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Conserved domains on  [gi|568963771|ref|XP_006512147|]
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sterol regulatory element-binding protein cleavage-activating protein isoform X1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Sterol-sensing pfam12349
Sterol-sensing domain of SREBP cleavage-activation; Sterol regulatory element-binding proteins ...
 308-452 1.47e-57

Sterol-sensing domain of SREBP cleavage-activation; Sterol regulatory element-binding proteins (SREBPs) are membrane-bound transcription factors that promote lipid synthesis in animal cells. They are embedded in the membranes of the endoplasmic reticulum (ER) in a helical hairpin orientation and are released from the ER by a two-step proteolytic process. Proteolysis begins when the SREBPs are cleaved at Site-1, which is located at a leucine residue in the middle of the hydrophobic loop in the lumen of the ER. Upon proteolytic processing SREBP can activate the expression of genes involved in cholesterol biosynthesis and uptake. SCAP stimulates cleavage of SREBPs via fusion of the their two C-termini. This domain is the transmembrane region that traverses the membrane eight times and is the sterol-sensing domain of the cleavage protein. WD40 domains are found towards the C-terminus.


:

Pssm-ID: 463544 [Multi-domain]  Cd Length: 153  Bit Score: 195.49  E-value: 1.47e-57
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   308 MVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSS 387
Cdd:pfam12349    1 MVKSKFGLGLAGVIIVLASVASSLGLCAYFGLPLTLIISEVIPFLVLAIGVDNIFLLVKAVVRTPRSLDVSERIAEALGE 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568963771   388 ESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIRRMELADL 452
Cdd:pfam12349   81 VGPSITLTSLTEILAFLLGALTDMPAVQEFCLFAAVAVLFDFLLQMTFFVAVLSLDIRRLESNRL 145
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1065-1232 9.88e-26

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 108.58  E-value: 9.88e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1065 CHRTHTvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDDSCCLFTLKGHSGAITAV-YIDQTMVLASGGQDGAICL 1141
Cdd:cd00200     1 LRRTLK---GHTGGVTCVAFSPdgKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVaASADGTYLASGSSDKTIRL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1142 WDVLTGSRVSQTFAHRGDVTSLTCTASC--VISSGLDDFISIWDRSTGIKLYSIQQDLGCGASLGVISDNLLVTGGQ--G 1217
Cdd:cd00200    78 WDLETGECVRTLTGHTSYVSSVAFSPDGriLSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSqdG 157

                         170
                  ....*....|....*
gi 568963771 1218 CVSFWDLNYGDLLQT 1232
Cdd:cd00200   158 TIKLWDLRTGKCVAT 172
2A060601 super family cl36767
Niemann-Pick C type protein family; The model describes Niemann-Pick C type protein in ...
 11-466 5.09e-22

Niemann-Pick C type protein family; The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis. [Transport and binding proteins, Other]


The actual alignment was detected with superfamily member TIGR00917:

Pssm-ID: 273337 [Multi-domain]  Cd Length: 1205  Bit Score: 103.45  E-value: 5.09e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771    11 ISQAFYNHGLLCASYPIPIILFTGLCILACCYPLLKLPLPgtgpvefSTPVKGYSPPpadsDHKQGEPSEQPEWYVGaPV 90
Cdd:TIGR00917  309 LARFFGKYGIWVARHPTLVICLSVSVVLLLCVGLIRFKVE-------TRPVKLWVAP----GSRAALEKQYFDTHFG-PF 376

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771    91 AYIQQIFVKSSVSPWHRNllavdvFRSPLSraFQLVEEIRNHVLRDSSGTKSLEEVCLQVTDLLpglrkLRSLLPeHGCL 170
Cdd:TIGR00917  377 YRIEQLIIATVQTSSHEK------APEILT--DDNLKLLFDIQKKVSQLFANYEGELITLDSPC-----FKPNHP-YNCF 442

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   171 LLSPGNFWQNDWERF---HADPDIIGTIHQH-EPKTLQTSATLKDllFGVP-------GKYSGVSLYTRKRMVsytITLV 239
Cdd:TIGR00917  443 IYSTCKKLQNMYSKLkpeNYDDYGGVDYVKYcFEHFTSPESCLSA--FGGPvdpttvlGGFSGNNFSEASAFV---VTFP 517

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   240 FQRYHAK-------------FLSSLRARLmLLHPSPNCSLRAENLVHVHFKEEiGIAELIPLVTTYIILFAYIY----FS 302
Cdd:TIGR00917  518 VNNFVNKtnktekavawekaFIQLAKDEL-LPMVQATISFSAERSIEDELKRE-STADVITIAISYLVMFAYISltlgDS 595

