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Conserved domains on  [gi|6753356|ref|NP_033986|]
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CD83 antigen isoform 1 precursor [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
V-set super family cl46292
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 23-118 1.36e-04

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


The actual alignment was detected with superfamily member pfam07686:

Pssm-ID: 462230  Cd Length: 109  Bit Score: 39.75  E-value: 1.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356     23 REVTVACSETADLPCT-APWDPQLSYAVSWAKVSESGTESVEL--------PESKQN--SSFEAPRRRAYSLTIQNTTIC 91
Cdd:pfam07686   4 REVTVALGGSVTLPCTySSSMSEASTSVYWYRQPPGKGPTFLIayysngseEGVKKGrfSGRGDPSNGDGSLTIQNLTLS 83

                          90       100
                  ....*....|....*....|....*..
gi 6753356     92 SSGTYRCALQElGGQRNLSGTVVLKVT 118
Cdd:pfam07686  84 DSGTYTCAVIP-SGEGVFGKGTRLTVL 109
 
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 ...
 23-118 1.36e-04

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: 39.75  E-value: 1.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356     23 REVTVACSETADLPCT-APWDPQLSYAVSWAKVSESGTESVEL--------PESKQN--SSFEAPRRRAYSLTIQNTTIC 91
Cdd:pfam07686   4 REVTVALGGSVTLPCTySSSMSEASTSVYWYRQPPGKGPTFLIayysngseEGVKKGrfSGRGDPSNGDGSLTIQNLTLS 83

                          90       100
                  ....*....|....*....|....*..
gi 6753356     92 SSGTYRCALQElGGQRNLSGTVVLKVT 118
Cdd:pfam07686  84 DSGTYTCAVIP-SGEGVFGKGTRLTVL 109
Ig_LP_like cd05877
Immunoglobulin (Ig)-like domain of human cartilage link protein (LP), and similar domains; The ...
 31-120 1.14e-03

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: 37.30  E-value: 1.14e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356   31 ETADLPCTAPWDPQLS----YAVSWAKVSESGT--ESVELPESKQNSSFEAPRRRAY---------SLTIQNTTICSSGT 95
Cdd:cd05877  13 GNVTLPCRYHYEPELSaprkIRVKWTKLEVDYAkeEDVLVAIGTRHKSYGSYQGRVFlrraddldaSLVITDLRLEDYGR 92

                        90       100
                ....*....|....*....|....*
gi 6753356   96 YRCALQElgGQRNLSGTVVLKVTGC 120
Cdd:cd05877  93 YRCEVID--GLEDESVVVALRLRGV 115
 
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 ...
 23-118 1.36e-04

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: 39.75  E-value: 1.36e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356     23 REVTVACSETADLPCT-APWDPQLSYAVSWAKVSESGTESVEL--------PESKQN--SSFEAPRRRAYSLTIQNTTIC 91
Cdd:pfam07686   4 REVTVALGGSVTLPCTySSSMSEASTSVYWYRQPPGKGPTFLIayysngseEGVKKGrfSGRGDPSNGDGSLTIQNLTLS 83

                          90       100
                  ....*....|....*....|....*..
gi 6753356     92 SSGTYRCALQElGGQRNLSGTVVLKVT 118
Cdd:pfam07686  84 DSGTYTCAVIP-SGEGVFGKGTRLTVL 109
Ig_LP_like cd05877
Immunoglobulin (Ig)-like domain of human cartilage link protein (LP), and similar domains; The ...
 31-120 1.14e-03

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: 37.30  E-value: 1.14e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356   31 ETADLPCTAPWDPQLS----YAVSWAKVSESGT--ESVELPESKQNSSFEAPRRRAY---------SLTIQNTTICSSGT 95
Cdd:cd05877  13 GNVTLPCRYHYEPELSaprkIRVKWTKLEVDYAkeEDVLVAIGTRHKSYGSYQGRVFlrraddldaSLVITDLRLEDYGR 92

                        90       100
                ....*....|....*....|....*
gi 6753356   96 YRCALQElgGQRNLSGTVVLKVTGC 120
Cdd:cd05877  93 YRCEVID--GLEDESVVVALRLRGV 115
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 23-110 2.87e-03

Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of proteins of different functions. Examples include antibodies, the giant muscle kinase titin and receptor tyrosine kinases. Immunoglobulin-like domains may be involved in protein-protein and protein-ligand interactions.


