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Conserved domains on  [gi|6978631|ref|NP_036837|]
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T-cell surface glycoprotein CD4 precursor [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CD4-extracel pfam09191
CD4, extracellular; Members of this family adopt an immunoglobulin-like beta-sandwich, with ...
 210-315 7.53e-61

CD4, extracellular; Members of this family adopt an immunoglobulin-like beta-sandwich, with seven strands in 2 beta sheets, in a Greek key topology. They are predominantly found in the extracellular portion of CD4 proteins, where they enable interaction with major histocompatibility complex class II antigens.


:

Pssm-ID: 462712  Cd Length: 106  Bit Score: 193.67  E-value: 7.53e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631    210 TSITAYKSEGESAEFSFPLNLGEESLQGELRWKAEKAPSSQSWITFSLKNQKVSVQKSTSNPKFQLSETLPLTLQIPQVS 289
Cdd:pfam09191   1 VSNTVYKKEGEQVEFSFPLTFEDENLSGELRWQAEGASSSQSWITFSLKNRKVSVQKVTQDPKLQMKEKLPLTLTLPQAL 80

                          90       100
                  ....*....|....*....|....*.
gi 6978631    290 LQFAGSGNLTLTLDRGILYQEVNLVV 315
Cdd:pfam09191  81 LQYAGSGNLTLTLDKGKLHQEVNLVV 106
IgV_1_CD4 cd07690
First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of ...
 28-124 1.40e-54

First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of IgSF domains; The members here are composed of the first immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.


:

Pssm-ID: 409487  Cd Length: 97  Bit Score: 176.97  E-value: 1.40e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   28 KTVVLGKEGGSAELPCESTSRRSASFAWKSSDQKTILGYKNKLLIKGSLELYSRFDSRKNAWERGSFPLIINKLRMEDSQ 107
Cdd:cd07690   1 KKVVLGKKGDTAELPCTASQKKSIQFHWKNSNQIKILGNQGSFLTKGPSKLNDRADSRRNLWDQGSFPLIIKNLKIEDSD 80

                        90
                ....*....|....*..
gi 6978631  108 TYVCELENKKEEVELWV 124
Cdd:cd07690  81 TYICEVEDKKEEVELLV 97
CD4_CD cd22570
cytoplasmic domain of T-cell surface glycoprotein CD4 and similar proteins; CD4, also called ...
 400-443 5.10e-20

cytoplasmic domain of T-cell surface glycoprotein CD4 and similar proteins; CD4, also called T-cell surface antigen T4/Leu-3, is an integral membrane glycoprotein that plays an essential role in the immune response and serves multiple functions in responses against both external and internal offenses. In T-cells, CD4 functions primarily as a coreceptor for MHC class II molecule:peptide complex. In other cells such as macrophages or NK cells, it plays a role in differentiation/activation, cytokine expression and cell migration in a TCR/LCK-independent pathway. CD4 participates in the development of T-helper cells in the thymus and triggers the differentiation of monocytes into functional mature macrophages. The model corresponds to cytoplasmic domain of CD4, which is responsible for the interaction with HIV-1 Nef protein that suppresses multiple immune surveillance mechanisms to promote viral pathogenesis.


:

Pssm-ID: 439337  Cd Length: 44  Bit Score: 82.94  E-value: 5.10e-20
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 6978631  400 VLGSAFSFLVFTGLCILFCVRCRHQQRQAARMSQIKRLLSEKKT 443
Cdd:cd22570   1 VLGGAAGLLLFIGLCIFCCVRCRHRRRQAERMSQIKRLLSEKKT 44
C2-set pfam05790
Immunoglobulin C2-set domain;
127-206 7.04e-18

Immunoglobulin C2-set domain;


:

Pssm-ID: 399065  Cd Length: 80  Bit Score: 78.16  E-value: 7.04e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631    127 VTFNPGTRLLQGQSLTLILDSnPKVSDPPIECKHKSSNIVKDSKAFSTHSLRIQDSGIWNCTVT-LNQKKHSFDMKLSVL 205
Cdd:pfam05790   1 VTVSCSNNLLTCEVLELTLPK-GSKMDPSLKLKGQEAKSLETKKLESTFQPTTEDSGTWVCLASdNDQKKLESVIEVLVL 79


                  .
gi 6978631    206 G 206
Cdd:pfam05790  80 E 80
C2-set pfam05790
Immunoglobulin C2-set domain;
316-387 1.97e-14

Immunoglobulin C2-set domain;


:

Pssm-ID: 399065  Cd Length: 80  Bit Score: 68.14  E-value: 1.97e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6978631    316 MKVTQPDsNTLTCEVMGPTSPK---MRLILKQENQEARVSRQEKVIQVQAP---EAGVWQCLLSEGEEVKMDSKIQVL 387
Cdd:pfam05790   1 VTVSCSN-NLLTCEVLELTLPKgskMDPSLKLKGQEAKSLETKKLESTFQPtteDSGTWVCLASDNDQKKLESVIEVL 77
 
Name Accession Description Interval E-value
CD4-extracel pfam09191
CD4, extracellular; Members of this family adopt an immunoglobulin-like beta-sandwich, with ...
 210-315 7.53e-61

CD4, extracellular; Members of this family adopt an immunoglobulin-like beta-sandwich, with seven strands in 2 beta sheets, in a Greek key topology. They are predominantly found in the extracellular portion of CD4 proteins, where they enable interaction with major histocompatibility complex class II antigens.


Pssm-ID: 462712  Cd Length: 106  Bit Score: 193.67  E-value: 7.53e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631    210 TSITAYKSEGESAEFSFPLNLGEESLQGELRWKAEKAPSSQSWITFSLKNQKVSVQKSTSNPKFQLSETLPLTLQIPQVS 289
Cdd:pfam09191   1 VSNTVYKKEGEQVEFSFPLTFEDENLSGELRWQAEGASSSQSWITFSLKNRKVSVQKVTQDPKLQMKEKLPLTLTLPQAL 80

                          90       100
                  ....*....|....*....|....*.
gi 6978631    290 LQFAGSGNLTLTLDRGILYQEVNLVV 315
Cdd:pfam09191  81 LQYAGSGNLTLTLDKGKLHQEVNLVV 106
IgV_1_CD4 cd07690
First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of ...
 28-124 1.40e-54

First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of IgSF domains; The members here are composed of the first immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.


Pssm-ID: 409487  Cd Length: 97  Bit Score: 176.97  E-value: 1.40e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   28 KTVVLGKEGGSAELPCESTSRRSASFAWKSSDQKTILGYKNKLLIKGSLELYSRFDSRKNAWERGSFPLIINKLRMEDSQ 107
Cdd:cd07690   1 KKVVLGKKGDTAELPCTASQKKSIQFHWKNSNQIKILGNQGSFLTKGPSKLNDRADSRRNLWDQGSFPLIIKNLKIEDSD 80

                        90
                ....*....|....*..
gi 6978631  108 TYVCELENKKEEVELWV 124
Cdd:cd07690  81 TYICEVEDKKEEVELLV 97
IgV_3_CD4 cd07695
Third immunoglobulin (Ig) Variable (V) domain of Cluster of Differentiation (CD) 4; member of ...
 211-313 3.16e-30

Third immunoglobulin (Ig) Variable (V) domain of Cluster of Differentiation (CD) 4; member of the V-set of IgSF domains; The members here are composed of the third immunoglobulin variable (IgV) domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.


