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Conserved domains on  [gi|568956985|ref|XP_006531151|]
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NACHT domain- and WD repeat-containing protein 1 isoform X6 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
657-1004 1.09e-28

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 120.40  E-value: 1.09e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  657 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 736
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  737 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqg 816
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLL-------------ASG---------------- 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  817 lllalSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFL 893
Cdd:COG2319   223 -----SADGTVRLWDLATGKLL--RTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGELLRTLTghsGGVNSV 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  894 VVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLE 971
Cdd:COG2319   295 AFSPDGKLLAsGSDDGTVRLWdLATGKLLRTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDL-ATGELLRTLT 369

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 568956985  972 GVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKS 1004
Cdd:COG2319   370 GHTGAVTSVAfsPDGRTLASGSA-DGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
854-1221 3.42e-26

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 112.70  E-value: 3.42e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  854 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 929
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  930 HEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKK 1007
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDL-ATGKLLRTLTGHSGAVTSVAfsPDGKLLASGSD-DGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1008 LQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFP 1086
Cdd:COG2319   197 LRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1087 LNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YR 1164
Cdd:COG2319   275 LATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKT 344

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568956985 1165 VVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1221
Cdd:COG2319   345 LASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
ExeA super family cl30749
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 108-214 1.42e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


The actual alignment was detected with superfamily member COG3267:

Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  108 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 187
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 568956985  188 CLAYGLPLPPAQVLEAHSRVGHFFHTL 214
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
657-1004 1.09e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 120.40  E-value: 1.09e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  657 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 736
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  737 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqg 816
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLL-------------ASG---------------- 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  817 lllalSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFL 893
Cdd:COG2319   223 -----SADGTVRLWDLATGKLL--RTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGELLRTLTghsGGVNSV 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  894 VVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLE 971
Cdd:COG2319   295 AFSPDGKLLAsGSDDGTVRLWdLATGKLLRTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDL-ATGELLRTLT 369

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 568956985  972 GVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKS 1004
Cdd:COG2319   370 GHTGAVTSVAfsPDGRTLASGSA-DGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 663-959 2.78e-27

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: 113.20  E-value: 2.78e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  663 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 742
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  743 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 821
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  822 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 898
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568956985  899 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWS 959
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
854-1221 3.42e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 112.70  E-value: 3.42e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  854 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 929
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  930 HEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKK 1007
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDL-ATGKLLRTLTGHSGAVTSVAfsPDGKLLASGSD-DGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1008 LQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFP 1086
Cdd:COG2319   197 LRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1087 LNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YR 1164
Cdd:COG2319   275 LATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKT 344

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568956985 1165 VVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1221
Cdd:COG2319   345 LASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 941-1264 5.46e-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: 83.15  E-value: 5.46e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  941 PENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVS--LLVRGGTLVVSASrksssfkvwdlkstkklqsptpfLDRT 1018
Cdd:cd00200    19 PDGKLLATGSGDGTIKVWDL-ETGELLRTLKGHTGPVRdvAASADGTYLASGS-----------------------SDKT 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1019 glaavshhgsfvyfpkvgdknkVTIWDLAEGEeqdCLDT----SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVL 1094
Cdd:cd00200    75 ----------------------IRLWDLETGE---CVRTltghTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLT 129

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1095 CIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDG 1172
Cdd:cd00200   130 TLRGHTD--WVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCVATLTGHT--------GEVNSVAFSPDgEKLLSSSSDG 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1173 SLFLYDCACSKVF-PLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMS-YENSccrgVRCACFSRDDKH 1250
Cdd:cd00200   200 TIKLWDLSTGKCLgTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSgHTNS----VTSLAWSPDGKR 275

