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Conserved domains on  [gi|62955635|ref|NP_001017831|]
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ganglioside GM2 activator precursor [Danio rerio]

Protein Classification

ML domain-containing protein( domain architecture ID 5313)

ML (MD-2-related lipid-recognition) domain-containing protein; the ML domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of unknown function in plants, animals and fungi; it is predicted to mediate diverse biological functions through interaction with specific lipids

Gene Ontology:  GO:0008289
PubMed:  12076526

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ML super family cl00274
The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, ...
 38-198 1.06e-86

The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of unknown function in plants, animals and fungi. These single-domain proteins form two anti-parallel beta-pleated sheets stabilized by three disulfide bonds and with an accessible central hydrophobic cavity, and are predicted to mediate diverse biological functions through interaction with specific lipids.


The actual alignment was detected with superfamily member cd00258:

Pssm-ID: 469700  Cd Length: 162  Bit Score: 252.49  E-value: 1.06e-86
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635  38 GFSWQNCGKPDDPANLKSLDISPDPIPIPGRLTADAKGTTSVELASPLSVNVTVEREVAGMWVKIPCLDEIGSCHYPNVC 117
Cdd:cd00258   2 GFSWSNCDGESLPAVIKSLTVNPDPINIPGDLTVSTVGSTSVPLSSPLKVILTLEKEVAGLWMKIPCLDNIGSCTYDNAC 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635 118 DLLNQLIPPPQDCPEPLHTYGLPCHCPFKAGDYALPSSEIDIPDVELPGWLTNGHYRVEGILGSTGKELGCLKISFSLHS 197
Cdd:cd00258  82 DLLDTLIPPGQQCPEPLRTYGLPCHCPFKEGVYSLPDSTFTLPNVDLPSWLTNGNYRITGILMADGKELGCGKFTFSLES 161


                .
gi 62955635 198 S 198
Cdd:cd00258 162 S 162
 
Name Accession Description Interval E-value
GM2-AP cd00258
GM2 activator protein (GM2-AP) is a non-enzymatic lysosomal protein that acts as cofactor in ...
 38-198 1.06e-86

GM2 activator protein (GM2-AP) is a non-enzymatic lysosomal protein that acts as cofactor in the sequential degradation of gangliosides. GM2A is an essential cofactor for beta-hexosaminidase A (Hex A) in the enzymatic hydrolysis of GM2 ganglioside to GM3. Mutation of the gene results in the AB variant of Tay-Sachs disease. GM2-AP and similar proteins belong to the ML domain family.


Pssm-ID: 238161  Cd Length: 162  Bit Score: 252.49  E-value: 1.06e-86
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635  38 GFSWQNCGKPDDPANLKSLDISPDPIPIPGRLTADAKGTTSVELASPLSVNVTVEREVAGMWVKIPCLDEIGSCHYPNVC 117
Cdd:cd00258   2 GFSWSNCDGESLPAVIKSLTVNPDPINIPGDLTVSTVGSTSVPLSSPLKVILTLEKEVAGLWMKIPCLDNIGSCTYDNAC 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635 118 DLLNQLIPPPQDCPEPLHTYGLPCHCPFKAGDYALPSSEIDIPDVELPGWLTNGHYRVEGILGSTGKELGCLKISFSLHS 197
Cdd:cd00258  82 DLLDTLIPPGQQCPEPLRTYGLPCHCPFKEGVYSLPDSTFTLPNVDLPSWLTNGNYRITGILMADGKELGCGKFTFSLES 161


                .
gi 62955635 198 S 198
Cdd:cd00258 162 S 162
E1_DerP2_DerF2 pfam02221
ML domain; ML domain - MD-2-related lipid recognition domain. This family consists of proteins ...
 38-195 9.41e-27

ML domain; ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2. It has been implicate in lipid recognition, particularly in the recognition of pathogen related products. A mutation in Npc2 causes a rare form of Niemann-Pick type C2 disease. This domain has a similar topology to immunoglobulin domains.


