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Conserved domains on  [gi|1907180020|ref|XP_036008868|]
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sialic acid binding Ig-like lectin H isoform X6 [Mus musculus]

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 ...
 40-145 5.49e-35

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 cd05712:

Pssm-ID: 472250  Cd Length: 119  Bit Score: 122.88  E-value: 5.49e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020  40 SVTVQEGLCVLVPCHLiEYPMNRW-SDAAFGYWFHEGENTHPDSLVATNKPYQLVQKEMQSRFHFSGD-----CSLDIRD 113
Cdd:cd05712     8 SVTVQEGLCVLIPCSF-SYPADYWvSNPVHGYWYRGGPYPKYRPPVATNNRTREVHESTQGRFRLLGDpgkknCSLSISD 86

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1907180020 114 AQKGDNGSYFFRLEKGGKT-WNFCEERISVHVT 145
Cdd:cd05712    87 ARPEDSGKYFFRVERGDSNkYSYLSNQLSLTVT 119
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 151-236 1.48e-33

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 cd20987:

Pssm-ID: 472250  Cd Length: 94  Bit Score: 118.44  E-value: 1.48e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020 151 PNISIPQTLELGRPTNVMCSVPWACERGtPPIFSWMSAALISLGP---------TTTLSSVLTLTPRLQDHGTNLTCQVT 221
Cdd:cd20987     1 PNIHVPEELEAGQEVTLTCSVPDNCPAL-SPEFSWLGAALTPLPPvlgrleeegTTTHSSVLTFTPRPEDHGTNLTCQVK 79

                          90
                  ....*....|....*
gi 1907180020 222 FPGAGVTVQKTIQLN 236
Cdd:cd20987    80 FPGATVTTERTIQLN 94
 
Name Accession Description Interval E-value
IgV_CD33 cd05712
Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic ...
 40-145 5.49e-35

Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic acid-binding Ig-like lectins); The members here are composed of the immunoglobulin (Ig) domain at the N-terminus of Cluster of Differentiation (CD) 33 and related Siglecs (sialic acid-binding Ig-like lectins). Siglec refers to a structurally related protein family that specifically recognizes sialic acid in oligosaccharide chains of glycoproteins and glycolipids. Siglecs are type I transmembrane proteins, organized as an extracellular module composed of Ig-like domains, an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains, followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG, the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11.


Pssm-ID: 409377  Cd Length: 119  Bit Score: 122.88  E-value: 5.49e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020  40 SVTVQEGLCVLVPCHLiEYPMNRW-SDAAFGYWFHEGENTHPDSLVATNKPYQLVQKEMQSRFHFSGD-----CSLDIRD 113
Cdd:cd05712     8 SVTVQEGLCVLIPCSF-SYPADYWvSNPVHGYWYRGGPYPKYRPPVATNNRTREVHESTQGRFRLLGDpgkknCSLSISD 86

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1907180020 114 AQKGDNGSYFFRLEKGGKT-WNFCEERISVHVT 145
Cdd:cd05712    87 ARPEDSGKYFFRVERGDSNkYSYLSNQLSLTVT 119
IgC2_CD33_d2_like cd20987
Second immunoglobulin domain of Cluster of Differentiation (CD) 33 and related Siglecs; member ...
 151-236 1.48e-33

Second immunoglobulin domain of Cluster of Differentiation (CD) 33 and related Siglecs; member of the C2-set of IgSF domains; The members here are composed of the second immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 33 (also known as sialic-acid binding immunoglobulin type-lectin 3 (Siglec-3)) and related Siglecs. CD33, a Siglec family member, is a well-known immunotherapeutic target in acute myeloid leukemia (AML). It is an inhibitory sialoadhesin expressed in human leukocytes of the myeloid lineage and some lymphoid subsets, including natural killer (NK) cells. Siglecs are primarily expressed on immune cells and recognize sialic acid-containing glycan ligands. Siglecs are organized as an extracellular module composed of Ig-like domains (an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains), followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG (Siglec-4, myelin-associated glycoprotein), the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11. CD33 (Siglec-3) is the smallest Siglec member. It preferentially binds to alpha2-6- and alpha2-3-sialylated glycans and strongly binds to sialylated ligands on leukemic cell lines. 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. This group includes CD33-related Siglecs which belong to the C2-set of IgSF domains. Unlike the C1-set, the C2-set structures do not have a D strand.


