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Conserved domains on  [gi|543583750|ref|NP_001269488|]
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HERV-H LTR-associating protein 2 isoform c [Homo sapiens]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 10309807)

immunoglobulin (Ig) domain-containing protein with one or more Ig domains, which adopt a fold comprised of a sandwich of two beta sheets and may function in cell adhesion and/or pattern recognition; similar to matrix remodeling-associated protein 8 which can modulate activity of various signaling pathways, probably via binding to integrin ITGAV:ITGB3

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 167-266 2.21e-15

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: 71.34  E-value: 2.21e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  167 LHKMQSEHVSLSCQpvNDYFSPNQDFKVTWSRMKSG--TFSVLAYYlSSSQNTIINESRFSWNKeLINQSDFSMNLMDLN 244
Cdd:pfam07686   6 VTVALGGSVTLPCT--YSSSMSEASTSVYWYRQPPGkgPTFLIAYY-SNGSEEGVKKGRFSGRG-DPSNGDGSLTIQNLT 81

                          90       100
                  ....*....|....*....|....*...
gi 543583750  245 LSDSGEYLCNISSDEY------TLLTIH 266
Cdd:pfam07686  82 LSDSGTYTCAVIPSGEgvfgkgTRLTVL 109
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 45-74 6.09e-08

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 cd16091:

Pssm-ID: 472250  Cd Length: 107  Bit Score: 50.08  E-value: 6.09e-08
                         10        20        30
                 ....*....|....*....|....*....|
gi 543583750  45 RRVSLLDEGIYTCYVGTAIQVITNKVVLKV 74
Cdd:cd16091   78 RRVQLQDEGRYKCYTSTIIGNQESFVNLKV 107
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 76-156 3.45e-05

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 cd00098:

Pssm-ID: 472250  Cd Length: 95  Bit Score: 42.06  E-value: 3.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  76 VFLTPVMKYEKRNTNSFLICSVLSVYPRPI-ITWKMDNTPISENNMEETGSL---DSFSINSPLNIT----GSNSSYECT 147
Cdd:cd00098    2 VTLLPPSPEEKGGGKVTLVCLVSGFYPKDItVTWLKNGVPLTSGVSTSSPVEpndGTYSVTSSLTVPpsdwDEGATYTCV 81


                 ....*....
gi 543583750 148 IENSLLKQT 156
Cdd:cd00098   82 VTHESLKSP 90
 
Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 167-266 2.21e-15

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: 71.34  E-value: 2.21e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  167 LHKMQSEHVSLSCQpvNDYFSPNQDFKVTWSRMKSG--TFSVLAYYlSSSQNTIINESRFSWNKeLINQSDFSMNLMDLN 244
Cdd:pfam07686   6 VTVALGGSVTLPCT--YSSSMSEASTSVYWYRQPPGkgPTFLIAYY-SNGSEEGVKKGRFSGRG-DPSNGDGSLTIQNLT 81

                          90       100
                  ....*....|....*....|....*...
gi 543583750  245 LSDSGEYLCNISSDEY------TLLTIH 266
Cdd:pfam07686  82 LSDSGTYTCAVIPSGEgvfgkgTRLTVL 109
IgV_HHLA2 cd16091
Immunoglobulin Variable (IgV) domain in HERV-H LTR-associating 2 (HHLA2); The members here are ...
 45-74 6.09e-08

Immunoglobulin Variable (IgV) domain in HERV-H LTR-associating 2 (HHLA2); The members here are composed of the immunoglobulin variable (IgV) region in HERV-H LTR-associating 2 (HHLA2; also known as B7-H7/B7 homolog 7). HHLA2 is a member of the B7 family of immune regulatory proteins. Mature human HHLA2 consists of an extracellular domain (ECD) with three immunoglobulin-like domains, a transmembrane segment, and a cytoplasmic domain. HHLA2 is widely expressed in human cancers including non-small cell lung carcinoma (NSCLS), triple negative breast cancer (TNBC), and melanoma, but has limited expression on normal tissues. Interestingly, unlike other members of B7 family, HHLA2 is not expressed in mice or rats. HHLA2 functions as a T cell coinhibitory molecules as it inhibits the proliferation of activated CD4(+) and CD8(+) T cells and their cytokine production. Furthermore, HHLA2 is constitutively expressed on the surface of human monocytes and is induced on B cells after stimulation, however it is not inducible on T cells.


