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Conserved domains on  [gi|528475257|ref|XP_001922015|]
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intercellular adhesion molecule 1 isoform X2 [Danio rerio]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 10310086)

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 Homo sapiens Fc receptor-like A that may be implicated in B-cell differentiation and lymphomagenesis

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ig_2 pfam13895
Immunoglobulin domain; This domain contains immunoglobulin-like domains.
 216-290 5.73e-07

Immunoglobulin domain; This domain contains immunoglobulin-like domains.


:

Pssm-ID: 464026 [Multi-domain]  Cd Length: 79  Bit Score: 46.62  E-value: 5.73e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 528475257  216 KPQHSSSAENISQSDTVYLNCTVKANPAAVYTWH--SEHLKEKISSPVIQSSPLSPGKYTCTATNDLGA-SSKVFIVS 290
Cdd:pfam13895   1 KPVLTPSPTVVTEGEPVTLTCSAPGNPPPSYTWYkdGSAISSSPNFFTLSVSAEDSGTYTCVARNGRGGkVSNPVELT 78
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 108-197 5.69e-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 cd05755:

Pssm-ID: 472250  Cd Length: 101  Bit Score: 41.39  E-value: 5.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528475257 108 TPDSVSISTVNQIMTEGNQYELQCDIHNVAPAQNLTINWYKGETLVNQTNFTDNTKSPVNKIIRLLIHPDRADDGAQYRC 187
Cdd:cd05755    1 PPERVELTPLPSWQPVGKNFTLRCRVPGGAPRASLTLVLLRGNETLHRETFGGAAPAPQPAEATFTVLARREDHGANFSC 80

                         90
                 ....*....|
gi 528475257 188 ETELNLGVEG 197
Cdd:cd05755   81 LAELDLRPQG 90
 
Name Accession Description Interval E-value
Ig_2 pfam13895
Immunoglobulin domain; This domain contains immunoglobulin-like domains.
 216-290 5.73e-07

Immunoglobulin domain; This domain contains immunoglobulin-like domains.


Pssm-ID: 464026 [Multi-domain]  Cd Length: 79  Bit Score: 46.62  E-value: 5.73e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 528475257  216 KPQHSSSAENISQSDTVYLNCTVKANPAAVYTWH--SEHLKEKISSPVIQSSPLSPGKYTCTATNDLGA-SSKVFIVS 290
Cdd:pfam13895   1 KPVLTPSPTVVTEGEPVTLTCSAPGNPPPSYTWYkdGSAISSSPNFFTLSVSAEDSGTYTCVARNGRGGkVSNPVELT 78
IgC2_2_ICAM-1_like cd05755
Second immunoglobulin (Ig)-like C2-set domain of intercellular cell adhesion molecule 1 ...
 108-197 5.69e-05

Second immunoglobulin (Ig)-like C2-set domain of intercellular cell adhesion molecule 1 (ICAM-1), and similar domains; The members here are composed of the second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule 1 (ICAM-1; also known as domain of cluster of differentiation (CD) 54) and similar proteins. During the inflammation process, these molecules recruit leukocytes onto the vascular endothelium before extravasation to the injured tissues. ICAM-1 may be involved in organ targeted tumor metastasis. The interaction of ICAM-1 with leukocyte function-associated antigen-1 (LFA-1) plays a part in leukocyte-endothelial cell recognition. This group also contains ICAM-2 which also interacts with LFA-1. Transmigration of immature dendritic cells across resting endothelium is dependent on the interaction of ICAM-2 with, yet unidentified, ligand(s) on the dendritic cells. ICAM-1 has five Ig-like domains and ICAM-2 has two. ICAM-1 may also act as host receptor for viruses and parasites. The structures of this group show that the second Ig domain lacks a D strand and thus belonging to the C2-set of the IgSF


Pssm-ID: 409413  Cd Length: 101  Bit Score: 41.39  E-value: 5.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528475257 108 TPDSVSISTVNQIMTEGNQYELQCDIHNVAPAQNLTINWYKGETLVNQTNFTDNTKSPVNKIIRLLIHPDRADDGAQYRC 187
Cdd:cd05755    1 PPERVELTPLPSWQPVGKNFTLRCRVPGGAPRASLTLVLLRGNETLHRETFGGAAPAPQPAEATFTVLARREDHGANFSC 80

                         90
                 ....*....|
gi 528475257 188 ETELNLGVEG 197
Cdd:cd05755   81 LAELDLRPQG 90
IgI_2_Titin_Z1z2-like cd20972
Second Ig-like domain of the giant muscle protein titin Z1z2 in the sarcomeric Z-disk, and ...
 201-288 6.30e-05

