NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|19112601|ref|NP_595809|]
View 

U3 snoRNP-associated protein Sof1 [Schizosaccharomyces pombe]

Protein Classification

WD repeat DCAF13/WDSOF1 family protein( domain architecture ID 11456774)

WD repeat DCAF13/WDSOF1 family protein contains WD40 repeats that fold into a beta-propeller structure and functions as a scaffold, similar to Saccharomyces cerevisiae U3 small nucleolar RNA-associated protein SOF1 that is required for ribosomal RNA processing

CATH:  2.130.10.10
Gene Ontology:  GO:0005515
PubMed:  21468892|18925368|10322433|8090199|30069656|29026209
SCOP:  4002744

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
52-346 3.11e-46

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 164.31  E-value: 3.11e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  52 AAPFLGQLGRGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGDVLSCAS-DR 128
Cdd:COG2319 108 ATGLLLRTLTGHTGAVRSVAfsPDGKTL---ASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSdDG 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 129 YVYMLNKQDGKVKRSYLG-DSSLLDIDTSKGGDLFATSGEN--VSIWDYSRDTPVTKFEWGADTLPVVKFNyTETSVLAS 205
Cdd:COG2319 185 TVRLWDLATGKLLRTLTGhTGAVRSVAFSPDGKLLASGSADgtVRLWDLATGKLLRTLTGHSGSVRSVAFS-PDGRLLAS 263

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 206 AGMDRSIVIYDLRTSSPLTKLITKLRT-NSISWNPMEAFnFVAGSEDHNLYMYDMRNlKRALHVYKDHVSAVMSVDFSPT 284
Cdd:COG2319 264 GSADGTVRLWDLATGELLRTLTGHSGGvNSVAFSPDGKL-LASGSDDGTVRLWDLAT-GKLLRTLTGHTGAVRSVAFSPD 341

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 19112601 285 GQEFVSGSYDKTIRIYNVREGHSRDVY--HTKrmqRVTAVKFSMDAQYIFSGSDDSNVRLWRAR 346
Cdd:COG2319 342 GKTLASGSDDGTVRLWDLATGELLRTLtgHTG---AVTSVAFSPDGRTLASGSADGTVRLWDLA 402
Sof1 pfam04158
Sof1-like domain; Sof1 is essential for cell growth and is a component of the nucleolar rRNA ...
 345-431 6.81e-42

Sof1-like domain; Sof1 is essential for cell growth and is a component of the nucleolar rRNA processing machinery.


:

Pssm-ID: 427753  Cd Length: 87  Bit Score: 143.02  E-value: 6.81e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601   345 ARASSRASIRSTREENRLKYLDSLRERYKHIPEIRRIARHRHLPTNVKKAAEIKREEINSLKRREENIRRHSKKGAVPYE 424
Cdd:pfam04158   1 ANASEKLGVLSPRERAALEYNEALKEKYKHMPEIRRIARHRHVPKAIYKAQKIKREMLEARKRKEENRRKHSKPGSVPRK 80


                  ....*..
gi 19112601   425 KERERHV 431
Cdd:pfam04158  81 PERKKHV 87
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
52-346 3.11e-46

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 164.31  E-value: 3.11e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  52 AAPFLGQLGRGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGDVLSCAS-DR 128
Cdd:COG2319 108 ATGLLLRTLTGHTGAVRSVAfsPDGKTL---ASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSdDG 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 129 YVYMLNKQDGKVKRSYLG-DSSLLDIDTSKGGDLFATSGEN--VSIWDYSRDTPVTKFEWGADTLPVVKFNyTETSVLAS 205
Cdd:COG2319 185 TVRLWDLATGKLLRTLTGhTGAVRSVAFSPDGKLLASGSADgtVRLWDLATGKLLRTLTGHSGSVRSVAFS-PDGRLLAS 263

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 206 AGMDRSIVIYDLRTSSPLTKLITKLRT-NSISWNPMEAFnFVAGSEDHNLYMYDMRNlKRALHVYKDHVSAVMSVDFSPT 284
Cdd:COG2319 264 GSADGTVRLWDLATGELLRTLTGHSGGvNSVAFSPDGKL-LASGSDDGTVRLWDLAT-GKLLRTLTGHTGAVRSVAFSPD 341

