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Conserved domains on  [gi|6912338|ref|NP_036276|]
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dynein axonemal intermediate chain 1 isoform 1 [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 ...
 353-611 1.19e-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: 1.19e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  353 GSYDfmkqsrGMLLLYSLKNPSFPEYMFSSNSGVMCLDIHVDHPYLVAvGHYDGNVAIYNLKKPhsqpsFCSSAKSGkHS 432
Cdd:cd00200  69 GSSD------KTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSS-SSRDKTIKVWDVETG-----KCLTTLRG-HT 135

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  433 DPVWQVKWQKDDMdqnlnF-FSVSSDGRIVSWTLVKRKLVHidviklKVEGSTTEVpEGLQLHPVGcgtafdfhkeidYM 511
Cdd:cd00200 136 DWVNSVAFSPDGT-----FvASSSQDGTIKLWDLRTGKCVA------TLTGHTGEV-NSVAFSPDG------------EK 191

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  512 FLVGTEEGKIyKCSKSYSSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWDHTIKTPMFIYDL-NSAVGDVAW 590
Cdd:cd00200 192 LLSSSSDGTI-KLWDLSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAW 269

                       250       260
                ....*....|....*....|.
gi 6912338  591 APySSTVFAAVTTDGKAHIFD 611
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 ...
 353-611 1.19e-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: 1.19e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  353 GSYDfmkqsrGMLLLYSLKNPSFPEYMFSSNSGVMCLDIHVDHPYLVAvGHYDGNVAIYNLKKPhsqpsFCSSAKSGkHS 432
Cdd:cd00200  69 GSSD------KTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSS-SSRDKTIKVWDVETG-----KCLTTLRG-HT 135

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  433 DPVWQVKWQKDDMdqnlnF-FSVSSDGRIVSWTLVKRKLVHidviklKVEGSTTEVpEGLQLHPVGcgtafdfhkeidYM 511
Cdd:cd00200 136 DWVNSVAFSPDGT-----FvASSSQDGTIKLWDLRTGKCVA------TLTGHTGEV-NSVAFSPDG------------EK 191

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  512 FLVGTEEGKIyKCSKSYSSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWDHTIKTPMFIYDL-NSAVGDVAW 590
Cdd:cd00200 192 LLSSSSDGTI-KLWDLSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAW 269

                       250       260
                ....*....|....*....|.
gi 6912338  591 APySSTVFAAVTTDGKAHIFD 611
Cdd:cd00200 270 SP-DGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
398-613 2.91e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 53.38  E-value: 2.91e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  398 LVAVGHYDGNVAIYNLKKPHSQPSFcssaksGKHSDPVWQVKWQKDDmdQNLnfFSVSSDGRIVSWTLVKRKLVHIdvik 477
Cdd:COG2319 176 LLASGSDDGTVRLWDLATGKLLRTL------TGHTGAVRSVAFSPDG--KLL--ASGSADGTVRLWDLATGKLLRT---- 241

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  478 lkVEGSTTEVpEGLQLHPVGcgtafdfhkeidYMFLVGTEEGKIYKCSKSySSQFLDTYDAHNMSVDTVSWNPyHTKVFM 557
Cdd:COG2319 242 --LTGHSGSV-RSVAFSPDG------------RLLASGSADGTVRLWDLA-TGELLRTLTGHSGGVNSVAFSP-DGKLLA 304

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 6912338  558 SCSSDWTVKIWD-HTIKTPMFIYDLNSAVGDVAWAPYSSTVfAAVTTDGKAHIFDLA 613
Cdd:COG2319 305 SGSDDGTVRLWDlATGKLLRTLTGHTGAVRSVAFSPDGKTL-ASGSDDGTVRLWDLA 360
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 529-569 7.92e-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: 7.92e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 6912338     529 SSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 569
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
530-569 9.55e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 40.02  E-value: 9.55e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 6912338    530 SQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 569
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 ...
 353-611 1.19e-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: 1.19e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  353 GSYDfmkqsrGMLLLYSLKNPSFPEYMFSSNSGVMCLDIHVDHPYLVAvGHYDGNVAIYNLKKPhsqpsFCSSAKSGkHS 432
Cdd:cd00200  69 GSSD------KTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSS-SSRDKTIKVWDVETG-----KCLTTLRG-HT 135

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  433 DPVWQVKWQKDDMdqnlnF-FSVSSDGRIVSWTLVKRKLVHidviklKVEGSTTEVpEGLQLHPVGcgtafdfhkeidYM 511
Cdd:cd00200 136 DWVNSVAFSPDGT-----FvASSSQDGTIKLWDLRTGKCVA------TLTGHTGEV-NSVAFSPDG------------EK 191

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  512 FLVGTEEGKIyKCSKSYSSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWDHTIKTPMFIYDL-NSAVGDVAW 590
Cdd:cd00200 192 LLSSSSDGTI-KLWDLSTGKCLGTLRGHENGVNSVAFSP-DGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAW 269

                       250       260
                ....*....|....*....|.
gi 6912338  591 APySSTVFAAVTTDGKAHIFD 611
Cdd:cd00200 270 SP-DGKRLASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 381-653 3.70e-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: 3.70e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  381 SSNSGVMCLDIHVDHPYLVAVGhYDGNVAIYNLKKPHSQPSFCSsaksgkHSDPVWQVKWQKDDMdqnlNFFSVSSDGRI 460
Cdd:cd00200   7 GHTGGVTCVAFSPDGKLLATGS-GDGTIKVWDLETGELLRTLKG------HTGPVRDVAASADGT----YLASGSSDKTI 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  461 VSWTLVKRKLVHIdviklkVEGSTTEVpeglqlhpvgcgTAFDFHKEiDYMFLVGTEEGKIyKCSKSYSSQFLDTYDAHN 540
Cdd:cd00200  76 RLWDLETGECVRT------LTGHTSYV------------SSVAFSPD-GRILSSSSRDKTI-KVWDVETGKCLTTLRGHT 135

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  541 MSVDTVSWNPYHTKVFmSCSSDWTVKIWD-HTIKTPMFIYDLNSAVGDVAWAPySSTVFAAVTTDGKAHIFDLAinkyEA 619
Cdd:cd00200 136 DWVNSVAFSPDGTFVA-SSSQDGTIKLWDlRTGKCVATLTGHTGEVNSVAFSP-DGEKLLSSSSDGTIKLWDLS----TG 209

                       250       260       270
                ....*....|....*....|....*....|....
gi 6912338  620 ICNQPVAAKKNRLTHVQFNLIHPIIIVGDDRGHI 653
Cdd:cd00200 210 KCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTI 243
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 491-653 1.67e-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: 1.67e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  491 LQLHPVGCgTAFDFHKEIDYMfLVGTEEGKIYKCSKSySSQFLDTYDAHNMSVDTVSWNPYHTKVFmSCSSDWTVKIWDh 570
Cdd:cd00200   5 LKGHTGGV-TCVAFSPDGKLL-ATGSGDGTIKVWDLE-TGELLRTLKGHTGPVRDVAASADGTYLA-SGSSDKTIRLWD- 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  571 tIKTPMFIYDL---NSAVGDVAWAPySSTVFAAVTTDGKAHIFDLAINKyeaiCNQPVAAKKNRLTHVQFNLIHPIIIVG 647
Cdd:cd00200  80 -LETGECVRTLtghTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGK----CLTTLRGHTDWVNSVAFSPDGTFVASS 153


                ....*.
gi 6912338  648 DDRGHI 653
Cdd:cd00200 154 SQDGTI 159
WD40 COG2319
WD40 repeat [General function prediction only];
398-613 2.91e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 53.38  E-value: 2.91e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  398 LVAVGHYDGNVAIYNLKKPHSQPSFcssaksGKHSDPVWQVKWQKDDmdQNLnfFSVSSDGRIVSWTLVKRKLVHIdvik 477
Cdd:COG2319 176 LLASGSDDGTVRLWDLATGKLLRTL------TGHTGAVRSVAFSPDG--KLL--ASGSADGTVRLWDLATGKLLRT---- 241

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  478 lkVEGSTTEVpEGLQLHPVGcgtafdfhkeidYMFLVGTEEGKIYKCSKSySSQFLDTYDAHNMSVDTVSWNPyHTKVFM 557
Cdd:COG2319 242 --LTGHSGSV-RSVAFSPDG------------RLLASGSADGTVRLWDLA-TGELLRTLTGHSGGVNSVAFSP-DGKLLA 304

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 6912338  558 SCSSDWTVKIWD-HTIKTPMFIYDLNSAVGDVAWAPYSSTVfAAVTTDGKAHIFDLA 613
Cdd:COG2319 305 SGSDDGTVRLWDlATGKLLRTLTGHTGAVRSVAFSPDGKTL-ASGSDDGTVRLWDLA 360
WD40 COG2319
WD40 repeat [General function prediction only];
398-613 3.37e-07

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 52.99  E-value: 3.37e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  398 LVAVGHYDGNVAIYNLKKPHSQPSFcssaksGKHSDPVWQVKWQKDdmdqNLNFFSVSSDGRIVSWTLVKRKLVHIdvik 477
Cdd:COG2319  92 LLASASADGTVRLWDLATGLLLRTL------TGHTGAVRSVAFSPD----GKTLASGSADGTVRLWDLATGKLLRT---- 157

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6912338  478 lkVEGSTTEVpEGLQLHPVGcgtafdfhkeidYMFLVGTEEG--KIYKCSksySSQFLDTYDAHNMSVDTVSWNPyHTKV 555
Cdd:COG2319 158 --LTGHSGAV-TSVAFSPDG------------KLLASGSDDGtvRLWDLA---TGKLLRTLTGHTGAVRSVAFSP-DGKL 218

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6912338  556 FMSCSSDWTVKIWDhtIKTPMFIYDLN---SAVGDVAWAPYSSTVfAAVTTDGKAHIFDLA 613
Cdd:COG2319 219 LASGSADGTVRLWD--LATGKLLRTLTghsGSVRSVAFSPDGRLL-ASGSADGTVRLWDLA 276
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 529-569 7.92e-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: 7.92e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 6912338     529 SSQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 569
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
530-569 9.55e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 40.02  E-value: 9.55e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 6912338    530 SQFLDTYDAHNMSVDTVSWNPyHTKVFMSCSSDWTVKIWD 569
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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