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Conserved domains on  [gi|1958788372|ref|XP_038934621|]
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protein NEDD1 isoform X1 [Rattus norvegicus]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 10077586)

WD40 repeat domain-containing protein similar to 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

CATH:  2.130.10.10
PubMed:  10322433|8090199
SCOP:  4002744

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 24-312 1.36e-50

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: 177.53  E-value: 1.36e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  24 LVDKFNPHTSPhgISSICWSSNNNFLVTASSGGDKIVVSSCKCKPVPLLELAEGQKQTCVDLnSTSMYLASGGLNNTVNI 103
Cdd:cd00200     1 LRRTLKGHTGG--VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS-ADGTYLASGSSDKTIRL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 104 WDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPF-GHgsKQPVRHIKYSLFRKSLLGSvS 182
Cdd:cd00200    78 WDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLrGH--TDWVNSVAFSPDGTFVASS-S 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 183 DNGVVTLWDVNSQSAYHSFdSTHKAPASGLCFSPVNELLFVTiGLDKRIILYDTSSKKLVKTLVADT-PLTAVDFMPDGA 261
Cdd:cd00200   155 QDGTIKLWDLRTGKCVATL-TGHTGEVNSVAFSPDGEKLLSS-SSDGTIKLWDLSTGKCLGTLRGHEnGVNSVAFSPDGY 232

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1958788372 262 SLAIGSSRGKIYQYDLRMlKSPVKTISAHKTSVQCIAFQYSTS-LTKASLNK 312
Cdd:cd00200   233 LLASGSEDGTIRVWDLRT-GECVQTLSGHTNSVTSLAWSPDGKrLASGSADG 283
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 24-312 1.36e-50

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: 177.53  E-value: 1.36e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  24 LVDKFNPHTSPhgISSICWSSNNNFLVTASSGGDKIVVSSCKCKPVPLLELAEGQKQTCVDLnSTSMYLASGGLNNTVNI 103
Cdd:cd00200     1 LRRTLKGHTGG--VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS-ADGTYLASGSSDKTIRL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 104 WDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPF-GHgsKQPVRHIKYSLFRKSLLGSvS 182
Cdd:cd00200    78 WDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLrGH--TDWVNSVAFSPDGTFVASS-S 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 183 DNGVVTLWDVNSQSAYHSFdSTHKAPASGLCFSPVNELLFVTiGLDKRIILYDTSSKKLVKTLVADT-PLTAVDFMPDGA 261
Cdd:cd00200   155 QDGTIKLWDLRTGKCVATL-TGHTGEVNSVAFSPDGEKLLSS-SSDGTIKLWDLSTGKCLGTLRGHEnGVNSVAFSPDGY 232

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1958788372 262 SLAIGSSRGKIYQYDLRMlKSPVKTISAHKTSVQCIAFQYSTS-LTKASLNK 312
Cdd:cd00200   233 LLASGSEDGTIRVWDLRT-GECVQTLSGHTNSVTSLAWSPDGKrLASGSADG 283
WD40 COG2319
WD40 repeat [General function prediction only];
5-299 2.33e-39

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 149.68  E-value: 2.33e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372   5 LRFASSGDDVKIWDASFLTLVDKFNPHTSPhgISSICWSSNNNFLVTASSggDKIVVssckckpvpLLELAEGQKQ---- 80
Cdd:COG2319    93 LASASADGTVRLWDLATGLLLRTLTGHTGA--VRSVAFSPDGKTLASGSA--DGTVR---------LWDLATGKLLrtlt 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  81 ------TCVDLNSTSMYLASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSS 154
Cdd:COG2319   160 ghsgavTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLL 239

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 155 TPFGHGSkQPVRHIKYSLFRKSLLgSVSDNGVVTLWDVNSQSAYHSFDStHKAPASGLCFSPVNELLfVTIGLDKRIILY 234
Cdd:COG2319   240 RTLTGHS-GSVRSVAFSPDGRLLA-SGSADGTVRLWDLATGELLRTLTG-HSGGVNSVAFSPDGKLL-ASGSDDGTVRLW 315

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958788372 235 DTSSKKLVKTLVADT-PLTAVDFMPDGASLAIGSSRGKIYQYDLRMLKsPVKTISAHKTSVQCIAF 299
Cdd:COG2319   316 DLATGKLLRTLTGHTgAVRSVAFSPDGKTLASGSDDGTVRLWDLATGE-LLRTLTGHTGAVTSVAF 380
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 160-309 5.83e-08

