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Conserved domains on  [gi|226437629|ref|NP_034460|]
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embigin precursor [Mus musculus]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 11669303)

immunoglobulin (Ig) domain-containing protein adopts a fold comprised of a sandwich of two beta sheets, which is often involved in functions such as cell adhesion, immune recognition, and protein-protein interactions; similar to Homo sapiens V-set and immunoglobulin domain containing 8 (VSIG8) endothelial cell-selective adhesion molecule (ESAM), and Embigin/basigin subgroup, all of which are members of the immunoglobulin superfamily (IgSF)

CATH:  2.60.40.10
PubMed:  9417933|7932691
SCOP:  3000071

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 168-257 1.49e-07

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: 48.27  E-value: 1.49e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 226437629   168 KSLIAYVGDSTVLKCVCQDCLPLNWTWYMGNetaQVPIdaHSNEKYIINGSHANETrLKIKHLLEEDGGSYWCRATFQLG 247
Cdd:smart00410   2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQG---GKLL--AESGRFSVSRSGSTST-LTISNVTPEDSGTYTCAATNSSG 75

                           90
                   ....*....|
gi 226437629   248 ESEEQNELVV 257
Cdd:smart00410  76 SASSGTTLTV 85
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 85-151 6.17e-04

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 pfam07679:

Pssm-ID: 472250 [Multi-domain]  Cd Length: 90  Bit Score: 38.39  E-value: 6.17e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 226437629   85 VELKCVYTATKDlnlMNVTWKKDDEPLETTGDFNTTKMGNTltsqYRFIVFNSKQ--LGKYSCV----FGEKE 151
Cdd:pfam07679  18 ARFTCTVTGTPD---PEVSWFKDGQPLRSSDRFKVTYEGGT----YTLTISNVQPddSGKYTCVatnsAGEAE 83
 
Name Accession Description Interval E-value
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 168-257 1.49e-07

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: 48.27  E-value: 1.49e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 226437629   168 KSLIAYVGDSTVLKCVCQDCLPLNWTWYMGNetaQVPIdaHSNEKYIINGSHANETrLKIKHLLEEDGGSYWCRATFQLG 247
Cdd:smart00410   2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQG---GKLL--AESGRFSVSRSGSTST-LTISNVTPEDSGTYTCAATNSSG 75

                           90
                   ....*....|
gi 226437629   248 ESEEQNELVV 257
Cdd:smart00410  76 SASSGTTLTV 85
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 179-253 8.54e-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.


Pssm-ID: 409353 [Multi-domain]  Cd Length: 70  Bit Score: 40.39  E-value: 8.54e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 226437629 179 VLKCVCQDCLPLNWTWYMGNEtaQVPIDAHSNEKYIINGSHanetrLKIKHLLEEDGGSYWCRATFQLGESEEQN 253
Cdd:cd00096    2 TLTCSASGNPPPTITWYKNGK--PLPPSSRDSRRSELGNGT-----LTISNVTLEDSGTYTCVASNSAGGSASAS 69
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 161-243 2.46e-04

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 39.09  E-value: 2.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 226437629  161 PKAHGKKKSLIAYVGDSTVLKCVCQDCLPLNWTWYMGNETAqvpidahSNEKYIINGSHANETRLKIKHLLEEDGGSYWC 240
Cdd:pfam13927   2 PVITVSPSSVTVREGETVTLTCEATGSPPPTITWYKNGEPI-------SSGSTRSRSLSGSNSTLTISNVTRSDAGTYTC 74


                  ...
gi 226437629  241 RAT 243
Cdd:pfam13927  75 VAS 77
I-set pfam07679
Immunoglobulin I-set domain;
85-151 6.17e-04

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 38.39  E-value: 6.17e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 226437629   85 VELKCVYTATKDlnlMNVTWKKDDEPLETTGDFNTTKMGNTltsqYRFIVFNSKQ--LGKYSCV----FGEKE 151
Cdd:pfam07679  18 ARFTCTVTGTPD---PEVSWFKDGQPLRSSDRFKVTYEGGT----YTLTISNVQPddSGKYTCVatnsAGEAE 83
 
Name Accession Description Interval E-value
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 168-257 1.49e-07

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: 48.27  E-value: 1.49e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 226437629   168 KSLIAYVGDSTVLKCVCQDCLPLNWTWYMGNetaQVPIdaHSNEKYIINGSHANETrLKIKHLLEEDGGSYWCRATFQLG 247
Cdd:smart00410   2 PSVTVKEGESVTLSCEASGSPPPEVTWYKQG---GKLL--AESGRFSVSRSGSTST-LTISNVTPEDSGTYTCAATNSSG 75

                           90
                   ....*....|
gi 226437629   248 ESEEQNELVV 257
Cdd:smart00410  76 SASSGTTLTV 85
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 179-253 8.54e-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.