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   303 TR-KIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSV-----------VS 370
Cdd:TIGR00917  596 PRlKSLYVTSKVLLGLSGILIVMLSVLGSVGVFSAVGLKSTLIIMEVIPFLVLAVGVDNIFILVFFYfyleyfyrqvgVD 675

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   371 TPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIRRMEla 450
Cdd:TIGR00917  676 NEQELTLERRLSRALMEVGPSITLASLSEILAFALGALIKMPAVRVFSMFAVLAVFLDFLLQITAFVALLVLDFKRTE-- 753

                          490
                   ....*....|....*.
gi 568963771   451 dlNKRLppeSCLPSAK 466
Cdd:TIGR00917  754 --DKRV---DCFPCIK 764
WD40 COG2319
WD40 repeat [General function prediction only];
952-1144 6.78e-16

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 81.50  E-value: 6.78e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  952 KGSPPLAWTPSTAGSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLD 1027
Cdd:COG2319   234 ATGKLLRTLTGHSGSVRSVAFspDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSpdGKLLASGSDDGTVR 313

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1028 FFSLETHTSLSPLQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDD 1105
Cdd:COG2319   314 LWDLATGKLLRTLT--------------------------------GHTGAVRSVAFSPdgKTLASGSDDGTVRLWDLAT 361

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 568963771 1106 SCCLFTLKGHSGAITAVYI--DQTMvLASGGQDGAICLWDV 1144
Cdd:COG2319   362 GELLRTLTGHTGAVTSVAFspDGRT-LASGSADGTVRLWDL 401
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 771-802 2.01e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


:

Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 37.29  E-value: 2.01e-03
                            10        20        30
                    ....*....|....*....|....*....|....
gi 568963771    771 VLRGHLMDIECLA--SDGMLLVSCCLAGQVCVWD 802
Cdd:smart00320    7 TLKGHTGPVTSVAfsPDGKYLASGSDDGTIKLWD 40
 
Name Accession Description Interval E-value
Sterol-sensing pfam12349
Sterol-sensing domain of SREBP cleavage-activation; Sterol regulatory element-binding proteins ...
 308-452 1.47e-57

Sterol-sensing domain of SREBP cleavage-activation; Sterol regulatory element-binding proteins (SREBPs) are membrane-bound transcription factors that promote lipid synthesis in animal cells. They are embedded in the membranes of the endoplasmic reticulum (ER) in a helical hairpin orientation and are released from the ER by a two-step proteolytic process. Proteolysis begins when the SREBPs are cleaved at Site-1, which is located at a leucine residue in the middle of the hydrophobic loop in the lumen of the ER. Upon proteolytic processing SREBP can activate the expression of genes involved in cholesterol biosynthesis and uptake. SCAP stimulates cleavage of SREBPs via fusion of the their two C-termini. This domain is the transmembrane region that traverses the membrane eight times and is the sterol-sensing domain of the cleavage protein. WD40 domains are found towards the C-terminus.


Pssm-ID: 463544 [Multi-domain]  Cd Length: 153  Bit Score: 195.49  E-value: 1.47e-57
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   308 MVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSS 387
Cdd:pfam12349    1 MVKSKFGLGLAGVIIVLASVASSLGLCAYFGLPLTLIISEVIPFLVLAIGVDNIFLLVKAVVRTPRSLDVSERIAEALGE 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568963771   388 ESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIRRMELADL 452
Cdd:pfam12349   81 VGPSITLTSLTEILAFLLGALTDMPAVQEFCLFAAVAVLFDFLLQMTFFVAVLSLDIRRLESNRL 145
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1065-1232 9.88e-26

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 108.58  E-value: 9.88e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1065 CHRTHTvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDDSCCLFTLKGHSGAITAV-YIDQTMVLASGGQDGAICL 1141
Cdd:cd00200     1 LRRTLK---GHTGGVTCVAFSPdgKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVaASADGTYLASGSSDKTIRL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1142 WDVLTGSRVSQTFAHRGDVTSLTCTASC--VISSGLDDFISIWDRSTGIKLYSIQQDLGCGASLGVISDNLLVTGGQ--G 1217
Cdd:cd00200    78 WDLETGECVRTLTGHTSYVSSVAFSPDGriLSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSqdG 157

                         170
                  ....*....|....*
gi 568963771 1218 CVSFWDLNYGDLLQT 1232
Cdd:cd00200   158 TIKLWDLRTGKCVAT 172
WD40 COG2319
WD40 repeat [General function prediction only];
952-1232 1.68e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 101.53  E-value: 1.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  952 KGSPPLAWTPSTAGSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLD 1027
Cdd:COG2319   108 ATGLLLRTLTGHTGAVRSVAFspDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSpdGKLLASGSDDGTVR 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1028 FFSLETHTSLSPLQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALR-AAAGR-LVTGSQDHTLRVFRLDD 1105
Cdd:COG2319   188 LWDLATGKLLRTLT--------------------------------GHTGAVRSVAfSPDGKlLASGSADGTVRLWDLAT 235

