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Conserved domains on  [gi|118344456|ref|NP_057085|]
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U3 small nucleolar RNA-associated protein 18 homolog [Homo sapiens]

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];
252-539 3.97e-27

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 3.97e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 252 ARISSVQFHPGAQIVMVAGLDNAVSLFQVDgkTNPKIQSIYLERFPIFKACFSANGEeVLATSTHSKVLYVYDMLAGKLI 331
Cdd:COG2319  121 GAVRSVAFSPDGKTLASGSADGTVRLWDLA--TGKLLRTLTGHSGAVTSVAFSPDGK-LLASGSDDGTVRLWDLATGKLL 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 332 pvHQVRGlKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAASTFSSDSKKVYASSGDGEVYVWD 410
Cdd:COG2319  198 --RTLTG-HTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 411 VNSRKCLNRFVDEGSlYGLSIATSRNGQYVACGSNCGVVNIYNQDSclqetnPKPIKAIMNLVTGVTSLTFNPTTEILAI 490
Cdd:COG2319  275 LATGELLRTLTGHSG-GVNSVAFSPDGKLLASGSDDGTVRLWDLAT------GKLLRTLTGHTGAVRSVAFSPDGKTLAS 347

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 118344456 491 ASEkmKEAVRLVHLPSCTVFSNFPviknkniSH---VHTMDFSPRSGYFALG 539
Cdd:COG2319  348 GSD--DGTVRLWDLATGELLRTLT-------GHtgaVTSVAFSPDGRTLASG 390
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
252-539 3.97e-27

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 3.97e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 252 ARISSVQFHPGAQIVMVAGLDNAVSLFQVDgkTNPKIQSIYLERFPIFKACFSANGEeVLATSTHSKVLYVYDMLAGKLI 331
Cdd:COG2319  121 GAVRSVAFSPDGKTLASGSADGTVRLWDLA--TGKLLRTLTGHSGAVTSVAFSPDGK-LLASGSDDGTVRLWDLATGKLL 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 332 pvHQVRGlKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAASTFSSDSKKVYASSGDGEVYVWD 410
Cdd:COG2319  198 --RTLTG-HTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 411 VNSRKCLNRFVDEGSlYGLSIATSRNGQYVACGSNCGVVNIYNQDSclqetnPKPIKAIMNLVTGVTSLTFNPTTEILAI 490
Cdd:COG2319  275 LATGELLRTLTGHSG-GVNSVAFSPDGKLLASGSDDGTVRLWDLAT------GKLLRTLTGHTGAVRSVAFSPDGKTLAS 347

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 118344456 491 ASEkmKEAVRLVHLPSCTVFSNFPviknkniSH---VHTMDFSPRSGYFALG 539
Cdd:COG2319  348 GSD--DGTVRLWDLATGELLRTLT-------GHtgaVTSVAFSPDGRTLASG 390
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 230-493 1.21e-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: 83.54  E-value: 1.21e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 230 SLPRGILKMKNCQHANAerptvarISSVQFHPGAQIVMVAGLDNAVSLFqvDGKTNPKIQSIYLERFPIFKACFSANGEe 309
Cdd:cd00200   37 DLETGELLRTLKGHTGP-------VRDVAASADGTYLASGSSDKTIRLW--DLETGECVRTLTGHTSYVSSVAFSPDGR- 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 310 VLATSTHSKVLYVYDMLAGKLIPVhqVRGlKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAAS 388
Cdd:cd00200  107 ILSSSSRDKTIKVWDVETGKCLTT--LRG-HTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGhTGEVNSV 183

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 389 TFSSDSKKVYASSGDGEVYVWDVNSRKCLNRFV-DEGSLYglSIATSRNGQYVACGSNCGVVNIYNQDSClqetnpKPIK 467
Cdd:cd00200  184 AFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgHENGVN--SVAFSPDGYLLASGSEDGTIRVWDLRTG------ECVQ 255

