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Conserved domains on  [gi|157821753|ref|NP_001102400|]
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pre-B lymphocyte protein 3 isoform 2 [Rattus norvegicus]

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 ...
 18-103 8.26e-21

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 cd04984:

Pssm-ID: 472250  Cd Length: 105  Bit Score: 79.81  E-value: 8.26e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSQqaSVEDTGVSWYQQQPGGSPHFLYYHSKEedyRPADIPDRFSATMDvvHNACVLTISPVLPEDDADY 97
Cdd:cd04984   13 GETVTITCTGSSG--NISGNYVNWYQQKPGSAPRYLIYEDKH---RPSGIPDRFSGSKS--GNTASLTISGAQTEDEADY 85


                 ....*.
gi 157821753  98 FCSIAH 103
Cdd:cd04984   86 YCQVWD 91
 
Name Accession Description Interval E-value
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 18-103 8.26e-21

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: 79.81  E-value: 8.26e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSQqaSVEDTGVSWYQQQPGGSPHFLYYHSKEedyRPADIPDRFSATMDvvHNACVLTISPVLPEDDADY 97
Cdd:cd04984   13 GETVTITCTGSSG--NISGNYVNWYQQKPGSAPRYLIYEDKH---RPSGIPDRFSGSKS--GNTASLTISGAQTEDEADY 85


                 ....*.
gi 157821753  98 FCSIAH 103
Cdd:cd04984   86 YCQVWD 91
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 18-106 2.71e-14

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: 63.25  E-value: 2.71e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753   18 GQEAQLSCTINSQQaSVEDTGVSWYQQQPGGSPHFL--YYHSKEEDYRPadiPDRFSATMDVVHNACVLTISPVLPEDDA 95
Cdd:pfam07686  11 GGSVTLPCTYSSSM-SEASTSVYWYRQPPGKGPTFLiaYYSNGSEEGVK---KGRFSGRGDPSNGDGSLTIQNLTLSDSG 86

                          90
                  ....*....|.
gi 157821753   96 DYFCSIAHFEP 106
Cdd:pfam07686  87 TYTCAVIPSGE 97
IGv smart00406
Immunoglobulin V-Type;
23-101 4.03e-13

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 59.32  E-value: 4.03e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753    23 LSCTinSQQASVEDTGVSWYQQQPGGSPHFLYYHSKE-EDYRPADIPDRFSATMDVVHNACVLTISPVLPEDDADYFCSI 101
Cdd:smart00406   4 LSCK--FSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNgSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYCAV 81
 
Name Accession Description Interval E-value
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 18-103 8.26e-21

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: 79.81  E-value: 8.26e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSQqaSVEDTGVSWYQQQPGGSPHFLYYHSKEedyRPADIPDRFSATMDvvHNACVLTISPVLPEDDADY 97
Cdd:cd04984   13 GETVTITCTGSSG--NISGNYVNWYQQKPGSAPRYLIYEDKH---RPSGIPDRFSGSKS--GNTASLTISGAQTEDEADY 85


                 ....*.
gi 157821753  98 FCSIAH 103
Cdd:cd04984   86 YCQVWD 91
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 18-99 2.79e-19

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: 75.83  E-value: 2.79e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSqqaSVEDTGVSWYQQQPGGSPHFLYYHSKEEDYRPADIPDRFSATMDvVHNACVLTISPVLPEDDADY 97
Cdd:cd00099   13 GESVTLSCEVSS---SFSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKGGVPGRFSGSRD-GTSSFSLTISNLQPEDSGTY 88


                 ..
gi 157821753  98 FC 99
Cdd:cd00099   89 YC 90
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 18-99 1.70e-15

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: 66.26  E-value: 1.70e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSqqaSVEDTGVSWYQQQPGGSPHFLYYhskEEDYRPADIPDRFSAT---MDVvhnacVLTISPVLPEDD 94
Cdd:cd04980   15 GERVTISCKASQ---SISSNYLAWYQQKPGQAPKLLIY---YASTLHSGVPSRFSGSgsgTDF-----TLTISSVEPEDA 83


                 ....*
gi 157821753  95 ADYFC 99
Cdd:cd04980   84 AVYYC 88
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 18-106 2.71e-14

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: 63.25  E-value: 2.71e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753   18 GQEAQLSCTINSQQaSVEDTGVSWYQQQPGGSPHFL--YYHSKEEDYRPadiPDRFSATMDVVHNACVLTISPVLPEDDA 95
Cdd:pfam07686  11 GGSVTLPCTYSSSM-SEASTSVYWYRQPPGKGPTFLiaYYSNGSEEGVK---KGRFSGRGDPSNGDGSLTIQNLTLSDSG 86

                          90
                  ....*....|.
gi 157821753   96 DYFCSIAHFEP 106
Cdd:pfam07686  87 TYTCAVIPSGE 97
IGv smart00406
Immunoglobulin V-Type;
23-101 4.03e-13

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 59.32  E-value: 4.03e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753    23 LSCTinSQQASVEDTGVSWYQQQPGGSPHFLYYHSKE-EDYRPADIPDRFSATMDVVHNACVLTISPVLPEDDADYFCSI 101
Cdd:smart00406   4 LSCK--FSGSTFSSYYVSWVRQPPGKGLEWLGYIGSNgSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYCAV 81
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 18-100 1.96e-11

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: 55.75  E-value: 1.96e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSQQASVedtgvSWYQQQPGGSPHFLYYHSKEEDYRPADIP-DRFSATMdvvHNA--CVLTISPVLPEDD 94
Cdd:cd05899   13 GQSVTLRCSQKSGHDNM-----YWYRQDPGKGLQLLFYSYGGGLNEEGDLPgDRFSASR---PSLtrSSLTIKSAEPEDS 84


