhesion molecule and a signaling molecule that regulates the growth of tumor cells, an angiogenic factor, and a receptor for bacterial and viral pathogens, including mouse hepatitis virus (MHV). In mice, four isoforms of CEACAM1 generated by alternative splicing have either two (D1, D4) or four (D1-D4) Ig-like domains on the cell surface. This family corresponds to the D1 Ig-like domain. Also belonging to this group is the N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family, CD84-like family. The SLAM family is a group of immune-cell specific receptors that can regulate both adaptive and innate immune responses. SLAM family proteins are organized as an extracellular domain with having two or four Ig-like domains, a single transmembrane segment, and a cytoplasmic region having Tyr-based motifs. The extracellular domain is organized as a membrane-distal Ig variable (IgV) domain that is responsible for ligand recognition and a membrane-proximal truncated Ig constant-2 (IgC2) domain.


Pssm-ID: 409403  Cd Length: 102  Bit Score: 42.89  E-value: 1.20e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  27 SIPDINATTGSNVTLKIHKDPLgPYKRITWLHTK----NQKILEYNYNSTKTIFESEFKGRVYLEeNNGALHISNVRKED 102
Cdd:cd05741    1 SSEQFYGAEGKNVLLLVPNLQT-PLKSVSWYKGKqvsrNDEIAEYENSSDEFRAGSAFSGREYIY-TNGSLLIQNITLSD 78

                         90
                 ....*....|.
gi 568910428 103 KGTYYMRVLRE 113
Cdd:cd05741   79 TGFYTLESTNI 89
IGv smart00406
Immunoglobulin V-Type;
54-107 2.94e-05

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 41.21  E-value: 2.94e-05
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568910428    54 ITWLHTKNQKILE---YNYNSTKTIFESEFKGRV----YLEENNGALHISNVRKEDKGTYY 107
Cdd:smart00406  18 VSWVRQPPGKGLEwlgYIGSNGSSYYQESYKGRFtiskDTSKNDVSLTISNLRVEDTGTYY 78
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 33-107 8.28e-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: 40.78  E-value: 8.28e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  33 ATTGSNVTLK-IHKDPLGPYkRITWLHTKNQKILE--YNYNSTKTIFESEFKGRvYLEENNGA----LHISNVRKEDKGT 105
Cdd:cd00099   10 VQEGESVTLScEVSSSFSST-YIYWYRQKPGQGPEflIYLSSSKGKTKGGVPGR-FSGSRDGTssfsLTISNLQPEDSGT 87


                 ..
gi 568910428 106 YY 107
Cdd:cd00099   88 YY 89
IgV_CEACAM_D1 cd05774
First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion ...
 32-111 5.20e-04

First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM); The members here are composed of the immunoglobulin (Ig)-like domain 1 in carcinoembryonic antigen (CEA) related cell adhesion molecule (CEACAM) proteins. The CEA family is a group of anchored or secreted glycoproteins, expressed by epithelial cells, leukocytes, endothelial cells, and placenta. The CEA family is divided into the CEACAM and pregnancy-specific glycoprotein (PSG) subfamilies. This group represents the CEACAM subfamily. CEACAM1 has many important cellular functions: it is a cell adhesion molecule and a signaling molecule that regulates the growth of tumor cells, an angiogenic factor, and a receptor for bacterial and viral pathogens, including mouse hepatitis virus (MHV). In mice, four isoforms of CEACAM1 generated by alternative splicing have either two (D1, D4) or four (D1-D4) Ig-like domains on the cell surface.


Pssm-ID: 409430  Cd Length: 105  Bit Score: 38.40  E-value: 5.20e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  32 NATTGSNVTLKIHKDPLGP-----YKRITwlHTKNQKILEYNYNSTKTIFESEFKGR--VYleeNNGALHISNVRKEDKG 104
Cdd:cd05774    9 QVAEGENVLLLVHNLPENLlayawYKGKT--VSPNFLIASYIISTNSSTPGPAYSGRetIY---PNGSLLIQNVTQKDTG 83


                 ....*..
gi 568910428 105 TYYMRVL 111
Cdd:cd05774   84 FYTLQTI 90
Ig_SLAM-like_N cd16842
N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule ...
 74-106 6.68e-04

N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family; The members here are composed of the N-terminal immunoglobulin (Ig)-like domain of the signaling lymphocyte activation molecule (SLAM) family and similar proteins. The SLAM family is a group of immune-cell specific receptors that can regulate both adaptive and innate immune responses. Members of this group include proteins such as CD84, SLAM (CD150), Ly-9 (CD229), NTB-A (ly-108, SLAM6), 19A (CRACC), and SLAMF9. The genes coding for the SLAM family are nested on chromosome 1, in humans at 1q23, and in mice at 1H2. The SLAM family is a subset of the CD2 family, which also includes CD2 and CD58 located on chromosome 1 at 1p13 in humans. In mice, CD2 is located on chromosome 3, and there is no CD58 homolog. The SLAM family proteins are organized as an extracellular domain with either two or four Ig-like domains, a single transmembrane segment, and a cytoplasmic region having Tyr-based motifs. The extracellular domain is organized as a membrane-distal Ig variable (IgV) domain that is responsible for ligand recognition and a membrane-proximal truncated Ig constant-2 (IgC2) domain.


Pssm-ID: 409517  Cd Length: 102  Bit Score: 38.07  E-value: 6.68e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 568910428  74 TIFESEFKGRVYLEENNGALHISNVRKEDKGTY 106
Cdd:cd16842   48 IITDKSYKERLNISQNDYSLQISNLTMEDAGSY 80
Ig_LP_like cd05877
Immunoglobulin (Ig)-like domain of human cartilage link protein (LP), and similar domains; The ...
 36-124 6.89e-04

Immunoglobulin (Ig)-like domain of human cartilage link protein (LP), and similar domains; The members here are composed of the immunoglobulin (Ig)-like domain similar to that found in human cartilage link protein (LP; also called hyaluronan and proteoglycan link protein). In cartilage, chondroitin-keratan sulfate proteoglycan (CSPG), aggrecan, forms cartilage link protein stabilized aggregates with hyaluronan (HA). These aggregates contribute to the tissue's load bearing properties. Aggregates having other CSPGs substituting for aggrecan may contribute to the structural integrity of many different tissues. Members of the vertebrate HPLN (hyaluronan/HA and proteoglycan binding link) protein family are physically linked adjacent to CSPG genes.


Pssm-ID: 409461  Cd Length: 117  Bit Score: 38.46  E-value: 6.89e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910428  36 GSNVTL--KIHKDP--LGPYK-RITWlhTKnqkiLEYNYNSTKTIFES---------EFKGRVYLEE---NNGALHISNV 98
Cdd:cd05877   12 GGNVTLpcRYHYEPelSAPRKiRVKW--TK----LEVDYAKEEDVLVAigtrhksygSYQGRVFLRRaddLDASLVITDL 85

                         90       100
                 ....*....|....*....|....*..
gi 568910428  99 RKEDKGTYYMRVLRETENE-LKITLEV 124
Cdd:cd05877   86 RLEDYGRYRCEVIDGLEDEsVVVALRL 112
 
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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