Pssm-ID: 409353 [Multi-domain]  Cd Length: 70  Bit Score: 40.39  E-value: 8.54e-05
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 226437629 179 VLKCVCQDCLPLNWTWYMGNEtaQVPIDAHSNEKYIINGSHanetrLKIKHLLEEDGGSYWCRATFQLGESEEQN 253
Cdd:cd00096    2 TLTCSASGNPPPTITWYKNGK--PLPPSSRDSRRSELGNGT-----LTISNVTLEDSGTYTCVASNSAGGSASAS 69
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 161-243 2.46e-04

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 39.09  E-value: 2.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 226437629  161 PKAHGKKKSLIAYVGDSTVLKCVCQDCLPLNWTWYMGNETAqvpidahSNEKYIINGSHANETRLKIKHLLEEDGGSYWC 240
Cdd:pfam13927   2 PVITVSPSSVTVREGETVTLTCEATGSPPPTITWYKNGEPI-------SSGSTRSRSLSGSNSTLTISNVTRSDAGTYTC 74


                  ...
gi 226437629  241 RAT 243
Cdd:pfam13927  75 VAS 77
I-set pfam07679
Immunoglobulin I-set domain;
85-151 6.17e-04

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 38.39  E-value: 6.17e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 226437629   85 VELKCVYTATKDlnlMNVTWKKDDEPLETTGDFNTTKMGNTltsqYRFIVFNSKQ--LGKYSCV----FGEKE 151
Cdd:pfam07679  18 ARFTCTVTGTPD---PEVSWFKDGQPLRSSDRFKVTYEGGT----YTLTISNVQPddSGKYTCVatnsAGEAE 83
IgI_3_hemolin-like cd20977
Third immunoglobulin (Ig)-like domain of hemolin, and similar domains; a member of the I-set ...
 168-253 1.73e-03

Third immunoglobulin (Ig)-like domain of hemolin, and similar domains; a member of the I-set of IgSF domains; The members here are composed of the third immunoglobulin (Ig)-like domain of hemolin and similar proteins. Hemolin, an insect immunoglobulin superfamily (IgSF) member containing four Ig-like domains, is a lipopolysaccharide-binding immune protein induced during bacterial infection. Hemolin shares significant sequence similarity with the first four Ig-like domains of the transmembrane cell adhesion molecules (CAMs) of the L1 family. 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. The third Ig-like domain of hemolin is a member of the I-set Ig domains, having A-B-E-D strands in one beta-sheet and A'-G-F-C-C' in the other. Like the V-set Ig domains, members of the I-set have a discontinuous A strand but lack a C" strand. I-set domains are found in several cell adhesion molecules, including vascular (VCAM), intercellular (ICAM), neural (NCAM) and mucosal addressin (MADCAM) cell adhesion molecules, as well as junction adhesion molecules (JAM).


Pssm-ID: 409569  Cd Length: 93  Bit Score: 36.99  E-value: 1.73e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 226437629 168 KSLIAYVGDSTVLKCVCQDCLPLNWTWYMGNEtaqvPIDAHSnEKYIINGSHANETRLKIKHLLEEDGGSYWCRATFQLG 247
Cdd:cd20977    8 KDMMAKAGDVTMIYCMYGSNPTAHPNYFKNGK----DVNGNP-EDRITRHNRTSGKRLLFKTTLPEDEGVYTCEVDNGVG 82


                 ....*.
gi 226437629 248 ESEEQN 253
Cdd:cd20977   83 KPQKHS 88
IgC_CRIg cd16082
Immunoglobulin (Ig) constant domain of the complement receptor of the immunoglobulin ...
 180-256 2.86e-03

Immunoglobulin (Ig) constant domain of the complement receptor of the immunoglobulin superfamily (CRIg); The members here are composed of the Immunoglobulin (Ig) constant domain of the complement receptor of the immunoglobulin superfamily (CRIg). The N-terminal domain of CRIg (also referred to 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. CRIg plays a role in the complement system, an 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: 409504  Cd Length: 86  Bit Score: 36.27  E-value: 2.86e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 226437629 180 LKCVCQDCLPLNWTWYMGNETAQVPIDAhsnekyiingshANETRLKIKHLLEEDGGSYWCRATFQLGeSEEQNELV 256
Cdd:cd16082   18 LQCQAWGSPPISYVWYKEQTNNQEPIKV------------AALSTLLFKPAVVADSGSYFCTAKGRVG-SEQRSDIV 81
Ig_DSCAM cd05734
Immunoglobulin (Ig)-like domain of Down Syndrome Cell Adhesion molecule (DSCAM); The members ...
 175-247 4.07e-03

Immunoglobulin (Ig)-like domain of Down Syndrome Cell Adhesion molecule (DSCAM); The members here are composed of the immunoglobulin (Ig)-like domain of Down Syndrome Cell Adhesion molecule (DSCAM). DSCAM is a cell adhesion molecule expressed largely in the developing nervous system. The gene encoding DSCAM is located at human chromosome 21q22, the locus associated with the intellectual disability phenotype of Down Syndrome. DSCAM is predicted to be the largest member of the IG superfamily. It has been demonstrated that DSCAM can mediate cation-independent homophilic intercellular adhesion.


Pssm-ID: 409397 [Multi-domain]  Cd Length: 97  Bit Score: 36.32  E-value: 4.07e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 226437629 175 GDSTVLKCVCQDCLPLNWTWYM----GNETAQVPIDAHSNEKYIINGShanetrLKIKHLLEEDGGSYWCRATFQLG 247
Cdd:cd05734   16 GKAVVLNCSADGYPPPTIVWKHskgsGVPQFQHIVPLNGRIQLLSNGS------LLIKHVLEEDSGYYLCKVSNDVG 86
 
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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