                         330
                  ....*....|....
gi 568956985 1251 VFAGMEDRSVTAWS 1264
Cdd:cd00200   276 LASGSADGTIRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 704-741 1.41e-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: 46.15  E-value: 1.41e-06
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956985    704 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 741
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
704-741 1.45e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.10  E-value: 1.45e-05
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 568956985   704 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 741
Cdd:pfam00400    2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 108-214 1.42e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  108 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 187
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 568956985  188 CLAYGLPLPPAQVLEAHSRVGHFFHTL 214
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 106-144 5.65e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 44.52  E-value: 5.65e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568956985  106 FCGHQELLAQLRQQLRQdESRTHTPLVLFGPPGIGKTSL 144
Cdd:NF040586    8 FTGREELLERLRDQLRS-GGAAVVPQALHGLGGVGKTQL 45
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 108-154 6.16e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 41.75  E-value: 6.16e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568956985  108 GHQELLAQLRQQLRQDESRthtPLVLFGPPGIGKTSLMCKLAQQVPE 154
Cdd:cd00009     2 GQEEAIEALREALELPPPK---NLLLYGPPGTGKTTLARAIANELFR 45
NACHT pfam05729
NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in ...
 130-297 1.89e-03

NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.


Pssm-ID: 428606 [Multi-domain]  Cd Length: 166  Bit Score: 40.75  E-value: 1.89e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985   130 PLVLFGPPGIGKTSLMCKLAQ--QVPELLGHKTVVVLRLLGTSKLSLDARSlLRSLSFQVCLAYGLPLPP--AQVLEAHS 205
Cdd:pfam05729    2 TVILQGEAGSGKTTLLQKLALlwAQGKLPQGFDFVFFLPCRELSRSGNARS-LADLLFSQWPEPAAPVSEvwAVILELPE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985   206 RVGHFFHTLLHTVSQRNFESLVLLLDSVDDldsichsprvSWLPLKCPPRVHLILSTCSGQqvLHNLQQTLKDPsTYWEV 285
Cdd:pfam05729   81 RLLLILDGLDELVSDLGQLDGPCPVLTLLS----------SLLRKKLLPGASLLLTVRPDA--LRDLRRGLEEP-RYLEV 147

                          170
                   ....*....|..
gi 568956985   286 KALSGSQGQEFI 297
Cdd:pfam05729  148 RGFSESDRKQYV 159
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1182-1219 2.40e-03

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: 36.91  E-value: 2.40e-03
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956985   1182 SKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1219
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
1187-1219 2.82e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.82e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 568956985  1187 LEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1219
Cdd:pfam00400    7 LEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 106-144 5.49e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.36  E-value: 5.49e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 568956985   106 FCGHQELLAQLRQQLRQDESRTHTP--LVLFGPPGIGKTSL 144
Cdd:TIGR00635    6 FIGQEKVKEQLQLFIEAAKMRQEALdhLLLYGPPGLGKTTL 46
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
657-1004 1.09e-28

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 120.40  E-value: 1.09e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  657 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 736
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  737 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqg 816
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLL-------------ASG---------------- 222

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  817 lllalSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFL 893
Cdd:COG2319   223 -----SADGTVRLWDLATGKLL--RTLTGHSGSVRSVAFSPDGR-LLASGSADGTVRLWDLATGELLRTLTghsGGVNSV 294

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  894 VVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLE 971
Cdd:COG2319   295 AFSPDGKLLAsGSDDGTVRLWdLATGKLLRTLTG----HTGAVRSVAFSPDGKTLASGSDDGTVRLWDL-ATGELLRTLT 369

                         330       340       350
                  ....*....|....*....|....*....|....*
gi 568956985  972 GVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKS 1004
Cdd:COG2319   370 GHTGAVTSVAfsPDGRTLASGSA-DGTVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 663-959 2.78e-27

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: 113.20  E-value: 2.78e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  663 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 742
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  743 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 821
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  822 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 898
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 568956985  899 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWS 959
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
660-1047 3.03e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.08  E-value: 3.03e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  660 GGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRL 739
Cdd:COG2319    67 AGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRL 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  740 WSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqglll 819
Cdd:COG2319   147 WDLATGKL-LRTLTG-------------HSGAVTSVAFSPDGKLL-------------ASG------------------- 180

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  820 alSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVS 896
Cdd:COG2319   181 --SDDGTVRLWDLATGKLL--RTLTGHTGAVRSVAFSPDGK-LLASGSADGTVRLWDLATGKLLRTLTghsGSVRSVAFS 255