Pssm-ID: 409512  Cd Length: 107  Bit Score: 50.08  E-value: 6.09e-08
                         10        20        30
                 ....*....|....*....|....*....|
gi 543583750  45 RRVSLLDEGIYTCYVGTAIQVITNKVVLKV 74
Cdd:cd16091   78 RRVQLQDEGRYKCYTSTIIGNQESFVNLKV 107
IGv smart00406
Immunoglobulin V-Type;
175-253 2.25e-07

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 47.76  E-value: 2.25e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750   175 VSLSCQpvndyFSPNQ--DFKVTWSRMKSGTFSVLAYYLSSSQNTIINES---RFSWNKELiNQSDFSMNLMDLNLSDSG 249
Cdd:smart00406   2 VTLSCK-----FSGSTfsSYYVSWVRQPPGKGLEWLGYIGSNGSSYYQESykgRFTISKDT-SKNDVSLTISNLRVEDTG 75


                   ....
gi 543583750   250 EYLC 253
Cdd:smart00406  76 TYYC 79
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 76-156 3.45e-05

Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, classical Ig-like domains resembling the antibody constant domain. Members of the IgC1 family are components of immunoglobulin, T-cell receptors, CD1 cell surface glycoproteins, secretory glycoproteins A/C, and major histocompatibility complex (MHC) class I/II molecules. In immunoglobulins, each chain is composed of one variable domain (IgV) and one or more IgC domains. These names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. The IgV domain is responsible for antigen binding, while the IgC domain is involved in oligomerization and molecular interactions. 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 strands by G, F, C, and C'.


Pssm-ID: 409354  Cd Length: 95  Bit Score: 42.06  E-value: 3.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  76 VFLTPVMKYEKRNTNSFLICSVLSVYPRPI-ITWKMDNTPISENNMEETGSL---DSFSINSPLNIT----GSNSSYECT 147
Cdd:cd00098    2 VTLLPPSPEEKGGGKVTLVCLVSGFYPKDItVTWLKNGVPLTSGVSTSSPVEpndGTYSVTSSLTVPpsdwDEGATYTCV 81


                 ....*....
gi 543583750 148 IENSLLKQT 156
Cdd:cd00098   82 VTHESLKSP 90
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 167-261 4.69e-05

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: 41.94  E-value: 4.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750 167 LHKMQSEHVSLSCQpvndYFSPNQDFKVTWSRMKSGTFSVLAYYLSSSQNTIIN--ESRFSWNKELinQSDFSMNLMDLN 244
Cdd:cd00099    8 LSVQEGESVTLSCE----VSSSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKGgvPGRFSGSRDG--TSSFSLTISNLQ 81

                         90       100
                 ....*....|....*....|.
gi 543583750 245 LSDSGEYLC----NISSDEYT 261
Cdd:cd00099   82 PEDSGTYYCavseSGGTDKLT 102
C1-set pfam07654
Immunoglobulin C1-set domain;
76-150 5.38e-04

Immunoglobulin C1-set domain;


Pssm-ID: 462221  Cd Length: 85  Bit Score: 38.39  E-value: 5.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750   76 VFLTPVMKYEKRNTNSfLICSVLSVYPRPI-ITWKMDNTPISENNMEETGSLD---SFSINSPLNITGSN----SSYECT 147
Cdd:pfam07654   1 VYVFPPSPEELGKPNT-LTCLVTGFYPPDItVTWLKNGQEVTEGVKTTPPSPNsdwTYQLSSYLTVTPSDwesgDEYTCR 79


                  ...
gi 543583750  148 IEN 150
Cdd:pfam07654  80 VEH 82
 
Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 167-266 2.21e-15

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: 71.34  E-value: 2.21e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  167 LHKMQSEHVSLSCQpvNDYFSPNQDFKVTWSRMKSG--TFSVLAYYlSSSQNTIINESRFSWNKeLINQSDFSMNLMDLN 244
Cdd:pfam07686   6 VTVALGGSVTLPCT--YSSSMSEASTSVYWYRQPPGkgPTFLIAYY-SNGSEEGVKKGRFSGRG-DPSNGDGSLTIQNLT 81

