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Conserved domains on  [gi|289190731|gb|ADC93478|]
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novel immune-type receptor 5, partial [Danio rerio]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 12208729)

immunoglobulin (Ig) domain-containing protein adopts a fold comprised of a sandwich of two beta sheets and may function in cell adhesion and/or pattern recognition

CATH:  2.60.40.10
PubMed:  7932691|8176743|23842991|10436082|3289571|9541533
SCOP:  3000071

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 24-71 5.84e-07

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: 44.03  E-value: 5.84e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 289190731    24 SSHFEVLRDTGGFNLKIVNAVQSDSGTYYCTTSFSNVIEFGnGTRLVV 71
Cdd:smart00410  39 SGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSASS-GTTLTV 85
 
Name Accession Description Interval E-value
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 24-71 5.84e-07

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: 44.03  E-value: 5.84e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 289190731    24 SSHFEVLRDTGGFNLKIVNAVQSDSGTYYCTTSFSNVIEFGnGTRLVV 71
Cdd:smart00410  39 SGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSASS-GTTLTV 85
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 1-71 1.86e-06

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: 1.86e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 289190731   1 EEPRLIASSilrSSEIQFHNEFDSSHFEVLRDTGG-FNLKIVNAVQSDSGTYYCTTSFS---NVIEFGNGTRLVV 71
Cdd:cd00099   40 QGPEFLIYL---SSSKGKTKGGVPGRFSGSRDGTSsFSLTISNLQPEDSGTYYCAVSESggtDKLTFGSGTRLTV 111
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 19-71 2.52e-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: 42.83  E-value: 2.52e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 289190731   19 HNEFDSSHFEVLRDTGG--FNLKIVNAVQSDSGTYYCTTSFSNVIEFGNGTRLVV 71
Cdd:pfam07686  54 EEGVKKGRFSGRGDPSNgdGSLTIQNLTLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
PHA02633 PHA02633
hypothetical protein; Provisional
 35-72 1.66e-03

hypothetical protein; Provisional


Pssm-ID: 165016  Cd Length: 63  Bit Score: 34.57  E-value: 1.66e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 289190731  35 GFNLKIVNAVQSDSGTYYCTT---SFSNVIEFGNGTRLVVK 72
Cdd:PHA02633  17 CNNMLILNPTQSDSGIYMCITkneTYSDMMKFDLCICLRIE 57
 
Name Accession Description Interval E-value
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 24-71 5.84e-07

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: 44.03  E-value: 5.84e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 289190731    24 SSHFEVLRDTGGFNLKIVNAVQSDSGTYYCTTSFSNVIEFGnGTRLVV 71
Cdd:smart00410  39 SGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSASS-GTTLTV 85
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 1-71 1.86e-06

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: 1.86e-06
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 289190731   1 EEPRLIASSilrSSEIQFHNEFDSSHFEVLRDTGG-FNLKIVNAVQSDSGTYYCTTSFS---NVIEFGNGTRLVV 71
Cdd:cd00099   40 QGPEFLIYL---SSSKGKTKGGVPGRFSGSRDGTSsFSLTISNLQPEDSGTYYCAVSESggtDKLTFGSGTRLTV 111
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 19-71 2.52e-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: 42.83  E-value: 2.52e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 289190731   19 HNEFDSSHFEVLRDTGG--FNLKIVNAVQSDSGTYYCTTSFSNVIEFGNGTRLVV 71
Cdd:pfam07686  54 EEGVKKGRFSGRGDPSNgdGSLTIQNLTLSDSGTYTCAVIPSGEGVFGKGTRLTV 108
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 31-72 6.78e-06

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: 41.87  E-value: 6.78e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 289190731  31 RDTGGFNLKIVNAVQSDSGTYYC---TTSFSNVIEFGNGTRLVVK 72
Cdd:cd04983   65 KSRKSSSLHISAAQLSDSAVYFCalsESGGTGKLTFGKGTRLTVE 109
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 1-71 9.36e-05