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 56.25  E-value: 5.83e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 160 GSKQPVRHIKYSLFRKSLLGSVSDNGVVTLWDVnSQSAYHSFDSTHKAPASGLCFSPVNELLFVTIGLDKRIILYDTSSK 239
Cdd:PLN00181  530 ASRSKLSGICWNSYIKSQVASSNFEGVVQVWDV-ARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQG 608

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958788372 240 KLVKTLVADTPLTAVDFMPD-GASLAIGSSRGKIYQYDLRMLKSPVKTISAHKTSVQCIAFQYSTSLTKAS 309
Cdd:PLN00181  609 VSIGTIKTKANICCVQFPSEsGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDSSTLVSSS 679
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 108-147 1.84e-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: 39.22  E-value: 1.84e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1958788372  108 SKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHS 147
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 24-312 1.36e-50

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: 177.53  E-value: 1.36e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  24 LVDKFNPHTSPhgISSICWSSNNNFLVTASSGGDKIVVSSCKCKPVPLLELAEGQKQTCVDLnSTSMYLASGGLNNTVNI 103
Cdd:cd00200     1 LRRTLKGHTGG--VTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAAS-ADGTYLASGSSDKTIRL 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 104 WDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPF-GHgsKQPVRHIKYSLFRKSLLGSvS 182
Cdd:cd00200    78 WDLETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLrGH--TDWVNSVAFSPDGTFVASS-S 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 183 DNGVVTLWDVNSQSAYHSFdSTHKAPASGLCFSPVNELLFVTiGLDKRIILYDTSSKKLVKTLVADT-PLTAVDFMPDGA 261
Cdd:cd00200   155 QDGTIKLWDLRTGKCVATL-TGHTGEVNSVAFSPDGEKLLSS-SSDGTIKLWDLSTGKCLGTLRGHEnGVNSVAFSPDGY 232

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1958788372 262 SLAIGSSRGKIYQYDLRMlKSPVKTISAHKTSVQCIAFQYSTS-LTKASLNK 312
Cdd:cd00200   233 LLASGSEDGTIRVWDLRT-GECVQTLSGHTNSVTSLAWSPDGKrLASGSADG 283
WD40 COG2319
WD40 repeat [General function prediction only];
5-299 2.33e-39

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 149.68  E-value: 2.33e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372   5 LRFASSGDDVKIWDASFLTLVDKFNPHTSPhgISSICWSSNNNFLVTASSggDKIVVssckckpvpLLELAEGQKQ---- 80
Cdd:COG2319    93 LASASADGTVRLWDLATGLLLRTLTGHTGA--VRSVAFSPDGKTLASGSA--DGTVR---------LWDLATGKLLrtlt 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  81 ------TCVDLNSTSMYLASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSS 154
Cdd:COG2319   160 ghsgavTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLL 239

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 155 TPFGHGSkQPVRHIKYSLFRKSLLgSVSDNGVVTLWDVNSQSAYHSFDStHKAPASGLCFSPVNELLfVTIGLDKRIILY 234
Cdd:COG2319   240 RTLTGHS-GSVRSVAFSPDGRLLA-SGSADGTVRLWDLATGELLRTLTG-HSGGVNSVAFSPDGKLL-ASGSDDGTVRLW 315

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1958788372 235 DTSSKKLVKTLVADT-PLTAVDFMPDGASLAIGSSRGKIYQYDLRMLKsPVKTISAHKTSVQCIAF 299
Cdd:COG2319   316 DLATGKLLRTLTGHTgAVRSVAFSPDGKTLASGSDDGTVRLWDLATGE-LLRTLTGHTGAVTSVAF 380
WD40 COG2319
WD40 repeat [General function prediction only];
6-278 2.19e-36

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 141.20  E-value: 2.19e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372   6 RFASSGDD--VKIWDASFLTLVDKFNPHTSPhgISSICWSSNNNFLVTASSggDKIV----VSSCKCkpvpLLELAEGQK 79
Cdd:COG2319   134 TLASGSADgtVRLWDLATGKLLRTLTGHSGA--VTSVAFSPDGKLLASGSD--DGTVrlwdLATGKL----LRTLTGHTG 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  80 Q-TCVDLNSTSMYLASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPFG 158
Cdd:COG2319   206 AvRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLT 285