                          90       100
                  ....*....|....*....|....*...
gi 543583750  245 LSDSGEYLCNISSDEY------TLLTIH 266
Cdd:pfam07686  82 LSDSGTYTCAVIPSGEgvfgkgTRLTVL 109
IgV_HHLA2 cd16091
Immunoglobulin Variable (IgV) domain in HERV-H LTR-associating 2 (HHLA2); The members here are ...
 45-74 6.09e-08

Immunoglobulin Variable (IgV) domain in HERV-H LTR-associating 2 (HHLA2); The members here are composed of the immunoglobulin variable (IgV) region in HERV-H LTR-associating 2 (HHLA2; also known as B7-H7/B7 homolog 7). HHLA2 is a member of the B7 family of immune regulatory proteins. Mature human HHLA2 consists of an extracellular domain (ECD) with three immunoglobulin-like domains, a transmembrane segment, and a cytoplasmic domain. HHLA2 is widely expressed in human cancers including non-small cell lung carcinoma (NSCLS), triple negative breast cancer (TNBC), and melanoma, but has limited expression on normal tissues. Interestingly, unlike other members of B7 family, HHLA2 is not expressed in mice or rats. HHLA2 functions as a T cell coinhibitory molecules as it inhibits the proliferation of activated CD4(+) and CD8(+) T cells and their cytokine production. Furthermore, HHLA2 is constitutively expressed on the surface of human monocytes and is induced on B cells after stimulation, however it is not inducible on T cells.


Pssm-ID: 409512  Cd Length: 107  Bit Score: 50.08  E-value: 6.09e-08
                         10        20        30
                 ....*....|....*....|....*....|
gi 543583750  45 RRVSLLDEGIYTCYVGTAIQVITNKVVLKV 74
Cdd:cd16091   78 RRVQLQDEGRYKCYTSTIIGNQESFVNLKV 107
IGv smart00406
Immunoglobulin V-Type;
175-253 2.25e-07

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 47.76  E-value: 2.25e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750   175 VSLSCQpvndyFSPNQ--DFKVTWSRMKSGTFSVLAYYLSSSQNTIINES---RFSWNKELiNQSDFSMNLMDLNLSDSG 249
Cdd:smart00406   2 VTLSCK-----FSGSTfsSYYVSWVRQPPGKGLEWLGYIGSNGSSYYQESykgRFTISKDT-SKNDVSLTISNLRVEDTG 75


                   ....
gi 543583750   250 EYLC 253
Cdd:smart00406  76 TYYC 79
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 76-156 3.45e-05

Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, classical Ig-like domains resembling the antibody constant domain. Members of the IgC1 family are components of immunoglobulin, T-cell receptors, CD1 cell surface glycoproteins, secretory glycoproteins A/C, and major histocompatibility complex (MHC) class I/II molecules. In immunoglobulins, each chain is composed of one variable domain (IgV) and one or more IgC domains. These names reflect the fact that the variability in sequences is higher in the variable domain than in the constant domain. The IgV domain is responsible for antigen binding, while the IgC domain is involved in oligomerization and molecular interactions. 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 strands by G, F, C, and C'.


Pssm-ID: 409354  Cd Length: 95  Bit Score: 42.06  E-value: 3.45e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  76 VFLTPVMKYEKRNTNSFLICSVLSVYPRPI-ITWKMDNTPISENNMEETGSL---DSFSINSPLNIT----GSNSSYECT 147
Cdd:cd00098    2 VTLLPPSPEEKGGGKVTLVCLVSGFYPKDItVTWLKNGVPLTSGVSTSSPVEpndGTYSVTSSLTVPpsdwDEGATYTCV 81


                 ....*....
gi 543583750 148 IENSLLKQT 156
Cdd:cd00098   82 VTHESLKSP 90
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 167-261 4.69e-05