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1106 SCCLFTLKGHSGAITAVYI--DQTMvLASGGQDGAICLWDVLTGSRVSQTFAHRGDVTSLTCTA--SCVISSGLDDFISI 1181
Cdd:COG2319   236 GKLLRTLTGHSGSVRSVAFspDGRL-LASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPdgKLLASGSDDGTVRL 314

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 568963771 1182 WDRSTGIKLYSIQQDLGCGASLGVISD-NLLVTGGQ-GCVSFWDLNYGDLLQT 1232
Cdd:COG2319   315 WDLATGKLLRTLTGHTGAVRSVAFSPDgKTLASGSDdGTVRLWDLATGELLRT 367
2A060601 TIGR00917
Niemann-Pick C type protein family; The model describes Niemann-Pick C type protein in ...
 11-466 5.09e-22

Niemann-Pick C type protein family; The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis. [Transport and binding proteins, Other]


Pssm-ID: 273337 [Multi-domain]  Cd Length: 1205  Bit Score: 103.45  E-value: 5.09e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771    11 ISQAFYNHGLLCASYPIPIILFTGLCILACCYPLLKLPLPgtgpvefSTPVKGYSPPpadsDHKQGEPSEQPEWYVGaPV 90
Cdd:TIGR00917  309 LARFFGKYGIWVARHPTLVICLSVSVVLLLCVGLIRFKVE-------TRPVKLWVAP----GSRAALEKQYFDTHFG-PF 376

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771    91 AYIQQIFVKSSVSPWHRNllavdvFRSPLSraFQLVEEIRNHVLRDSSGTKSLEEVCLQVTDLLpglrkLRSLLPeHGCL 170
Cdd:TIGR00917  377 YRIEQLIIATVQTSSHEK------APEILT--DDNLKLLFDIQKKVSQLFANYEGELITLDSPC-----FKPNHP-YNCF 442

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   171 LLSPGNFWQNDWERF---HADPDIIGTIHQH-EPKTLQTSATLKDllFGVP-------GKYSGVSLYTRKRMVsytITLV 239
Cdd:TIGR00917  443 IYSTCKKLQNMYSKLkpeNYDDYGGVDYVKYcFEHFTSPESCLSA--FGGPvdpttvlGGFSGNNFSEASAFV---VTFP 517

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   240 FQRYHAK-------------FLSSLRARLmLLHPSPNCSLRAENLVHVHFKEEiGIAELIPLVTTYIILFAYIY----FS 302
Cdd:TIGR00917  518 VNNFVNKtnktekavawekaFIQLAKDEL-LPMVQATISFSAERSIEDELKRE-STADVITIAISYLVMFAYISltlgDS 595

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   303 TR-KIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSV-----------VS 370
Cdd:TIGR00917  596 PRlKSLYVTSKVLLGLSGILIVMLSVLGSVGVFSAVGLKSTLIIMEVIPFLVLAVGVDNIFILVFFYfyleyfyrqvgVD 675

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   371 TPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIRRMEla 450
Cdd:TIGR00917  676 NEQELTLERRLSRALMEVGPSITLASLSEILAFALGALIKMPAVRVFSMFAVLAVFLDFLLQITAFVALLVLDFKRTE-- 753

                          490
                   ....*....|....*.
gi 568963771   451 dlNKRLppeSCLPSAK 466
Cdd:TIGR00917  754 --DKRV---DCFPCIK 764
WD40 COG2319
WD40 repeat [General function prediction only];
952-1144 6.78e-16

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 81.50  E-value: 6.78e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  952 KGSPPLAWTPSTAGSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLD 1027
Cdd:COG2319   234 ATGKLLRTLTGHSGSVRSVAFspDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSpdGKLLASGSDDGTVR 313

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1028 FFSLETHTSLSPLQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDD 1105
Cdd:COG2319   314 LWDLATGKLLRTLT--------------------------------GHTGAVRSVAFSPdgKTLASGSDDGTVRLWDLAT 361

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 568963771 1106 SCCLFTLKGHSGAITAVYI--DQTMvLASGGQDGAICLWDV 1144
Cdd:COG2319   362 GELLRTLTGHTGAVTSVAFspDGRT-LASGSADGTVRLWDL 401
2A060605 TIGR00920
3-hydroxy-3-methylglutaryl-coenzyme A reductase; [Transport and binding proteins, ...
 276-442 2.77e-14

3-hydroxy-3-methylglutaryl-coenzyme A reductase; [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]