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 159 HGSkQPVRHIKYSLFRKSLLgSVSDNGVVTLWDVNSQSAYHSFDStHKAPASGLCFSPVNELLfVTIGLDKRIILYDTSS 238
Cdd:COG2319   286 GHS-GGVNSVAFSPDGKLLA-SGSDDGTVRLWDLATGKLLRTLTG-HTGAVRSVAFSPDGKTL-ASGSDDGTVRLWDLAT 361

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 1958788372 239 KKLVKTLVADT-PLTAVDFMPDGASLAIGSSRGKIYQYDLR 278
Cdd:COG2319   362 GELLRTLTGHTgAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
91-299 9.57e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 116.16  E-value: 9.57e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  91 YLASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPFgHGSKQPVRHIKY 170
Cdd:COG2319    92 LLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTL-TGHSGAVTSVAF 170

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 171 SLFRKSLLgSVSDNGVVTLWDVNSQSAYHSFDStHKAPASGLCFSPVNELLfVTIGLDKRIILYDTSSKKLVKTLVADT- 249
Cdd:COG2319   171 SPDGKLLA-SGSDDGTVRLWDLATGKLLRTLTG-HTGAVRSVAFSPDGKLL-ASGSADGTVRLWDLATGKLLRTLTGHSg 247

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1958788372 250 PLTAVDFMPDGASLAIGSSRGKIYQYDLRmLKSPVKTISAHKTSVQCIAF 299
Cdd:COG2319   248 SVRSVAFSPDGRLLASGSADGTVRLWDLA-TGELLRTLTGHSGGVNSVAF 296
WD40 COG2319
WD40 repeat [General function prediction only];
92-299 2.77e-21

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 96.52  E-value: 2.77e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  92 LASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPFgHGSKQPVRHIKYS 171
Cdd:COG2319    51 LAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTL-TGHTGAVRSVAFS 129

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 172 LFRKSLLgSVSDNGVVTLWDVNSQSAYHSFdSTHKAPASGLCFSPVNELLfVTIGLDKRIILYDTSSKKLVKTLVADT-P 250
Cdd:COG2319   130 PDGKTLA-SGSADGTVRLWDLATGKLLRTL-TGHSGAVTSVAFSPDGKLL-ASGSDDGTVRLWDLATGKLLRTLTGHTgA 206

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 1958788372 251 LTAVDFMPDGASLAIGSSRGKIYQYDLRmLKSPVKTISAHKTSVQCIAF 299
Cdd:COG2319   207 VRSVAFSPDGKLLASGSADGTVRLWDLA-TGKLLRTLTGHSGSVRSVAF 254
WD40 COG2319
WD40 repeat [General function prediction only];
6-194 9.01e-20

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 91.90  E-value: 9.01e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372   6 RFASSGDD--VKIWDASFLTLVDKFNPHTSPhgISSICWSSNNNFLVTASsgGDKIV----VSSCKCkpvplLELAEGQK 79
Cdd:COG2319   218 LLASGSADgtVRLWDLATGKLLRTLTGHSGS--VRSVAFSPDGRLLASGS--ADGTVrlwdLATGEL-----LRTLTGHS 288

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372  80 Q--TCVDLNSTSMYLASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHSVTTNTSSTPF 157
Cdd:COG2319   289 GgvNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTL 368

                         170       180       190
                  ....*....|....*....|....*....|....*...
gi 1958788372 158 -GHGSkqPVRHIKYSLfRKSLLGSVSDNGVVTLWDVNS 194
Cdd:COG2319   369 tGHTG--AVTSVAFSP-DGRTLASGSADGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 8-145 4.21e-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: 82.38  E-value: 4.21e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372   8 ASSGDD--VKIWDASFLTLVDKFNPHTSPhgISSICWSSNNNFLVTASSGGDKIV--VSSCKCkpvplLELAEGQKQ--T 81
Cdd:cd00200   151 ASSSQDgtIKLWDLRTGKCVATLTGHTGE--VNSVAFSPDGEKLLSSSSDGTIKLwdLSTGKC-----LGTLRGHENgvN 223

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1958788372  82 CVDLNSTSMYLASGGLNNTVNIWDLKSKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIIL 145
Cdd:cd00200   224 SVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRI 287
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 4-105 1.31e-08

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: 56.57  E-value: 1.31e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372   4 NLRFASSGDD--VKIWDASFLTLVDKFNPHTSPhgISSICWSSNNNFLVTASSGGdKIVV-SSCKCKPVplLELAEGQKQ 80
Cdd:cd00200   189 GEKLLSSSSDgtIKLWDLSTGKCLGTLRGHENG--VNSVAFSPDGYLLASGSEDG-TIRVwDLRTGECV--QTLSGHTNS 263