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: 41.94  E-value: 4.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750 167 LHKMQSEHVSLSCQpvndYFSPNQDFKVTWSRMKSGTFSVLAYYLSSSQNTIIN--ESRFSWNKELinQSDFSMNLMDLN 244
Cdd:cd00099    8 LSVQEGESVTLSCE----VSSSFSSTYIYWYRQKPGQGPEFLIYLSSSKGKTKGgvPGRFSGSRDG--TSSFSLTISNLQ 81

                         90       100
                 ....*....|....*....|.
gi 543583750 245 LSDSGEYLC----NISSDEYT 261
Cdd:cd00099   82 PEDSGTYYCavseSGGTDKLT 102
IgV_TCR_beta cd05899
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) beta chain; The members here ...
 169-258 1.80e-04

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: 40.34  E-value: 1.80e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750 169 KMQSEHVSLSCQPVNDYFSpnqdfkVTWSRMKSG-TFSVLAYYLSSSQNTIIN--ESRFSWNKEliNQSDFSMNLMDLNL 245
Cdd:cd05899   10 KRRGQSVTLRCSQKSGHDN------MYWYRQDPGkGLQLLFYSYGGGLNEEGDlpGDRFSASRP--SLTRSSLTIKSAEP 81

                         90
                 ....*....|...
gi 543583750 246 SDSGEYLCNISSD 258
Cdd:cd05899   82 EDSAVYLCASSLG 94
C1-set pfam07654
Immunoglobulin C1-set domain;
76-150 5.38e-04

Immunoglobulin C1-set domain;


Pssm-ID: 462221  Cd Length: 85  Bit Score: 38.39  E-value: 5.38e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750   76 VFLTPVMKYEKRNTNSfLICSVLSVYPRPI-ITWKMDNTPISENNMEETGSLD---SFSINSPLNITGSN----SSYECT 147
Cdd:pfam07654   1 VYVFPPSPEELGKPNT-LTCLVTGFYPPDItVTWLKNGQEVTEGVKTTPPSPNsdwTYQLSSYLTVTPSDwesgDEYTCR 79


                  ...
gi 543583750  148 IEN 150
Cdd:pfam07654  80 VEH 82
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 173-270 1.98e-03

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: 36.71  E-value: 1.98e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750   173 EHVSLSCQpvndyFSPNQDFKVTWSRmksgtfsvlayylsSSQNTIINESRFSWNKeliNQSDFSMNLMDLNLSDSGEYL 252
Cdd:smart00410  10 ESVTLSCE-----ASGSPPPEVTWYK--------------QGGKLLAESGRFSVSR---SGSTSTLTISNVTPEDSGTYT 67

                           90
                   ....*....|....*...
gi 543583750   253 CNISSDEYTLLTIHTVHV 270
Cdd:smart00410  68 CAATNSSGSASSGTTLTV 85
IgC1_CD1 cd21029
Immunoglobulin domain of Cluster of Differentiation (CD) 1; member of the C1-set of Ig ...
 93-161 2.33e-03

Immunoglobulin domain of Cluster of Differentiation (CD) 1; member of the C1-set of Ig superfamily (IgSF) domains; The members here are composed of the immunoglobulin domain of Cluster of Differentiation (CD) 1. CD1 family of transmembrane glycoproteins, are structurally related to the major histocompatibility complex (MHC) proteins and form heterodimers with beta-2-microglobulin. They mediate the presentation of primarily lipid and glycolipid antigens of self or microbial origin to T cells. The human genome contains five CD1 family genes (CD1a, CD1b, CD1c, CD1d, and CD1e) organized in a cluster on chromosome 1. The CD1 family members are thought to differ in their cellular localization and specificity for particular lipid ligands. CD1a localizes to the plasma membrane and to recycling vesicles of the early endocytic system. Alternative splicing results in multiple transcript variants. Immunoglobulin (Ig) domain of major histocompatibility complex (MHC) class I alpha chain. Class I MHC proteins bind antigenic peptide fragments and present them to CD8+ T lymphocytes. Class I molecules consist of a transmembrane alpha chain and a small chain called the beta-2-microglobulin. The alpha chain contains three extracellular domains, two of which fold together to form the peptide-binding cleft (alpha1 and alpha2), and one which has an Ig fold (alpha3). Peptide binding to class I molecules occurs in the endoplasmic reticulum (ER) and involves both chaperones and dedicated factors to assist in peptide loading. Class I MHC molecules are expressed on most nucleated cells. C1-set Ig domains have one beta sheet that is formed by strands A, B, E, and D and the other strands by G, F, C, and C'.


