NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|24647938|ref|NP_650716|]
View 

nucleoporin 43kD [Drosophila melanogaster]

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 1000017)

WD40 repeat domain-containing protein folds into a beta-propeller structure and functions as a scaffold, providing a platform for the interaction and assembly of several proteins into a signalosome; 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
Gene Ontology:  GO:0005515
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 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
12-292 4.39e-13

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: 68.90  E-value: 4.39e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  12 SEKVSQVRWLPeelqQSERFVTGSWDmdqNFVRLWRLQSNQyvtatdsevdqiprCMDKVRM-EDDVTAMEFVDKDTLAV 90
Cdd:cd00200  51 TGPVRDVAASA----DGTYLASGSSD---KTIRLWDLETGE--------------CVRTLTGhTSYVSSVAFSPDGRILS 109
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  91 SC-ADGHLSVFNVHRAVEedqmqrtsrsgrLHCFQRSQEPAPCTDLSVYGTDIATAGEDGCVSIVSVENVRqVKRQIEAD 169
Cdd:cd00200 110 SSsRDKTIKVWDVETGKC------------LTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGK-CVATLTGH 176
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 170 SMALFSICYI-SQQELVTANRMGVIRMLDarvateaqPKTTFMVASQDDKSNFVSSLAKHPmQQHILLCGSEEGSITVWD 248
Cdd:cd00200 177 TGEVNSVAFSpDGEKLLSSSSDGTIKLWD--------LSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWD 247
                       250       260       270       280
                ....*....|....*....|....*....|....*....|....
gi 24647938 249 MRNLSYPASyLSAHKSPINEIGFHqKDPSKLFTAAEGGEVWMWS 292
Cdd:cd00200 248 LRTGECVQT-LSGHTNSVTSLAWS-PDGKRLASGSADGTIRIWD 289
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
12-292 4.39e-13

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: 68.90  E-value: 4.39e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  12 SEKVSQVRWLPeelqQSERFVTGSWDmdqNFVRLWRLQSNQyvtatdsevdqiprCMDKVRM-EDDVTAMEFVDKDTLAV 90
Cdd:cd00200  51 TGPVRDVAASA----DGTYLASGSSD---KTIRLWDLETGE--------------CVRTLTGhTSYVSSVAFSPDGRILS 109
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  91 SC-ADGHLSVFNVHRAVEedqmqrtsrsgrLHCFQRSQEPAPCTDLSVYGTDIATAGEDGCVSIVSVENVRqVKRQIEAD 169
Cdd:cd00200 110 SSsRDKTIKVWDVETGKC------------LTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGK-CVATLTGH 176
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 170 SMALFSICYI-SQQELVTANRMGVIRMLDarvateaqPKTTFMVASQDDKSNFVSSLAKHPmQQHILLCGSEEGSITVWD 248
Cdd:cd00200 177 TGEVNSVAFSpDGEKLLSSSSDGTIKLWD--------LSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWD 247
                       250       260       270       280
                ....*....|....*....|....*....|....*....|....
gi 24647938 249 MRNLSYPASyLSAHKSPINEIGFHqKDPSKLFTAAEGGEVWMWS 292
Cdd:cd00200 248 LRTGECVQT-LSGHTNSVTSLAWS-PDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
15-251 4.08e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 48.37  E-value: 4.08e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  15 VSQVRWLPeelqQSERFVTGSWDmdqNFVRLWRLQSNQYVTATDSEvdqiprcmdkvrmEDDVTAMEF-VDKDTLAVSCA 93
Cdd:COG2319 207 VRSVAFSP----DGKLLASGSAD---GTVRLWDLATGKLLRTLTGH-------------SGSVRSVAFsPDGRLLASGSA 266
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  94 DGHLSVFNVhraveedqmqrtsRSGR-LHCFQRSQEPAPCTDLSVYGTDIATAGEDGCVSIVSVENVRQVkRQIEADSMA 172
Cdd:COG2319 267 DGTVRLWDL-------------ATGElLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLL-RTLTGHTGA 332
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 173 LFSICYISQ-QELVTANRMGVIRMLDARVATEAQPKTTFmvasqddkSNFVSSLAKHPmQQHILLCGSEEGSITVWDMRN 251
Cdd:COG2319 333 VRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH--------TGAVTSVAFSP-DGRTLASGSADGTVRLWDLAT 403
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
12-292 4.39e-13