Pssm-ID: 273339 [Multi-domain]  Cd Length: 886  Bit Score: 77.97  E-value: 2.77e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   276 FKEEIGIAELIPLVTTYIILFAYIYFSTRKIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPT-LNggEIFPYLVV 354
Cdd:TIGR00920   53 FEEEYLSSDVIVMTITRCIAVLYIYYQFCNLRQLGSKYILGIAGLFTIFSSFVFSTAVIHFLGSELTgLN--EALPFFLL 130

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   355 VIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQML 434
Cdd:TIGR00920  131 LIDLSKASALAKFALSSNSQDEVRDNIARGMAILGPTITLDTVVETLVIGVGTMSGVRRLEVLCCFGCMSVLANYFVFMT 210


                   ....*...
gi 568963771   435 FFTTVLSI 442
Cdd:TIGR00920  211 FFPACLSL 218
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1105-1143 4.72e-06

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 44.61  E-value: 4.72e-06
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|
gi 568963771   1105 DSCCLFTLKGHSGAITAVYIDQT-MVLASGGQDGAICLWD 1143
Cdd:smart00320    1 SGELLKTLKGHTGPVTSVAFSPDgKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
1108-1143 2.56e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 42.33  E-value: 2.56e-05
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 568963771  1108 CLFTLKGHSGAITAVYIDQT-MVLASGGQDGAICLWD 1143
Cdd:pfam00400    3 LLKTLEGHTGSVTSLAFSPDgKLLASGSDDGTVKVWD 39
MMPL COG1033
Predicted exporter protein, RND superfamily [General function prediction only];
282-442 3.72e-04

Predicted exporter protein, RND superfamily [General function prediction only];


Pssm-ID: 440656 [Multi-domain]  Cd Length: 767  Bit Score: 44.85  E-value: 3.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  282 IAELIPLVTTYIILFAYIYFstrkidmvKSKWGLALAaVVTVLSSLLMSVGLCTLFG--LTPTLNggeIFPYLVVVIGLE 359
Cdd:COG1033   220 LAIFFPLALLLILLLLFLFF--------RSLRGVLLP-LLVVLLAVIWTLGLMGLLGipLSPLTI---LVPPLLLAIGID 287

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  360 NVL-VLTKsvvstpvdleVKLRIAQGLSSESwsIMKNAATELGI-IL-------IGYFTL----VPAIQEFCLFAVVGLV 426
Cdd:COG1033   288 YGIhLLNR----------YREERRKGLDKRE--ALREALRKLGPpVLltslttaIGFLSLlfsdIPPIRDFGIVAAIGVL 355

                         170
                  ....*....|....*.
gi 568963771  427 SDFFLQMLFFTTVLSI 442
Cdd:COG1033   356 LAFLTSLTLLPALLSL 371
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 771-802 2.01e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 37.29  E-value: 2.01e-03
                            10        20        30
                    ....*....|....*....|....*....|....
gi 568963771    771 VLRGHLMDIECLA--SDGMLLVSCCLAGQVCVWD 802
Cdd:smart00320    7 TLKGHTGPVTSVAfsPDGKYLASGSDDGTIKLWD 40
 
Name Accession Description Interval E-value
Sterol-sensing pfam12349
Sterol-sensing domain of SREBP cleavage-activation; Sterol regulatory element-binding proteins ...
 308-452 1.47e-57

Sterol-sensing domain of SREBP cleavage-activation; Sterol regulatory element-binding proteins (SREBPs) are membrane-bound transcription factors that promote lipid synthesis in animal cells. They are embedded in the membranes of the endoplasmic reticulum (ER) in a helical hairpin orientation and are released from the ER by a two-step proteolytic process. Proteolysis begins when the SREBPs are cleaved at Site-1, which is located at a leucine residue in the middle of the hydrophobic loop in the lumen of the ER. Upon proteolytic processing SREBP can activate the expression of genes involved in cholesterol biosynthesis and uptake. SCAP stimulates cleavage of SREBPs via fusion of the their two C-termini. This domain is the transmembrane region that traverses the membrane eight times and is the sterol-sensing domain of the cleavage protein. WD40 domains are found towards the C-terminus.