                 ....*.
gi 157821753  95 ADYFCS 100
Cdd:cd05899   85 AVYLCA 90
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 18-99 5.19e-10

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: 51.89  E-value: 5.19e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTInsqqasvEDTGVS---WYQQQPGGSPHFLYYHSKEEDYRPADipdRFSATMDVVHNACVLTISPVLPEDD 94
Cdd:cd04983   13 GENVTLNCNY-------STSTFYylfWYRQYPGQGPQFLIYISSDSGNKKKG---RFSATLDKSRKSSSLHISAAQLSDS 82


                 ....*
gi 157821753  95 ADYFC 99
Cdd:cd04983   83 AVYFC 87
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 18-101 1.99e-09

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: 50.82  E-value: 1.99e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSQQASveDTGVSWYQQQPGGSP-HFLYYHSKEEDYRPADIP-DRFSATMDVVHNACVLTISPVLPEDDA 95
Cdd:cd04982   13 SKSVTISCKVSGIDFS--TTYIHWYRQKPGQALeRLLYVSSTSAVRKDSGKTkNKFEARKDVGKSTSTLTITNLEKEDSA 90


                 ....*.
gi 157821753  96 DYFCSI 101
Cdd:cd04982   91 TYYCAY 96
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 17-106 1.40e-08

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


Pssm-ID: 409503  Cd Length: 112  Bit Score: 48.28  E-value: 1.40e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  17 SGQEAQLSCTINSQQASVEdtgVSWYQQQPGGSPHFLYYHSKEEDyrpADIPDRFSATMDVVHNACVLTISPVLPEDDAD 96
Cdd:cd07706   13 VGEEVTLNCRYETSWTNYY---LFWYKQLPSGEMTFLIRQDSSEQ---NAKSGRYSVNFQKAQKSISLTISALQLEDSAK 86

                         90
                 ....*....|
gi 157821753  97 YFCSIAHFEP 106
Cdd:cd07706   87 YFCALSLPYD 96
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 18-99 6.92e-08

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: 45.96  E-value: 6.92e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753    18 GQEAQLSCTINSQqasvEDTGVSWYQQQPggsphflyyhskeedyRPADIPDRFSATMDvvHNACVLTISPVLPEDDADY 97
Cdd:smart00410   9 GESVTLSCEASGS----PPPEVTWYKQGG----------------KLLAESGRFSVSRS--GSTSTLTISNVTPEDSGTY 66


                   ..
gi 157821753    98 FC 99
Cdd:smart00410  67 TC 68
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 18-102 1.58e-07

Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; The members here are composed of the immunoglobulin (Ig)-like variable domain of the Cluster of Differentiation (CD) 8 alpha. 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. The Ig domain of CD8 alpha binds to antibodies. Members of this group contain standard Ig superfamily V-set AGFCC'C"/DEB domain topology.


Pssm-ID: 409385  Cd Length: 110  Bit Score: 45.55  E-value: 1.58e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSC-TINSQqasveDTGVSWYQQQPG--GSPHFLYYHSKEEDYRPADIPD--RFSATMDvvHNACVLTISPVLPE 92
Cdd:cd05720   13 GQKVELVCeVLNSV-----PQGCSWLFQPRGsaPQPTFLLYLSSSNKTKWAEGLDskRFSGSRS--GSSYVLTLKDFRKE 85

                         90
                 ....*....|
gi 157821753  93 DDADYFCSIA 102
Cdd:cd05720   86 DEGYYFCSVI 95
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 16-101 5.43e-06

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: 41.65  E-value: 5.43e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  16 LSGQEAQLSCTINSQQASVEDTGVSW-YQQQPGGSPHFLYYHSKEEDYRPADIP--DRFSATMDVVHNACVLTISPVLPE 92
Cdd:cd05715   12 LNGSDVRLTCTFTSCYTVGDAFSVTWtYQPEGGNTTESMFHYSKGKPYILKVGRfkDRVSWAGNPSKKDASIVISNLQFS 91


                 ....*....
gi 157821753  93 DDADYFCSI 101
Cdd:cd05715   92 DNGTYTCDV 100
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 18-100 2.29e-04

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


Pssm-ID: 409580  Cd Length: 114  Bit Score: 37.54  E-value: 2.29e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSQqaSVEDTGVSWYQQQPGGSPHFLYyhsKEEDYRPADIPDRFSATMDVVHNACVLTISPVLPEDDADY 97
Cdd:cd20988   13 GKPVTLKCSMKGE--AISNYYINWYRKTQGNTMTFIY---REGGIYGPGFKDNFRGDIDSSNNLAVLKILEASERDEGSY 87


                 ...
gi 157821753  98 FCS 100
Cdd:cd20988   88 YCA 90
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 18-99 3.72e-04

Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the immunoglobulin (Ig) heavy chain (H), 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. 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. 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 can associate with any of the heavy chains. This family includes alpha, gamma, delta, epsilon, and mu heavy chains.


Pssm-ID: 409370 [Multi-domain]  Cd Length: 118  Bit Score: 36.90  E-value: 3.72e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157821753  18 GQEAQLSCTINSqqASVEDTGVSWYQQQPGGSPH---FLYYHSKEEDYRPaDIPDRFSATMDVVHNACVLTISPVLPEDD 94
Cdd:cd04981   13 GQSLKLSCKASG--FTFTSYGMGWVRQAPGKGLEwigLIYPGGGDTYYAD-SFKGRFTITRDTSKSTAYLQLNSLTSEDT 89


                 ....*
gi 157821753  95 ADYFC 99
Cdd:cd04981   90 AVYYC 94
 
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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