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Conserved domains on  [gi|1721910660|ref|XP_030193141|]
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sodium channel subunit beta-4-like [Gadus morhua]

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 ...
 35-147 3.58e-17

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 cd05715:

Pssm-ID: 472250  Cd Length: 117  Bit Score: 74.39  E-value: 3.58e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  35 LEVSTGKVslLQATNGSTVLLPCTYSSCIGIHKLY-FNWHYNDNGTmlKLCEAVIPKENVEPV---VGVYHERVEFVGSS 110
Cdd:cd05715     1 MEVYTPRE--LNVLNGSDVRLTCTFTSCYTVGDAFsVTWTYQPEGG--NTTESMFHYSKGKPYilkVGRFKDRVSWAGNP 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1721910660 111 RRNNISILLWNITFEDRGDYVCFARNPKEKNRNHSAV 147
Cdd:cd05715    77 SKKDASIVISNLQFSDNGTYTCDVKNPPDIVGGHGEI 113
 
Name Accession Description Interval E-value
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 35-147 3.58e-17

Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an extracellular Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin. This group also contains the Ig domain of sodium channel subunit beta-2 (SCN2B), and of epithelial V-like antigen 1 (EVA). EVA, also known as myelin protein zero-like 2, is an adhesion molecule, which may play a role in structural organization of the thymus and early lymphocyte development. SCN2B subunits play a role in determining sodium channel density and function in neurons,and in control of electrical excitability in the brain.


Pssm-ID: 409380  Cd Length: 117  Bit Score: 74.39  E-value: 3.58e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  35 LEVSTGKVslLQATNGSTVLLPCTYSSCIGIHKLY-FNWHYNDNGTmlKLCEAVIPKENVEPV---VGVYHERVEFVGSS 110
Cdd:cd05715     1 MEVYTPRE--LNVLNGSDVRLTCTFTSCYTVGDAFsVTWTYQPEGG--NTTESMFHYSKGKPYilkVGRFKDRVSWAGNP 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1721910660 111 RRNNISILLWNITFEDRGDYVCFARNPKEKNRNHSAV 147
Cdd:cd05715    77 SKKDASIVISNLQFSDNGTYTCDVKNPPDIVGGHGEI 113
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 45-153 8.06e-10

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: 54.39  E-value: 8.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  45 LQATNGSTVLLPCTYSSCIGIHKLYFNWHYNDNGTMLKLCEAVIPKENVEPVVGvyhERVEFVGSSRRNNISILLWNITF 124
Cdd:pfam07686   6 VTVALGGSVTLPCTYSSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEEGVKK---GRFSGRGDPSNGDGSLTIQNLTL 82

                          90       100
                  ....*....|....*....|....*....
gi 1721910660 125 EDRGDYVCfARNPKEKNRNHSAVyTLIVV 153
Cdd:pfam07686  83 SDSGTYTC-AVIPSGEGVFGKGT-RLTVL 109
IGv smart00406
Immunoglobulin V-Type;
52-133 4.82e-06

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 43.52  E-value: 4.82e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660   52 TVLLPCTYSScIGIHKLYFNWHYNDNGTMLKLCeAVIPKENVEPVVGVYHERVEFVGSSRRNNISILLWNITFEDRGDYV 131
Cdd:smart00406   1 SVTLSCKFSG-STFSSYYVSWVRQPPGKGLEWL-GYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYY 78


                   ..
gi 1721910660  132 CF 133
Cdd:smart00406  79 CA 80
 
Name Accession Description Interval E-value
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 35-147 3.58e-17

Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an extracellular Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin. This group also contains the Ig domain of sodium channel subunit beta-2 (SCN2B), and of epithelial V-like antigen 1 (EVA). EVA, also known as myelin protein zero-like 2, is an adhesion molecule, which may play a role in structural organization of the thymus and early lymphocyte development. SCN2B subunits play a role in determining sodium channel density and function in neurons,and in control of electrical excitability in the brain.


Pssm-ID: 409380  Cd Length: 117  Bit Score: 74.39  E-value: 3.58e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  35 LEVSTGKVslLQATNGSTVLLPCTYSSCIGIHKLY-FNWHYNDNGTmlKLCEAVIPKENVEPV---VGVYHERVEFVGSS 110
Cdd:cd05715     1 MEVYTPRE--LNVLNGSDVRLTCTFTSCYTVGDAFsVTWTYQPEGG--NTTESMFHYSKGKPYilkVGRFKDRVSWAGNP 76

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1721910660 111 RRNNISILLWNITFEDRGDYVCFARNPKEKNRNHSAV 147
Cdd:cd05715    77 SKKDASIVISNLQFSDNGTYTCDVKNPPDIVGGHGEI 113
IgV_EVA1 cd05880
Immunoglobulin (Ig)-like domain of epithelial V-like antigen (EVA) 1; The members here are ...
 35-139 5.54e-11

Immunoglobulin (Ig)-like domain of epithelial V-like antigen (EVA) 1; The members here are composed of the immunoglobulin (Ig) domain of epithelial V-like antigen 1 (EVA 1). EVA is also known as myelin protein zero-like 2. EVA is an adhesion molecule and may play a role in the structural organization of the thymus and early lymphocyte development.