Pssm-ID: 409492  Cd Length: 107  Bit Score: 113.14  E-value: 3.16e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631  211 SITAYKSEGESAEFSFPLNLGEESLQ----GELRWKAEKAPSSQSWITFSLKNQKVSVQKSTSNPKFQLSETLPLTLQIP 286
Cdd:cd07695   1 SEIVYTKVGEQVEFSFPLNFTKEKWKeggsGELWWQAEGASSSKSWITFSLKNKEVSVKRVTQDPKLQMGKKLPLDLTLP 80

                        90       100
                ....*....|....*....|....*..
gi 6978631  287 QVSLQFAGSGNLTLTLDRGILYQEVNL 313
Cdd:cd07695  81 QVLPQHAGSGNLTLALETGKLEQEVNL 107
CD4_CD cd22570
cytoplasmic domain of T-cell surface glycoprotein CD4 and similar proteins; CD4, also called ...
 400-443 5.10e-20

cytoplasmic domain of T-cell surface glycoprotein CD4 and similar proteins; CD4, also called T-cell surface antigen T4/Leu-3, is an integral membrane glycoprotein that plays an essential role in the immune response and serves multiple functions in responses against both external and internal offenses. In T-cells, CD4 functions primarily as a coreceptor for MHC class II molecule:peptide complex. In other cells such as macrophages or NK cells, it plays a role in differentiation/activation, cytokine expression and cell migration in a TCR/LCK-independent pathway. CD4 participates in the development of T-helper cells in the thymus and triggers the differentiation of monocytes into functional mature macrophages. The model corresponds to cytoplasmic domain of CD4, which is responsible for the interaction with HIV-1 Nef protein that suppresses multiple immune surveillance mechanisms to promote viral pathogenesis.


Pssm-ID: 439337  Cd Length: 44  Bit Score: 82.94  E-value: 5.10e-20
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 6978631  400 VLGSAFSFLVFTGLCILFCVRCRHQQRQAARMSQIKRLLSEKKT 443
Cdd:cd22570   1 VLGGAAGLLLFIGLCIFCCVRCRHRRRQAERMSQIKRLLSEKKT 44
C2-set pfam05790
Immunoglobulin C2-set domain;
127-206 7.04e-18

Immunoglobulin C2-set domain;


Pssm-ID: 399065  Cd Length: 80  Bit Score: 78.16  E-value: 7.04e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631    127 VTFNPGTRLLQGQSLTLILDSnPKVSDPPIECKHKSSNIVKDSKAFSTHSLRIQDSGIWNCTVT-LNQKKHSFDMKLSVL 205
Cdd:pfam05790   1 VTVSCSNNLLTCEVLELTLPK-GSKMDPSLKLKGQEAKSLETKKLESTFQPTTEDSGTWVCLASdNDQKKLESVIEVLVL 79


                  .
gi 6978631    206 G 206
Cdd:pfam05790  80 E 80
C2-set pfam05790
Immunoglobulin C2-set domain;
316-387 1.97e-14

Immunoglobulin C2-set domain;


Pssm-ID: 399065  Cd Length: 80  Bit Score: 68.14  E-value: 1.97e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6978631    316 MKVTQPDsNTLTCEVMGPTSPK---MRLILKQENQEARVSRQEKVIQVQAP---EAGVWQCLLSEGEEVKMDSKIQVL 387
Cdd:pfam05790   1 VTVSCSN-NLLTCEVLELTLPKgskMDPSLKLKGQEAKSLETKKLESTFQPtteDSGTWVCLASDNDQKKLESVIEVL 77
IgC2_2_CD4 cd07694
Second immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the C2-set ...
 125-207 4.85e-12

Second immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the C2-set of IgSF domains; The members here are composed of the second immunoglobulin (Ig) Constant 2 (C2)-set domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy. 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. This group belongs to the C2-set of IgSF domains, having A, B, and E strands in one beta-sheet and A', G, F, C' in the other. Unlike other Ig domain sets, the C2-set lacks the D strand.