                          90       100
                  ....*....|....*....|....*.
gi 1958788372  81 -TCVDLNSTSMYLASGGLNNTVNIWD 105
Cdd:cd00200   264 vTSLAWSPDGKRLASGSADGTIRIWD 289
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 160-309 5.83e-08

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 56.25  E-value: 5.83e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 160 GSKQPVRHIKYSLFRKSLLGSVSDNGVVTLWDVnSQSAYHSFDSTHKAPASGLCFSPVNELLFVTIGLDKRIILYDTSSK 239
Cdd:PLN00181  530 ASRSKLSGICWNSYIKSQVASSNFEGVVQVWDV-ARSQLVTEMKEHEKRVWSIDYSSADPTLLASGSDDGSVKLWSINQG 608

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1958788372 240 KLVKTLVADTPLTAVDFMPD-GASLAIGSSRGKIYQYDLRMLKSPVKTISAHKTSVQCIAFQYSTSLTKAS 309
Cdd:PLN00181  609 VSIGTIKTKANICCVQFPSEsGRSLAFGSADHKVYYYDLRNPKLPLCTMIGHSKTVSYVRFVDSSTLVSSS 679
YncE COG3391
DNA-binding beta-propeller fold protein YncE [General function prediction only];
125-288 1.46e-04

DNA-binding beta-propeller fold protein YncE [General function prediction only];


Pssm-ID: 442618 [Multi-domain]  Cd Length: 237  Bit Score: 43.91  E-value: 1.46e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 125 VAYNWNDCYIASGSLSGEIILHSVTTNTSSTPFGHGSKQPVRHIKYSLFRKSLLGSVSDNGVVTLWDVNSQSAYHSFDsT 204
Cdd:COG3391    30 LGGGGPLLAAASGGVVGAAVGGGGVALLAGLGLGAAAVADADGADAGADGRRLYVANSGSGRVSVIDLATGKVVATIP-V 108

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1958788372 205 HKAPaSGLCFSPVNELLFVTIGLDKRIILYDTSSKKLVKTLVADTPLTAVDFMPDGASLAIGSSRGK-----IYQYDLRM 279
Cdd:COG3391   109 GGGP-RGLAVDPDGGRLYVADSGNGRVSVIDTATGKVVATIPVGAGPHGIAVDPDGKRLYVANSGSNtvsviVSVIDTAT 187


                  ....*....
gi 1958788372 280 LKsPVKTIS 288
Cdd:COG3391   188 GK-VVATIP 195
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 108-147 1.84e-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: 39.22  E-value: 1.84e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|
gi 1958788372  108 SKRLHRSLKDHKREVTCVAYNWNDCYIASGSLSGEIILHS 147
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WDR74 cd22857
WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and ...
 210-279 4.61e-03

WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and plants is an essential factor for ribosome assembly. In cooperation with the assembly factor NVL2, WDR74 participates in an early cleavage of the pre-rRNA processing pathway. NVL2 is a type II double ring, AAA-ATPase, that may mediate the release of WDR74 from nucleolar pre-60S particles. WDR74 has been implicated in tumorigenesis. In lung cancer, it regulates cell proliferation, cell cycle progression, chemoresistance and cell aggressiveness, by inducing nuclear beta-catenin accumulation and driving downstream Wnt-responsive genes expression. In melanoma, it promotes apoptosis resistance and aggressive behavior by regulating the RPL5-MDM2-p53 pathway. WDR74 contains an N-terminal seven-bladed beta-propeller WD40 domain that associates with the D1-AAA domain of the AAA-ATPase NVL2, and a flexible lysine-rich C-terminus that extends outward from the WD40 domain, and is required for nucleolar localization.


Pssm-ID: 439303 [Multi-domain]  Cd Length: 325  Bit Score: 39.52  E-value: 4.61e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1958788372 210 SGLCF-SPVNELLFVTIGLDKRIILYDTSSKK--LVKTLVADTPLTAVDFMPDGASLAIGSSRGKIYQYDLRM 279
Cdd:cd22857   182 TDLTFlSKDDHRKIVTGTGYHQVRLYDTRAQRrpVVSVDFGETPIKAVAEDPDGHTVYVGDTSGDLASIDLRT 254
 
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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