Pssm-ID: 409579  Cd Length: 94  Bit Score: 118.44  E-value: 1.48e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020 151 PNISIPQTLELGRPTNVMCSVPWACERGtPPIFSWMSAALISLGP---------TTTLSSVLTLTPRLQDHGTNLTCQVT 221
Cdd:cd20987     1 PNIHVPEELEAGQEVTLTCSVPDNCPAL-SPEFSWLGAALTPLPPvlgrleeegTTTHSSVLTFTPRPEDHGTNLTCQVK 79

                          90
                  ....*....|....*
gi 1907180020 222 FPGAGVTVQKTIQLN 236
Cdd:cd20987    80 FPGATVTTERTIQLN 94
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 40-123 4.03e-06

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: 44.76  E-value: 4.03e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020  40 SVTVQEGLCVLVPCHLieypMNRWSDAAFG-YWFHEGENTHPDSLVATNKPYQLVQKEMQsRFHFSG-----DCSLDIRD 113
Cdd:pfam07686   5 EVTVALGGSVTLPCTY----SSSMSEASTSvYWYRQPPGKGPTFLIAYYSNGSEEGVKKG-RFSGRGdpsngDGSLTIQN 79

                          90
                  ....*....|
gi 1907180020 114 AQKGDNGSYF 123
Cdd:pfam07686  80 LTLSDSGTYT 89
C2-set_2 pfam08205
CD80-like C2-set immunoglobulin domain; These domains belong to the immunoglobulin superfamily.
 196-224 1.82e-03

CD80-like C2-set immunoglobulin domain; These domains belong to the immunoglobulin superfamily.


Pssm-ID: 400489  Cd Length: 89  Bit Score: 37.01  E-value: 1.82e-03
                          10        20
                  ....*....|....*....|....*....
gi 1907180020 196 TTTLSSVLTLTPRLQDHGTNLTCQVTFPG 224
Cdd:pfam08205  56 LVTVTSELKLVPSRSDHGQSLTCQVSYGA 84
 
Name Accession Description Interval E-value
IgV_CD33 cd05712
Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic ...
 40-145 5.49e-35

Immunoglobulin Variable (IgV) domain at the N-terminus of CD33 and related Siglecs (sialic acid-binding Ig-like lectins); The members here are composed of the immunoglobulin (Ig) domain at the N-terminus of Cluster of Differentiation (CD) 33 and related Siglecs (sialic acid-binding Ig-like lectins). Siglec refers to a structurally related protein family that specifically recognizes sialic acid in oligosaccharide chains of glycoproteins and glycolipids. Siglecs are type I transmembrane proteins, organized as an extracellular module composed of Ig-like domains, an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains, followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG, the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11.


Pssm-ID: 409377  Cd Length: 119  Bit Score: 122.88  E-value: 5.49e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020  40 SVTVQEGLCVLVPCHLiEYPMNRW-SDAAFGYWFHEGENTHPDSLVATNKPYQLVQKEMQSRFHFSGD-----CSLDIRD 113
Cdd:cd05712     8 SVTVQEGLCVLIPCSF-SYPADYWvSNPVHGYWYRGGPYPKYRPPVATNNRTREVHESTQGRFRLLGDpgkknCSLSISD 86

                          90       100       110
                  ....*....|....*....|....*....|...
gi 1907180020 114 AQKGDNGSYFFRLEKGGKT-WNFCEERISVHVT 145
Cdd:cd05712    87 ARPEDSGKYFFRVERGDSNkYSYLSNQLSLTVT 119
IgC2_CD33_d2_like cd20987
Second immunoglobulin domain of Cluster of Differentiation (CD) 33 and related Siglecs; member ...
 151-236 1.48e-33

Second immunoglobulin domain of Cluster of Differentiation (CD) 33 and related Siglecs; member of the C2-set of IgSF domains; The members here are composed of the second immunoglobulin (Ig) domain of Cluster of Differentiation (CD) 33 (also known as sialic-acid binding immunoglobulin type-lectin 3 (Siglec-3)) and related Siglecs. CD33, a Siglec family member, is a well-known immunotherapeutic target in acute myeloid leukemia (AML). It is an inhibitory sialoadhesin expressed in human leukocytes of the myeloid lineage and some lymphoid subsets, including natural killer (NK) cells. Siglecs are primarily expressed on immune cells and recognize sialic acid-containing glycan ligands. Siglecs are organized as an extracellular module composed of Ig-like domains (an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains), followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG (Siglec-4, myelin-associated glycoprotein), the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11. CD33 (Siglec-3) is the smallest Siglec member. It preferentially binds to alpha2-6- and alpha2-3-sialylated glycans and strongly binds to sialylated ligands on leukemic cell lines. 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. This group includes CD33-related Siglecs which belong to the C2-set of IgSF domains. Unlike the C1-set, the C2-set structures do not have a D strand.