Pssm-ID: 409491  Cd Length: 88  Bit Score: 61.93  E-value: 4.85e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631  125 FRVTFNPGTRLLQGQSLTLILDSNPKvSDPPIECKHKSSN------IVKDSKAFSTHSLRIQDSGIWNCTVTLNQKKHSF 198
Cdd:cd07694   1 FKLTATSSDHVLSGTNLTLTLHGSSN-SLPAFKVEWRGPGnkskqiLNQDKKTLNLVQLGPNDSGTWDCIVSVNSSEKTL 79


                ....*....
gi 6978631  199 DMKLSVLGF 207
Cdd:cd07694  80 KLDIKVLAF 88
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 30-121 5.57e-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: 50.20  E-value: 5.57e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631      30 VVLGKEGGSAELPCESTSRRSASFAWKSSDQKTILgYKNKLLIKGSlelysrfdsrknaweRGSFPLIINKLRMEDSQTY 109
Cdd:smart00410   3 SVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLA-ESGRFSVSRS---------------GSTSTLTISNVTPEDSGTY 66

                           90
                   ....*....|..
gi 6978631     110 VCELENKKEEVE 121
Cdd:smart00410  67 TCAATNSSGSAS 78
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 26-124 1.46e-06

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: 46.03  E-value: 1.46e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631     26 QGKTVVLGKEGGSAELPCE-STSRRSASFAWKSSDQKTILGyknkllikgslelysrFDSRKNAWERGSFPLIINKLRME 104
Cdd:pfam00047   1 SAPPTVTVLEGDSATLTCSaSTGSPGPDVTWSKEGGTLIES----------------LKVKHDNGRTTQSSLLISNVTKE 64

                          90       100
                  ....*....|....*....|
gi 6978631    105 DSQTYVCELENKKEEVELWV 124
Cdd:pfam00047  65 DAGTYTCVVNNPGGSATLST 84
 
Name Accession Description Interval E-value
CD4-extracel pfam09191
CD4, extracellular; Members of this family adopt an immunoglobulin-like beta-sandwich, with ...
 210-315 7.53e-61

CD4, extracellular; Members of this family adopt an immunoglobulin-like beta-sandwich, with seven strands in 2 beta sheets, in a Greek key topology. They are predominantly found in the extracellular portion of CD4 proteins, where they enable interaction with major histocompatibility complex class II antigens.


Pssm-ID: 462712  Cd Length: 106  Bit Score: 193.67  E-value: 7.53e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631    210 TSITAYKSEGESAEFSFPLNLGEESLQGELRWKAEKAPSSQSWITFSLKNQKVSVQKSTSNPKFQLSETLPLTLQIPQVS 289
Cdd:pfam09191   1 VSNTVYKKEGEQVEFSFPLTFEDENLSGELRWQAEGASSSQSWITFSLKNRKVSVQKVTQDPKLQMKEKLPLTLTLPQAL 80

                          90       100
                  ....*....|....*....|....*.
gi 6978631    290 LQFAGSGNLTLTLDRGILYQEVNLVV 315
Cdd:pfam09191  81 LQYAGSGNLTLTLDKGKLHQEVNLVV 106
IgV_1_CD4 cd07690
First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of ...
 28-124 1.40e-54

First immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the V-set of IgSF domains; The members here are composed of the first immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.


Pssm-ID: 409487  Cd Length: 97  Bit Score: 176.97  E-value: 1.40e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   28 KTVVLGKEGGSAELPCESTSRRSASFAWKSSDQKTILGYKNKLLIKGSLELYSRFDSRKNAWERGSFPLIINKLRMEDSQ 107
Cdd:cd07690   1 KKVVLGKKGDTAELPCTASQKKSIQFHWKNSNQIKILGNQGSFLTKGPSKLNDRADSRRNLWDQGSFPLIIKNLKIEDSD 80

                        90
                ....*....|....*..
gi 6978631  108 TYVCELENKKEEVELWV 124
Cdd:cd07690  81 TYICEVEDKKEEVELLV 97
IgV_3_CD4 cd07695
Third immunoglobulin (Ig) Variable (V) domain of Cluster of Differentiation (CD) 4; member of ...
 211-313 3.16e-30

Third immunoglobulin (Ig) Variable (V) domain of Cluster of Differentiation (CD) 4; member of the V-set of IgSF domains; The members here are composed of the third immunoglobulin variable (IgV) domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.