Second Ig-like domain of the giant muscle protein titin Z1z2 in the sarcomeric Z-disk, and similar domains; a member of the I-set of IgSF domains; The members here are composed of the second immunoglobulin (Ig)-like domain of the giant muscle protein titin Z1z2 in the sarcomeric Z-disk and similar proteins. Titin is a key component in the assembly and functioning of vertebrate striated muscles. By providing connections at the level of individual microfilaments, it contributes to the fine balance of forces between the two halves of the sarcomere. The Ig superfamily (IgSF) is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. 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. Unlike the V-set, one of the distinctive features of I-set domains is the lack of a C" strand. The structure of the titin Z1z2 lacks this strand and thus it belongs to the I-set of the IgSF. I-set domains are found in several cell adhesion molecules (such as VCAM, ICAM, and MADCAM), and are also present in numerous other diverse protein families, including several tyrosine-protein kinase receptors, the hemolymph protein hemolin, the muscle proteins titin, telokin, and twitchin, the neuronal adhesion molecule axonin-1, and the signaling molecule semaphorin 4D that is involved in axonal guidance, immune function and angiogenesis.


Pssm-ID: 409564 [Multi-domain]  Cd Length: 91  Bit Score: 41.03  E-value: 6.30e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528475257 201 PPKNTSKPLSIDVhykpqhsssaeniSQSDTVYLNCTVKANPAAVYTWHSEHlKEKISSPVIQSS--------------P 266
Cdd:cd20972    1 PPQFIQKLRSQEV-------------AEGSKVRLECRVTGNPTPVVRWFCEG-KELQNSPDIQIHqegdlhsliiaeafE 66

                         90       100
                 ....*....|....*....|....*
gi 528475257 267 LSPGKYTCTATNDLG---ASSKVFI 288
Cdd:cd20972   67 EDTGRYSCLATNSVGsdtTSAEIFV 91
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 230-281 1.53e-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: 37.10  E-value: 1.53e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 528475257   230 DTVYLNCTVKANPAAVYTWHSEHLKEKISSPVIQSSPLSP--------------GKYTCTATNDLG 281
Cdd:smart00410  10 ESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGStstltisnvtpedsGTYTCAATNSSG 75
 
Name Accession Description Interval E-value
Ig_2 pfam13895
Immunoglobulin domain; This domain contains immunoglobulin-like domains.
 216-290 5.73e-07

Immunoglobulin domain; This domain contains immunoglobulin-like domains.


Pssm-ID: 464026 [Multi-domain]  Cd Length: 79  Bit Score: 46.62  E-value: 5.73e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 528475257  216 KPQHSSSAENISQSDTVYLNCTVKANPAAVYTWH--SEHLKEKISSPVIQSSPLSPGKYTCTATNDLGA-SSKVFIVS 290
Cdd:pfam13895   1 KPVLTPSPTVVTEGEPVTLTCSAPGNPPPSYTWYkdGSAISSSPNFFTLSVSAEDSGTYTCVARNGRGGkVSNPVELT 78
IgC2_2_ICAM-1_like cd05755
Second immunoglobulin (Ig)-like C2-set domain of intercellular cell adhesion molecule 1 ...
 108-197 5.69e-05

Second immunoglobulin (Ig)-like C2-set domain of intercellular cell adhesion molecule 1 (ICAM-1), and similar domains; The members here are composed of the second immunoglobulin (Ig)-like domain of intercellular cell adhesion molecule 1 (ICAM-1; also known as domain of cluster of differentiation (CD) 54) and similar proteins. During the inflammation process, these molecules recruit leukocytes onto the vascular endothelium before extravasation to the injured tissues. ICAM-1 may be involved in organ targeted tumor metastasis. The interaction of ICAM-1 with leukocyte function-associated antigen-1 (LFA-1) plays a part in leukocyte-endothelial cell recognition. This group also contains ICAM-2 which also interacts with LFA-1. Transmigration of immature dendritic cells across resting endothelium is dependent on the interaction of ICAM-2 with, yet unidentified, ligand(s) on the dendritic cells. ICAM-1 has five Ig-like domains and ICAM-2 has two. ICAM-1 may also act as host receptor for viruses and parasites. The structures of this group show that the second Ig domain lacks a D strand and thus belonging to the C2-set of the IgSF


Pssm-ID: 409413  Cd Length: 101  Bit Score: 41.39  E-value: 5.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528475257 108 TPDSVSISTVNQIMTEGNQYELQCDIHNVAPAQNLTINWYKGETLVNQTNFTDNTKSPVNKIIRLLIHPDRADDGAQYRC 187
Cdd:cd05755    1 PPERVELTPLPSWQPVGKNFTLRCRVPGGAPRASLTLVLLRGNETLHRETFGGAAPAPQPAEATFTVLARREDHGANFSC 80

                         90
                 ....*....|
gi 528475257 188 ETELNLGVEG 197
Cdd:cd05755   81 LAELDLRPQG 90
IgI_2_Titin_Z1z2-like cd20972
Second Ig-like domain of the giant muscle protein titin Z1z2 in the sarcomeric Z-disk, and ...
 201-288 6.30e-05