Pssm-ID: 463544 [Multi-domain]  Cd Length: 153  Bit Score: 195.49  E-value: 1.47e-57
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   308 MVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSS 387
Cdd:pfam12349    1 MVKSKFGLGLAGVIIVLASVASSLGLCAYFGLPLTLIISEVIPFLVLAIGVDNIFLLVKAVVRTPRSLDVSERIAEALGE 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568963771   388 ESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIRRMELADL 452
Cdd:pfam12349   81 VGPSITLTSLTEILAFLLGALTDMPAVQEFCLFAAVAVLFDFLLQMTFFVAVLSLDIRRLESNRL 145
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1065-1232 9.88e-26

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 108.58  E-value: 9.88e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1065 CHRTHTvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDDSCCLFTLKGHSGAITAV-YIDQTMVLASGGQDGAICL 1141
Cdd:cd00200     1 LRRTLK---GHTGGVTCVAFSPdgKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVaASADGTYLASGSSDKTIRL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1142 WDVLTGSRVSQTFAHRGDVTSLTCTASC--VISSGLDDFISIWDRSTGIKLYSIQQDLGCGASLGVISDNLLVTGGQ--G 1217
Cdd:cd00200    78 WDLETGECVRTLTGHTSYVSSVAFSPDGriLSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSqdG 157

                         170
                  ....*....|....*
gi 568963771 1218 CVSFWDLNYGDLLQT 1232
Cdd:cd00200   158 TIKLWDLRTGKCVAT 172
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 965-1232 2.62e-25

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 107.42  E-value: 2.62e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  965 GSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLDFFSLEthtslspl 1040
Cdd:cd00200    10 GGVTCVAFspDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASadGTYLASGSSDKTIRLWDLE-------- 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1041 qfrgtpgrgsspsssvysssnTVTCHRTHTvpcAHQKPITALRAAAGR--LVTGSQDHTLRVFRLDDSCCLFTLKGHSGA 1118
Cdd:cd00200    82 ---------------------TGECVRTLT---GHTSYVSSVAFSPDGriLSSSSRDKTIKVWDVETGKCLTTLRGHTDW 137

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1119 ITAVYIDQT-MVLASGGQDGAICLWDVLTGSRVsQTF-AHRGDVTSLTC--TASCVISSGLDDFISIWDRSTGIKLYSIQ 1194
Cdd:cd00200   138 VNSVAFSPDgTFVASSSQDGTIKLWDLRTGKCV-ATLtGHTGEVNSVAFspDGEKLLSSSSDGTIKLWDLSTGKCLGTLR 216

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 568963771 1195 QDLGCGASLGVISDNLLVTGG--QGCVSFWDLNYGDLLQT 1232
Cdd:cd00200   217 GHENGVNSVAFSPDGYLLASGseDGTIRVWDLRTGECVQT 256
WD40 COG2319
WD40 repeat [General function prediction only];
952-1232 1.68e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 101.53  E-value: 1.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  952 KGSPPLAWTPSTAGSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLD 1027
Cdd:COG2319   108 ATGLLLRTLTGHTGAVRSVAFspDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSpdGKLLASGSDDGTVR 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1028 FFSLETHTSLSPLQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALR-AAAGR-LVTGSQDHTLRVFRLDD 1105
Cdd:COG2319   188 LWDLATGKLLRTLT--------------------------------GHTGAVRSVAfSPDGKlLASGSADGTVRLWDLAT 235

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1106 SCCLFTLKGHSGAITAVYI--DQTMvLASGGQDGAICLWDVLTGSRVSQTFAHRGDVTSLTCTA--SCVISSGLDDFISI 1181
Cdd:COG2319   236 GKLLRTLTGHSGSVRSVAFspDGRL-LASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPdgKLLASGSDDGTVRL 314

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|...
gi 568963771 1182 WDRSTGIKLYSIQQDLGCGASLGVISD-NLLVTGGQ-GCVSFWDLNYGDLLQT 1232
Cdd:COG2319   315 WDLATGKLLRTLTGHTGAVRSVAFSPDgKTLASGSDdGTVRLWDLATGELLRT 367
2A060601 TIGR00917
Niemann-Pick C type protein family; The model describes Niemann-Pick C type protein in ...
 11-466 5.09e-22

Niemann-Pick C type protein family; The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis. [Transport and binding proteins, Other]


Pssm-ID: 273337 [Multi-domain]  Cd Length: 1205  Bit Score: 103.45  E-value: 5.09e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771    11 ISQAFYNHGLLCASYPIPIILFTGLCILACCYPLLKLPLPgtgpvefSTPVKGYSPPpadsDHKQGEPSEQPEWYVGaPV 90
Cdd:TIGR00917  309 LARFFGKYGIWVARHPTLVICLSVSVVLLLCVGLIRFKVE-------TRPVKLWVAP----GSRAALEKQYFDTHFG-PF 376

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771    91 AYIQQIFVKSSVSPWHRNllavdvFRSPLSraFQLVEEIRNHVLRDSSGTKSLEEVCLQVTDLLpglrkLRSLLPeHGCL 170
Cdd:TIGR00917  377 YRIEQLIIATVQTSSHEK------APEILT--DDNLKLLFDIQKKVSQLFANYEGELITLDSPC-----FKPNHP-YNCF 442