Pssm-ID: 460498  Cd Length: 133  Bit Score: 98.98  E-value: 9.41e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635    38 GFSWQNCGKPDDPA-NLKSLDISPD-PIPIPGRLTADAKGTTSVELASPLSVNVTVErevaGMWVKIPCLDEigscHYPN 115
Cdd:pfam02221   1 SVPFRDCGRNKDDApTPKSVDISPPcPLVRGQNLTISASGTTSDEISQGLKVDVEVR----LGGITLPFPLP----ETRD 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635   116 VCDLLNqlipppqdcpeplhtYGLPCHCPFKAGDYAlpsseIDIPDVELPGWLTNGHYRVE-GILGSTGKELGCLKISFS 194
Cdd:pfam02221  73 LCDELE---------------VGSGLSCPIKAGEYV-----TYTLTLPLPSEYPPGKYTVEaELYDQDGKPLTCFKIDVS 132


                  .
gi 62955635   195 L 195
Cdd:pfam02221 133 I 133
ML smart00737
Domain involved in innate immunity and lipid metabolism; ML (MD-2-related lipid-recognition) ...
 41-193 1.37e-11

Domain involved in innate immunity and lipid metabolism; ML (MD-2-related lipid-recognition) is a novel domain identified in MD-1, MD-2, GM2A, Npc2 and multiple proteins of unknown function in plants, animals and fungi. These single-domain proteins were predicted to form a beta-rich fold containing multiple strands, and to mediate diverse biological functions through interacting with specific lipids.


Pssm-ID: 214796  Cd Length: 119  Bit Score: 58.92  E-value: 1.37e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635     41 WQNCGKPDdPANLKSLDISPDPIPIPGRLTADAKGTTSVELASpLSVNVTVerEVAGMWVKIPCLDeigschyPNVCDLL 120
Cdd:smart00737   1 FKDCGSND-PGQISSVSISPCPPVRGKTLTISISFTLNEDISK-LKVVVHV--KIGGIEVPIPGET-------YDLCKLT 69

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 62955635    121 NQlipppqdcpeplhtyglpcHCPFKAGDYALPSSEIdipdvELPGWLTNGHYRVE-GILGSTGKELGCLKISF 193
Cdd:smart00737  70 GS-------------------KCPIEKGETVNYTNSL-----TVPGIFPPGKYTVKwELTDEDGEELACINFTV 119
 
Name Accession Description Interval E-value
GM2-AP cd00258
GM2 activator protein (GM2-AP) is a non-enzymatic lysosomal protein that acts as cofactor in ...
 38-198 1.06e-86

GM2 activator protein (GM2-AP) is a non-enzymatic lysosomal protein that acts as cofactor in the sequential degradation of gangliosides. GM2A is an essential cofactor for beta-hexosaminidase A (Hex A) in the enzymatic hydrolysis of GM2 ganglioside to GM3. Mutation of the gene results in the AB variant of Tay-Sachs disease. GM2-AP and similar proteins belong to the ML domain family.


Pssm-ID: 238161  Cd Length: 162  Bit Score: 252.49  E-value: 1.06e-86
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635  38 GFSWQNCGKPDDPANLKSLDISPDPIPIPGRLTADAKGTTSVELASPLSVNVTVEREVAGMWVKIPCLDEIGSCHYPNVC 117
Cdd:cd00258   2 GFSWSNCDGESLPAVIKSLTVNPDPINIPGDLTVSTVGSTSVPLSSPLKVILTLEKEVAGLWMKIPCLDNIGSCTYDNAC 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635 118 DLLNQLIPPPQDCPEPLHTYGLPCHCPFKAGDYALPSSEIDIPDVELPGWLTNGHYRVEGILGSTGKELGCLKISFSLHS 197
Cdd:cd00258  82 DLLDTLIPPGQQCPEPLRTYGLPCHCPFKEGVYSLPDSTFTLPNVDLPSWLTNGNYRITGILMADGKELGCGKFTFSLES 161


                .
gi 62955635 198 S 198
Cdd:cd00258 162 S 162
E1_DerP2_DerF2 pfam02221
ML domain; ML domain - MD-2-related lipid recognition domain. This family consists of proteins ...
 38-195 9.41e-27

ML domain; ML domain - MD-2-related lipid recognition domain. This family consists of proteins from plants, animals and fungi, including dust mite allergen Der P 2. It has been implicate in lipid recognition, particularly in the recognition of pathogen related products. A mutation in Npc2 causes a rare form of Niemann-Pick type C2 disease. This domain has a similar topology to immunoglobulin domains.