Pssm-ID: 409492  Cd Length: 107  Bit Score: 113.14  E-value: 3.16e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631  211 SITAYKSEGESAEFSFPLNLGEESLQ----GELRWKAEKAPSSQSWITFSLKNQKVSVQKSTSNPKFQLSETLPLTLQIP 286
Cdd:cd07695   1 SEIVYTKVGEQVEFSFPLNFTKEKWKeggsGELWWQAEGASSSKSWITFSLKNKEVSVKRVTQDPKLQMGKKLPLDLTLP 80

                        90       100
                ....*....|....*....|....*..
gi 6978631  287 QVSLQFAGSGNLTLTLDRGILYQEVNL 313
Cdd:cd07695  81 QVLPQHAGSGNLTLALETGKLEQEVNL 107
CD4_CD cd22570
cytoplasmic domain of T-cell surface glycoprotein CD4 and similar proteins; CD4, also called ...
 400-443 5.10e-20

cytoplasmic domain of T-cell surface glycoprotein CD4 and similar proteins; CD4, also called T-cell surface antigen T4/Leu-3, is an integral membrane glycoprotein that plays an essential role in the immune response and serves multiple functions in responses against both external and internal offenses. In T-cells, CD4 functions primarily as a coreceptor for MHC class II molecule:peptide complex. In other cells such as macrophages or NK cells, it plays a role in differentiation/activation, cytokine expression and cell migration in a TCR/LCK-independent pathway. CD4 participates in the development of T-helper cells in the thymus and triggers the differentiation of monocytes into functional mature macrophages. The model corresponds to cytoplasmic domain of CD4, which is responsible for the interaction with HIV-1 Nef protein that suppresses multiple immune surveillance mechanisms to promote viral pathogenesis.


Pssm-ID: 439337  Cd Length: 44  Bit Score: 82.94  E-value: 5.10e-20
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....
gi 6978631  400 VLGSAFSFLVFTGLCILFCVRCRHQQRQAARMSQIKRLLSEKKT 443
Cdd:cd22570   1 VLGGAAGLLLFIGLCIFCCVRCRHRRRQAERMSQIKRLLSEKKT 44
C2-set pfam05790
Immunoglobulin C2-set domain;
127-206 7.04e-18

Immunoglobulin C2-set domain;


Pssm-ID: 399065  Cd Length: 80  Bit Score: 78.16  E-value: 7.04e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631    127 VTFNPGTRLLQGQSLTLILDSnPKVSDPPIECKHKSSNIVKDSKAFSTHSLRIQDSGIWNCTVT-LNQKKHSFDMKLSVL 205
Cdd:pfam05790   1 VTVSCSNNLLTCEVLELTLPK-GSKMDPSLKLKGQEAKSLETKKLESTFQPTTEDSGTWVCLASdNDQKKLESVIEVLVL 79


                  .
gi 6978631    206 G 206
Cdd:pfam05790  80 E 80
C2-set pfam05790
Immunoglobulin C2-set domain;
316-387 1.97e-14

Immunoglobulin C2-set domain;


Pssm-ID: 399065  Cd Length: 80  Bit Score: 68.14  E-value: 1.97e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6978631    316 MKVTQPDsNTLTCEVMGPTSPK---MRLILKQENQEARVSRQEKVIQVQAP---EAGVWQCLLSEGEEVKMDSKIQVL 387
Cdd:pfam05790   1 VTVSCSN-NLLTCEVLELTLPKgskMDPSLKLKGQEAKSLETKKLESTFQPtteDSGTWVCLASDNDQKKLESVIEVL 77
IgC2_2_CD4 cd07694
Second immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the C2-set ...
 125-207 4.85e-12

Second immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 4; member of the C2-set of IgSF domains; The members here are composed of the second immunoglobulin (Ig) Constant 2 (C2)-set domain of Cluster of Differentiation (CD) 4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy. 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. This group belongs to the C2-set of IgSF domains, having A, B, and E strands in one beta-sheet and A', G, F, C' in the other. Unlike other Ig domain sets, the C2-set lacks the D strand.