Pssm-ID: 409464  Cd Length: 116  Bit Score: 57.92  E-value: 5.54e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  35 LEVSTGKVslLQATNGSTVLLPCTYSSCIGI-HKLYFNWHYN--DNGTMlklcEAVI--PKENVEPVVGVYHERVEFVGS 109
Cdd:cd05880     1 IEVYTSKE--VEAVNGTDVRLKCTFSSSAPIgDTLVITWNFRplDGGRE----ESVFyyHKRPYPPPDGRFKGRVVWDGN 74

                          90       100       110
                  ....*....|....*....|....*....|
gi 1721910660 110 SRRNNISILLWNITFEDRGDYVCFARNPKE 139
Cdd:cd05880    75 IMRRDASILIWQLQPTDNGTYTCQVKNPPD 104
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 45-153 8.06e-10

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: 54.39  E-value: 8.06e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  45 LQATNGSTVLLPCTYSSCIGIHKLYFNWHYNDNGTMLKLCEAVIPKENVEPVVGvyhERVEFVGSSRRNNISILLWNITF 124
Cdd:pfam07686   6 VTVALGGSVTLPCTYSSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEEGVKK---GRFSGRGDPSNGDGSLTIQNLTL 82

                          90       100
                  ....*....|....*....|....*....
gi 1721910660 125 EDRGDYVCfARNPKEKNRNHSAVyTLIVV 153
Cdd:pfam07686  83 SDSGTYTC-AVIPSGEGVFGKGT-RLTVL 109
IgV_P0 cd05879
Immunoglobulin (Ig)-like domain of protein zero (P0); The members here are composed of the ...
 47-152 3.20e-09

Immunoglobulin (Ig)-like domain of protein zero (P0); The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin.


Pssm-ID: 409463  Cd Length: 117  Bit Score: 52.96  E-value: 3.20e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  47 ATNGSTVLLPCTYSSCIGIH-KLYFNWHYNDNGTmlKLCEAVIPKENVEPV---VGVYHERVEFVGSSRRNNISILLWNI 122
Cdd:cd05879    11 GTVGSDVTLSCSFWSSEWISdDISFTWHYQPDGS--RDAISIFHYGKGQPYidnVGPFKERIEWVGNPSRKDGSIVIHNL 88

                          90       100       110
                  ....*....|....*....|....*....|
gi 1721910660 123 TFEDRGDYVCFARNPKEKNrNHSAVYTLIV 152
Cdd:cd05879    89 DYTDNGTFTCDVKNPPDIV-GKSSQVTLYV 117
IGv smart00406
Immunoglobulin V-Type;
52-133 4.82e-06

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 43.52  E-value: 4.82e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660   52 TVLLPCTYSScIGIHKLYFNWHYNDNGTMLKLCeAVIPKENVEPVVGVYHERVEFVGSSRRNNISILLWNITFEDRGDYV 131
Cdd:smart00406   1 SVTLSCKFSG-STFSSYYVSWVRQPPGKGLEWL-GYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYY 78


                   ..
gi 1721910660  132 CF 133
Cdd:smart00406  79 CA 80
IgV_1_PVR_like cd05718
First immunoglobulin variable (IgV) domain of poliovirus receptor (PVR, also known as CD155 ...
 47-152 6.65e-06

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: 43.98  E-value: 6.65e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  47 ATNGSTVLLPCTYSSCIGIHKLYFNWHYNDNGTmlklceavipKENV---EPVVGV-----YHERVEFVGSS-RRNNISI 117
Cdd:cd05718    11 GFLGGSVTLPCSLTSPGTTKITQVTWMKIGAGS----------SQNVavfHPQYGPsvpnpYAERVEFLAARlGLRNATL 80

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1721910660 118 LLWNITFEDRGDYVC-FARNPkekNRNHSAVYTLIV 152
Cdd:cd05718    81 RIRNLRVEDEGNYICeFATFP---QGNRQGTTWLRV 113
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 50-152 1.84e-04

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: 39.03  E-value: 1.84e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660   50 GSTVLLPCTYSsciGIHKLYFNWHYNDNgtmlklcEAVIPKENvepvvgvyherveFVGSSRRNNISILLWNITFEDRGD 129
Cdd:smart00410   9 GESVTLSCEAS---GSPPPEVTWYKQGG-------KLLAESGR-------------FSVSRSGSTSTLTISNVTPEDSGT 65

                           90       100
                   ....*....|....*....|...
gi 1721910660  130 YVCFARNPkekNRNHSAVYTLIV 152
Cdd:smart00410  66 YTCAATNS---SGSASSGTTLTV 85
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 50-137 4.10e-04

