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Conserved domains on  [gi|526479830|ref|NP_001268357|]
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dynein axonemal intermediate chain 1 isoform 2 [Homo sapiens]

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
PubMed:  10322433|8090199|30069656|29026209
SCOP:  4002744

Graphical summary

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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 ...
 357-615 1.21e-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.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 83.92  E-value: 1.21e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 357 GSYDfmkqsrGMLLLYSLKNPSFPEYMFSSNSGVMCLDIHVDHPYLVAvGHYDGNVAIYNLKKPhsqpsFCSSAKSGkHS 436
Cdd:cd00200   69 GSSD------KTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSS-SSRDKTIKVWDVETG-----KCLTTLRG-HT 135

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 437 DPVWQVKWQKDDMdqnlnF-FSVSSDGRIVSWTLVKRKLVHidviklKVEGSTTEVpEGLQLHPVGcgtafdfhkeidYM 515
Cdd:cd00200  136 DWVNSVAFSPDGT-----FvASSSQDGTIKLWDLRTGKCVA------TLTGHTGEV-NSVAFSPDG------------EK 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 516 FLVGTEEGKIyKCSKSYSSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWDHTIKTPMFIYDL-NSAVGDVAW 594
Cdd:cd00200  192 LLSSSSDGTI-KLWDLSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAW 269

                        250       260
                 ....*....|....*....|.
gi 526479830 595 APySSTVFAAVTTDGKAHIFD 615
Cdd:cd00200  270 SP-DGKRLASGSADGTIRIWD 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 ...
 357-615 1.21e-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: 83.92  E-value: 1.21e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 357 GSYDfmkqsrGMLLLYSLKNPSFPEYMFSSNSGVMCLDIHVDHPYLVAvGHYDGNVAIYNLKKPhsqpsFCSSAKSGkHS 436
Cdd:cd00200   69 GSSD------KTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSS-SSRDKTIKVWDVETG-----KCLTTLRG-HT 135

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 437 DPVWQVKWQKDDMdqnlnF-FSVSSDGRIVSWTLVKRKLVHidviklKVEGSTTEVpEGLQLHPVGcgtafdfhkeidYM 515
Cdd:cd00200  136 DWVNSVAFSPDGT-----FvASSSQDGTIKLWDLRTGKCVA------TLTGHTGEV-NSVAFSPDG------------EK 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 516 FLVGTEEGKIyKCSKSYSSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWDHTIKTPMFIYDL-NSAVGDVAW 594
Cdd:cd00200  192 LLSSSSDGTI-KLWDLSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAW 269

                        250       260
                 ....*....|....*....|.
gi 526479830 595 APySSTVFAAVTTDGKAHIFD 615
Cdd:cd00200  270 SP-DGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
402-617 2.93e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 53.38  E-value: 2.93e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 402 LVAVGHYDGNVAIYNLKKPHSQPSFcssaksGKHSDPVWQVKWQKDDmdQNLnfFSVSSDGRIVSWTLVKRKLVHIdvik 481
Cdd:COG2319  176 LLASGSDDGTVRLWDLATGKLLRTL------TGHTGAVRSVAFSPDG--KLL--ASGSADGTVRLWDLATGKLLRT---- 241

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 482 lkVEGSTTEVpEGLQLHPVGcgtafdfhkeidYMFLVGTEEGKIYKCSKSySSQFLDTYDAHNMSVDTVSWNPyHTKVFM 561
Cdd:COG2319  242 --LTGHSGSV-RSVAFSPDG------------RLLASGSADGTVRLWDLA-TGELLRTLTGHSGGVNSVAFSP-DGKLLA 304

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 526479830 562 SCSSDWTVKIWD-HTIKTPMFIYDLNSAVGDVAWAPYSSTVfAAVTTDGKAHIFDLA 617
Cdd:COG2319  305 SGSDDGTVRLWDlATGKLLRTLTGHTGAVRSVAFSPDGKTL-ASGSDDGTVRLWDLA 360
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 533-573 8.05e-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: 43.07  E-value: 8.05e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 526479830   533 SSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 573
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
534-573 9.60e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 40.02  E-value: 9.60e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 526479830  534 SQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 573
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSP-DGKLLASGSDDGTVKVWD 39
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 357-615 1.21e-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: 83.92  E-value: 1.21e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 357 GSYDfmkqsrGMLLLYSLKNPSFPEYMFSSNSGVMCLDIHVDHPYLVAvGHYDGNVAIYNLKKPhsqpsFCSSAKSGkHS 436
Cdd:cd00200   69 GSSD------KTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSS-SSRDKTIKVWDVETG-----KCLTTLRG-HT 135

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 437 DPVWQVKWQKDDMdqnlnF-FSVSSDGRIVSWTLVKRKLVHidviklKVEGSTTEVpEGLQLHPVGcgtafdfhkeidYM 515
Cdd:cd00200  136 DWVNSVAFSPDGT-----FvASSSQDGTIKLWDLRTGKCVA------TLTGHTGEV-NSVAFSPDG------------EK 191

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 516 FLVGTEEGKIyKCSKSYSSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWDHTIKTPMFIYDL-NSAVGDVAW 594
Cdd:cd00200  192 LLSSSSDGTI-KLWDLSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAW 269

                        250       260
                 ....*....|....*....|.
gi 526479830 595 APySSTVFAAVTTDGKAHIFD 615
Cdd:cd00200  270 SP-DGKRLASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 385-657 3.73e-16