Pssm-ID: 409620  Cd Length: 93  Bit Score: 36.92  E-value: 2.33e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 543583750  93 LICSVLSVYPRPI-ITWKMDNTPISeNNMEETGSL----DSFSINSPLNIT-GSNSSYECTIENSLLKQTWTGRW 161
Cdd:cd21029   20 LSCHVTGFYPRPIeVTWLRDGQEQM-DGTQSGGILpnhdGTYQLRKTLDIApGEGAGYSCRVDHSSLKQDLIVYW 93
IgV_HHLA2 cd16091
Immunoglobulin Variable (IgV) domain in HERV-H LTR-associating 2 (HHLA2); The members here are ...
 172-257 3.82e-03

Immunoglobulin Variable (IgV) domain in HERV-H LTR-associating 2 (HHLA2); The members here are composed of the immunoglobulin variable (IgV) region in HERV-H LTR-associating 2 (HHLA2; also known as B7-H7/B7 homolog 7). HHLA2 is a member of the B7 family of immune regulatory proteins. Mature human HHLA2 consists of an extracellular domain (ECD) with three immunoglobulin-like domains, a transmembrane segment, and a cytoplasmic domain. HHLA2 is widely expressed in human cancers including non-small cell lung carcinoma (NSCLS), triple negative breast cancer (TNBC), and melanoma, but has limited expression on normal tissues. Interestingly, unlike other members of B7 family, HHLA2 is not expressed in mice or rats. HHLA2 functions as a T cell coinhibitory molecules as it inhibits the proliferation of activated CD4(+) and CD8(+) T cells and their cytokine production. Furthermore, HHLA2 is constitutively expressed on the surface of human monocytes and is induced on B cells after stimulation, however it is not inducible on T cells.


Pssm-ID: 409512  Cd Length: 107  Bit Score: 36.60  E-value: 3.82e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750 172 SEHVSLSCQpvndyFSPNQDFKVTWSRMKSGTFsVLAYYLSSSQNTIINES---RFSWNKELINQSDFSMNLMDLNLSDS 248
Cdd:cd16091   12 SEDCILPCS-----FTPGSEVVIHWYKQDSDIK-VHSYYYGKDQLESQDQRyrnRTSLFKDQISNGNASLLLRRVQLQDE 85


                 ....*....
gi 543583750 249 GEYLCNISS 257
Cdd:cd16091   86 GRYKCYTST 94
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 93-150 5.82e-03

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 35.23  E-value: 5.82e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 543583750   93 LICSVLSvYPRPIITWKMDNTPISENNMEETGSLDSFSInspLNITGSNSS----YECTIEN 150
Cdd:pfam13927  21 LTCEATG-SPPPTITWYKNGEPISSGSTRSRSLSGSNST---LTISNVTRSdagtYTCVASN 78
I-set pfam07679
Immunoglobulin I-set domain;
101-156 7.10e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 35.31  E-value: 7.10e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 543583750  101 YPRPIITWKMDNTPISEN---NMEETGSLDSFSINsplNITGSNS-SYECTIENSLLKQT 156
Cdd:pfam07679  27 TPDPEVSWFKDGQPLRSSdrfKVTYEGGTYTLTIS---NVQPDDSgKYTCVATNSAGEAE 83
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 93-156 8.98e-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: 34.61  E-value: 8.98e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 543583750  93 LICSVlSVYPRPIITWKMDNTPISENNMEETGSLDSFSInspLNITGSNSS----YECTIENSLLKQT 156
Cdd:cd00096    3 LTCSA-SGNPPPTITWYKNGKPLPPSSRDSRRSELGNGT---LTISNVTLEdsgtYTCVASNSAGGSA 66
 
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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