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 19112601 285 GQEFVSGSYDKTIRIYNVREGHSRDVY--HTKrmqRVTAVKFSMDAQYIFSGSDDSNVRLWRAR 346
Cdd:COG2319 342 GKTLASGSDDGTVRLWDLATGELLRTLtgHTG---AVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 61-344 2.60e-45

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: 158.65  E-value: 2.60e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  61 RGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGD-VLSCASDRYVYMLNKQD 137
Cdd:cd00200   6 KGHTGGVTCVAfsPDGKLL---ATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTyLASGSSDKTIRLWDLET 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 138 GKVKRSYLG-DSSLLDIDTSKGGDLFATSGENVSIWDYSRDTPVTKFEWGADTLPV--VKFNyTETSVLASAGMDRSIVI 214
Cdd:cd00200  83 GECVRTLTGhTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVnsVAFS-PDGTFVASSSQDGTIKL 161

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 215 YDLRTSSPLTKLIT-KLRTNSISWNPMEAfNFVAGSEDHNLYMYDMRNlKRALHVYKDHVSAVMSVDFSPTGQEFVSGSY 293
Cdd:cd00200 162 WDLRTGKCVATLTGhTGEVNSVAFSPDGE-KLLSSSSDGTIKLWDLST-GKCLGTLRGHENGVNSVAFSPDGYLLASGSE 239

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|...
gi 19112601 294 DKTIRIYNVREGHSRDVY--HTKrmqRVTAVKFSMDAQYIFSGSDDSNVRLWR 344
Cdd:cd00200 240 DGTIRVWDLRTGECVQTLsgHTN---SVTSLAWSPDGKRLASGSADGTIRIWD 289
Sof1 pfam04158
Sof1-like domain; Sof1 is essential for cell growth and is a component of the nucleolar rRNA ...
 345-431 6.81e-42

Sof1-like domain; Sof1 is essential for cell growth and is a component of the nucleolar rRNA processing machinery.


Pssm-ID: 427753  Cd Length: 87  Bit Score: 143.02  E-value: 6.81e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601   345 ARASSRASIRSTREENRLKYLDSLRERYKHIPEIRRIARHRHLPTNVKKAAEIKREEINSLKRREENIRRHSKKGAVPYE 424
Cdd:pfam04158   1 ANASEKLGVLSPRERAALEYNEALKEKYKHMPEIRRIARHRHVPKAIYKAQKIKREMLEARKRKEENRRKHSKPGSVPRK 80


                  ....*..
gi 19112601   425 KERERHV 431
Cdd:pfam04158  81 PERKKHV 87
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 266-301 1.62e-08

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: 50.00  E-value: 1.62e-08
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 19112601    266 LHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYN 301
Cdd:smart00320   5 LKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 169-340 9.12e-08

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 54.32  E-value: 9.12e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  169 VSIWDYSRDTPVTKFEWGADTLPVVKFNYTETSVLASAGMDRSIVIYDLRTSSPLTKLITKLRTNSISWNPMEAFNFVAG 248
Cdd:PLN00181 557 VQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFG 636

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  249 SEDHNLYMYDMRNLKRALHVYKDHVSAVMSVDFSPTgQEFVSGSYDKTIRIYNVR---EGHSRDVYH--TKRMQRVTAVK 323
Cdd:PLN00181 637 SADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDS-STLVSSSTDNTLKLWDLSmsiSGINETPLHsfMGHTNVKNFVG 715

                        170
                 ....*....|....*..
gi 19112601  324 FSMDAQYIFSGSDDSNV 340
Cdd:PLN00181 716 LSVSDGYIATGSETNEV 732
WD40 pfam00400
WD domain, G-beta repeat;
266-301 1.55e-07

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 47.34  E-value: 1.55e-07
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 19112601   266 LHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYN 301
Cdd:pfam00400   4 LKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
52-346 3.11e-46

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 164.31  E-value: 3.11e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  52 AAPFLGQLGRGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGDVLSCAS-DR 128
Cdd:COG2319 108 ATGLLLRTLTGHTGAVRSVAfsPDGKTL---ASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSdDG 184

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 129 YVYMLNKQDGKVKRSYLG-DSSLLDIDTSKGGDLFATSGEN--VSIWDYSRDTPVTKFEWGADTLPVVKFNyTETSVLAS 205
Cdd:COG2319 185 TVRLWDLATGKLLRTLTGhTGAVRSVAFSPDGKLLASGSADgtVRLWDLATGKLLRTLTGHSGSVRSVAFS-PDGRLLAS 263