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  897 EDDSLLV-AGFGRFVRIFLADSQGFHRFMASdleHEDMVETAVLGPENNLIITGSRDALIQVWSLSEqGTLLNVLEGVGA 975
Cdd:COG2319   256 PDGRLLAsGSADGTVRLWDLATGELLRTLTG---HSGGVNSVAFSPDGKLLASGSDDGTVRLWDLAT-GKLLRTLTGHTG 331

                         330       340       350       360       370       380       390
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 568956985  976 PVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLA 1047
Cdd:COG2319   332 AVRSVAfsPDGKTLASGSD-DGTVRLWDLATGELLRTLTGHTGAVTSVAFSPDGRTLAS--GSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
854-1221 3.42e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 112.70  E-value: 3.42e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  854 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 929
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  930 HEDMVETAVLGPENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKK 1007
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDL-ATGKLLRTLTGHSGAVTSVAfsPDGKLLASGSD-DGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1008 LQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFP 1086
Cdd:COG2319   197 LRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1087 LNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YR 1164
Cdd:COG2319   275 LATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKT 344

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 568956985 1165 VVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1221
Cdd:COG2319   345 LASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
854-1265 4.48e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 112.31  E-value: 4.48e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  854 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPEAVGFLVVSEDDSLLVAGFGRFVRIFLADSQGFHRfmASDLEHEDM 933
Cdd:COG2319     3 SADGAALAAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALL--ATLLGHTAA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  934 VETAVLGPENNLIITGSRDALIQVWSLSeQGTLLNVLEGVGAPVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKKLQSP 1011
Cdd:COG2319    81 VLSVAFSPDGRLLASASADGTVRLWDLA-TGLLLRTLTGHTGAVRSVAfsPDGKTLASGSA-DGTVRLWDLATGKLLRTL 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1012 TPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLD-TSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSR 1090
Cdd:COG2319   159 TGHSGAVTSVAFSPDGKLLAS--GSDDGTVRLWDLATGKLLRTLTgHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATG 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1091 QDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYG 1168
Cdd:COG2319   237 KLLRTLTGHSGS--VRSVAFSPDGRLLASGsADGTVRLWDLATGELLRTLTGHS--------GGVNSVAFSPDgKLLASG 306

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1169 MSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRD 1247
Cdd:COG2319   307 SDDGTVRLWDLATGKlLRTLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGHTG---AVTSVAFSPD 383

                         410
                  ....*....|....*...
gi 568956985 1248 DKHVFAGMEDRSVTAWST 1265
Cdd:COG2319   384 GRTLASGSADGTVRLWDL 401
WD40 COG2319
WD40 repeat [General function prediction only];
660-1076 1.54e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 110.77  E-value: 1.54e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  660 GGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRL 739
Cdd:COG2319    25 LGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRL 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  740 WSLLSGQEKVTILDggsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqglll 819
Cdd:COG2319   105 WDLATGLLLRTLTG--------------HTGAVRSVAFSPDGKTL-------------ASG------------------- 138

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  820 alSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVS 896
Cdd:COG2319   139 --SADGTVRLWDLATGKLL--RTLTGHSGAVTSVAFSPDGK-LLASGSDDGTVRLWDLATGKLLRTLTghtGAVRSVAFS 213

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  897 EDDSLLV-AGFGRFVRIFLADSQGFHRFMASdleHEDMVETAVLGPENNLIITGSRDALIQVWSLSEqGTLLNVLEGVGA 975
Cdd:COG2319   214 PDGKLLAsGSADGTVRLWDLATGKLLRTLTG---HSGSVRSVAFSPDGRLLASGSADGTVRLWDLAT-GELLRTLTGHSG 289

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  976 PVSLLV--RGGTLVVSASRkSSSFKVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQD 1053
Cdd:COG2319   290 GVNSVAfsPDGKLLASGSD-DGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKTLAS--GSDDGTVRLWDLATGELLR 366

