NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|755529122|ref|XP_011240897|]
View 

V-set and transmembrane domain-containing protein 5 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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

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 ...
 31-137 1.95e-08

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: 50.04  E-value: 1.95e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122  31 QGVSLYIPqsainaTVQQDIllsvdyichgvPTIEWKYTPnwgvQRIVEWKPGTPANVSQSHRDRVcTFD--NGSIQLFN 108
Cdd:cd05775   11 GNVTLTIS------SLQDDI-----------DEIKWKKTK----DKIVEWENNIGPTYFGSFKDRV-LLDkeSGSLTIKN 68

                         90       100
                 ....*....|....*....|....*....
gi 755529122 109 VSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:cd05775   69 LTKEDSGTYELEITSTNGKVLSSKFTLEV 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; ...
 31-137 1.95e-08

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: 50.04  E-value: 1.95e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122  31 QGVSLYIPqsainaTVQQDIllsvdyichgvPTIEWKYTPnwgvQRIVEWKPGTPANVSQSHRDRVcTFD--NGSIQLFN 108
Cdd:cd05775   11 GNVTLTIS------SLQDDI-----------DEIKWKKTK----DKIVEWENNIGPTYFGSFKDRV-LLDkeSGSLTIKN 68

                         90       100
                 ....*....|....*....|....*....
gi 755529122 109 VSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:cd05775   69 LTKEDSGTYELEITSTNGKVLSSKFTLEV 97
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 37-137 7.58e-03

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: 35.13  E-value: 7.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122   37 IPQSAINATVQQDILLSV---DYICHGVPTIEWKYTPNWGVQR--IVEWKPGTPANVsqsHRDRVC-----TFDNGSIQL 106
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCtysSSMSEASTSVYWYRQPPGKGPTflIAYYSNGSEEGV---KKGRFSgrgdpSNGDGSLTI 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 755529122  107 FNVSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:pfam07686  78 QNLTLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
 
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; ...
 31-137 1.95e-08

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: 50.04  E-value: 1.95e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122  31 QGVSLYIPqsainaTVQQDIllsvdyichgvPTIEWKYTPnwgvQRIVEWKPGTPANVSQSHRDRVcTFD--NGSIQLFN 108
Cdd:cd05775   11 GNVTLTIS------SLQDDI-----------DEIKWKKTK----DKIVEWENNIGPTYFGSFKDRV-LLDkeSGSLTIKN 68

                         90       100
                 ....*....|....*....|....*....
gi 755529122 109 VSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:cd05775   69 LTKEDSGTYELEITSTNGKVLSSKFTLEV 97
IgV_CEACAM_D1 cd05774
First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion ...
 43-137 2.00e-06

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: 44.95  E-value: 2.00e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122  43 NATVQQDILLSVdyicHGVP----TIEW-KYTPNWGVQRIVEWKPGTpaNVSQ---SHRDRVCTFDNGSIQLFNVSVKDS 114
Cdd:cd05774    9 QVAEGENVLLLV----HNLPenllAYAWyKGKTVSPNFLIASYIIST--NSSTpgpAYSGRETIYPNGSLLIQNVTQKDT 82

                         90       100
                 ....*....|....*....|...
gi 755529122 115 GYYIVTVTEHPGSSQSGTILLRV 137
Cdd:cd05774   83 GFYTLQTITADLQTEQASVHLQV 105
IgV_1_PVR_like cd05718
First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 ...
 64-137 6.23e-05

First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 and necl-5), and similar domains; The members here are composed of the first immunoglobulin (Ig) domain of poliovirus receptor (PVR, also known as CD155 and nectin-like protein 5 (necl-5)). Poliovirus (PV) binds to its cellular receptor (PVR/CD155) to initiate infection. CD155 is a membrane-anchored, single-span glycoprotein; its extracellular region has three Ig-like domains. There are four different isotypes of CD155 (referred to as alpha, beta, gamma, and delta), that result from alternate splicing of the CD155 mRNA, and have identical extracellular domains. CD155-beta and CD155-gamma are secreted; CD155-alpha and CD155-delta are membrane-bound and function as PV receptors. The virus recognition site is contained in the amino-terminal domain, D1. Having the virus attachment site on the receptor distal from the plasma membrane may be important for successful initiation of infection of cells by the virus. CD155 binds in the poliovirus "canyon" with a footprint similar to that of the intercellular adhesion molecule-1 receptor on human rhinoviruses. This group also includes the first Ig-like domain of nectin-1 (also known as poliovirus receptor related protein(PVRL)1; CD111), nectin-3 (also known as PVRL 3), nectin-4 (also known as PVRL4; LNIR receptor)and DNAX accessory molecule 1 (DNAM-1; CD226).


Pssm-ID: 409383  Cd Length: 113  Bit Score: 40.89  E-value: 6.23e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122  64 IEWKYTPNWGVQRIVEWKPGTPANVSQSHRDRV------CTFDNGSIQLFNVSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:cd05718   34 VTWMKIGAGSSQNVAVFHPQYGPSVPNPYAERVeflaarLGLRNATLRIRNLRVEDEGNYICEFATFPQGNRQGTTWLRV 113
Ig5_Contactin cd04969
Fifth immunoglobulin (Ig) domain of contactin; The members here are composed of the fifth ...
 78-134 2.03e-04

Fifth immunoglobulin (Ig) domain of contactin; The members here are composed of the fifth immunoglobulin (Ig) domain of contactins. Contactins are neural cell adhesion molecules and are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module via contacts between Ig domains 1 and 4, and between Ig domains 2 and 3. Contactin-2 (TAG-1, axonin-1) may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. This group also includes contactin-1 and contactin-5. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-5 is expressed specifically in the rat postnatal nervous system, peaking at about 3 weeks postnatal, and a lack of contactin-5 (NB-2) results in an impairment of neuronal activity in the rat auditory system. Contactin-5 is highly expressed in the adult human brain in the occipital lobe and in the amygdala. Contactin-1 is differentially expressed in tumor tissues and may, through a RhoA mechanism, facilitate invasion and metastasis of human lung adenocarcinoma.


