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Conserved domains on  [gi|19112712|ref|NP_595920|]
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SAGA complex subunit Spt8 [Schizosaccharomyces pombe]

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];
118-513 1.77e-22

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 99.60  E-value: 1.77e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 118 ATSINAFAFTSDLKWLFTGGEDGYIRKYDffpsINGDLSLTVAQRHPfvdtvtkagillnywenaydgnkpSSVYSLAAH 197
Cdd:COG2319  78 TAAVLSVAFSPDGRLLASASADGTVRLWD----LATGLLLRTLTGHT------------------------GAVRSVAFS 129

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 198 SRGLWVLSGVNNGDIILYSTRHQEgyPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWDLNTGDAISTYNCESGQI 277
Cdd:COG2319 130 PDGKTLASGSADGTVRLWDLATGK--LLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAV 207

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 278 SNIVYRPSGavnpwgsesddmRSLFgtpasSSSYDA---LFDEevekaieeetksvqaneenETEKPSQTESTTNN---- 350
Cdd:COG2319 208 RSVAFSPDG------------KLLA-----SGSADGtvrLWDL-------------------ATGKLLRTLTGHSGsvrs 251

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 351 -----DNikapsessseesNIFLTTSIDGVMNVWDhrmVDSVLKYPVPKGVPPWAMSACWSPDGNNIYIGRRNGIVEEYN 425
Cdd:COG2319 252 vafspDG------------RLLASGSADGTVRLWD---LATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWD 316

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 426 IHSGKePVRSLKmpldsGPVSNVYSM---PNGRHLVISSFDN-IRLYDLQSKAGIGFLiiPGHHGGlVSSLyvdtscqfM 501
Cdd:COG2319 317 LATGK-LLRTLT-----GHTGAVRSVafsPDGKTLASGSDDGtVRLWDLATGELLRTL--TGHTGA-VTSV--------A 379

                       410
                ....*....|....*.
gi 19112712 502 FSASGNR----GWQGT 513
Cdd:COG2319 380 FSPDGRTlasgSADGT 395
DNA_pol_phi super family cl47903
DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7. ...
 34-87 7.42e-04

DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.


The actual alignment was detected with superfamily member pfam04931:

Pssm-ID: 461488  Cd Length: 765  Bit Score: 42.23  E-value: 7.42e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 19112712    34 KNPE---ENVMNEKEDEDVDAVDEKSGEEDVEMDTMEDENENDEDTEQTSEKKETEE 87
Cdd:pfam04931 627 ENPEgqqELFEDEDEDEEDDDEEEDDDDEDDEDSEEDDDEDDDDEDEEDDDDEDVDE 683
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
118-513 1.77e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 99.60  E-value: 1.77e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 118 ATSINAFAFTSDLKWLFTGGEDGYIRKYDffpsINGDLSLTVAQRHPfvdtvtkagillnywenaydgnkpSSVYSLAAH 197
Cdd:COG2319  78 TAAVLSVAFSPDGRLLASASADGTVRLWD----LATGLLLRTLTGHT------------------------GAVRSVAFS 129

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 198 SRGLWVLSGVNNGDIILYSTRHQEgyPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWDLNTGDAISTYNCESGQI 277
Cdd:COG2319 130 PDGKTLASGSADGTVRLWDLATGK--LLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAV 207

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 278 SNIVYRPSGavnpwgsesddmRSLFgtpasSSSYDA---LFDEevekaieeetksvqaneenETEKPSQTESTTNN---- 350
Cdd:COG2319 208 RSVAFSPDG------------KLLA-----SGSADGtvrLWDL-------------------ATGKLLRTLTGHSGsvrs 251

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 351 -----DNikapsessseesNIFLTTSIDGVMNVWDhrmVDSVLKYPVPKGVPPWAMSACWSPDGNNIYIGRRNGIVEEYN 425
Cdd:COG2319 252 vafspDG------------RLLASGSADGTVRLWD---LATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWD 316

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 426 IHSGKePVRSLKmpldsGPVSNVYSM---PNGRHLVISSFDN-IRLYDLQSKAGIGFLiiPGHHGGlVSSLyvdtscqfM 501
Cdd:COG2319 317 LATGK-LLRTLT-----GHTGAVRSVafsPDGKTLASGSDDGtVRLWDLATGELLRTL--TGHTGA-VTSV--------A 379

                       410
                ....*....|....*.
gi 19112712 502 FSASGNR----GWQGT 513
Cdd:COG2319 380 FSPDGRTlasgSADGT 395
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 120-469 1.03e-21

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: 95.09  E-value: 1.03e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 120 SINAFAFTSDLKWLFTGGEDGYIRKYDFFpsiNGDLSLTvaqrhpfvdtvtkagillnywenayDGNKPSSVYSLAAHSR 199
Cdd:cd00200  11 GVTCVAFSPDGKLLATGSGDGTIKVWDLE---TGELLRT-------------------------LKGHTGPVRDVAASAD 62

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 200 GLWVLSGVNNGDIILYSTrhQEGYPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWDLNTGDAISTYNCESGQISN 279
Cdd:cd00200  63 GTYLASGSSDKTIRLWDL--ETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNS 140

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 280 IVYRPSGAVnpwgsesddmrslfgtpASSSSYDA---LFDEevekaieeetksvqaneenETEKPSQTeSTTNNDNIKA- 355
Cdd:cd00200 141 VAFSPDGTF-----------------VASSSQDGtikLWDL-------------------RTGKCVAT-LTGHTGEVNSv 183

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 356 ---PSESSseesniFLTTSIDGVMNVWDHRMVDSVLKYPvpkGVPPWAMSACWSPDGNNIYIGRRNGIVEEYNIHSGkEP 432
Cdd:cd00200 184 afsPDGEK------LLSSSSDGTIKLWDLSTGKCLGTLR---GHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTG-EC 253

                       330       340       350
                ....*....|....*....|....*....|....*...
gi 19112712 433 VRSLKMPldSGPVSNVYSMPNGRHLVISSFDN-IRLYD 469
Cdd:cd00200 254 VQTLSGH--TNSVTSLAWSPDGKRLASGSADGtIRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 222-260 9.34e-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: 45.38  E-value: 9.34e-07
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 19112712    222 GYPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWD 260
Cdd:smart00320   2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
222-260 1.36e-06

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 45.03  E-value: 1.36e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 19112712   222 GYPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWD 260
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
PTZ00421 PTZ00421
coronin; Provisional
 224-288 6.07e-04

coronin; Provisional


Pssm-ID: 173611 [Multi-domain]  Cd Length: 493  Bit Score: 42.57  E-value: 6.07e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19112712  224 PVTSLKKHTAPVSCLALHGSEKKVL-SGSWDKMVYYWDLNTGDAISTYNCESGQISNIVYRPSGAV 288
Cdd:PTZ00421 117 PIVHLQGHTKKVGIVSFHPSAMNVLaSAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSL 182
DNA_pol_phi pfam04931
DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7. ...
 34-87 7.42e-04

DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.


Pssm-ID: 461488  Cd Length: 765  Bit Score: 42.23  E-value: 7.42e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 19112712    34 KNPE---ENVMNEKEDEDVDAVDEKSGEEDVEMDTMEDENENDEDTEQTSEKKETEE 87
Cdd:pfam04931 627 ENPEgqqELFEDEDEDEEDDDEEEDDDDEDDEDSEEDDDEDDDDEDEEDDDDEDVDE 683
PTZ00438 PTZ00438
gamete antigen 27/25-like protein; Provisional
 34-94 3.34e-03

gamete antigen 27/25-like protein; Provisional


Pssm-ID: 185618  Cd Length: 374  Bit Score: 40.04  E-value: 3.34e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19112712   34 KNPEE--NVMNEKEDEDVDAVdeksgEEDVEMDTMEDENENDEDTEQtSEKKETEETPKENPL 94
Cdd:PTZ00438  98 KNEEErgTQKEEEEDEDVEEI-----EEVEEVEVVEEEYDDDEDSEK-DDEKESDAEGDENEL 154
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
118-513 1.77e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 99.60  E-value: 1.77e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 118 ATSINAFAFTSDLKWLFTGGEDGYIRKYDffpsINGDLSLTVAQRHPfvdtvtkagillnywenaydgnkpSSVYSLAAH 197
Cdd:COG2319  78 TAAVLSVAFSPDGRLLASASADGTVRLWD----LATGLLLRTLTGHT------------------------GAVRSVAFS 129

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 198 SRGLWVLSGVNNGDIILYSTRHQEgyPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWDLNTGDAISTYNCESGQI 277
Cdd:COG2319 130 PDGKTLASGSADGTVRLWDLATGK--LLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAV 207

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 278 SNIVYRPSGavnpwgsesddmRSLFgtpasSSSYDA---LFDEevekaieeetksvqaneenETEKPSQTESTTNN---- 350
Cdd:COG2319 208 RSVAFSPDG------------KLLA-----SGSADGtvrLWDL-------------------ATGKLLRTLTGHSGsvrs 251

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 351 -----DNikapsessseesNIFLTTSIDGVMNVWDhrmVDSVLKYPVPKGVPPWAMSACWSPDGNNIYIGRRNGIVEEYN 425
Cdd:COG2319 252 vafspDG------------RLLASGSADGTVRLWD---LATGELLRTLTGHSGGVNSVAFSPDGKLLASGSDDGTVRLWD 316

                       330       340       350       360       370       380       390       400
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 426 IHSGKePVRSLKmpldsGPVSNVYSM---PNGRHLVISSFDN-IRLYDLQSKAGIGFLiiPGHHGGlVSSLyvdtscqfM 501
Cdd:COG2319 317 LATGK-LLRTLT-----GHTGAVRSVafsPDGKTLASGSDDGtVRLWDLATGELLRTL--TGHTGA-VTSV--------A 379

                       410
                ....*....|....*.
gi 19112712 502 FSASGNR----GWQGT 513
Cdd:COG2319 380 FSPDGRTlasgSADGT 395
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 120-469 1.03e-21

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: 95.09  E-value: 1.03e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 120 SINAFAFTSDLKWLFTGGEDGYIRKYDFFpsiNGDLSLTvaqrhpfvdtvtkagillnywenayDGNKPSSVYSLAAHSR 199
Cdd:cd00200  11 GVTCVAFSPDGKLLATGSGDGTIKVWDLE---TGELLRT-------------------------LKGHTGPVRDVAASAD 62

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 200 GLWVLSGVNNGDIILYSTrhQEGYPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWDLNTGDAISTYNCESGQISN 279
Cdd:cd00200  63 GTYLASGSSDKTIRLWDL--ETGECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNS 140

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 280 IVYRPSGAVnpwgsesddmrslfgtpASSSSYDA---LFDEevekaieeetksvqaneenETEKPSQTeSTTNNDNIKA- 355
Cdd:cd00200 141 VAFSPDGTF-----------------VASSSQDGtikLWDL-------------------RTGKCVAT-LTGHTGEVNSv 183

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 356 ---PSESSseesniFLTTSIDGVMNVWDHRMVDSVLKYPvpkGVPPWAMSACWSPDGNNIYIGRRNGIVEEYNIHSGkEP 432
Cdd:cd00200 184 afsPDGEK------LLSSSSDGTIKLWDLSTGKCLGTLR---GHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTG-EC 253

                       330       340       350
                ....*....|....*....|....*....|....*...
gi 19112712 433 VRSLKMPldSGPVSNVYSMPNGRHLVISSFDN-IRLYD 469
Cdd:cd00200 254 VQTLSGH--TNSVTSLAWSPDGKRLASGSADGtIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
103-472 1.15e-18

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 88.04  E-value: 1.15e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 103 TASFYDVVPTLAIPMAT----SINAFAFTSDLKWLFTGGEDGYIRKYDFFpsiNGDLSLTVAQRHPFVDTVT-------- 170
Cdd:COG2319 101 TVRLWDLATGLLLRTLTghtgAVRSVAFSPDGKTLASGSADGTVRLWDLA---TGKLLRTLTGHSGAVTSVAfspdgkll 177

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 171 -----KAGILLnyWeNAYDGNK-------PSSVYSLAAHSRGLWVLSGVNNGDIILYSTRHQEgyPVTSLKKHTAPVSCL 238
Cdd:COG2319 178 asgsdDGTVRL--W-DLATGKLlrtltghTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGK--LLRTLTGHSGSVRSV 252

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 239 ALHGSEKKVLSGSWDKMVYYWDLNTGDAISTYNCESGQISNIVYRPSGavnpwgsesddmrslfgtpassssydalfdee 318
Cdd:COG2319 253 AFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGGVNSVAFSPDG-------------------------------- 300

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 319 vekaieeetksvqaneenetekpsqtesttnndnikapsessseesNIFLTTSIDGVMNVWDhrmVDSVLKYPVPKGVPP 398
Cdd:COG2319 301 ----------------------------------------------KLLASGSDDGTVRLWD---LATGKLLRTLTGHTG 331

                       330       340       350       360       370       380       390
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 19112712 399 WAMSACWSPDGNNIYIGRRNGIVEEYNIHSGKEpVRSLKMPldSGPVSNVYSMPNGRHLVISSFDN-IRLYDLQS 472
Cdd:COG2319 332 AVRSVAFSPDGKTLASGSDDGTVRLWDLATGEL-LRTLTGH--TGAVTSVAFSPDGRTLASGSADGtVRLWDLAT 403
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 188-517 1.45e-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: 1.45e-17
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 188 PSSVYSLAAHSRGLWVLSGVNNGDIILYSTRHQEgyPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWDLNTGDAI 267
Cdd:cd00200   9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGE--LLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECV 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 268 STYNCESGQISNIVYRPSGavnpwgsesddmrslfgtpassssydalfdeevekaieeetksvqaneenetekpsqtest 347
Cdd:cd00200  87 RTLTGHTSYVSSVAFSPDG------------------------------------------------------------- 105

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 348 tnndnikapsessseesNIFLTTSIDGVMNVWDhrMVDSVLKYpVPKGVPPWAMSACWSPDGNNIYIGRRNGIVEEYNIH 427
Cdd:cd00200 106 -----------------RILSSSSRDKTIKVWD--VETGKCLT-TLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLR 165

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 428 SGKePVRSLKmpldsGPVSNVYSM---PNGRHLVISSFDN-IRLYDLQSKAGIGFLIIpghHGGLVSSLYVDTSCQFMFS 503
Cdd:cd00200 166 TGK-CVATLT-----GHTGEVNSVafsPDGEKLLSSSSDGtIKLWDLSTGKCLGTLRG---HENGVNSVAFSPDGYLLAS 236

                       330
                ....*....|....*..
gi 19112712 504 ASGN---RGWQGTTTEV 517
Cdd:cd00200 237 GSEDgtiRVWDLRTGEC 253
WD40 COG2319
WD40 repeat [General function prediction only];
366-517 1.35e-08

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 56.84  E-value: 1.35e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712 366 IFLTTSIDGVMNVWDhrmVDSVLKYPVPKGVPPWAMSACWSPDGNNIYIGRRNGIVEEYNIHSGKEpVRSLKMPldSGPV 445
Cdd:COG2319  92 LLASASADGTVRLWD---LATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKL-LRTLTGH--SGAV 165

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 19112712 446 SNV-YSmPNGRHLVISSFDN-IRLYDLQSKAGIGFLiipGHHGGLVSSLYVDTSCQFMFSASGNRG---WQGTTTEV 517
Cdd:COG2319 166 TSVaFS-PDGKLLASGSDDGtVRLWDLATGKLLRTL---TGHTGAVRSVAFSPDGKLLASGSADGTvrlWDLATGKL 238
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 222-260 9.34e-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: 45.38  E-value: 9.34e-07
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 19112712    222 GYPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWD 260
Cdd:smart00320   2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
222-260 1.36e-06

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 45.03  E-value: 1.36e-06
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 19112712   222 GYPVTSLKKHTAPVSCLALHGSEKKVLSGSWDKMVYYWD 260
Cdd:pfam00400   1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
PTZ00421 PTZ00421
coronin; Provisional
 224-288 6.07e-04

coronin; Provisional


Pssm-ID: 173611 [Multi-domain]  Cd Length: 493  Bit Score: 42.57  E-value: 6.07e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19112712  224 PVTSLKKHTAPVSCLALHGSEKKVL-SGSWDKMVYYWDLNTGDAISTYNCESGQISNIVYRPSGAV 288
Cdd:PTZ00421 117 PIVHLQGHTKKVGIVSFHPSAMNVLaSAGADMVVNVWDVERGKAVEVIKCHSDQITSLEWNLDGSL 182
DNA_pol_phi pfam04931
DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7. ...
 34-87 7.42e-04

DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.


Pssm-ID: 461488  Cd Length: 765  Bit Score: 42.23  E-value: 7.42e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 19112712    34 KNPE---ENVMNEKEDEDVDAVDEKSGEEDVEMDTMEDENENDEDTEQTSEKKETEE 87
Cdd:pfam04931 627 ENPEgqqELFEDEDEDEEDDDEEEDDDDEDDEDSEEDDDEDDDDEDEEDDDDEDVDE 683
PTZ00438 PTZ00438
gamete antigen 27/25-like protein; Provisional
 34-94 3.34e-03

gamete antigen 27/25-like protein; Provisional


Pssm-ID: 185618  Cd Length: 374  Bit Score: 40.04  E-value: 3.34e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19112712   34 KNPEE--NVMNEKEDEDVDAVdeksgEEDVEMDTMEDENENDEDTEQtSEKKETEETPKENPL 94
Cdd:PTZ00438  98 KNEEErgTQKEEEEDEDVEEI-----EEVEEVEVVEEEYDDDEDSEK-DDEKESDAEGDENEL 154
Merozoite_SPAM pfam07133
Merozoite surface protein (SPAM); This family consists of several Plasmodium falciparum SPAM ...
 35-100 4.04e-03

Merozoite surface protein (SPAM); This family consists of several Plasmodium falciparum SPAM (secreted polymorphic antigen associated with merozoites) proteins. Variation among SPAM alleles is the result of deletions and amino acid substitutions in non-repetitive sequences within and flanking the alanine heptad-repeat domain. Heptad repeats in which the a and d position contain hydrophobic residues generate amphipathic alpha-helices which give rise to helical bundles or coiled-coil structures in proteins. SPAM is an example of a P. falciparum antigen in which a repetitive sequence has features characteriztic of a well-defined structural element.


Pssm-ID: 429310 [Multi-domain]  Cd Length: 176  Bit Score: 38.42  E-value: 4.04e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19112712    35 NPEENVMNEKEDEDVDAVDEKSGEEDVEMDTMEDENENDEDTEQTSEKKETEETPKENPLEKLKQK 100
Cdd:pfam07133  38 KENEDVEDEKEDEEEETEDEETEEKNEEETEEETEDEEDEEEVEEEEEKEENEDKKKELEEEQINK 103
DNA_pol_phi pfam04931
DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7. ...
 37-81 5.49e-03

DNA polymerase phi; This family includes the fifth essential DNA polymerase in yeast EC:2.7.7.7. Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.


Pssm-ID: 461488  Cd Length: 765  Bit Score: 39.53  E-value: 5.49e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 19112712    37 EENVMNEKEDEDVDAVDEKSGEE-DVEMDTMEDENENDEDTEQTSE 81
Cdd:pfam04931 641 EDEEDDDEEEDDDDEDDEDSEEDdDEDDDDEDEEDDDDEDVDEIDE 686
PTZ00341 PTZ00341
Ring-infected erythrocyte surface antigen; Provisional
 34-108 5.91e-03

Ring-infected erythrocyte surface antigen; Provisional


Pssm-ID: 173534 [Multi-domain]  Cd Length: 1136  Bit Score: 39.38  E-value: 5.91e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 19112712    34 KNPEENVmNEKEDEDVDAVDEKSGEEDVEMDTMEDENENDEDTEQTSEKKETEETPKENPLEKLKQKASTASFYD 108
Cdd:PTZ00341  965 ENVEENV-EENVEENVEENVEENVEENVEENVEENVEENIEENVEENVEENIEENVEEYDEENVEEVEENVEEYD 1038
COG4946 COG4946
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 400-473 7.71e-03

Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown];


Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 39.25  E-value: 7.71e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19112712  400 AMSACWSPDGNNI-YIGRRNGiveEYNIH----SGKEPVRslkmPLDSGPVSNVYSM---PNGRHLVISSFDN-IRLYDL 470
Cdd:COG4946  345 ERLPAWSPDGKSIaYFSDASG---EYELYiapaDGSGEPK----QLTLGDLGRVFNPvwsPDGKKIAFTDNRGrLWVVDL 417


                 ...
gi 19112712  471 QSK 473
Cdd:COG4946  418 ASG 420
 
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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