                         410       420
                  ....*....|....*....|....
gi 568956985 1054 CLDT-SNEVRCLEVAEQAKLLFTG 1076
Cdd:COG2319   367 TLTGhTGAVTSVAFSPDGRTLASG 390
WD40 COG2319
WD40 repeat [General function prediction only];
894-1277 3.68e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 103.84  E-value: 3.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  894 VVSEDDSLLVAGFGRFVRIFLADSQGFHRfmASDLEHEDMVETAVLGPENNLIITGSRDALIQVWSLSEQGTLLNVLEGV 973
Cdd:COG2319     1 ALSADGAALAAASADLALALLAAALGALL--LLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  974 GAPVSLLVRGGTLVVSASRKSSSFKVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQD 1053
Cdd:COG2319    79 AAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLAS--GSADGTVRLWDLATGKLLR 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1054 CLDT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDIS 1131
Cdd:COG2319   157 TLTGhSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA--VRSVAFSPDGKLLASGsADGTVRLWDLA 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1132 PGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSG 1209
Cdd:COG2319   235 TGKLLRTLTGHS--------GSVRSVAFSPDgRLLASGSADGTVRLWDLATGElLRTLTGHSGGVNSVAFSPDGKLLASG 306

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 568956985 1210 AEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHVFAGMEDRSVTAWSTVDGTLLAVQFVH 1277
Cdd:COG2319   307 SDDGTVRLWDLATGKLLRTLTGHTG---AVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGH 371
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 661-800 1.50e-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: 84.69  E-value: 1.50e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  661 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLW 740
Cdd:cd00200   125 GKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLW 204

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 568956985  741 SLLSGQEKVTIldGGSQNPtepqSWDLHVDERNNVVYSTSGAR-INMWNLETSKLVFCITG 800
Cdd:cd00200   205 DLSTGKCLGTL--RGHENG----VNSVAFSPDGYLLASGSEDGtIRVWDLRTGECVQTLSG 259
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 941-1264 5.46e-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: 83.15  E-value: 5.46e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  941 PENNLIITGSRDALIQVWSLsEQGTLLNVLEGVGAPVS--LLVRGGTLVVSASrksssfkvwdlkstkklqsptpfLDRT 1018
Cdd:cd00200    19 PDGKLLATGSGDGTIKVWDL-ETGELLRTLKGHTGPVRdvAASADGTYLASGS-----------------------SDKT 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1019 glaavshhgsfvyfpkvgdknkVTIWDLAEGEeqdCLDT----SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVL 1094
Cdd:cd00200    75 ----------------------IRLWDLETGE---CVRTltghTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLT 129

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1095 CIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDG 1172
Cdd:cd00200   130 TLRGHTD--WVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCVATLTGHT--------GEVNSVAFSPDgEKLLSSSSDG 199

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1173 SLFLYDCACSKVF-PLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMS-YENSccrgVRCACFSRDDKH 1250
Cdd:cd00200   200 TIKLWDLSTGKCLgTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSgHTNS----VTSLAWSPDGKR 275

                         330
                  ....*....|....
gi 568956985 1251 VFAGMEDRSVTAWS 1264
Cdd:cd00200   276 LASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 658-741 3.20e-14

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: 74.68  E-value: 3.20e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  658 PPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTL 737
Cdd:cd00200   206 LSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTI 285


                  ....
gi 568956985  738 RLWS 741
Cdd:cd00200   286 RIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1058-1277 2.55e-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: 71.98  E-value: 2.55e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1058 SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPppEARKAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPC 1136
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLK--GHTGPVRDVAASADGTYLASGsSDKTIRLWDLETGECV 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1137 PAIEGPTytfytqlpETIVSVAVLADYRVVYG-MSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDAL 1214
Cdd:cd00200    87 RTLTGHT--------SYVSSVAFSPDGRILSSsSRDKTIKVWDVETGKcLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 568956985 1215 LCLWDLQA--CRGMFEMSYENsccrgVRCACFSRDDKHVFAGMEDRSVTAWSTVDGTLLAVQFVH 1277
Cdd:cd00200   159 IKLWDLRTgkCVATLTGHTGE-----VNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH 218
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 704-741 1.41e-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: 46.15  E-value: 1.41e-06
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956985    704 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 741
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
704-741 1.45e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.10  E-value: 1.45e-05
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 568956985   704 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 741
Cdd:pfam00400    2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 108-214 1.42e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.42e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985  108 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 187
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 568956985  188 CLAYGLPLPPAQVLEAHSRVGHFFHTL 214
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
WDR74 cd22857
WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and ...
 1099-1221 2.02e-04