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 206 AGMDRSIVIYDLRTSSPLTKLITKLRT-NSISWNPMEAFnFVAGSEDHNLYMYDMRNlKRALHVYKDHVSAVMSVDFSPT 284
Cdd:COG2319 264 GSADGTVRLWDLATGELLRTLTGHSGGvNSVAFSPDGKL-LASGSDDGTVRLWDLAT-GKLLRTLTGHTGAVRSVAFSPD 341

                       250       260       270       280       290       300
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 19112601 285 GQEFVSGSYDKTIRIYNVREGHSRDVY--HTKrmqRVTAVKFSMDAQYIFSGSDDSNVRLWRAR 346
Cdd:COG2319 342 GKTLASGSDDGTVRLWDLATGELLRTLtgHTG---AVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 61-344 2.60e-45

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: 158.65  E-value: 2.60e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  61 RGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGD-VLSCASDRYVYMLNKQD 137
Cdd:cd00200   6 KGHTGGVTCVAfsPDGKLL---ATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTyLASGSSDKTIRLWDLET 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 138 GKVKRSYLG-DSSLLDIDTSKGGDLFATSGENVSIWDYSRDTPVTKFEWGADTLPV--VKFNyTETSVLASAGMDRSIVI 214
Cdd:cd00200  83 GECVRTLTGhTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVnsVAFS-PDGTFVASSSQDGTIKL 161

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 215 YDLRTSSPLTKLIT-KLRTNSISWNPMEAfNFVAGSEDHNLYMYDMRNlKRALHVYKDHVSAVMSVDFSPTGQEFVSGSY 293
Cdd:cd00200 162 WDLRTGKCVATLTGhTGEVNSVAFSPDGE-KLLSSSSDGTIKLWDLST-GKCLGTLRGHENGVNSVAFSPDGYLLASGSE 239

                       250       260       270       280       290
                ....*....|....*....|....*....|....*....|....*....|...
gi 19112601 294 DKTIRIYNVREGHSRDVY--HTKrmqRVTAVKFSMDAQYIFSGSDDSNVRLWR 344
Cdd:cd00200 240 DGTIRVWDLRTGECVQTLsgHTN---SVTSLAWSPDGKRLASGSADGTIRIWD 289
Sof1 pfam04158
Sof1-like domain; Sof1 is essential for cell growth and is a component of the nucleolar rRNA ...
 345-431 6.81e-42

Sof1-like domain; Sof1 is essential for cell growth and is a component of the nucleolar rRNA processing machinery.


Pssm-ID: 427753  Cd Length: 87  Bit Score: 143.02  E-value: 6.81e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601   345 ARASSRASIRSTREENRLKYLDSLRERYKHIPEIRRIARHRHLPTNVKKAAEIKREEINSLKRREENIRRHSKKGAVPYE 424
Cdd:pfam04158   1 ANASEKLGVLSPRERAALEYNEALKEKYKHMPEIRRIARHRHVPKAIYKAQKIKREMLEARKRKEENRRKHSKPGSVPRK 80


                  ....*..
gi 19112601   425 KERERHV 431
Cdd:pfam04158  81 PERKKHV 87
WD40 COG2319
WD40 repeat [General function prediction only];
81-346 6.81e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 114.24  E-value: 6.81e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  81 ASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGDVL-SCASDRYVYMLNKQDGKVKRSYLG-DSSLLDIDTSKG 158
Cdd:COG2319  10 AAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLaAGAGDLTLLLLDAAAGALLATLLGhTAAVLSVAFSPD 89

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 159 GDLFATSGEN--VSIWDYSRDTPVTKFEWGADTLPVVKFNyTETSVLASAGMDRSIVIYDLRTSSPLTKLIT-KLRTNSI 235
Cdd:COG2319  90 GRLLASASADgtVRLWDLATGLLLRTLTGHTGAVRSVAFS-PDGKTLASGSADGTVRLWDLATGKLLRTLTGhSGAVTSV 168

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 236 SWNPMEAFnFVAGSEDHNLYMYDMRNLKRaLHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYNVREGHSRDVYHTKR 315
Cdd:COG2319 169 AFSPDGKL-LASGSDDGTVRLWDLATGKL-LRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHS 246

                       250       260       270
                ....*....|....*....|....*....|.
gi 19112601 316 mQRVTAVKFSMDAQYIFSGSDDSNVRLWRAR 346
Cdd:COG2319 247 -GSVRSVAFSPDGRLLASGSADGTVRLWDLA 276
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 192-349 1.30e-21

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: 94.32  E-value: 1.30e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 192 VVKFNYtETSVLASAGMDRSIVIYDLRTSSPLTKL----ITKLRTNSISWNPMeafnFVAGSEDHNLYMYDMRNLKRaLH 267
Cdd:cd00200  14 CVAFSP-DGKLLATGSGDGTIKVWDLETGELLRTLkghtGPVRDVAASADGTY----LASGSSDKTIRLWDLETGEC-VR 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 268 VYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYNVREGHSRDVY--HTKRmqrVTAVKFSMDAQYIFSGSDDSNVRLWRA 345
Cdd:cd00200  88 TLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLrgHTDW---VNSVAFSPDGTFVASSSQDGTIKLWDL 164


                ....
gi 19112601 346 RASS 349
Cdd:cd00200 165 RTGK 168
WD40 COG2319
WD40 repeat [General function prediction only];
61-219 5.97e-18

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 85.35  E-value: 5.97e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  61 RGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWDASERCERWTSKAHEGIVRGLVFSNQGDVL-SCASDRYVYMLNKQD 137
Cdd:COG2319 243 TGHSGSVRSVAfsPDGRLL---ASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPDGKLLaSGSDDGTVRLWDLAT 319

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 138 GKVKRSYLG-DSSLLDIDTSKGGDLFATSGEN--VSIWDYSRDTPVTKFEWGADTLPVVKFNYTETsVLASAGMDRSIVI 214
Cdd:COG2319 320 GKLLRTLTGhTGAVRSVAFSPDGKTLASGSDDgtVRLWDLATGELLRTLTGHTGAVTSVAFSPDGR-TLASGSADGTVRL 398


                ....*
gi 19112601 215 YDLRT 219
Cdd:COG2319 399 WDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 266-343 4.06e-12

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: 66.59  E-value: 4.06e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 266 LHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYNV--------REGHSRDvyhtkrmqrVTAVKFSMDAQYIFSGSDD 337
Cdd:cd00200   2 RRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLetgellrtLKGHTGP---------VRDVAASADGTYLASGSSD 72


                ....*.
gi 19112601 338 SNVRLW 343
Cdd:cd00200  73 KTIRLW 78
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 266-301 1.62e-08

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: 50.00  E-value: 1.62e-08
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 19112601    266 LHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYN 301
Cdd:smart00320   5 LKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 169-340 9.12e-08

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 54.32  E-value: 9.12e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  169 VSIWDYSRDTPVTKFEWGADTLPVVKFNYTETSVLASAGMDRSIVIYDLRTSSPLTKLITKLRTNSISWNPMEAFNFVAG 248
Cdd:PLN00181 557 VQVWDVARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQGVSIGTIKTKANICCVQFPSESGRSLAFG 636

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  249 SEDHNLYMYDMRNLKRALHVYKDHVSAVMSVDFSPTgQEFVSGSYDKTIRIYNVR---EGHSRDVYH--TKRMQRVTAVK 323
Cdd:PLN00181 637 SADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDS-STLVSSSTDNTLKLWDLSmsiSGINETPLHsfMGHTNVKNFVG 715

                        170
                 ....*....|....*..
gi 19112601  324 FSMDAQYIFSGSDDSNV 340
Cdd:PLN00181 716 LSVSDGYIATGSETNEV 732
WD40 pfam00400
WD domain, G-beta repeat;
266-301 1.55e-07

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 47.34  E-value: 1.55e-07
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 19112601   266 LHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYN 301
Cdd:pfam00400   4 LKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 51-127 2.05e-06

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: 49.26  E-value: 2.05e-06
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 19112601  51 FAAPFLGQLGRGHQDGVYSLARDTKTLIdCASGSGDGAVKLWD-ASERCERwTSKAHEGIVRGLVFSNQGDVL-SCASD 127
Cdd:cd00200 206 LSTGKCLGTLRGHENGVNSVAFSPDGYL-LASGSEDGTIRVWDlRTGECVQ-TLSGHTNSVTSLAWSPDGKRLaSGSAD 282
PTZ00420 PTZ00420
coronin; Provisional
 176-351 3.31e-05