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: 68.90  E-value: 4.39e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  12 SEKVSQVRWLPeelqQSERFVTGSWDmdqNFVRLWRLQSNQyvtatdsevdqiprCMDKVRM-EDDVTAMEFVDKDTLAV 90
Cdd:cd00200  51 TGPVRDVAASA----DGTYLASGSSD---KTIRLWDLETGE--------------CVRTLTGhTSYVSSVAFSPDGRILS 109
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  91 SC-ADGHLSVFNVHRAVEedqmqrtsrsgrLHCFQRSQEPAPCTDLSVYGTDIATAGEDGCVSIVSVENVRqVKRQIEAD 169
Cdd:cd00200 110 SSsRDKTIKVWDVETGKC------------LTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGK-CVATLTGH 176
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 170 SMALFSICYI-SQQELVTANRMGVIRMLDarvateaqPKTTFMVASQDDKSNFVSSLAKHPmQQHILLCGSEEGSITVWD 248
Cdd:cd00200 177 TGEVNSVAFSpDGEKLLSSSSDGTIKLWD--------LSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWD 247
                       250       260       270       280
                ....*....|....*....|....*....|....*....|....
gi 24647938 249 MRNLSYPASyLSAHKSPINEIGFHqKDPSKLFTAAEGGEVWMWS 292
Cdd:cd00200 248 LRTGECVQT-LSGHTNSVTSLAWS-PDGKRLASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
142-347 3.67e-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: 53.88  E-value: 3.67e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 142 IATAGEDGCVSIVSVENVRQVKRQIEADSMALFSICYISQQELVTANRMGVIRMLDARVATEAQ---------------P 206
Cdd:cd00200  24 LATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRtltghtsyvssvafsP 103
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 207 KTTFMVASQDDKS-------------------NFVSSLAKHPmQQHILLCGSEEGSITVWDMRNLSYPASyLSAHKSPIN 267
Cdd:cd00200 104 DGRILSSSSRDKTikvwdvetgkclttlrghtDWVNSVAFSP-DGTFVASSSQDGTIKLWDLRTGKCVAT-LTGHTGEVN 181
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 268 EIGFHqKDPSKLFTAAEGGEVWMWS-------------ENKVLGCDYNKDGHspWL-SGDRVRSLV--DVE-----GVLS 326
Cdd:cd00200 182 SVAFS-PDGEKLLSSSSDGTIKLWDlstgkclgtlrghENGVNSVAFSPDGY--LLaSGSEDGTIRvwDLRtgecvQTLS 258
                       250       260
                ....*....|....*....|...
gi 24647938 327 NVRKSINSFDVH--GSRLVCGGD 347
Cdd:cd00200 259 GHTNSVTSLAWSpdGKRLASGSA 281
WD40 COG2319
WD40 repeat [General function prediction only];
15-251 4.08e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 48.37  E-value: 4.08e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  15 VSQVRWLPeelqQSERFVTGSWDmdqNFVRLWRLQSNQYVTATDSEvdqiprcmdkvrmEDDVTAMEF-VDKDTLAVSCA 93
Cdd:COG2319 207 VRSVAFSP----DGKLLASGSAD---GTVRLWDLATGKLLRTLTGH-------------SGSVRSVAFsPDGRLLASGSA 266
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938  94 DGHLSVFNVhraveedqmqrtsRSGR-LHCFQRSQEPAPCTDLSVYGTDIATAGEDGCVSIVSVENVRQVkRQIEADSMA 172
Cdd:COG2319 267 DGTVRLWDL-------------ATGElLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLL-RTLTGHTGA 332
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 173 LFSICYISQ-QELVTANRMGVIRMLDARVATEAQPKTTFmvasqddkSNFVSSLAKHPmQQHILLCGSEEGSITVWDMRN 251
Cdd:COG2319 333 VRSVAFSPDgKTLASGSDDGTVRLWDLATGELLRTLTGH--------TGAVTSVAFSP-DGRTLASGSADGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
139-355 9.00e-06

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.21  E-value: 9.00e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 139 GTDIATAGEDGCVSIVSVENVRQVkRQIEADSMALFSICYISQ-QELVTANRMGVIRMLDarVATEAQPKTTfmvasqDD 217
Cdd:COG2319 132 GKTLASGSADGTVRLWDLATGKLL-RTLTGHSGAVTSVAFSPDgKLLASGSDDGTVRLWD--LATGKLLRTL------TG 202
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 218 KSNFVSSLAKHPmQQHILLCGSEEGSITVWDMRNLSYPASyLSAHKSPINEIGFHQkDPSKLFTAAEGGEVWMWS----- 292
Cdd:COG2319 203 HTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGKLLRT-LTGHSGSVRSVAFSP-DGRLLASGSADGTVRLWDlatge 279
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 293 --------ENKVLGCDYNKDGHspWL---SGDRVRSLVDVE-----GVLSNVRKSINSFDVH--GSRLVCGGDTEAVYLV 354
Cdd:COG2319 280 llrtltghSGGVNSVAFSPDGK--LLasgSDDGTVRLWDLAtgkllRTLTGHTGAVRSVAFSpdGKTLASGSDDGTVRLW 357

                .
gi 24647938 355 D 355
Cdd:COG2319 358 D 358
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
219-306 4.66e-03

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: 38.47  E-value: 4.66e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24647938 219 SNFVSSLAKHPmQQHILLCGSEEGSITVWDMRNLSYPASyLSAHKSPINEIGFHqKDPSKLFTAAEGGEVWMWSENK--- 295
Cdd:cd00200   9 TGGVTCVAFSP-DGKLLATGSGDGTIKVWDLETGELLRT-LKGHTGPVRDVAAS-ADGTYLASGSSDKTIRLWDLETgec 85
                        90       100
                ....*....|....*....|.
gi 24647938 296 ----------VLGCDYNKDGH 306
Cdd:cd00200  86 vrtltghtsyVSSVAFSPDGR 106
 
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
HHS Vulnerability Disclosure