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: 45.30  E-value: 2.02e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985 1099 PEARKAVNCMSLS--KSENRLAIAY-DNIVLVLDISPGDPCPAIEGPTYTFYTQLPETIVSVAVLAdyRVVYGMSD-GSL 1174
Cdd:cd22857    27 PDKSKAVQALSIAdrESEPLLAVARkNGTVEVLDPENGDLLASFSDSEPATKLSEEDHFVGLHLFS--GTLLTCTSkGSL 104

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 568956985 1175 FLY-----DCACSKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1221
Cdd:cd22857   105 RSTklpddSTASSSPTAWVCLGGNLLCMRVDPNENYFAFGGKEVELNVWDLE 156
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 674-719 3.21e-04

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 41.11  E-value: 3.21e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 568956985   674 ITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCV 719
Cdd:pfam12894   41 VTSLAWRPDGKLLAVGYSDGTVRLLDAENGKIVHHFSAGSDLITCL 86
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 106-144 5.65e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 44.52  E-value: 5.65e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 568956985  106 FCGHQELLAQLRQQLRQdESRTHTPLVLFGPPGIGKTSL 144
Cdd:NF040586    8 FTGREELLERLRDQLRS-GGAAVVPQALHGLGGVGKTQL 45
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 108-154 6.16e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 41.75  E-value: 6.16e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 568956985  108 GHQELLAQLRQQLRQDESRthtPLVLFGPPGIGKTSLMCKLAQQVPE 154
Cdd:cd00009     2 GQEEAIEALREALELPPPK---NLLLYGPPGTGKTTLARAIANELFR 45
NACHT pfam05729
NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in ...
 130-297 1.89e-03

NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.


Pssm-ID: 428606 [Multi-domain]  Cd Length: 166  Bit Score: 40.75  E-value: 1.89e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985   130 PLVLFGPPGIGKTSLMCKLAQ--QVPELLGHKTVVVLRLLGTSKLSLDARSlLRSLSFQVCLAYGLPLPP--AQVLEAHS 205
Cdd:pfam05729    2 TVILQGEAGSGKTTLLQKLALlwAQGKLPQGFDFVFFLPCRELSRSGNARS-LADLLFSQWPEPAAPVSEvwAVILELPE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568956985   206 RVGHFFHTLLHTVSQRNFESLVLLLDSVDDldsichsprvSWLPLKCPPRVHLILSTCSGQqvLHNLQQTLKDPsTYWEV 285
Cdd:pfam05729   81 RLLLILDGLDELVSDLGQLDGPCPVLTLLS----------SLLRKKLLPGASLLLTVRPDA--LRDLRRGLEEP-RYLEV 147

                          170
                   ....*....|..
gi 568956985   286 KALSGSQGQEFI 297
Cdd:pfam05729  148 RGFSESDRKQYV 159
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1182-1219 2.40e-03

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: 36.91  E-value: 2.40e-03
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 568956985   1182 SKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1219
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
1187-1219 2.82e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.82e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 568956985  1187 LEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1219
Cdd:pfam00400    7 LEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 pfam00400
WD domain, G-beta repeat;
661-699 3.33e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.55  E-value: 3.33e-03
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 568956985   661 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWD 699
Cdd:pfam00400    1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 106-144 5.49e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.36  E-value: 5.49e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 568956985   106 FCGHQELLAQLRQQLRQDESRTHTP--LVLFGPPGIGKTSL 144
Cdd:TIGR00635    6 FIGQEKVKEQLQLFIEAAKMRQEALdhLLLYGPPGLGKTTL 46
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 661-699 5.82e-03

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: 35.75  E-value: 5.82e-03
                            10        20        30
                    ....*....|....*....|....*....|....*....
gi 568956985    661 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWD 699
Cdd:smart00320    2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
109-159 6.33e-03

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 40.34  E-value: 6.33e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 568956985  109 HQELLAQLRQQLRQDesRTHTPLVLFGPPGIGKTSLMCKLAQqvpELLGHK 159
Cdd:COG0470     1 QEEAWEQLLAAAESG--RLPHALLLHGPPGIGKTTLALALAR---DLLCEN 46
 
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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