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: 38.33  E-value: 4.10e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  50 GSTVLLPCTYSSciGIHKLYFNWHYNDngtmlklceavipKENVEPVVGVYHERvefvgssRRNNISILLWNITFEDRGD 129
Cdd:pfam00047  11 GDSATLTCSAST--GSPGPDVTWSKEG-------------GTLIESLKVKHDNG-------RTTQSSLLISNVTKEDAGT 68


                  ....*...
gi 1721910660 130 YVCFARNP 137
Cdd:pfam00047  69 YTCVVNNP 76
IgV_CD86 cd16087
Immunoglobulin variable domain (IgV) in Cluster of Differentiation (CD) 86; The members here ...
 46-133 1.18e-03

Immunoglobulin variable domain (IgV) in Cluster of Differentiation (CD) 86; The members here are composed of the immunoglobulin variable region (IgV) in the Cluster of Differentiation (CD) 86). Glycoproteins B7-1 (also known as cluster of differentiation (CD) 80) and B7-2 (also known as CD86) are expressed on antigen-presenting cells and deliver the co-stimulatory signal through CD28 and CTLA-4 (also known as CD152) on T cells. signaling through CD28 augments the T-cell response, whereas CTLA-4 signaling attenuates it. The CTLA-4 and B7-2 monomers are both two-layer beta-sandwiches that display the chain topology characteristic of the immunoglobulin variable (V-type) domains present in antigen receptors. The front and back sheets of B7-2 are composed of AGFCC'C" and BED strands, respectively. Members of the IgV family 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.


Pssm-ID: 409508  Cd Length: 108  Bit Score: 37.31  E-value: 1.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  46 QATNGSTVLLPCTY--SSCIGIHKLYFNWHyndNGTMLKLCEAVIPKENVEPVVGVYHERVEFvgssRRNNISILLWNIT 123
Cdd:cd16087     4 QAYFNETAYLPCQFknPQNISLSELVVFWQ---DQKKLVLYELYLGKEKLDNVNSKYIGRTSF----DQENWTLQLHNVQ 76

                          90
                  ....*....|
gi 1721910660 124 FEDRGDYVCF 133
Cdd:cd16087    77 IKDQGTYQCF 86
Ig3_L1-CAM cd05876
Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM); The members here ...
 113-147 1.58e-03

Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM); The members here are composed of the third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). L1 belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains, five fibronectin type III domains, a transmembrane region and an intracellular domain. L1 is primarily expressed in the nervous system and is involved in its development and function. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth. This group also contains the chicken neuron-glia cell adhesion molecule, Ng-CAM.


Pssm-ID: 409460 [Multi-domain]  Cd Length: 83  Bit Score: 36.43  E-value: 1.58e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1721910660 113 NNISILLWNITFEDRGDYVCFARNPKEKNRNHSAV 147
Cdd:cd05876    46 HNKTLQLLNVGESDDGEYVCLAENSLGSARHAYYV 80
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 53-146 2.88e-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: 35.38  E-value: 2.88e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  53 VLLPCTYSsciGIHKLYFNWHyndngtmlklceavipKENVEPVVGVYHERVEFVGSSrrnniSILLWNITFEDRGDYVC 132
Cdd:cd00096     1 VTLTCSAS---GNPPPTITWY----------------KNGKPLPPSSRDSRRSELGNG-----TLTISNVTLEDSGTYTC 56

                          90
                  ....*....|....
gi 1721910660 133 FARNPKEKNRNHSA 146
Cdd:cd00096    57 VASNSAGGSASASV 70
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 47-136 5.34e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 34.85  E-value: 5.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1721910660  47 ATNGSTVLLPCTYSsciGIHKLYFNWHYNDngtmlklceavipkenvEPVVGVYHERVEFVGSSRRNNISillwNITFED 126
Cdd:pfam13927  13 VREGETVTLTCEAT---GSPPPTITWYKNG-----------------EPISSGSTRSRSLSGSNSTLTIS----NVTRSD 68

                          90
                  ....*....|
gi 1721910660 127 RGDYVCFARN 136
Cdd:pfam13927  69 AGTYTCVASN 78
IgV_1_MRC-OX-2_like cd05846
First immunoglobulin (Ig) variable (V) domain of rat MRC OX-2 antigen, and similar domains; ...
 94-132 6.37e-03

First immunoglobulin (Ig) variable (V) domain of rat MRC OX-2 antigen, and similar domains; The members here are composed of the first immunoglobulin (Ig) domain of rat MRC OX-2 antigen (also known as CD200) and similar proteins. MRC OX-2 is a membrane glycoprotein expressed in a variety of lymphoid and non-lymphoid cells in rats. It has a similar broad distribution pattern in humans. MRC OX-2 may regulate myeloid cell activity. The protein has an extracellular portion containing two Ig-like domains, a transmembrane portion, and a cytoplasmic portion.


Pssm-ID: 409433  Cd Length: 108  Bit Score: 35.40  E-value: 6.37e-03
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1721910660  94 EPVVGVYHERVEFVgSSRRNNISILLWNITFEDRGDYVC 132
Cdd:cd05846    53 VKIQPSYVRRISFT-SSGLNSTSITIWNVTLEDEGCYKC 90
 
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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