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Conserved domains on  [gi|1780601236|emb|VYS44873|]
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unnamed protein product [Arabidopsis thaliana]

Protein Classification

WD40 domain-containing protein( domain architecture ID 10646081)

WD40 domain-containing protein similar to Saccharomyces cerevisiae autophagy-related protein 21 that is required for cytoplasm to vacuole transport (Cvt) vesicles formation and mitophagy

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
BCAS3 pfam12490
Breast carcinoma amplified sequence 3; This domain family is found in eukaryotes, and is ...
 512-748 3.79e-95

Breast carcinoma amplified sequence 3; This domain family is found in eukaryotes, and is typically between 229 and 245 amino acids in length. The proteins in this family have been shown to be proto-oncogenes implicated in the development of breast cancer.


:

Pssm-ID: 463605  Cd Length: 234  Bit Score: 300.01  E-value: 3.79e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 512 PTAVALSVVSRIKYSSFGWLNTVSNATTAATGKVFVPSGAVAAVFHKSVTHDLQLN--SRTNALEHILVYTPSGHVVQHE 589
Cdd:pfam12490   1 PPPVTLSVVSRIKNGNSGWLNTVSGAAAAATGKVSSPSGAIASVFHNCKGWSYGSVnsSALKPLEHLLVFSPSGHVIQYA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 590 LLPSVCTESPENGlRVQKTSHVQVQEDDLRVKVEPIQWWDVCRRSDWLETEERLPKSItekqydlETVSNHLTSHEDACL 669
Cdd:pfam12490  81 LRPSSGGESGDSS-RGGGISYESMQETELRVVVEPIQWWDVCRRSNWPEREDPLSSNS-------DIYGDAGSSEDSKVK 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 670 SLDM---NSHFSEDKylkscSEKPPERSHCYLSNFEVKVTSGMLPVWQNSKISFHVMDSPRD-----SSSTGGEFEIEKV 741
Cdd:pfam12490 153 SNSIvpsNNGVDGKE-----SLKSEERHHLYLSNAELQMHSGHTPLWQKSKISFQVMVLPTAeednsGNSSGGEIEIEKI 227


                  ....*..
gi 1780601236 742 PAHELEI 748
Cdd:pfam12490 228 PTREIEA 234
WD40 super family cl43672
WD40 repeat [General function prediction only];
349-467 2.58e-05

WD40 repeat [General function prediction only];


The actual alignment was detected with superfamily member COG2319:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.60  E-value: 2.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFQImpsrshnAPGDLsyewessh 428
Cdd:COG2319   136 ASGSAD---GTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSD-DGTVRLWDL-------ATGKL-------- 196

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGitsaIVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:COG2319   197 LRTLTGHTG----AVRSVAFSPDGKLLASGSADGTVRLW 231
 
Name Accession Description Interval E-value
BCAS3 pfam12490
Breast carcinoma amplified sequence 3; This domain family is found in eukaryotes, and is ...
 512-748 3.79e-95

Breast carcinoma amplified sequence 3; This domain family is found in eukaryotes, and is typically between 229 and 245 amino acids in length. The proteins in this family have been shown to be proto-oncogenes implicated in the development of breast cancer.


Pssm-ID: 463605  Cd Length: 234  Bit Score: 300.01  E-value: 3.79e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 512 PTAVALSVVSRIKYSSFGWLNTVSNATTAATGKVFVPSGAVAAVFHKSVTHDLQLN--SRTNALEHILVYTPSGHVVQHE 589
Cdd:pfam12490   1 PPPVTLSVVSRIKNGNSGWLNTVSGAAAAATGKVSSPSGAIASVFHNCKGWSYGSVnsSALKPLEHLLVFSPSGHVIQYA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 590 LLPSVCTESPENGlRVQKTSHVQVQEDDLRVKVEPIQWWDVCRRSDWLETEERLPKSItekqydlETVSNHLTSHEDACL 669
Cdd:pfam12490  81 LRPSSGGESGDSS-RGGGISYESMQETELRVVVEPIQWWDVCRRSNWPEREDPLSSNS-------DIYGDAGSSEDSKVK 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 670 SLDM---NSHFSEDKylkscSEKPPERSHCYLSNFEVKVTSGMLPVWQNSKISFHVMDSPRD-----SSSTGGEFEIEKV 741
Cdd:pfam12490 153 SNSIvpsNNGVDGKE-----SLKSEERHHLYLSNAELQMHSGHTPLWQKSKISFQVMVLPTAeednsGNSSGGEIEIEKI 227