                        250       260
                 ....*....|....*....|....*.
gi 118344456 468 AIMNLVTGVTSLTFNPTTEILAIASE 493
Cdd:cd00200  256 TLSGHTNSVTSLAWSPDGKRLASGSA 281
PQQ_ABC_repeats TIGR03866
PQQ-dependent catabolism-associated beta-propeller protein; Members of this protein family ...
 349-420 6.59e-03

PQQ-dependent catabolism-associated beta-propeller protein; Members of this protein family consist of seven repeats each of the YVTN family beta-propeller repeat (see TIGR02276). Members occur invariably as part of a transport operon that is associated with PQQ-dependent catabolism of alcohols such as phenylethanol.


Pssm-ID: 274824 [Multi-domain]  Cd Length: 310  Bit Score: 38.87  E-value: 6.59e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 118344456  349 VSPDGSFLLING-IAGYLHLLAMKTKELIGSMKINGRVAASTFSSDSKKVYASSG-DGEVYVWDVNSRKCLNRF 420
Cdd:TIGR03866 132 VSPDGKIVVNTSeTTNMAHWIDTATYEIVDNTLVDARPRFAEFTADGKELWVSSEiGGTVTVIDVATRKVIKKI 205
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
252-539 3.97e-27

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 113.47  E-value: 3.97e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 252 ARISSVQFHPGAQIVMVAGLDNAVSLFQVDgkTNPKIQSIYLERFPIFKACFSANGEeVLATSTHSKVLYVYDMLAGKLI 331
Cdd:COG2319  121 GAVRSVAFSPDGKTLASGSADGTVRLWDLA--TGKLLRTLTGHSGAVTSVAFSPDGK-LLASGSDDGTVRLWDLATGKLL 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 332 pvHQVRGlKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAASTFSSDSKKVYASSGDGEVYVWD 410
Cdd:COG2319  198 --RTLTG-HTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGhSGSVRSVAFSPDGRLLASGSADGTVRLWD 274

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 411 VNSRKCLNRFVDEGSlYGLSIATSRNGQYVACGSNCGVVNIYNQDSclqetnPKPIKAIMNLVTGVTSLTFNPTTEILAI 490
Cdd:COG2319  275 LATGELLRTLTGHSG-GVNSVAFSPDGKLLASGSDDGTVRLWDLAT------GKLLRTLTGHTGAVRSVAFSPDGKTLAS 347

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 118344456 491 ASEkmKEAVRLVHLPSCTVFSNFPviknkniSH---VHTMDFSPRSGYFALG 539
Cdd:COG2319  348 GSD--DGTVRLWDLATGELLRTLT-------GHtgaVTSVAFSPDGRTLASG 390
WD40 COG2319
WD40 repeat [General function prediction only];
252-493 1.42e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 111.93  E-value: 1.42e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 252 ARISSVQFHPGAQIVMVAGLDNAVSLFQVDgkTNPKIQSIYLERFPIFKACFSANGEeVLATSTHSKVLYVYDMLAGKLI 331
Cdd:COG2319  163 GAVTSVAFSPDGKLLASGSDDGTVRLWDLA--TGKLLRTLTGHTGAVRSVAFSPDGK-LLASGSADGTVRLWDLATGKLL 239

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 332 pvhQVRGLKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMK-INGRVAASTFSSDSKKVYASSGDGEVYVWD 410
Cdd:COG2319  240 ---RTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTgHSGGVNSVAFSPDGKLLASGSDDGTVRLWD 316

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 411 VNSRKCLNRFVDEGSlYGLSIATSRNGQYVACGSNCGVVNIYNQDSclqetnPKPIKAIMNLVTGVTSLTFNPTTEILAI 490
Cdd:COG2319  317 LATGKLLRTLTGHTG-AVRSVAFSPDGKTLASGSDDGTVRLWDLAT------GELLRTLTGHTGAVTSVAFSPDGRTLAS 389


                 ...
gi 118344456 491 ASE 493
Cdd:COG2319  390 GSA 392
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 230-493 1.21e-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: 83.54  E-value: 1.21e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 230 SLPRGILKMKNCQHANAerptvarISSVQFHPGAQIVMVAGLDNAVSLFqvDGKTNPKIQSIYLERFPIFKACFSANGEe 309
Cdd:cd00200   37 DLETGELLRTLKGHTGP-------VRDVAASADGTYLASGSSDKTIRLW--DLETGECVRTLTGHTSYVSSVAFSPDGR- 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 310 VLATSTHSKVLYVYDMLAGKLIPVhqVRGlKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAAS 388
Cdd:cd00200  107 ILSSSSRDKTIKVWDVETGKCLTT--LRG-HTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGhTGEVNSV 183

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 389 TFSSDSKKVYASSGDGEVYVWDVNSRKCLNRFV-DEGSLYglSIATSRNGQYVACGSNCGVVNIYNQDSClqetnpKPIK 467
Cdd:cd00200  184 AFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgHENGVN--SVAFSPDGYLLASGSEDGTIRVWDLRTG------ECVQ 255

                        250       260
                 ....*....|....*....|....*.
gi 118344456 468 AIMNLVTGVTSLTFNPTTEILAIASE 493
Cdd:cd00200  256 TLSGHTNSVTSLAWSPDGKRLASGSA 281
WD40 COG2319
WD40 repeat [General function prediction only];
252-413 3.93e-15

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 77.26  E-value: 3.93e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 252 ARISSVQFHPGAQIVMVAGLDNAVSLFQVDgkTNPKIQSIYLERFPIFKACFSANGEeVLATSTHSKVLYVYDMLAGKLI 331
Cdd:COG2319  247 GSVRSVAFSPDGRLLASGSADGTVRLWDLA--TGELLRTLTGHSGGVNSVAFSPDGK-LLASGSDDGTVRLWDLATGKLL 323

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 332 PVHQVRGlkeKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMK-INGRVAASTFSSDSKKVYASSGDGEVYVWD 410
Cdd:COG2319  324 RTLTGHT---GAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTgHTGAVTSVAFSPDGRTLASGSADGTVRLWD 400


                 ...
gi 118344456 411 VNS 413
Cdd:COG2319  401 LAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
344-550 4.77e-14

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 74.18  E-value: 4.77e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 344 VRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAASTFSSDSKKVYASSGDGEVYVWDVNSRKCLNRFvD 422
Cdd:COG2319   81 VLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGhTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTL-T 159

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 423 EGSLYGLSIATSRNGQYVACGSNCGVVNIYNQDSclqetnPKPIKAIMNLVTGVTSLTFNPTTEILAIASEkmKEAVRLV 502
Cdd:COG2319  160 GHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLAT------GKLLRTLTGHTGAVRSVAFSPDGKLLASGSA--DGTVRLW 231

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 118344456 503 HLPSCTVFSNFPviknKNISHVHTMDFSPRSGYFALGNEKGKALMYRL 550
Cdd:COG2319  232 DLATGKLLRTLT----GHSGSVRSVAFSPDGRLLASGSADGTVRLWDL 275
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 254-410 8.94e-11

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: 63.12  E-value: 8.94e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 254 ISSVQFHPGAQIVMVAGLDNAVSLFqvDGKTNPKIQSIYLERFPIFKACFSANGEEVLATSThSKVLYVYDMLAGKLIpv 333
Cdd:cd00200  138 VNSVAFSPDGTFVASSSQDGTIKLW--DLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSS-DGTIKLWDLSTGKCL-- 212

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 118344456 334 HQVRGlKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKI-NGRVAASTFSSDSKKVYASSGDGEVYVWD 410
Cdd:cd00200  213 GTLRG-HENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGhTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
344-550 2.94e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 59.15  E-value: 2.94e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 344 VRSFEVSPDGSFLLINGIAGYLHLLAMKTKELIGSMKIN-GRVAASTFSSDSKKVYASSGDGEVYVWDVNSRKCLNRFVD 422
Cdd:COG2319   39 VASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHtAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTG 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 423 EGSlYGLSIATSRNGQYVACGSNCGVVNIYNQDSclqetnPKPIKAIMNLVTGVTSLTFNPTTEILAIASEkmKEAVRLV 502
Cdd:COG2319  119 HTG-AVRSVAFSPDGKTLASGSADGTVRLWDLAT------GKLLRTLTGHSGAVTSVAFSPDGKLLASGSD--DGTVRLW 189

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 118344456 503 HLPSCTVFSNFPVIKNknisHVHTMDFSPRSGYFALGNEKGKALMYRL 550
Cdd:COG2319  190 DLATGKLLRTLTGHTG----AVRSVAFSPDGKLLASGSADGTVRLWDL 233
YncE COG3391
DNA-binding beta-propeller fold protein YncE [General function prediction only];
305-445 1.86e-08

DNA-binding beta-propeller fold protein YncE [General function prediction only];


Pssm-ID: 442618 [Multi-domain]  Cd Length: 237  Bit Score: 55.47  E-value: 1.86e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 305 ANGEEVLATSTHSKVLYVYDMLAGKLIPVHQVRGLkekiVRSFEVSPDGSFLLI-NGIAGYLHLLAMKTKELIGSMKING 383
Cdd:COG3391   77 ADGRRLYVANSGSGRVSVIDLATGKVVATIPVGGG----PRGLAVDPDGGRLYVaDSGNGRVSVIDTATGKVVATIPVGA 152

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 118344456 384 RVAASTFSSDSKKVY-ASSGDGE----VYVWDVNSRKCLNRfVDEGSlYGLSIATSRNGQ--YVACGSN 445
Cdd:COG3391  153 GPHGIAVDPDGKRLYvANSGSNTvsviVSVIDTATGKVVAT-IPVGG-GPVGVAVSPDGRrlYVANRGS 219
YncE COG3391
DNA-binding beta-propeller fold protein YncE [General function prediction only];
262-414 2.42e-08

DNA-binding beta-propeller fold protein YncE [General function prediction only];


Pssm-ID: 442618 [Multi-domain]  Cd Length: 237  Bit Score: 55.09  E-value: 2.42e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 262 GAQIVMVAGLDNAVSLFqvDGKTNPKIQSIYLERFPIFkACFSANGEEVLATSTHSKVLYVYDMLAGKL---IPVhqvrg 338
Cdd:COG3391   79 GRRLYVANSGSGRVSVI--DLATGKVVATIPVGGGPRG-LAVDPDGGRLYVADSGNGRVSVIDTATGKVvatIPV----- 150

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 339 lkEKIVRSFEVSPDGSFLLI-----NGIAGYLHLLAMKTKELIGSMKINGRVAASTFSSDSKKVY--------ASSGDGE 405
Cdd:COG3391  151 --GAGPHGIAVDPDGKRLYVansgsNTVSVIVSVIDTATGKVVATIPVGGGPVGVAVSPDGRRLYvanrgsntSNGGSNT 228


                 ....*....
gi 118344456 406 VYVWDVNSR 414
Cdd:COG3391  229 VSVIDLATL 237
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 382-489 7.50e-08

WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and bottom surface of the propeller are proposed to coordinate interactions with other proteins and/or small ligands; 7 copies of the repeat are present in this alignment.


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 53.88  E-value: 7.50e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 382 NGRVAASTFSSDSKKVYASSGDGEVYVWDVNSRKCLNRFVdEGSLYGLSIATSRNGQYVACGSNCGVVNIYN--QDSCLQ 459
Cdd:cd00200    9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLK-GHTGPVRDVAASADGTYLASGSSDKTIRLWDleTGECVR 87

                         90       100       110
                 ....*....|....*....|....*....|....
gi 118344456 460 EtnpkpikaimnlVTG----VTSLTFNPTTEILA 489
Cdd:cd00200   88 T------------LTGhtsyVSSVAFSPDGRILS 109
Nsa1_WDR74-like cd22850
Ribosome biogenesis protein Nsa1 and similar proteins; Ribosome biogenesis protein Nsa1 ...
 304-417 2.74e-03

Ribosome biogenesis protein Nsa1 and similar proteins; Ribosome biogenesis protein Nsa1 (Nop7-associated 1) from fungi and WDR74 (WD repeat-containing protein 74) from mammals and plants, are homologous essential factors for ribosome assembly. In cooperation with the assembly factor Rix7/NVL2, Nsa1/WDR74 participates in an early cleavage of the pre-rRNA processing pathway. Rix7/NVL2 is a type II double ring, AAA-ATPase, that may mediate the release of Nsa1/WDR74 from nucleolar pre-60S particles. Nsa1/WDR74 contains an N-terminal seven-bladed beta-propeller WD40 domain that associates with the D1-AAA domain of the AAA-ATPase Rix7/NVL2, and a flexible lysine-rich C-terminus that extends outward from the WD40 domain, and is required for nucleolar localization.


Pssm-ID: 439302 [Multi-domain]  Cd Length: 333  Bit Score: 39.92  E-value: 2.74e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456 304 SANGEEVLATSTHSKVLYVYDMLAGKLiPVHqvrglKEKIVRSFEVSPDGSFLLI-NGIAGyLHLLAMKTKELIGSMK-- 380
Cdd:cd22850  201 DDHRKFKFVTGTRYGQVRLYDTSAGRR-PVF-----SEKPIKKPEEDLDGHTVYVgDTSGD-LALIDIRTGKLLGRLLgk 273

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 118344456 381 -INGRVAASTFSSDSKKVYASSG-DGEVYVWDVNSRKCL 417
Cdd:cd22850  274 yGGSITGAVRHPELFDPYLASGGlDRYLRVFDIETRELL 312
COG4946 COG4946
Uncharacterized N-terminal domain of tricorn protease, contains WD40 repeats [Function unknown] ...
 294-445 3.25e-03

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


Pssm-ID: 443973 [Multi-domain]  Cd Length: 1072  Bit Score: 40.41  E-value: 3.25e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456  294 ERFPIFkacfSANGEEVLATSTHSK--VLYVYDMLAGKliPVHQVRGLKEKIVRSFEVSPDGSFLLINGIAGYLHLLAMK 371
Cdd:COG4946   345 ERLPAW----SPDGKSIAYFSDASGeyELYIAPADGSG--EPKQLTLGDLGRVFNPVWSPDGKKIAFTDNRGRLWVVDLA 418

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118344456  372 TKE--LIGSMKINGRVAASTFSSDSKKV-YASSGD---GEVYVWDVNSRKCLNrfVDEGSLYGLSIATSRNGQYVACGSN 445
Cdd:COG4946   419 SGKvrKVDTDGYGDGISDLAWSPDSKWLaYSKPGPnqlSQIFLYDVETGKTVQ--LTDGRYDDGSPAFSPDGKYLYFLSS 496
PQQ_ABC_repeats TIGR03866
PQQ-dependent catabolism-associated beta-propeller protein; Members of this protein family ...
 349-420 6.59e-03

PQQ-dependent catabolism-associated beta-propeller protein; Members of this protein family consist of seven repeats each of the YVTN family beta-propeller repeat (see TIGR02276). Members occur invariably as part of a transport operon that is associated with PQQ-dependent catabolism of alcohols such as phenylethanol.


Pssm-ID: 274824 [Multi-domain]  Cd Length: 310  Bit Score: 38.87  E-value: 6.59e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 118344456  349 VSPDGSFLLING-IAGYLHLLAMKTKELIGSMKINGRVAASTFSSDSKKVYASSG-DGEVYVWDVNSRKCLNRF 420
Cdd:TIGR03866 132 VSPDGKIVVNTSeTTNMAHWIDTATYEIVDNTLVDARPRFAEFTADGKELWVSSEiGGTVTVIDVATRKVIKKI 205
 
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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