Pssm-ID: 409579  Cd Length: 94  Bit Score: 118.44  E-value: 1.48e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020 151 PNISIPQTLELGRPTNVMCSVPWACERGtPPIFSWMSAALISLGP---------TTTLSSVLTLTPRLQDHGTNLTCQVT 221
Cdd:cd20987     1 PNIHVPEELEAGQEVTLTCSVPDNCPAL-SPEFSWLGAALTPLPPvlgrleeegTTTHSSVLTFTPRPEDHGTNLTCQVK 79

                          90
                  ....*....|....*
gi 1907180020 222 FPGAGVTVQKTIQLN 236
Cdd:cd20987    80 FPGATVTTERTIQLN 94
IgC1_CD22_d2 cd20938
Second immunoglobulin domain of Cluster of Differentiation (CD) 22; member of the Constant 1 ...
 151-237 5.64e-07

Second immunoglobulin domain of Cluster of Differentiation (CD) 22; member of the Constant 1 (C1)-set of IgSF domains; The members here are composed of the second immunoglobulin domain of clusters of differentiation (CD) 22 (also known as Siglec-2). CD22, a sialic-acid binding immunoglobulin type-lectin (Siglec) family member, is an inhibitory co-receptor of the B-cell receptor (BCR). The inhibitory function of CD22 and its restricted expression on B cells makes CD22 an attractive target against dysregulated B cells that cause autoimmune diseases and B-cell-derived cancers. CD22 plays a vital role in establishing a baseline level of B-cell inhibition, and thus is an important determinant of homeostasis in humoral immunity. Siglecs are primarily expressed on immune cells and recognize sialic acid-containing glycan ligands. Siglecs are organized as an extracellular module composed of Ig-like domains (an N-terminal variable set of Ig-like carbohydrate recognition domains, and 1 to 16 constant Ig-like domains), followed by transmembrane and short cytoplasmic domains. Human Siglecs are classified into two subgroups, one subgroup is comprised of sialoadhesin (Siglec-1), CD22 (Siglec-2), and MAG (Siglec-4, myelin-associated glycoprotein), the other subgroup is comprised of CD33-related Siglecs which include CD33 (Siglec-3) and human Siglecs 5-11. 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 C1-set of IgSF domains.


Pssm-ID: 409532  Cd Length: 98  Bit Score: 47.25  E-value: 5.64e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020 151 PNISIPQTLELGRPTNVMCSVPWACeRGTPPIFSW-MSAALISLGPTTTLS---------SVLTLTPRLQDHGTNLTCQV 220
Cdd:cd20938     3 PHIQLPPEIQESQEVTLTCLLNFSC-YGYPIQLQWlLEGSPMRQAAVTSTSltiksvftrSELKFQPKWSHHGKIVTCQL 81

                          90
                  ....*....|....*..
gi 1907180020 221 TFPGAGVTVQKTIQLNV 237
Cdd:cd20938    82 QDADGKVLSEDTVQLNV 98
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 40-123 4.03e-06

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: 44.76  E-value: 4.03e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020  40 SVTVQEGLCVLVPCHLieypMNRWSDAAFG-YWFHEGENTHPDSLVATNKPYQLVQKEMQsRFHFSG-----DCSLDIRD 113
Cdd:pfam07686   5 EVTVALGGSVTLPCTY----SSSMSEASTSvYWYRQPPGKGPTFLIAYYSNGSEEGVKKG-RFSGRGdpsngDGSLTIQN 79

                          90
                  ....*....|
gi 1907180020 114 AQKGDNGSYF 123
Cdd:pfam07686  80 LTLSDSGTYT 89
IgC1 cd00098
Immunoglobulin Constant-1 (C1)-set domain; The members here are composed of C1-set domains, ...
 198-233 1.72e-03

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: 37.05  E-value: 1.72e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1907180020 198 TLSSVLTLTPRLQDHGTNLTCQVTFPGAGVTVQKTI 233
Cdd:cd00098    60 SVTSSLTVPPSDWDEGATYTCVVTHESLKSPLSKTW 95
C2-set_2 pfam08205
CD80-like C2-set immunoglobulin domain; These domains belong to the immunoglobulin superfamily.
 196-224 1.82e-03

CD80-like C2-set immunoglobulin domain; These domains belong to the immunoglobulin superfamily.


Pssm-ID: 400489  Cd Length: 89  Bit Score: 37.01  E-value: 1.82e-03
                          10        20
                  ....*....|....*....|....*....
gi 1907180020 196 TTTLSSVLTLTPRLQDHGTNLTCQVTFPG 224
Cdd:pfam08205  56 LVTVTSELKLVPSRSDHGQSLTCQVSYGA 84
I-set pfam07679
Immunoglobulin I-set domain;
32-144 9.38e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 34.93  E-value: 9.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907180020  32 PSLTLELQSVTVQEGLCVLVPCHLIEYPMNRWSdaafgyWFHegenthPDSLVATNKPYQLVQKEmqsrfhfsGDCSLDI 111
Cdd:pfam07679   1 PKFTQKPKDVEVQEGESARFTCTVTGTPDPEVS------WFK------DGQPLRSSDRFKVTYEG--------GTYTLTI 60

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1907180020 112 RDAQKGDNGSYFFRLE-KGGKtwnfCEERISVHV 144
Cdd:pfam07679  61 SNVQPDDSGKYTCVATnSAGE----AEASAELTV 90
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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