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Conserved domains on  [gi|746815964|ref|NP_001290438|]
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immunoglobulin iota chain isoform 2 [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 ...
 21-117 1.08e-34

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: 116.41  E-value: 1.08e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  21 VLHQPPAMSSALGTTIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRYfsqsDKSQGPQVPPRFSGSKDvaRNRGYLS 100
Cdd:cd04984    1 VLTQPSSLSVSPGETVTITCTGSSG-NISGNYVNWYQQKPGSAPRYLIYE----DKHRPSGIPDRFSGSKS--GNTASLT 73

                         90
                 ....*....|....*..
gi 746815964 101 ISELQPEDEAMYYCAMG 117
Cdd:cd04984   74 ISGAQTEDEADYYCQVW 90
 
Name Accession Description Interval E-value
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 21-117 1.08e-34

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: 116.41  E-value: 1.08e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  21 VLHQPPAMSSALGTTIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRYfsqsDKSQGPQVPPRFSGSKDvaRNRGYLS 100
Cdd:cd04984    1 VLTQPSSLSVSPGETVTITCTGSSG-NISGNYVNWYQQKPGSAPRYLIYE----DKHRPSGIPDRFSGSKS--GNTASLT 73

                         90
                 ....*....|....*..
gi 746815964 101 ISELQPEDEAMYYCAMG 117
Cdd:cd04984   74 ISGAQTEDEADYYCQVW 90
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-120 5.66e-26

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: 94.45  E-value: 5.66e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964   24 QPPAMSSALGTTIRLTCTLRNDHDIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSqgPQVPPRFSGSKDVARNRGYLSISE 103
Cdd:pfam07686   2 TPREVTVALGGSVTLPCTYSSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEE--GVKKGRFSGRGDPSNGDGSLTIQN 79

                          90
                  ....*....|....*..
gi 746815964  104 LQPEDEAMYYCAMGARS 120
Cdd:pfam07686  80 LTLSDSGTYTCAVIPSG 96
IGv smart00406
Immunoglobulin V-Type;
35-115 5.87e-23

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 85.90  E-value: 5.87e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964    35 TIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSQGPQVPPRFSGSKDVARNRGYLSISELQPEDEAMYYC 114
Cdd:smart00406   1 SVTLSCKFSGS-TFSSYYVSWVRQPPGKGLEWLGYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   .
gi 746815964   115 A 115
Cdd:smart00406  80 A 80
 
Name Accession Description Interval E-value
IgV_L_lambda cd04984
Immunoglobulin (Ig) lambda light chain variable (V) domain; The members here are composed of ...
 21-117 1.08e-34

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: 116.41  E-value: 1.08e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  21 VLHQPPAMSSALGTTIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRYfsqsDKSQGPQVPPRFSGSKDvaRNRGYLS 100
Cdd:cd04984    1 VLTQPSSLSVSPGETVTITCTGSSG-NISGNYVNWYQQKPGSAPRYLIYE----DKHRPSGIPDRFSGSKS--GNTASLT 73

                         90
                 ....*....|....*..
gi 746815964 101 ISELQPEDEAMYYCAMG 117
Cdd:cd04984   74 ISGAQTEDEADYYCQVW 90
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 24-120 5.66e-26

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: 94.45  E-value: 5.66e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964   24 QPPAMSSALGTTIRLTCTLRNDHDIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSqgPQVPPRFSGSKDVARNRGYLSISE 103
Cdd:pfam07686   2 TPREVTVALGGSVTLPCTYSSSMSEASTSVYWYRQPPGKGPTFLIAYYSNGSEE--GVKKGRFSGRGDPSNGDGSLTIQN 79

                          90
                  ....*....|....*..
gi 746815964  104 LQPEDEAMYYCAMGARS 120
Cdd:pfam07686  80 LTLSDSGTYTCAVIPSG 96
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 22-121 3.83e-25

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: 92.40  E-value: 3.83e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  22 LHQPPA-MSSALGTTIRLTCTLRNDhdIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSQGpQVPPRFSGSKDvARNRGYLS 100
Cdd:cd00099    1 VTQSPRsLSVQEGESVTLSCEVSSS--FSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKG-GVPGRFSGSRD-GTSSFSLT 76

                         90       100
                 ....*....|....*....|.
gi 746815964 101 ISELQPEDEAMYYCAMGARSS 121
Cdd:cd00099   77 ISNLQPEDSGTYYCAVSESGG 97
IGv smart00406
Immunoglobulin V-Type;
35-115 5.87e-23

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 85.90  E-value: 5.87e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964    35 TIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSQGPQVPPRFSGSKDVARNRGYLSISELQPEDEAMYYC 114
Cdd:smart00406   1 SVTLSCKFSGS-TFSSYYVSWVRQPPGKGLEWLGYIGSNGSSYYQESYKGRFTISKDTSKNDVSLTISNLRVEDTGTYYC 79


                   .
gi 746815964   115 A 115
Cdd:smart00406  80 A 80
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 41-121 1.47e-17

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: 72.70  E-value: 1.47e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  41 TLRNDHDIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSQGPQVPPRFSGSKdVARNRGYLSISELQPEDEAMYYCAMGARS 120
Cdd:cd05899   17 TLRCSQKSGHDNMYWYRQDPGKGLQLLFYSYGGGLNEEGDLPGDRFSASR-PSLTRSSLTIKSAEPEDSAVYLCASSLGG 95


                 .
gi 746815964 121 S 121
Cdd:cd05899   96 G 96
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 21-114 7.23e-17

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: 70.88  E-value: 7.23e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  21 VLHQPPA-MSSALGTTIRLTCtlRNDHDIGVYSVYWYQQRPGHPPRFLLRYFSQSDksqgPQVPPRFSGSkdvarNRGY- 98
Cdd:cd04980    2 VMTQSPAsLSVSPGERVTISC--KASQSISSNYLAWYQQKPGQAPKLLIYYASTLH----SGVPSRFSGS-----GSGTd 70

                         90
                 ....*....|....*...
gi 746815964  99 --LSISELQPEDEAMYYC 114
Cdd:cd04980   71 ftLTISSVEPEDAAVYYC 88
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 25-121 1.88e-15

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: 67.30  E-value: 1.88e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  25 PPAMSSALGTTIRLTCtlrNDHDIGVYSVYWYQQRPGHPPRFLLRYFSQSDKSQGPqvppRFSGSKDVARNRGYLSISEL 104
Cdd:cd04983    5 PQSLSVQEGENVTLNC---NYSTSTFYYLFWYRQYPGQGPQFLIYISSDSGNKKKG----RFSATLDKSRKSSSLHISAA 77

                         90
                 ....*....|....*..
gi 746815964 105 QPEDEAMYYCAMGARSS 121
Cdd:cd04983   78 QLSDSAVYFCALSESGG 94
IgV_TCR_gamma cd04982
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) gamma chain; The members here ...
 22-121 1.18e-14

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: 65.46  E-value: 1.18e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  22 LHQPP-AMSSALGTTIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRYFSQS-DKSQGPQVPPRFSGSKDVARNRGYL 99
Cdd:cd04982    1 LEQPQlSITREESKSVTISCKVSGI-DFSTTYIHWYRQKPGQALERLLYVSSTSaVRKDSGKTKNKFEARKDVGKSTSTL 79

                         90       100
                 ....*....|....*....|..
gi 746815964 100 SISELQPEDEAMYYCAMGARSS 121
Cdd:cd04982   80 TITNLEKEDSATYYCAYWESGS 101
IgV_H cd04981
Immunoglobulin (Ig) heavy chain (H), variable (V) domain; The members here are composed of the ...
 22-121 4.80e-12

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: 58.86  E-value: 4.80e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  22 LHQPPAMSSALGTTIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFL-LRYFSQSDKSQGPQVPPRFSGSKDVARNRGYLS 100
Cdd:cd04981    2 LQESGPGLVKPGQSLKLSCKASGF-TFTSYGMGWVRQAPGKGLEWIgLIYPGGGDTYYADSFKGRFTITRDTSKSTAYLQ 80

                         90       100
                 ....*....|....*....|.
gi 746815964 101 ISELQPEDEAMYYCAMGARSS 121
Cdd:cd04981   81 LNSLTSEDTAVYYCARGLGGY 101
IgV_TCR_delta cd07706
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) delta chain; The members here ...
 26-119 7.01e-09

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: 50.21  E-value: 7.01e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  26 PAMSSALGTTIRLTCTLRNDHDigVYSVYWYQQRPGHPPRFLLRyfsQSDKSQGpQVPPRFSGSKDVARNRGYLSISELQ 105
Cdd:cd07706    7 PDVSVQVGEEVTLNCRYETSWT--NYYLFWYKQLPSGEMTFLIR---QDSSEQN-AKSGRYSVNFQKAQKSISLTISALQ 80

                         90
                 ....*....|....
gi 746815964 106 PEDEAMYYCAMGAR 119
Cdd:cd07706   81 LEDSAKYFCALSLP 94
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 25-115 7.99e-09

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: 49.43  E-value: 7.99e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964    25 PPAMSSALGTTIRLTCTLRNDHDigvYSVYWYQQRPghpprfllryfsqsdksQGPQVPPRFSGSKDvaRNRGYLSISEL 104
Cdd:smart00410   1 PPSVTVKEGESVTLSCEASGSPP---PEVTWYKQGG-----------------KLLAESGRFSVSRS--GSTSTLTISNV 58

                           90
                   ....*....|.
gi 746815964   105 QPEDEAMYYCA 115
Cdd:smart00410  59 TPEDSGTYTCA 69
IgV_TCR_gammadelta cd20988
Gammadelta T-cell antigen receptor, variable (V) domain; The members here are composed of the ...
 23-115 5.28e-08

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: 48.32  E-value: 5.28e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  23 HQppAMSSALGTTIRLTCTLRNDhDIGVYSVYWYQQRPGHPPRFLLRyfsqSDKSQGPQVPPRFSGSKDVARNRGYLSIS 102
Cdd:cd20988    5 HQ--TVTVSVGKPVTLKCSMKGE-AISNYYINWYRKTQGNTMTFIYR----EGGIYGPGFKDNFRGDIDSSNNLAVLKIL 77

                         90
                 ....*....|...
gi 746815964 103 ELQPEDEAMYYCA 115
Cdd:cd20988   78 EASERDEGSYYCA 90
IgV_CD8_alpha cd05720
Immunoglobulin (Ig)-like variable (V) domain of Cluster of Differentiation (CD) 8 alpha chain; ...
 25-114 1.47e-05

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: 41.70  E-value: 1.47e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  25 PPAMSSALGTTIRLTCTLRNDHDIGVYsvyWYQQRPGHP--PRFLLrYFSQSdksQGPQVPP-----RFSGSKDvaRNRG 97
Cdd:cd05720    5 PRKRDAQLGQKVELVCEVLNSVPQGCS---WLFQPRGSApqPTFLL-YLSSS---NKTKWAEgldskRFSGSRS--GSSY 75

                         90
                 ....*....|....*..
gi 746815964  98 YLSISELQPEDEAMYYC 114
Cdd:cd05720   76 VLTLKDFRKEDEGYYFC 92
IgV_CD8_beta cd07700
Immunoglobulin (Ig) variable (V) domain of Cluster of Differentiation (CD) 8 beta chain; The ...
 52-116 7.69e-05

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: 39.74  E-value: 7.69e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  52 SVYWYQQRPGHPPR----FLLRYFSQSDKSQGPQV-PPRFSGSKDVARNRGYLSISELQPEDEAMYYCAM 116
Cdd:cd07700   30 RIYWLRQRQAPSKDshfeFLASWDPSKGIVYGEGVdQEKLIILSDSDSSRYILSLMSVKPEDSGTYFCMT 99
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 25-114 9.53e-05

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: 39.33  E-value: 9.53e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  25 PPAMSSALGTTIRLTCTLRNDHDIG-VYSVYWYQQRPGHPPRFLLRYFSQSDKSQGPqvPPRF----SGSKDVARNRGYL 99
Cdd:cd05715    6 PRELNVLNGSDVRLTCTFTSCYTVGdAFSVTWTYQPEGGNTTESMFHYSKGKPYILK--VGRFkdrvSWAGNPSKKDASI 83

                         90
                 ....*....|....*
gi 746815964 100 SISELQPEDEAMYYC 114
Cdd:cd05715   84 VISNLQFSDNGTYTC 98
IgV_CRIg cd16089
Immunoglobulin variable (IgV)-like domain in complement receptor of the immunoglobulin ...
 20-115 7.83e-03

Immunoglobulin variable (IgV)-like domain in complement receptor of the immunoglobulin superfamily (CRIg); The members here are composed of the immunoglobulin variable (IgV) region of the complement receptor of the immunoglobulin superfamily (CRIg). The N-terminal domain of CRIg (also known as Z39Ig and V-set and Ig domain-containing 4 (VSIG4) belongs to the IgV family of immunoglobulin-like domains while the C-terminal domain of CRIg belongs to the IgC family of immunoglobulin-like domains. Like all members of this family, the CRIg domain contains two beta-sheets: one composed of strands A', G, F, C, C' and C", and the other of strands B, E and D. The complement system is an important part of the innate immune system and is required for removal of pathogens from the bloodstream. After exposure to pathogens, the third component of the complement system, C3, is cleaved to C3b which, after recruitment of factor B, initiates formation of the alternative pathway convertases. CRIg, a complement receptor expressed on macrophages, binds to C3b and iC3b mediating phagocytosis of the particles. It is also a potent inhibitor of the alternative pathway convertases and a negative regulator of T cell activation. 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, such as, T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, such as, 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.


Pssm-ID: 409510  Cd Length: 117  Bit Score: 34.42  E-value: 7.83e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 746815964  20 PVLHQPPAMSSALGTTIRLTCTLRNDHDIGVYSVYWYQQRPGHPPRFLLRYFS----QSDKSQGpqvppRFSGSKDVARN 95
Cdd:cd16089    1 PILEGPESITGPWKGSVNLPCTYVPEEGYTQVLVKWLVQRDSDPVTIFLRDSSgdhiQQAKYRG-----RLEVSKDTPGD 75

                         90       100
                 ....*....|....*....|
gi 746815964  96 RGyLSISELQPEDEAMYYCA 115
Cdd:cd16089   76 VS-LQLDTLEMDDRGHYTCQ 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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