Pssm-ID: 409491  Cd Length: 88  Bit Score: 61.93  E-value: 4.85e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631  125 FRVTFNPGTRLLQGQSLTLILDSNPKvSDPPIECKHKSSN------IVKDSKAFSTHSLRIQDSGIWNCTVTLNQKKHSF 198
Cdd:cd07694   1 FKLTATSSDHVLSGTNLTLTLHGSSN-SLPAFKVEWRGPGnkskqiLNQDKKTLNLVQLGPNDSGTWDCIVSVNSSEKTL 79


                ....*....
gi 6978631  199 DMKLSVLGF 207
Cdd:cd07694  80 KLDIKVLAF 88
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 30-121 5.57e-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: 50.20  E-value: 5.57e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631      30 VVLGKEGGSAELPCESTSRRSASFAWKSSDQKTILgYKNKLLIKGSlelysrfdsrknaweRGSFPLIINKLRMEDSQTY 109
Cdd:smart00410   3 SVTVKEGESVTLSCEASGSPPPEVTWYKQGGKLLA-ESGRFSVSRS---------------GSTSTLTISNVTPEDSGTY 66

                           90
                   ....*....|..
gi 6978631     110 VCELENKKEEVE 121
Cdd:smart00410  67 TCAATNSSGSAS 78
ig pfam00047
Immunoglobulin domain; Members of the immunoglobulin superfamily are found in hundreds of ...
 26-124 1.46e-06

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: 46.03  E-value: 1.46e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631     26 QGKTVVLGKEGGSAELPCE-STSRRSASFAWKSSDQKTILGyknkllikgslelysrFDSRKNAWERGSFPLIINKLRME 104
Cdd:pfam00047   1 SAPPTVTVLEGDSATLTCSaSTGSPGPDVTWSKEGGTLIES----------------LKVKHDNGRTTQSSLLISNVTKE 64

                          90       100
                  ....*....|....*....|
gi 6978631    105 DSQTYVCELENKKEEVELWV 124
Cdd:pfam00047  65 DAGTYTCVVNNPGGSATLST 84
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 26-135 3.43e-05

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 42.83  E-value: 3.43e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631     26 QGKTVVLGKEGGSAELPCESTSRRSA---SFAW-----KSSDQKTILGYKNKLLIKGSLElysRFDSRKNAwERGSFPLI 97
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTYSSSMSEastSVYWyrqppGKGPTFLIAYYSNGSEEGVKKG---RFSGRGDP-SNGDGSLT 76

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 6978631     98 INKLRMEDSQTYVCELENKKEEVelwvfrvtFNPGTRL 135
Cdd:pfam07686  77 IQNLTLSDSGTYTCAVIPSGEGV--------FGKGTRL 106
IGv smart00406
Immunoglobulin V-Type;
38-112 6.12e-05

Immunoglobulin V-Type;


Pssm-ID: 214650  Cd Length: 81  Bit Score: 41.21  E-value: 6.12e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631      38 SAELPCESTSRRSASFAWKSSDQK-----TILGYKNKLLIKGSLELY-SRFDSRKNAwERGSFPLIINKLRMEDSQTYVC 111
Cdd:smart00406   1 SVTLSCKFSGSTFSSYYVSWVRQPpgkglEWLGYIGSNGSSYYQESYkGRFTISKDT-SKNDVSLTISNLRVEDTGTYYC 79


                   .
gi 6978631     112 E 112
Cdd:smart00406  80 A 80
IgV cd00099
Immunoglobulin variable domain (IgV); The members here are composed of the immunoglobulin ...
 24-135 1.52e-04

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: 41.17  E-value: 1.52e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   24 VTQGKTVVLGKEGGSAELPCE-STSRRSASFAW---KSSDQKTILGYKNKLLIKGSLELYSRFDSRKNawERGSFPLIIN 99
Cdd:cd00099   1 VTQSPRSLSVQEGESVTLSCEvSSSFSSTYIYWyrqKPGQGPEFLIYLSSSKGKTKGGVPGRFSGSRD--GTSSFSLTIS 78

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 6978631  100 KLRMEDSQTYVCELENKKEEVELwvfrvTFNPGTRL 135
Cdd:cd00099  79 NLQPEDSGTYYCAVSESGGTDKL-----TFGSGTRL 109
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 23-115 2.00e-04

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 39.86  E-value: 2.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631     23 VVTQGKTVVLGKEGGSAELPCESTSRRSASFAWkssdqktilgYKNkllikGSLELYSRFDSRKNAWERGSfpLIINKLR 102
Cdd:pfam13927   3 VITVSPSSVTVREGETVTLTCEATGSPPPTITW----------YKN-----GEPISSGSTRSRSLSGSNST--LTISNVT 65

                          90
                  ....*....|...
gi 6978631    103 MEDSQTYVCELEN 115
Cdd:pfam13927  66 RSDAGTYTCVASN 78
IgV_L_kappa cd04980
Immunoglobulin (Ig) light chain, kappa type, variable (V) domain; The members here are ...
 23-135 2.24e-03

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: 37.76  E-value: 2.24e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   23 VVTQGKTVVLGKEGGSAELPCE-STSRRSASFAWKSsdQKTilGYKNKLLIKGSLELYSRFDSRKNAWERGS-FPLIINK 100
Cdd:cd04980   2 VMTQSPASLSVSPGERVTISCKaSQSISSNYLAWYQ--QKP--GQAPKLLIYYASTLHSGVPSRFSGSGSGTdFTLTISS 77

                        90       100       110
                ....*....|....*....|....*....|....*
gi 6978631  101 LRMEDSQTYVCElenkkeevELWVFRVTFNPGTRL 135
Cdd:cd04980  78 VEPEDAAVYYCQ--------QGYTFPYTFGGGTKL 104
IgV_TCR_alpha cd04983
Immunoglobulin (Ig) variable (V) domain of T-cell receptor (TCR) alpha chain and similar ...
 24-135 4.63e-03

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: 36.86  E-value: 4.63e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   24 VTQGKTVVLGKEGGSAELPCESTSRRSASFAWkssdQKTILGYKNKLLIKGSL----ELYSRFDSRKNAwERGSFPLIIN 99
Cdd:cd04983   1 VTQSPQSLSVQEGENVTLNCNYSTSTFYYLFW----YRQYPGQGPQFLIYISSdsgnKKKGRFSATLDK-SRKSSSLHIS 75

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 6978631  100 KLRMEDSQTYVCELENkkeevELWVFRVTFNPGTRL 135
Cdd:cd04983  76 AAQLSDSAVYFCALSE-----SGGTGKLTFGKGTRL 106
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 39-121 7.22e-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: 7.22e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6978631   39 AELPCESTSRRSASFAWkssdqktilgYKNKLLIKGSlelysrfDSRKNAWERGSFPLIINKLRMEDSQTYVCELENKKE 118
Cdd:cd00096   1 VTLTCSASGNPPPTITW----------YKNGKPLPPS-------SRDSRRSELGNGTLTISNVTLEDSGTYTCVASNSAG 63


                ...
gi 6978631  119 EVE 121
Cdd:cd00096  64 GSA 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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