Pssm-ID: 395002  Cd Length: 86  Bit Score: 35.63  E-value: 2.87e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356     23 REVTVACSETADLPCTA-PWDPQLSyaVSWAKVSESGTESVELPESKQnssfeapRRRAYSLTIQNTTICSSGTYRCALQ 101
Cdd:pfam00047   4 PTVTVLEGDSATLTCSAsTGSPGPD--VTWSKEGGTLIESLKVKHDNG-------RTTQSSLLISNVTKEDAGTYTCVVN 74


                  ....*....
gi 6753356    102 ELGGQRNLS 110
Cdd:pfam00047  75 NPGGSATLS 83
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 23-114 2.96e-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: 36.16  E-value: 2.96e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356   23 REVTVACSETADLPCTAPwDPQLSYAVSWAK----------VSESGTESVELPESKQNSSFEAPRRRAYSLTIQNTTICS 92
Cdd:cd00099   6 RSLSVQEGESVTLSCEVS-SSFSSTYIYWYRqkpgqgpeflIYLSSSKGKTKGGVPGRFSGSRDGTSSFSLTISNLQPED 84

                        90       100
                ....*....|....*....|....*
gi 6753356   93 SGTYRCALQELGGQRNL---SGTVV 114
Cdd:cd00099  85 SGTYYCAVSESGGTDKLtfgSGTRL 109
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 33-98 3.23e-03

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.


Pssm-ID: 409353 [Multi-domain]  Cd Length: 70  Bit Score: 35.00  E-value: 3.23e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 6753356   33 ADLPCTAPWDPQLSyaVSWAKVSESGTESVELPESKQNSSfeaprrraYSLTIQNTTICSSGTYRC 98
Cdd:cd00096   1 VTLTCSASGNPPPT--ITWYKNGKPLPPSSRDSRRSELGN--------GTLTISNVTLEDSGTYTC 56
Ig_Aggrecan_like cd05878
Immunoglobulin (Ig)-like domain of the aggrecan-like chondroitin sulfate proteoglycan core ...
 25-119 8.47e-03

Immunoglobulin (Ig)-like domain of the aggrecan-like chondroitin sulfate proteoglycan core protein (CSPG); The members here are composed of the immunoglobulin (Ig)-like domain of the aggrecan-like chondroitin sulfate proteoglycan core proteins (CSPGs). Included in this group are the Ig domains of other CSPGs: versican, and neurocan. In CSPGs, this 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 hyaluronan (HA). These aggregates contribute to the tissue's load bearing properties. Aggrecan and versican have a wide distribution in connective tissue and extracellular matrices. Neurocan is localized almost exclusively in nervous tissue. 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: 409462  Cd Length: 125  Bit Score: 34.90  E-value: 8.47e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6753356   25 VTVACSETADLPC--TAPWDPQLSYAVS------WAKVSESGTESVELP-------ESKQNSSFEA-------PRRRA-Y 81
Cdd:cd05878   7 VRVLLGTSVTLPCyfIDPPHPVTPSTAPlaprikWSKVSVDGKKEKEVVllvategRVRVNSAYQGrvslpnyPAIPSdA 86

                        90       100       110
                ....*....|....*....|....*....|....*...
gi 6753356   82 SLTIQNTTICSSGTYRCalQELGGQRNLSGTVVLKVTG 119
Cdd:cd05878  87 TLEVQSLRASDSGLYRC--EVMHGIEDSQDTVELVVKG 122
 
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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