Pssm-ID: 409358 [Multi-domain]  Cd Length: 89  Bit Score: 38.98  E-value: 2.03e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 755529122  78 VEWKPGTPANVSQShrdRVCTFDNGSIQLFNVSVKDSGYYIVTVTEHPGSSQSGTIL 134
Cdd:cd04969   34 ISWSKGTELLTNSS---RICILPDGSLKIKNVTKSDEGKYTCFAVNFFGKANSTGSL 87
IgV_CEACAM_like cd05741
Immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion ...
 41-137 1.72e-03

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: 36.73  E-value: 1.72e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122  41 AINATVQQDILLSVDYICHGVPTIEWKYTPNWGVQR-IVEWKPGTPAN-VSQSHRDRVCTFDNGSIQLFNVSVKDSGYYI 118
Cdd:cd05741    4 QFYGAEGKNVLLLVPNLQTPLKSVSWYKGKQVSRNDeIAEYENSSDEFrAGSAFSGREYIYTNGSLLIQNITLSDTGFYT 83

                         90
                 ....*....|....*....
gi 755529122 119 VTVTEHPGSSQSGTILLRV 137
Cdd:cd05741   84 LESTNIGGKTESATFQLHV 102
IgV_1_Nectin-1_like cd05886
First immunoglobulin variable (IgV) domain of nectin-1, and similar domains; The members here ...
 64-137 2.18e-03

First immunoglobulin variable (IgV) domain of nectin-1, and similar domains; The members here are composed of the first immunoglobulin (Ig) domain of nectin-1 (also known as poliovirus receptor related protein 1 (PVRL1) or cluster of differentiation (CD) 111). Nectin-1 belongs to the nectin family comprised of four transmembrane glycoproteins (nectins-1 through -4). Nectins are synaptic cell adhesion molecules (CAMs) which facilitate adhesion and signaling at various intracellular junctions. Nectins form homophilic cis-dimers, followed by homophilic and heterophilic trans-dimers involved in cell-cell adhesion. In addition nectins heterophilically trans-interact with other CAMs such as nectin-like molecules (Necls), nectin-1 for example, has been shown to trans-interact with Necl-1. Nectins also interact with various other proteins, including the actin filament (F-actin)-binding protein, afadin. Mutation in the human nectin-1 gene is associated with cleft lip/palate ectodermal dysplasia syndrome (CLPED1). Nectin-1 is a major receptor for herpes simplex virus through interaction with the viral envelope glycoprotein D.


Pssm-ID: 409469  Cd Length: 113  Bit Score: 36.48  E-value: 2.18e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 755529122  64 IEWKYTPNWGVQRIVEWKPGTPANVSQSHRDRVC----TFDNGSIQLFNVSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:cd05886   35 VTWQKSTNGSKQNVAIYNPSMGVSVLPPYRERVTflnpSFTDGTIRLSRLELEDEGVYICEFATFPTGNRESQLNLTV 112
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 37-137 7.58e-03

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: 35.13  E-value: 7.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122   37 IPQSAINATVQQDILLSV---DYICHGVPTIEWKYTPNWGVQR--IVEWKPGTPANVsqsHRDRVC-----TFDNGSIQL 106
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCtysSSMSEASTSVYWYRQPPGKGPTflIAYYSNGSEEGV---KKGRFSgrgdpSNGDGSLTI 77

                          90       100       110
                  ....*....|....*....|....*....|.
gi 755529122  107 FNVSVKDSGYYIVTVTEHPGSSQSGTILLRV 137
Cdd:pfam07686  78 QNLTLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
Receptor_2B4 pfam11465
Natural killer cell receptor 2B4; 2B4 is a transmembrane receptor which is expressed primarily ...
 63-139 7.91e-03

Natural killer cell receptor 2B4; 2B4 is a transmembrane receptor which is expressed primarily on natural killer cells. It plays a role in activating NK-mediated cytotoxicity through its interaction with CD48 on target cells in a subset of CD8 T cells. The structure of 2B4 consists of an immunoglobulin variable domain fold and contains two beta-sheets. One of the beta-sheets, the six-stranded sheet, contains structural features that may have a role in ligand recognition and receptor function.


Pssm-ID: 288342  Cd Length: 108  Bit Score: 34.94  E-value: 7.91e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 755529122   63 TIEWKYT--PNWGVQRIVEWKPGTPANVSQSHRDRVcTFDNGSIQLFNVSVK--DSGYYIVTVTEHPGSSQSGTILLRVS 138
Cdd:pfam11465  29 SIAWKKLlpSHNGFHHILKWENGSLPSNNMCSSDIY-GFIVKNFALSIKSAKlqDSGHYLLEITNISGKVCTKNFQVLIF 107


                  .
gi 755529122  139 E 139
Cdd:pfam11465 108 D 108
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH