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Conserved domains on  [gi|151567870|pdb|2PM9|B]
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Chain B, Protein transport protein SEC13

Protein Classification

WD40 repeat domain-containing protein( domain architecture ID 11455410)

WD40 repeat domain-containing protein similar to 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
PubMed:  10322433|8090199
SCOP:  4002744

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
21-281 5.46e-40

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 143.90  E-value: 5.46e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       21 GKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDWAHPkfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSA 100
Cdd:COG2319 174 GKLLASGSDDGTVRLWDLA--TGKLLRTLTGHTGAVRSVAFSPD--GKLLASGSADGTVRLWDLATGK--LLRTLTGHSG 247

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      101 SVNSVQWAPHeyGPMLLVASSDGKVSVVEFkeNGTTSPIIIDAHAIGVNSASWAPatieeDGehngtkesRKFVTGGADN 180
Cdd:COG2319 248 SVRSVAFSPD--GRLLASGSADGTVRLWDL--ATGELLRTLTGHSGGVNSVAFSP-----DG--------KLLASGSDDG 310

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      181 LVKIWkynsDAQTYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLlkeEKFPDVLWRA 260
Cdd:COG2319 311 TVRLW----DLATGKLLRTLTGHTGAVRSVAFSPD---GKTLASGSDDGTVRLW--DLATGELLRTL---TGHTGAVTSV 378

                       250       260
                ....*....|....*....|.
2PM9_B      261 SWSLSGNVLALSGGDNKVTLW 281
Cdd:COG2319 379 AFSPDGRTLASGSADGTVRLW 399
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
21-281 5.46e-40

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 143.90  E-value: 5.46e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       21 GKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDWAHPkfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSA 100
Cdd:COG2319 174 GKLLASGSDDGTVRLWDLA--TGKLLRTLTGHTGAVRSVAFSPD--GKLLASGSADGTVRLWDLATGK--LLRTLTGHSG 247

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      101 SVNSVQWAPHeyGPMLLVASSDGKVSVVEFkeNGTTSPIIIDAHAIGVNSASWAPatieeDGehngtkesRKFVTGGADN 180
Cdd:COG2319 248 SVRSVAFSPD--GRLLASGSADGTVRLWDL--ATGELLRTLTGHSGGVNSVAFSP-----DG--------KLLASGSDDG 310

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      181 LVKIWkynsDAQTYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLlkeEKFPDVLWRA 260
Cdd:COG2319 311 TVRLW----DLATGKLLRTLTGHTGAVRSVAFSPD---GKTLASGSDDGTVRLW--DLATGELLRTL---TGHTGAVTSV 378

                       250       260
                ....*....|....*....|.
2PM9_B      261 SWSLSGNVLALSGGDNKVTLW 281
Cdd:COG2319 379 AFSPDGRTLASGSADGTVRLW 399
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 20-282 1.21e-34

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: 127.07  E-value: 1.21e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       20 YGKRMATCSSDKTIKIFEVEGEthKLIDTLTGHEGPVWRVDWaHPKfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHS 99
Cdd:cd00200  62 DGTYLASGSSDKTIRLWDLETG--ECVRTLTGHTSYVSSVAF-SPD-GRILSSSSRDKTIKVWDVETGK--CLTTLRGHT 135

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      100 ASVNSVQWAPHeyGPMLLVASSDGKVSVVEFKengTTSPI-IIDAHAIGVNSASWAPatieedgehngtkESRKFVTGGA 178
Cdd:cd00200 136 DWVNSVAFSPD--GTFVASSSQDGTIKLWDLR---TGKCVaTLTGHTGEVNSVAFSP-------------DGEKLLSSSS 197

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      179 DNLVKIWKYNSDAQTYvlesTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWTQDNEQGpwKKTLLKEEKFpdvLW 258
Cdd:cd00200 198 DGTIKLWDLSTGKCLG----TLRGHENGVNSVAFSPD---GYLLASGSEDGTIRVWDLRTGEC--VQTLSGHTNS---VT 265

                       250       260
                ....*....|....*....|....
2PM9_B      259 RASWSLSGNVLALSGGDNKVTLWK 282
Cdd:cd00200 266 SLAWSPDGKRLASGSADGTIRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 42-83 7.09e-07

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: 45.00  E-value: 7.09e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
2PM9_B          42 THKLIDTLTGHEGPVWRVDWAHpkFGTILASCSYDGKVMIWK 83
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSP--DGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
44-82 1.20e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 41.56  E-value: 1.20e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
2PM9_B         44 KLIDTLTGHEGPVWRVDWahPKFGTILASCSYDGKVMIW 82
Cdd:pfam00400   2 KLLKTLEGHTGSVTSLAF--SPDGKLLASGSDDGTVKVW 38
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 19-185 2.81e-05

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 45.46  E-value: 2.81e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B        19 YYGKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDW--AHPkfgTILASCSYDGKVMIWKEENGrwsqIAVHA 96
Cdd:PLN00181 543 YIKSQVASSNFEGVVQVWDVA--RSQLVTEMKEHEKRVWSIDYssADP---TLLASGSDDGSVKLWSINQG----VSIGT 613

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B        97 VHS-ASVNSVQWaPHEYGPMLLVASSDGKVSVVEFKeNGTTSPIIIDAHAIGVNSASWApatieedgehngtkESRKFVT 175
Cdd:PLN00181 614 IKTkANICCVQF-PSESGRSLAFGSADHKVYYYDLR-NPKLPLCTMIGHSKTVSYVRFV--------------DSSTLVS 677

                        170
                 ....*....|
2PM9_B       176 GGADNLVKIW 185
Cdd:PLN00181 678 SSTDNTLKLW 687
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
21-281 5.46e-40

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 143.90  E-value: 5.46e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       21 GKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDWAHPkfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSA 100
Cdd:COG2319 174 GKLLASGSDDGTVRLWDLA--TGKLLRTLTGHTGAVRSVAFSPD--GKLLASGSADGTVRLWDLATGK--LLRTLTGHSG 247

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      101 SVNSVQWAPHeyGPMLLVASSDGKVSVVEFkeNGTTSPIIIDAHAIGVNSASWAPatieeDGehngtkesRKFVTGGADN 180
Cdd:COG2319 248 SVRSVAFSPD--GRLLASGSADGTVRLWDL--ATGELLRTLTGHSGGVNSVAFSP-----DG--------KLLASGSDDG 310

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      181 LVKIWkynsDAQTYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLlkeEKFPDVLWRA 260
Cdd:COG2319 311 TVRLW----DLATGKLLRTLTGHTGAVRSVAFSPD---GKTLASGSDDGTVRLW--DLATGELLRTL---TGHTGAVTSV 378

                       250       260
                ....*....|....*....|.
2PM9_B      261 SWSLSGNVLALSGGDNKVTLW 281
Cdd:COG2319 379 AFSPDGRTLASGSADGTVRLW 399
WD40 COG2319
WD40 repeat [General function prediction only];
21-292 1.47e-38

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 140.05  E-value: 1.47e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       21 GKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDWAHPkfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSA 100
Cdd:COG2319 132 GKTLASGSADGTVRLWDLA--TGKLLRTLTGHSGAVTSVAFSPD--GKLLASGSDDGTVRLWDLATGK--LLRTLTGHTG 205

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      101 SVNSVQWAPHeyGPMLLVASSDGKVSVVEFkeNGTTSPIIIDAHAIGVNSASWAPatieeDGehngtkesRKFVTGGADN 180
Cdd:COG2319 206 AVRSVAFSPD--GKLLASGSADGTVRLWDL--ATGKLLRTLTGHSGSVRSVAFSP-----DG--------RLLASGSADG 268

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      181 LVKIWkynsDAQTYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLlkeEKFPDVLWRA 260
Cdd:COG2319 269 TVRLW----DLATGELLRTLTGHSGGVNSVAFSPD---GKLLASGSDDGTVRLW--DLATGKLLRTL---TGHTGAVRSV 336

                       250       260       270
                ....*....|....*....|....*....|..
2PM9_B      261 SWSLSGNVLALSGGDNKVTLWkeNLEGKWEPA 292
Cdd:COG2319 337 AFSPDGKTLASGSDDGTVRLW--DLATGELLR 366
WD40 COG2319
WD40 repeat [General function prediction only];
21-281 1.77e-35

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 131.96  E-value: 1.77e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       21 GKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDWAHPkfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSA 100
Cdd:COG2319  90 GRLLASASADGTVRLWDLA--TGLLLRTLTGHTGAVRSVAFSPD--GKTLASGSADGTVRLWDLATGK--LLRTLTGHSG 163

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      101 SVNSVQWAPHeyGPMLLVASSDGKVSVVEFKENGTTSpiIIDAHAIGVNSASWAPatieeDGehngtkesRKFVTGGADN 180
Cdd:COG2319 164 AVTSVAFSPD--GKLLASGSDDGTVRLWDLATGKLLR--TLTGHTGAVRSVAFSP-----DG--------KLLASGSADG 226

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      181 LVKIWkynsDAQTYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLlkeEKFPDVLWRA 260
Cdd:COG2319 227 TVRLW----DLATGKLLRTLTGHSGSVRSVAFSPD---GRLLASGSADGTVRLW--DLATGELLRTL---TGHSGGVNSV 294

                       250       260
                ....*....|....*....|.
2PM9_B      261 SWSLSGNVLALSGGDNKVTLW 281
Cdd:COG2319 295 AFSPDGKLLASGSDDGTVRLW 315
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 20-282 1.21e-34

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: 127.07  E-value: 1.21e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       20 YGKRMATCSSDKTIKIFEVEGEthKLIDTLTGHEGPVWRVDWaHPKfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHS 99
Cdd:cd00200  62 DGTYLASGSSDKTIRLWDLETG--ECVRTLTGHTSYVSSVAF-SPD-GRILSSSSRDKTIKVWDVETGK--CLTTLRGHT 135

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      100 ASVNSVQWAPHeyGPMLLVASSDGKVSVVEFKengTTSPI-IIDAHAIGVNSASWAPatieedgehngtkESRKFVTGGA 178
Cdd:cd00200 136 DWVNSVAFSPD--GTFVASSSQDGTIKLWDLR---TGKCVaTLTGHTGEVNSVAFSP-------------DGEKLLSSSS 197

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      179 DNLVKIWKYNSDAQTYvlesTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWTQDNEQGpwKKTLLKEEKFpdvLW 258
Cdd:cd00200 198 DGTIKLWDLSTGKCLG----TLRGHENGVNSVAFSPD---GYLLASGSEDGTIRVWDLRTGEC--VQTLSGHTNS---VT 265

                       250       260
                ....*....|....*....|....
2PM9_B      259 RASWSLSGNVLALSGGDNKVTLWK 282
Cdd:cd00200 266 SLAWSPDGKRLASGSADGTIRIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 21-281 3.25e-31

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: 117.82  E-value: 3.25e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       21 GKRMATCSSDKTIKIFEVEGEThkLIDTLTGHEGPVWRVDWAHpkFGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSA 100
Cdd:cd00200  21 GKLLATGSGDGTIKVWDLETGE--LLRTLKGHTGPVRDVAASA--DGTYLASGSSDKTIRLWDLETGE--CVRTLTGHTS 94

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      101 SVNSVQWAPHeyGPMLLVASSDGKVSVVEFKENGTTspIIIDAHAIGVNSASWAPatieedgehngtkeSRKFVTGG-AD 179
Cdd:cd00200  95 YVSSVAFSPD--GRILSSSSRDKTIKVWDVETGKCL--TTLRGHTDWVNSVAFSP--------------DGTFVASSsQD 156

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      180 NLVKIWkynsDAQTYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLLKEEKFpdvLWR 259
Cdd:cd00200 157 GTIKLW----DLRTGKCVATLTGHTGEVNSVAFSPD---GEKLLSSSSDGTIKLW--DLSTGKCLGTLRGHENG---VNS 224

                       250       260
                ....*....|....*....|..
2PM9_B      260 ASWSLSGNVLALSGGDNKVTLW 281
Cdd:cd00200 225 VAFSPDGYLLASGSEDGTIRVW 246
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 45-281 2.51e-28

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: 110.12  E-value: 2.51e-28
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       45 LIDTLTGHEGPVWRVDWaHPKfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSASVNSVQWAPHeyGPMLLVASSDGK 124
Cdd:cd00200   1 LRRTLKGHTGGVTCVAF-SPD-GKLLATGSGDGTIKVWDLETGE--LLRTLKGHTGPVRDVAASAD--GTYLASGSSDKT 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      125 VSVveFKENGTTSPIIIDAHAIGVNSASWAPatieedgehngtkESRKFVTGGADNLVKIWkynsDAQTYVLESTLEGHS 204
Cdd:cd00200  75 IRL--WDLETGECVRTLTGHTSYVSSVAFSP-------------DGRILSSSSRDKTIKVW----DVETGKCLTTLRGHT 135

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
2PM9_B      205 DWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLLKEEkfpDVLWRASWSLSGNVLALSGGDNKVTLW 281
Cdd:cd00200 136 DWVNSVAFSPD---GTFVASSSQDGTIKLW--DLRTGKCVATLTGHT---GEVNSVAFSPDGEKLLSSSSDGTIKLW 204
WD40 COG2319
WD40 repeat [General function prediction only];
6-185 9.82e-23

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 96.90  E-value: 9.82e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B        6 NAHNEMIHDAVMDYYGKRMATCSSDKTIKIFEVegETHKLIDTLTGHEGPVWRVDWaHPKfGTILASCSYDGKVMIWKEE 85
Cdd:COG2319 243 TGHSGSVRSVAFSPDGRLLASGSADGTVRLWDL--ATGELLRTLTGHSGGVNSVAF-SPD-GKLLASGSDDGTVRLWDLA 318

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       86 NGRwsQIAVHAVHSASVNSVQWAPHeyGPMLLVASSDGKVSVVEFkeNGTTSPIIIDAHAIGVNSASWAPatieeDGehn 165
Cdd:COG2319 319 TGK--LLRTLTGHTGAVRSVAFSPD--GKTLASGSDDGTVRLWDL--ATGELLRTLTGHTGAVTSVAFSP-----DG--- 384

                       170       180
                ....*....|....*....|
2PM9_B      166 gtkesRKFVTGGADNLVKIW 185
Cdd:COG2319 385 -----RTLASGSADGTVRLW 399
WD40 COG2319
WD40 repeat [General function prediction only];
45-281 8.27e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 94.21  E-value: 8.27e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B       45 LIDTLTGHEGPVWRVDWAHPkfGTILASCSYDGKVMIWKEENGRwsQIAVHAVHSASVNSVQWAPHeyGPMLLVASSDGK 124
Cdd:COG2319  28 LLLLLLGLAAAVASLAASPD--GARLAAGAGDLTLLLLDAAAGA--LLATLLGHTAAVLSVAFSPD--GRLLASASADGT 101

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      125 VSVVEFkeNGTTSPIIIDAHAIGVNSASWAPatieeDGehngtkesRKFVTGGADNLVKIWkynsDAQTYVLESTLEGHS 204
Cdd:COG2319 102 VRLWDL--ATGLLLRTLTGHTGAVRSVAFSP-----DG--------KTLASGSADGTVRLW----DLATGKLLRTLTGHS 162

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
2PM9_B      205 DWVRDVAWSPTvllRSYMASVSQDRTCIIWtqDNEQGPWKKTLlkeEKFPDVLWRASWSLSGNVLALSGGDNKVTLW 281
Cdd:COG2319 163 GAVTSVAFSPD---GKLLASGSDDGTVRLW--DLATGKLLRTL---TGHTGAVRSVAFSPDGKLLASGSADGTVRLW 231
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 196-282 7.59e-09

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: 55.42  E-value: 7.59e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B      196 LESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIWTQDNEQgpwKKTLLKEEKFPdvLWRASWSLSGNVLALSGGD 275
Cdd:cd00200   1 LRRTLKGHTGGVTCVAFSPD---GKLLATGSGDGTIKVWDLETGE---LLRTLKGHTGP--VRDVAASADGTYLASGSSD 72


                ....*..
2PM9_B      276 NKVTLWK 282
Cdd:cd00200  73 KTIRLWD 79
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 42-83 7.09e-07

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: 45.00  E-value: 7.09e-07
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
2PM9_B          42 THKLIDTLTGHEGPVWRVDWAHpkFGTILASCSYDGKVMIWK 83
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSP--DGKYLASGSDDGTIKLWD 40
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 193-234 6.30e-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: 42.30  E-value: 6.30e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
2PM9_B         193 TYVLESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIW 234
Cdd:smart00320   1 SGELLKTLKGHTGPVTSVAFSPD---GKYLASGSDDGTIKLW 39
WD40 pfam00400
WD domain, G-beta repeat;
44-82 1.20e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 41.56  E-value: 1.20e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
2PM9_B         44 KLIDTLTGHEGPVWRVDWahPKFGTILASCSYDGKVMIW 82
Cdd:pfam00400   2 KLLKTLEGHTGSVTSLAF--SPDGKLLASGSDDGTVKVW 38
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 19-185 2.81e-05

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 45.46  E-value: 2.81e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B        19 YYGKRMATCSSDKTIKIFEVEgeTHKLIDTLTGHEGPVWRVDW--AHPkfgTILASCSYDGKVMIWKEENGrwsqIAVHA 96
Cdd:PLN00181 543 YIKSQVASSNFEGVVQVWDVA--RSQLVTEMKEHEKRVWSIDYssADP---TLLASGSDDGSVKLWSINQG----VSIGT 613

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B        97 VHS-ASVNSVQWaPHEYGPMLLVASSDGKVSVVEFKeNGTTSPIIIDAHAIGVNSASWApatieedgehngtkESRKFVT 175
Cdd:PLN00181 614 IKTkANICCVQF-PSESGRSLAFGSADHKVYYYDLR-NPKLPLCTMIGHSKTVSYVRFV--------------DSSTLVS 677

                        170
                 ....*....|
2PM9_B       176 GGADNLVKIW 185
Cdd:PLN00181 678 SSTDNTLKLW 687
WD40 pfam00400
WD domain, G-beta repeat;
196-234 5.30e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 39.64  E-value: 5.30e-05
                          10        20        30
                  ....*....|....*....|....*....|....*....
2PM9_B        196 LESTLEGHSDWVRDVAWSPTvllRSYMASVSQDRTCIIW 234
Cdd:pfam00400   3 LLKTLEGHTGSVTSLAFSPD---GKLLASGSDDGTVKVW 38
PTZ00420 PTZ00420
coronin; Provisional
 20-107 8.19e-05

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 43.79  E-value: 8.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
2PM9_B        20 YGKRMATCSSDKTIKIFEV--EGETHKLID----TLTGHEGPVWRVDWaHPKFGTILASCSYDGKVMIWKEENgrwSQIA 93
Cdd:PTZ00420  86 FSEILASGSEDLTIRVWEIphNDESVKEIKdpqcILKGHKKKISIIDW-NPMNYYIMCSSGFDSFVNIWDIEN---EKRA 161

                         90
                 ....*....|....
2PM9_B        94 VHAVHSASVNSVQW 107
Cdd:PTZ00420 162 FQINMPKKLSSLKW 175
 
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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