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: 79.69  E-value: 3.73e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 385 SSNSGVMCLDIHVDHPYLVAVGhYDGNVAIYNLKKPHSQPSFCSsaksgkHSDPVWQVKWQKDDMdqnlNFFSVSSDGRI 464
Cdd:cd00200    7 GHTGGVTCVAFSPDGKLLATGS-GDGTIKVWDLETGELLRTLKG------HTGPVRDVAASADGT----YLASGSSDKTI 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 465 VSWTLVKRKLVHIdviklkVEGSTTEVpeglqlhpvgcgTAFDFHKEiDYMFLVGTEEGKIyKCSKSYSSQFLDTYDAHN 544
Cdd:cd00200   76 RLWDLETGECVRT------LTGHTSYV------------SSVAFSPD-GRILSSSSRDKTI-KVWDVETGKCLTTLRGHT 135

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 545 MSVDTVSWNPYHTKVFmSCSSDWTVKIWD-HTIKTPMFIYDLNSAVGDVAWAPySSTVFAAVTTDGKAHIFDLAinkyEA 623
Cdd:cd00200  136 DWVNSVAFSPDGTFVA-SSSQDGTIKLWDlRTGKCVATLTGHTGEVNSVAFSP-DGEKLLSSSSDGTIKLWDLS----TG 209

                        250       260       270
                 ....*....|....*....|....*....|....
gi 526479830 624 ICNQPVAAKKNRLTHVQFNLIHPIIIVGDDRGHI 657
Cdd:cd00200  210 KCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 495-657 1.68e-07

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: 53.49  E-value: 1.68e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 495 LQLHPVGCgTAFDFHKEIDYMfLVGTEEGKIYKCSKSySSQFLDTYDAHNMSVDTVSWNPYHTKVFmSCSSDWTVKIWDh 574
Cdd:cd00200    5 LKGHTGGV-TCVAFSPDGKLL-ATGSGDGTIKVWDLE-TGELLRTLKGHTGPVRDVAASADGTYLA-SGSSDKTIRLWD- 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 575 tIKTPMFIYDL---NSAVGDVAWAPySSTVFAAVTTDGKAHIFDLAINKyeaiCNQPVAAKKNRLTHVQFNLIHPIIIVG 651
Cdd:cd00200   80 -LETGECVRTLtghTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGK----CLTTLRGHTDWVNSVAFSPDGTFVASS 153


                 ....*.
gi 526479830 652 DDRGHI 657
Cdd:cd00200  154 SQDGTI 159
WD40 COG2319
WD40 repeat [General function prediction only];
402-617 2.93e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 53.38  E-value: 2.93e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 402 LVAVGHYDGNVAIYNLKKPHSQPSFcssaksGKHSDPVWQVKWQKDDmdQNLnfFSVSSDGRIVSWTLVKRKLVHIdvik 481
Cdd:COG2319  176 LLASGSDDGTVRLWDLATGKLLRTL------TGHTGAVRSVAFSPDG--KLL--ASGSADGTVRLWDLATGKLLRT---- 241

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 482 lkVEGSTTEVpEGLQLHPVGcgtafdfhkeidYMFLVGTEEGKIYKCSKSySSQFLDTYDAHNMSVDTVSWNPyHTKVFM 561
Cdd:COG2319  242 --LTGHSGSV-RSVAFSPDG------------RLLASGSADGTVRLWDLA-TGELLRTLTGHSGGVNSVAFSP-DGKLLA 304

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 526479830 562 SCSSDWTVKIWD-HTIKTPMFIYDLNSAVGDVAWAPYSSTVfAAVTTDGKAHIFDLA 617
Cdd:COG2319  305 SGSDDGTVRLWDlATGKLLRTLTGHTGAVRSVAFSPDGKTL-ASGSDDGTVRLWDLA 360
WD40 COG2319
WD40 repeat [General function prediction only];
402-617 3.40e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 52.99  E-value: 3.40e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 402 LVAVGHYDGNVAIYNLKKPHSQPSFcssaksGKHSDPVWQVKWQKDdmdqNLNFFSVSSDGRIVSWTLVKRKLVHIdvik 481
Cdd:COG2319   92 LLASASADGTVRLWDLATGLLLRTL------TGHTGAVRSVAFSPD----GKTLASGSADGTVRLWDLATGKLLRT---- 157

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 526479830 482 lkVEGSTTEVpEGLQLHPVGcgtafdfhkeidYMFLVGTEEG--KIYKCSksySSQFLDTYDAHNMSVDTVSWNPyHTKV 559
Cdd:COG2319  158 --LTGHSGAV-TSVAFSPDG------------KLLASGSDDGtvRLWDLA---TGKLLRTLTGHTGAVRSVAFSP-DGKL 218

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 526479830 560 FMSCSSDWTVKIWDhtIKTPMFIYDLN---SAVGDVAWAPYSSTVfAAVTTDGKAHIFDLA 617
Cdd:COG2319  219 LASGSADGTVRLWD--LATGKLLRTLTghsGSVRSVAFSPDGRLL-ASGSADGTVRLWDLA 276
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 533-573 8.05e-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: 43.07  E-value: 8.05e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 526479830   533 SSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 573
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
534-573 9.60e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 40.02  E-value: 9.60e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 526479830  534 SQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 573
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSP-DGKLLASGSDDGTVKVWD 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.
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