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   171 LLSPGNFWQNDWERF---HADPDIIGTIHQH-EPKTLQTSATLKDllFGVP-------GKYSGVSLYTRKRMVsytITLV 239
Cdd:TIGR00917  443 IYSTCKKLQNMYSKLkpeNYDDYGGVDYVKYcFEHFTSPESCLSA--FGGPvdpttvlGGFSGNNFSEASAFV---VTFP 517

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   240 FQRYHAK-------------FLSSLRARLmLLHPSPNCSLRAENLVHVHFKEEiGIAELIPLVTTYIILFAYIY----FS 302
Cdd:TIGR00917  518 VNNFVNKtnktekavawekaFIQLAKDEL-LPMVQATISFSAERSIEDELKRE-STADVITIAISYLVMFAYISltlgDS 595

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   303 TR-KIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLTKSV-----------VS 370
Cdd:TIGR00917  596 PRlKSLYVTSKVLLGLSGILIVMLSVLGSVGVFSAVGLKSTLIIMEVIPFLVLAVGVDNIFILVFFYfyleyfyrqvgVD 675

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   371 TPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIRRMEla 450
Cdd:TIGR00917  676 NEQELTLERRLSRALMEVGPSITLASLSEILAFALGALIKMPAVRVFSMFAVLAVFLDFLLQITAFVALLVLDFKRTE-- 753

                          490
                   ....*....|....*.
gi 568963771   451 dlNKRLppeSCLPSAK 466
Cdd:TIGR00917  754 --DKRV---DCFPCIK 764
WD40 COG2319
WD40 repeat [General function prediction only];
962-1232 1.97e-21

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 98.44  E-value: 1.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  962 STAGSIWSLELQGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVF--LDRRIVAARLNGSLDFFSLETHTSLSP 1039
Cdd:COG2319    36 AAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFspDGRLLASASADGTVRLWDLATGLLLRT 115

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1040 LQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDDSCCLFTLKGHSG 1117
Cdd:COG2319   116 LT--------------------------------GHTGAVRSVAFSPdgKTLASGSADGTVRLWDLATGKLLRTLTGHSG 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1118 AITAVYI--DQTMvLASGGQDGAICLWDVLTGSRVSQTFAHRGDVTSLTCTA--SCVISSGLDDFISIWDRSTGIKLYSI 1193
Cdd:COG2319   164 AVTSVAFspDGKL-LASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPdgKLLASGSADGTVRLWDLATGKLLRTL 242

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 568963771 1194 QQDLGCGASLGVISDN-LLVTGGQ-GCVSFWDLNYGDLLQT 1232
Cdd:COG2319   243 TGHSGSVRSVAFSPDGrLLASGSAdGTVRLWDLATGELLRT 283
WD40 COG2319
WD40 repeat [General function prediction only];
964-1225 1.92e-20

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 95.36  E-value: 1.92e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  964 AGSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLDFFSLETHTSLSP 1039
Cdd:COG2319   162 SGAVTSVAFspDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSpdGKLLASGSADGTVRLWDLATGKLLRT 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1040 LQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALRAAAG--RLVTGSQDHTLRVFRLDDSCCLFTLKGHSG 1117
Cdd:COG2319   242 LT--------------------------------GHSGSVRSVAFSPDgrLLASGSADGTVRLWDLATGELLRTLTGHSG 289

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1118 AITAVYI--DQTMvLASGGQDGAICLWDVLTGSRVSQTFAHRGDVTSLTCTA--SCVISSGLDDFISIWDRSTGIKLYSI 1193
Cdd:COG2319   290 GVNSVAFspDGKL-LASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPdgKTLASGSDDGTVRLWDLATGELLRTL 368

                         250       260       270
                  ....*....|....*....|....*....|....
gi 568963771 1194 QQDLGCGASLGVISD-NLLVTGGQ-GCVSFWDLN 1225
Cdd:COG2319   369 TGHTGAVTSVAFSPDgRTLASGSAdGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
965-1186 8.99e-19

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 90.36  E-value: 8.99e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  965 GSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLDFFSLETHTSLSPL 1040
Cdd:COG2319   205 GAVRSVAFspDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSpdGRLLASGSADGTVRLWDLATGELLRTL 284

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1041 QfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALRAAA-GR-LVTGSQDHTLRVFRLDDSCCLFTLKGHSGA 1118
Cdd:COG2319   285 T--------------------------------GHSGGVNSVAFSPdGKlLASGSDDGTVRLWDLATGKLLRTLTGHTGA 332

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 568963771 1119 ITAVYI---DQTmvLASGGQDGAICLWDVLTGSRVSQTFAHRGDVTSLTCTA--SCVISSGLDDFISIWDRST 1186
Cdd:COG2319   333 VRSVAFspdGKT--LASGSDDGTVRLWDLATGELLRTLTGHTGAVTSVAFSPdgRTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 965-1183 2.36e-17