Pssm-ID: 460498  Cd Length: 133  Bit Score: 98.98  E-value: 9.41e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635    38 GFSWQNCGKPDDPA-NLKSLDISPD-PIPIPGRLTADAKGTTSVELASPLSVNVTVErevaGMWVKIPCLDEigscHYPN 115
Cdd:pfam02221   1 SVPFRDCGRNKDDApTPKSVDISPPcPLVRGQNLTISASGTTSDEISQGLKVDVEVR----LGGITLPFPLP----ETRD 72

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635   116 VCDLLNqlipppqdcpeplhtYGLPCHCPFKAGDYAlpsseIDIPDVELPGWLTNGHYRVE-GILGSTGKELGCLKISFS 194
Cdd:pfam02221  73 LCDELE---------------VGSGLSCPIKAGEYV-----TYTLTLPLPSEYPPGKYTVEaELYDQDGKPLTCFKIDVS 132


                  .
gi 62955635   195 L 195
Cdd:pfam02221 133 I 133
ML smart00737
Domain involved in innate immunity and lipid metabolism; ML (MD-2-related lipid-recognition) ...
 41-193 1.37e-11

Domain involved in innate immunity and lipid metabolism; ML (MD-2-related lipid-recognition) is a novel domain identified in MD-1, MD-2, GM2A, Npc2 and multiple proteins of unknown function in plants, animals and fungi. These single-domain proteins were predicted to form a beta-rich fold containing multiple strands, and to mediate diverse biological functions through interacting with specific lipids.


Pssm-ID: 214796  Cd Length: 119  Bit Score: 58.92  E-value: 1.37e-11
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635     41 WQNCGKPDdPANLKSLDISPDPIPIPGRLTADAKGTTSVELASpLSVNVTVerEVAGMWVKIPCLDeigschyPNVCDLL 120
Cdd:smart00737   1 FKDCGSND-PGQISSVSISPCPPVRGKTLTISISFTLNEDISK-LKVVVHV--KIGGIEVPIPGET-------YDLCKLT 69

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 62955635    121 NQlipppqdcpeplhtyglpcHCPFKAGDYALPSSEIdipdvELPGWLTNGHYRVE-GILGSTGKELGCLKISF 193
Cdd:smart00737  70 GS-------------------KCPIEKGETVNYTNSL-----TVPGIFPPGKYTVKwELTDEDGEELACINFTV 119
ML cd00912
The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, ...
 41-193 6.10e-11

The ML (MD-2-related lipid-recognition) domain is present in MD-1, MD-2, GM2 activator protein, Niemann-Pick type C2 (Npc2) protein, phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP), mite allergen Der p 2 and several proteins of unknown function in plants, animals and fungi. These single-domain proteins form two anti-parallel beta-pleated sheets stabilized by three disulfide bonds and with an accessible central hydrophobic cavity, and are predicted to mediate diverse biological functions through interaction with specific lipids.


Pssm-ID: 238454  Cd Length: 127  Bit Score: 57.53  E-value: 6.10e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635  41 WQNCGkpDDPANLKSLDISPD-----PIPIPGRLTADAKGTTSVELASPLsvnvtVEREVAGMWVKIPCLDEigschYPN 115
Cdd:cd00912   1 LVDCS--DNSANIKEVLLSPCdplpcPDHRGGNYNLSVTGTLREDIKSLY-----VDLALMSQGIKVLNPDN-----SYD 68

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 62955635 116 VCDLLNQLipppqdcpeplhtyglPCHCPFKAG-DYALPSSEidipDVELPGWLTNGHYRVEGILGSTGKELGCLKISF 193
Cdd:cd00912  69 FCEAGLPK----------------PSFCPLRKGqQYSYAKTV----NVPEFTIPTIEYQVVLEDVTDKGEVLACAQATI 127
PG-PI_TP cd00917
The phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP) has been shown to ...
 41-193 1.38e-04

The phosphatidylinositol/phosphatidylglycerol transfer protein (PG/PI-TP) has been shown to bind phosphatidylglycerol and phosphatidylinositol, but the biological significance of this is still obscure. These proteins belong to the ML domain family.


Pssm-ID: 238459  Cd Length: 122  Bit Score: 40.00  E-value: 1.38e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62955635  41 WQNCGKPD-DPANLKSLDISPDPIPIPGRLTADAKGTTSVELASPLSVNVTVErevAGMWvkipcldEIGSCHYPnVCDL 119
Cdd:cd00917   1 FEYCDKGGeDIVKVTSVEISPNPPAAGQNLTIEASGSVGKEIEDGAYVVVEVK---YGFI-------RLLSETYD-LCDE 69

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 62955635 120 LNQLIPPpqdcpeplhtyglpchCPFKAGDYALPSSeidipdVELPGWLTNGHYRVEG-ILGSTGKELGCLKISF 193
Cdd:cd00917  70 TKNVDLS----------------CPIEPGDKFLTKL------VDLPGEIPPGKYTVSArAYTKDDEEITCLSFSV 122
 
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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