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here are composed of the immunoglobulin (Ig) variable domain of the beta 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 includes the variable domain of the alpha chain of alpha/beta 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: 409480  Cd Length: 110  Bit Score: 38.80  E-value: 9.36e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 289190731   1 EEPRLIASSilRSSEIQFHNEFDSSHFEVLR-DTGGFNLKIVNAVQSDSGTYYCT-TSFSNVIE--FGNGTRLVV 71
Cdd:cd05899   38 KGLQLLFYS--YGGGLNEEGDLPGDRFSASRpSLTRSSLTIKSAEPEDSAVYLCAsSLGGGADEayFGPGTRLTV 110
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 38-71 2.69e-04

Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of the immunoglobulin (Ig) light chain, lambda type, variable (V) domain. 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. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409373  Cd Length: 105  Bit Score: 37.44  E-value: 2.69e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 289190731  38 LKIVNAVQSDSGTYYCTTSFSNVIEFGNGTRLVV 71
Cdd:cd04984   72 LTISGAQTEDEADYYCQVWDSNSYVFGGGTKLTV 105
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 29-71 3.14e-04

Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The members here are composed of the immunoglobulin (Ig)-like domain in Cluster of Differentiation (CD) 8 beta. The CD8 glycoprotein plays an essential role in the control of T-cell selection, maturation, and the T-cell receptor (TCR)-mediated response to peptide antigen. CD8 is comprised of alpha and beta subunits and is expressed as either an alpha/alpha or alpha/beta dimer. Both dimeric isoforms can serve as a coreceptor for T cell activation and differentiation, however they have distinct physiological roles, different cellular distributions, unique binding partners, etc. Each CD8 subunit is comprised of an extracellular domain containing a V-type Ig-like domain, a single pass transmembrane portion, and a short intracellular domain. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409497  Cd Length: 116  Bit Score: 37.43  E-value: 3.14e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 289190731  29 VLRDTGGFNLKIVNAVQSDSGTYYCTTSFSNVIEFGNGTRLVV 71
Cdd:cd07700   73 SDSDSSRYILSLMSVKPEDSGTYFCMTVGSPELIFGTGTKLSV 115
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 36-69 5.13e-04

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: 36.60  E-value: 5.13e-04
                         10        20        30
                 ....*....|....*....|....*....|....
gi 289190731  36 FNLKIVNAVQSDSGTYYCTTSFSNVIEFGNGTRL 69
Cdd:cd04980   71 FTLTISSVEPEDAAVYYCQQGYTFPYTFGGGTKL 104
PHA02633 PHA02633
hypothetical protein; Provisional
 35-72 1.66e-03

hypothetical protein; Provisional


Pssm-ID: 165016  Cd Length: 63  Bit Score: 34.57  E-value: 1.66e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 289190731  35 GFNLKIVNAVQSDSGTYYCTT---SFSNVIEFGNGTRLVVK 72
Cdd:PHA02633  17 CNNMLILNPTQSDSGIYMCITkneTYSDMMKFDLCICLRIE 57
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 22-71 1.70e-03

Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here are composed of the immunoglobulin (Ig) variable (V) domain of the gamma 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 antigens as peptide fragments presented by major histocompatibility complex (MHC) molecules. Gamma/delta TCRs recognize intact protein antigens directly without antigen processing and recognize 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 the standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409371  Cd Length: 117  Bit Score: 35.42  E-value: 1.70e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 289190731  22 FDSSHFEVLRDTGGFN--LKIVNAVQSDSGTYYCTT----SFSNVIEFGNGTRLVV 71
Cdd:cd04982   61 KTKNKFEARKDVGKSTstLTITNLEKEDSATYYCAYwesgSGYYIKVFGSGTKLIV 116
IGv smart00406
Immunoglobulin V-Type;
17-53 8.42e-03

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 33.12  E-value: 8.42e-03
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 289190731    17 QFHNEFDSSHFEVLRDTGG--FNLKIVNAVQSDSGTYYC 53
Cdd:smart00406  41 SYYQESYKGRFTISKDTSKndVSLTISNLRVEDTGTYYC 79
 
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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