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 83.92  E-value: 2.36e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  965 GSIWSLELQ--GNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLDFFSLETHTslspl 1040
Cdd:cd00200    94 SYVSSVAFSpdGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSpdGTFVASSSQDGTIKLWDLRTGK----- 168

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1041 qfrgtpgrgsspsssvysssntvtCHRTHTvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDDSCCLFTLKGHSGA 1118
Cdd:cd00200   169 ------------------------CVATLT---GHTGEVNSVAFSPdgEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENG 221

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568963771 1119 ITAV-YIDQTMVLASGGQDGAICLWDVLTGSRVSQTFAHRGDVTSLTC--TASCVISSGLDDFISIWD 1183
Cdd:cd00200   222 VNSVaFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWspDGKRLASGSADGTIRIWD 289
Patched pfam02460
Patched family; The transmembrane protein Patched is a receptor for the morphogene Sonic ...
 284-533 2.42e-17

Patched family; The transmembrane protein Patched is a receptor for the morphogene Sonic Hedgehog. This protein associates with the smoothened protein to transduce hedgehog signals.


Pssm-ID: 308203 [Multi-domain]  Cd Length: 793  Bit Score: 87.80  E-value: 2.42e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   284 ELIP-LVTTYIILFAY-----IYFSTRKIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLtPTLNGGEIFPYLVVVIG 357
Cdd:pfam02460  214 TLTPfFVIGFFLLLTFsiivsVTLSSYTIDWVRSKPILAALGLLSPVMAIVSSFGLLFWMGF-PFNSIVCVTPFLVLAIG 292

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   358 LENVLVLTKSVVSTPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFT 437
Cdd:pfam02460  293 VDDMFLMVAAWQRTTATLSVKKRMGEALSEAGVSITITSLTDVLSFGIGTYTPTPAIQLFCAYTAVAIFFDFIYQITFFA 372

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   438 TVLSIdirrMELADLNKRLPPESCLPSakpvgRPARYERQQAVRpstphtitlQPSSFRNLRLPKRLRVIY--FLARTRL 515
Cdd:pfam02460  373 AIMAI----CAKPEAEGRHCLFVWATS-----SPQRIDSEGSEP---------DKSHNIEQLKSRFFLDIYcpFLLNPSV 434

                          250
                   ....*....|....*....
gi 568963771   516 aqRLIMAGT-VVWIGILVY 533
Cdd:pfam02460  435 --RVCMLVLfVVYIAIAIY 451
WD40 COG2319
WD40 repeat [General function prediction only];
952-1144 6.78e-16

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 81.50  E-value: 6.78e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  952 KGSPPLAWTPSTAGSIWSLEL--QGNLIVVGRSSGRLEVWDAIEGVLCCSNEEISSGITALVFL--DRRIVAARLNGSLD 1027
Cdd:COG2319   234 ATGKLLRTLTGHSGSVRSVAFspDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSpdGKLLASGSDDGTVR 313

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1028 FFSLETHTSLSPLQfrgtpgrgsspsssvysssntvtchrthtvpcAHQKPITALRAAA--GRLVTGSQDHTLRVFRLDD 1105
Cdd:COG2319   314 LWDLATGKLLRTLT--------------------------------GHTGAVRSVAFSPdgKTLASGSDDGTVRLWDLAT 361

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 568963771 1106 SCCLFTLKGHSGAITAVYI--DQTMvLASGGQDGAICLWDV 1144
Cdd:COG2319   362 GELLRTLTGHTGAVTSVAFspDGRT-LASGSADGTVRLWDL 401
2A060605 TIGR00920
3-hydroxy-3-methylglutaryl-coenzyme A reductase; [Transport and binding proteins, ...
 276-442 2.77e-14

3-hydroxy-3-methylglutaryl-coenzyme A reductase; [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]


Pssm-ID: 273339 [Multi-domain]  Cd Length: 886  Bit Score: 77.97  E-value: 2.77e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   276 FKEEIGIAELIPLVTTYIILFAYIYFSTRKIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPT-LNggEIFPYLVV 354
Cdd:TIGR00920   53 FEEEYLSSDVIVMTITRCIAVLYIYYQFCNLRQLGSKYILGIAGLFTIFSSFVFSTAVIHFLGSELTgLN--EALPFFLL 130

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   355 VIGLENVLVLTKSVVSTPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQML 434
Cdd:TIGR00920  131 LIDLSKASALAKFALSSNSQDEVRDNIARGMAILGPTITLDTVVETLVIGVGTMSGVRRLEVLCCFGCMSVLANYFVFMT 210