Second Ig-like domain of the giant muscle protein titin Z1z2 in the sarcomeric Z-disk, and similar domains; a member of the I-set of IgSF domains; The members here are composed of the second immunoglobulin (Ig)-like domain of the giant muscle protein titin Z1z2 in the sarcomeric Z-disk and similar proteins. Titin is a key component in the assembly and functioning of vertebrate striated muscles. By providing connections at the level of individual microfilaments, it contributes to the fine balance of forces between the two halves of the sarcomere. The Ig superfamily (IgSF) is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. 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. Unlike the V-set, one of the distinctive features of I-set domains is the lack of a C" strand. The structure of the titin Z1z2 lacks this strand and thus it belongs to the I-set of the IgSF. I-set domains are found in several cell adhesion molecules (such as VCAM, ICAM, and MADCAM), and are also present in numerous other diverse protein families, including several tyrosine-protein kinase receptors, the hemolymph protein hemolin, the muscle proteins titin, telokin, and twitchin, the neuronal adhesion molecule axonin-1, and the signaling molecule semaphorin 4D that is involved in axonal guidance, immune function and angiogenesis.


Pssm-ID: 409564 [Multi-domain]  Cd Length: 91  Bit Score: 41.03  E-value: 6.30e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528475257 201 PPKNTSKPLSIDVhykpqhsssaeniSQSDTVYLNCTVKANPAAVYTWHSEHlKEKISSPVIQSS--------------P 266
Cdd:cd20972    1 PPQFIQKLRSQEV-------------AEGSKVRLECRVTGNPTPVVRWFCEG-KELQNSPDIQIHqegdlhsliiaeafE 66

                         90       100
                 ....*....|....*....|....*
gi 528475257 267 LSPGKYTCTATNDLG---ASSKVFI 288
Cdd:cd20972   67 EDTGRYSCLATNSVGsdtTSAEIFV 91
IgC2_VCAM-1 cd07689
Immunoglobulin (Ig)-like domain of vascular endothelial cell adhesion molecule-1 (VCAM-1) and ...
 124-208 4.37e-04

Immunoglobulin (Ig)-like domain of vascular endothelial cell adhesion molecule-1 (VCAM-1) and similar proteins; member of the C2-set of IgSF domains; The members here are composed of the immunoglobulin (Ig)-like domain of vascular endothelial cell adhesion molecule-1 (VCAM-1; also known as Cluster of Differentiation (CD) 106) and similar proteins. During the inflammation process, these molecules recruit leukocytes onto the vascular endothelium before extravasation to the injured tissues. The interaction of VCAM-1 binding to the beta1 integrin very late antigen 4 (VLA-4) expressed by lymphocytes and monocytes mediates the adhesion of leucocytes to blood vessel walls, and regulates migration across the endothelium. During metastasis, some circulating cancer cells extravasate to a secondary site by a similar process. VCAM-1 may be involved in organ targeted tumor metastasis and may also act as host receptors for viruses and parasites. VCAM-1 contains seven Ig domains.


Pssm-ID: 409486  Cd Length: 101  Bit Score: 39.06  E-value: 4.37e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528475257 124 GNQYELQCDIHNVAPAQNLTINWYKGETLVNQTNFTDNT--KSPVNKIIRLLIHPDRADDGAQYRCETELNLGVEGPQPP 201
Cdd:cd07689   15 GKPVTVSCSVPDVYPFDRLEIELLKGETLLESKEFLEDMdkKSLETKSLEVTFIPTIEDTGKVLVCRAKLHIDEMEFEPK 94


                 ....*..
gi 528475257 202 PKNTSKP 208
Cdd:cd07689   95 QRQSTQE 101
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 230-281 1.53e-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: 37.10  E-value: 1.53e-03
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 528475257   230 DTVYLNCTVKANPAAVYTWHSEHLKEKISSPVIQSSPLSP--------------GKYTCTATNDLG 281
Cdd:smart00410  10 ESVTLSCEASGSPPPEVTWYKQGGKLLAESGRFSVSRSGStstltisnvtpedsGTYTCAATNSSG 75
I-set pfam07679
Immunoglobulin I-set domain;
230-289 1.78e-03

Immunoglobulin I-set domain;


Pssm-ID: 400151 [Multi-domain]  Cd Length: 90  Bit Score: 36.85  E-value: 1.78e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 528475257  230 DTVYLNCTVKANPAAVYTWH--------SEHLK----EKISSPVIQSSPLS-PGKYTCTATNDLGASSKVFIV 289
Cdd:pfam07679  16 ESARFTCTVTGTPDPEVSWFkdgqplrsSDRFKvtyeGGTYTLTISNVQPDdSGKYTCVATNSAGEAEASAEL 88
 
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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