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Conserved domains on  [gi|221554524|ref|NP_001138343|]
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V-set and transmembrane domain-containing protein 5 precursor [Homo sapiens]

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 ...
 42-138 4.00e-07

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: 46.57  E-value: 4.00e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221554524  42 TINATVKEDILLSVEYSCHGVPTIEWTYssnwGTQKIVEWKPGTQANISQSHKDRVcTFD--NGSIQLFSVGVRDSGYYV 119
Cdd:cd05775    4 EVYGALGGNVTLTISSLQDDIDEIKWKK----TKDKIVEWENNIGPTYFGSFKDRV-LLDkeSGSLTIKNLTKEDSGTYE 78

                         90
                 ....*....|....*....
gi 221554524 120 ITVTERLGSSQFGTIVLHV 138
Cdd:cd05775   79 LEITSTNGKVLSSKFTLEV 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; ...
 42-138 4.00e-07

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: 46.57  E-value: 4.00e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221554524  42 TINATVKEDILLSVEYSCHGVPTIEWTYssnwGTQKIVEWKPGTQANISQSHKDRVcTFD--NGSIQLFSVGVRDSGYYV 119
Cdd:cd05775    4 EVYGALGGNVTLTISSLQDDIDEIKWKK----TKDKIVEWENNIGPTYFGSFKDRV-LLDkeSGSLTIKNLTKEDSGTYE 78

                         90
                 ....*....|....*....
gi 221554524 120 ITVTERLGSSQFGTIVLHV 138
Cdd:cd05775   79 LEITSTNGKVLSSKFTLEV 97
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 42-138 1.69e-03

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: 36.33  E-value: 1.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221554524    42 TINATVKEDILLSVEYSCHGVPTIEWTyssnWGTQKIVEWKPGTQanISQSHkdrvctfDNGSIQLFSVGVRDSGYYVIT 121
Cdd:smart00410   3 SVTVKEGESVTLSCEASGSPPPEVTWY----KQGGKLLAESGRFS--VSRSG-------STSTLTISNVTPEDSGTYTCA 69

                           90
                   ....*....|....*..
gi 221554524   122 VTERLGsSQFGTIVLHV 138
Cdd:smart00410  70 ATNSSG-SASSGTTLTV 85
 
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; ...
 42-138 4.00e-07

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: 46.57  E-value: 4.00e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221554524  42 TINATVKEDILLSVEYSCHGVPTIEWTYssnwGTQKIVEWKPGTQANISQSHKDRVcTFD--NGSIQLFSVGVRDSGYYV 119
Cdd:cd05775    4 EVYGALGGNVTLTISSLQDDIDEIKWKK----TKDKIVEWENNIGPTYFGSFKDRV-LLDkeSGSLTIKNLTKEDSGTYE 78

                         90
                 ....*....|....*....
gi 221554524 120 ITVTERLGSSQFGTIVLHV 138
Cdd:cd05775   79 LEITSTNGKVLSSKFTLEV 97
IgV_CEACAM_D1 cd05774
First immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion ...
 44-138 2.87e-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: 44.18  E-value: 2.87e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221554524  44 NATVKEDILLSVeyscHGVP----TIEWtY--SSNWGTQKIVEWKPGTQANI-SQSHKDRVCTFDNGSIQLFSVGVRDSG 116
Cdd:cd05774    9 QVAEGENVLLLV----HNLPenllAYAW-YkgKTVSPNFLIASYIISTNSSTpGPAYSGRETIYPNGSLLIQNVTQKDTG 83

                         90       100
                 ....*....|....*....|..
gi 221554524 117 YYVITVTERLGSSQFGTIVLHV 138
Cdd:cd05774   84 FYTLQTITADLQTEQASVHLQV 105
IgV_CEACAM_like cd05741
Immunoglobulin (Ig)-like domain of carcinoembryonic antigen (CEA) related cell adhesion ...
 77-138 3.83e-04

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: 38.27  E-value: 3.83e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 221554524  77 KIVEWKPGTQAN-ISQSHKDRVCTFDNGSIQLFSVGVRDSGYYVITVTERLGSSQFGTIVLHV 138
Cdd:cd05741   40 EIAEYENSSDEFrAGSAFSGREYIYTNGSLLIQNITLSDTGFYTLESTNIGGKTESATFQLHV 102
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 42-138 1.69e-03

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: 36.33  E-value: 1.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 221554524    42 TINATVKEDILLSVEYSCHGVPTIEWTyssnWGTQKIVEWKPGTQanISQSHkdrvctfDNGSIQLFSVGVRDSGYYVIT 121
Cdd:smart00410   3 SVTVKEGESVTLSCEASGSPPPEVTWY----KQGGKLLAESGRFS--VSRSG-------STSTLTISNVTPEDSGTYTCA 69

                           90
                   ....*....|....*..
gi 221554524   122 VTERLGsSQFGTIVLHV 138
Cdd:smart00410  70 ATNSSG-SASSGTTLTV 85
 
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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