                   ....*...
gi 568963771   435 FFTTVLSI 442
Cdd:TIGR00920  211 FFPACLSL 218
2A060602 TIGR00918
The Eukaryotic (Putative) Sterol Transporter (EST) Family;
286-448 7.91e-14

The Eukaryotic (Putative) Sterol Transporter (EST) Family;


Pssm-ID: 273338 [Multi-domain]  Cd Length: 1145  Bit Score: 76.84  E-value: 7.91e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   286 IPLVTTYIILFAYIYFSTRKIDMVKSKWGLALAAVVTVLSSLLMSVGLCTLFGLTPTLNGGEIFPYLVVVIGLENVLVLT 365
Cdd:TIGR00918  400 IRIVSGYLLMLAYACLTMLRWDCAKSQGSVGLAGVLLVALSVAAGLGLCALLGISFNAATTQVLPFLALGVGVDDVFLLA 479

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771   366 KSVVSTPVDLEVKLRIAQGLSSESWSIMKNAATELGIILIGYFTLVPAIQEFCLFAVVGLVSDFFLQMLFFTTVLSIDIR 445
Cdd:TIGR00918  480 HAFSETGQNIPFEERTGECLKRTGASVVLTSISNVTAFFMAALIPIPALRAFSLQAAIVVVFNFAAVLLVFPAILSLDLR 559


                   ...
gi 568963771   446 RME 448
Cdd:TIGR00918  560 RRE 562
WD40 COG2319
WD40 repeat [General function prediction only];
1081-1233 3.72e-13

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 73.02  E-value: 3.72e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771 1081 ALRAAAGRLVTGSQDHTLRVFRLDDSCCLFTLKGHSGAITAV-YIDQTMVLASGGQDGAICLWDVLTGSRVSQTFAHRGD 1159
Cdd:COG2319    43 AASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVaFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGA 122

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568963771 1160 VTSLTCTA--SCVISSGLDDFISIWDRSTGIKLYSIQQDLGCGASLGVISD-NLLVTGGQ-GCVSFWDLNYGDLLQTV 1233
Cdd:COG2319   123 VRSVAFSPdgKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDgKLLASGSDdGTVRLWDLATGKLLRTL 200
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1105-1143 4.72e-06

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 44.61  E-value: 4.72e-06
                            10        20        30        40
                    ....*....|....*....|....*....|....*....|
gi 568963771   1105 DSCCLFTLKGHSGAITAVYIDQT-MVLASGGQDGAICLWD 1143
Cdd:smart00320    1 SGELLKTLKGHTGPVTSVAFSPDgKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
1108-1143 2.56e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 42.33  E-value: 2.56e-05
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 568963771  1108 CLFTLKGHSGAITAVYIDQT-MVLASGGQDGAICLWD 1143
Cdd:pfam00400    3 LLKTLEGHTGSVTSLAFSPDgKLLASGSDDGTVKVWD 39
MMPL COG1033
Predicted exporter protein, RND superfamily [General function prediction only];
282-442 3.72e-04

Predicted exporter protein, RND superfamily [General function prediction only];


Pssm-ID: 440656 [Multi-domain]  Cd Length: 767  Bit Score: 44.85  E-value: 3.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  282 IAELIPLVTTYIILFAYIYFstrkidmvKSKWGLALAaVVTVLSSLLMSVGLCTLFG--LTPTLNggeIFPYLVVVIGLE 359
Cdd:COG1033   220 LAIFFPLALLLILLLLFLFF--------RSLRGVLLP-LLVVLLAVIWTLGLMGLLGipLSPLTI---LVPPLLLAIGID 287

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568963771  360 NVL-VLTKsvvstpvdleVKLRIAQGLSSESwsIMKNAATELGI-IL-------IGYFTL----VPAIQEFCLFAVVGLV 426
Cdd:COG1033   288 YGIhLLNR----------YREERRKGLDKRE--ALREALRKLGPpVLltslttaIGFLSLlfsdIPPIRDFGIVAAIGVL 355

                         170
                  ....*....|....*.
gi 568963771  427 SDFFLQMLFFTTVLSI 442
Cdd:COG1033   356 LAFLTSLTLLPALLSL 371
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 771-802 2.01e-03

WD40 repeats; Note that these repeats are permuted with respect to the structural repeats (blades) of the beta propeller domain.


Pssm-ID: 197651 [Multi-domain]  Cd Length: 40  Bit Score: 37.29  E-value: 2.01e-03
                            10        20        30
                    ....*....|....*....|....*....|....
gi 568963771    771 VLRGHLMDIECLA--SDGMLLVSCCLAGQVCVWD 802
Cdd:smart00320    7 TLKGHTGPVTSVAfsPDGKYLASGSDDGTIKLWD 40
 
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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