                  ....*..
gi 1780601236 742 PAHELEI 748
Cdd:pfam12490 228 PTREIEA 234
WD40 COG2319
WD40 repeat [General function prediction only];
349-467 2.58e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.60  E-value: 2.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFQImpsrshnAPGDLsyewessh 428
Cdd:COG2319   136 ASGSAD---GTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSD-DGTVRLWDL-------ATGKL-------- 196

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGitsaIVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:COG2319   197 LRTLTGHTG----AVRSVAFSPDGKLLASGSADGTVRLW 231
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 367-397 3.35e-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: 38.83  E-value: 3.35e-04
                           10        20        30
                   ....*....|....*....|....*....|.
gi 1780601236  367 SGALVSQFKAHTSPISALCFDPSGTLLVTAS 397
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGS 31
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 349-467 2.41e-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: 41.17  E-value: 2.41e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAEnaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASvCGNNINVFqimpsrshnapgDLSyewESSH 428
Cdd:cd00200   150 VASSSQD--GTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSS-SDGTIKLW------------DLS---TGKC 211

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGitsaIVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:cd00200   212 LGTLRGHEN----GVNSVAFSPDGYLLASGSEDGTIRVW 246
WD40 pfam00400
WD domain, G-beta repeat;
368-397 5.57e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.40  E-value: 5.57e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1780601236 368 GALVSQFKAHTSPISALCFDPSGTLLVTAS 397
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGS 30
 
Name Accession Description Interval E-value
BCAS3 pfam12490
Breast carcinoma amplified sequence 3; This domain family is found in eukaryotes, and is ...
 512-748 3.79e-95

Breast carcinoma amplified sequence 3; This domain family is found in eukaryotes, and is typically between 229 and 245 amino acids in length. The proteins in this family have been shown to be proto-oncogenes implicated in the development of breast cancer.


Pssm-ID: 463605  Cd Length: 234  Bit Score: 300.01  E-value: 3.79e-95
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 512 PTAVALSVVSRIKYSSFGWLNTVSNATTAATGKVFVPSGAVAAVFHKSVTHDLQLN--SRTNALEHILVYTPSGHVVQHE 589
Cdd:pfam12490   1 PPPVTLSVVSRIKNGNSGWLNTVSGAAAAATGKVSSPSGAIASVFHNCKGWSYGSVnsSALKPLEHLLVFSPSGHVIQYA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 590 LLPSVCTESPENGlRVQKTSHVQVQEDDLRVKVEPIQWWDVCRRSDWLETEERLPKSItekqydlETVSNHLTSHEDACL 669
Cdd:pfam12490  81 LRPSSGGESGDSS-RGGGISYESMQETELRVVVEPIQWWDVCRRSNWPEREDPLSSNS-------DIYGDAGSSEDSKVK 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 670 SLDM---NSHFSEDKylkscSEKPPERSHCYLSNFEVKVTSGMLPVWQNSKISFHVMDSPRD-----SSSTGGEFEIEKV 741
Cdd:pfam12490 153 SNSIvpsNNGVDGKE-----SLKSEERHHLYLSNAELQMHSGHTPLWQKSKISFQVMVLPTAeednsGNSSGGEIEIEKI 227


                  ....*..
gi 1780601236 742 PAHELEI 748
Cdd:pfam12490 228 PTREIEA 234
WD40 COG2319
WD40 repeat [General function prediction only];
349-467 2.58e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.60  E-value: 2.58e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFQImpsrshnAPGDLsyewessh 428
Cdd:COG2319   136 ASGSAD---GTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSD-DGTVRLWDL-------ATGKL-------- 196

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGitsaIVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:COG2319   197 LRTLTGHTG----AVRSVAFSPDGKLLASGSADGTVRLW 231
WD40 COG2319
WD40 repeat [General function prediction only];
349-467 2.86e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 47.60  E-value: 2.86e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFQImpsrshnAPGDLsyewessh 428
Cdd:COG2319   178 ASGSDD---GTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLASGSA-DGTVRLWDL-------ATGKL-------- 238

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGitsaIVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:COG2319   239 LRTLTGHSG----SVRSVAFSPDGRLLASGSADGTVRLW 273
WD40 COG2319
WD40 repeat [General function prediction only];
349-463 8.31e-05

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 46.06  E-value: 8.31e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVfqimpsrshnapgdlsyeWESSH 428
Cdd:COG2319   262 ASGSAD---GTVRLWDLATGELLRTLTGHSGGVNSVAFSPDGKLLASGSD-DGTVRL------------------WDLAT 319

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1780601236 429 VHLFKLHRGITSAiVQDICFSQQSQWVAIISSKGT 463
Cdd:COG2319   320 GKLLRTLTGHTGA-VRSVAFSPDGKTLASGSDDGT 353
WD40 COG2319
WD40 repeat [General function prediction only];
349-467 2.57e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 44.52  E-value: 2.57e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFQImpsrshnAPGDLsyewessh 428
Cdd:COG2319   220 ASGSAD---GTVRLWDLATGKLLRTLTGHSGSVRSVAFSPDGRLLASGSA-DGTVRLWDL-------ATGEL-------- 280

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGItsaiVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:COG2319   281 LRTLTGHSGG----VNSVAFSPDGKLLASGSDDGTVRLW 315
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 367-397 3.35e-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: 38.83  E-value: 3.35e-04
                           10        20        30
                   ....*....|....*....|....*....|.
gi 1780601236  367 SGALVSQFKAHTSPISALCFDPSGTLLVTAS 397
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGS 31
WD40 COG2319
WD40 repeat [General function prediction only];
349-463 3.96e-04

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 43.75  E-value: 3.96e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAenaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFqimpsrshnapgDLSYEWEssh 428
Cdd:COG2319   304 ASGSDD---GTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLASGSD-DGTVRLW------------DLATGEL--- 364

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1780601236 429 VHLFKLHRGItsaiVQDICFSQQSQWVAIISSKGT 463
Cdd:COG2319   365 LRTLTGHTGA----VTSVAFSPDGRTLASGSADGT 395
WD40 COG2319
WD40 repeat [General function prediction only];
354-463 1.65e-03

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 41.82  E-value: 1.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 354 AENAGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASVcGNNINVFQImpsrshnAPGDLsyewesshVHLFK 433
Cdd:COG2319    96 ASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSA-DGTVRLWDL-------ATGKL--------LRTLT 159

                          90       100       110
                  ....*....|....*....|....*....|
gi 1780601236 434 LHRGitsaIVQDICFSQQSQWVAIISSKGT 463
Cdd:COG2319   160 GHSG----AVTSVAFSPDGKLLASGSDDGT 185
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 349-467 2.41e-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: 41.17  E-value: 2.41e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1780601236 349 VSGSDAEnaGMVAVKDLVSGALVSQFKAHTSPISALCFDPSGTLLVTASvCGNNINVFqimpsrshnapgDLSyewESSH 428
Cdd:cd00200   150 VASSSQD--GTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSS-SDGTIKLW------------DLS---TGKC 211

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 1780601236 429 VHLFKLHRGitsaIVQDICFSQQSQWVAIISSKGTCHIF 467
Cdd:cd00200   212 LGTLRGHEN----GVNSVAFSPDGYLLASGSEDGTIRVW 246
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 364-397 4.28e-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: 40.40  E-value: 4.28e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1780601236 364 DLVSGALVSQFKAHTSPISALCFDPSGTLLVTAS 397
Cdd:cd00200   247 DLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGS 280
WD40 pfam00400
WD domain, G-beta repeat;
368-397 5.57e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 35.40  E-value: 5.57e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1780601236 368 GALVSQFKAHTSPISALCFDPSGTLLVTAS 397
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGS 30
 
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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