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 46.10  E-value: 3.31e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  176 RDTPVTKFEWGADTLPVVKFNYTETSVLASAGMDRSIVIYDLRTSSPLTKLIT---------KLRTNSISWNPMEAFNFV 246
Cdd:PTZ00420  63 RKPPVIKLKGHTSSILDLQFNPCFSEILASGSEDLTIRVWEIPHNDESVKEIKdpqcilkghKKKISIIDWNPMNYYIMC 142

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601  247 AGSEDHNLYMYDMRNLKRALHVykdhvsaVMSVDFSP----TGQEFVSGS-YDKTIRIYNVREGHSRDVYHT----KRMQ 317
Cdd:PTZ00420 143 SSGFDSFVNIWDIENEKRAFQI-------NMPKKLSSlkwnIKGNLLSGTcVGKHMHIIDPRKQEIASSFHIhdggKNTK 215

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 19112601  318 RVTAVKFSMDAQYIFS-GSDDSNVR---LWRARASSRA 351
Cdd:PTZ00420 216 NIWIDGLGGDDNYILStGFSKNNMRemkLWDLKNTTSA 253
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 317-343 2.03e-04

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: 38.45  E-value: 2.03e-04
                           10        20
                   ....*....|....*....|....*..
gi 19112601    317 QRVTAVKFSMDAQYIFSGSDDSNVRLW 343
Cdd:smart00320  13 GPVTSVAFSPDGKYLASGSDDGTIKLW 39
WD40 pfam00400
WD domain, G-beta repeat;
312-343 4.06e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.71  E-value: 4.06e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 19112601   312 HTKRmqrVTAVKFSMDAQYIFSGSDDSNVRLW 343
Cdd:pfam00400  10 HTGS---VTSLAFSPDGKLLASGSDDGTVKVW 38
eIF2A pfam08662
Eukaryotic translation initiation factor eIF2A; This is a family of eukaryotic translation ...
 139-289 1.22e-03

Eukaryotic translation initiation factor eIF2A; This is a family of eukaryotic translation initiation factors.


Pssm-ID: 462552 [Multi-domain]  Cd Length: 194  Bit Score: 39.95  E-value: 1.22e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601   139 KVKRSYLGDSSLLDIDTSKGGDlfatsgENVSIwdySRDTPVTKFEWgadtlpvvKFNYTETSVLASAgMDRSIVIYDLR 218
Cdd:pfam08662  30 KTGKSYYGETNLYLIGETGGPD------CVVEL---DKEGPIHDVAW--------SPNGKEFAVIYGY-MPAKVSFFDLK 91

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19112601   219 tSSPLTKLITKLRtNSISWNPMEAFNFVAGSEDHNLYM--YDMRNLKRalhVYKDHVSAVMSVDFSPTGQEFV 289
Cdd:pfam08662  92 -GNVIHSFGEQPR-NTIFWSPFGRLVLLAGFGNLAGDIefWDVVNKKK---IATAEASNATLCEWSPDGRYFL 159
WD40 COG2319
WD40 repeat [General function prediction only];
260-351 1.71e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 40.28  E-value: 1.71e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112601 260 RNLKRALHVYKDHVSAVMSVDFSPTGQEFVSGSYDKTIRIYNVREGHSRDVYHTKRmQRVTAVKFSMDAQYIFSGSDDSN 339
Cdd:COG2319  23 AALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHT-AAVLSVAFSPDGRLLASASADGT 101

                        90
                ....*....|..
gi 19112601 340 VRLWRARASSRA 351
Cdd:COG2319 102 VRLWDLATGLLL 113
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 61-93 6.43e-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: 34.21  E-value: 6.43e-03
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 19112601     61 RGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWD 93
Cdd:smart00320   9 KGHTGPVTSVAfsPDGKYL---ASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
61-93 7.49e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 34.24  E-value: 7.49e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 19112601    61 RGHQDGVYSLA--RDTKTLidcASGSGDGAVKLWD 93
Cdd:pfam00400   8 EGHTGSVTSLAfsPDGKLL---ASGSDDGTVKVWD 39
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH