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Conserved domains on  [gi|16554625|ref|NP_443716|]
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intraflagellar transport protein 122 homolog isoform 4 [Homo sapiens]

Protein Classification

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

WD40 repeat domain-containing protein similar to 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

Gene Ontology:  GO:0005515
PubMed:  10322433

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
15-237 3.21e-15

WD40 repeat [General function prediction only];


:

Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 79.75  E-value: 3.21e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   15 INDIAFKPDGTQLILAAG--SRLLVYDTSDGTLLQPLKGHKDTVYCVAYAKDG--------------LWSPE--QKSVSK 76
Cdd:COG2319  158 VTSLAFSPDGKLLASGSSldGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGglliasgssdgtirLWDLStgKLLRST 237
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   77 HKSSSKIICCSWTNDGQYLALGMFNGIISIRNKNGEEKvKIERPGGSLSPIWSICWNPSreerNDILAVADWGQKVSFYQ 156
Cdd:COG2319  238 LSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSS-LLRTLSGHSSSVLSVAFSPD----GKLLASGSSDGTVRLWD 312
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  157 LSGKQIGKDRAL---NFDPCCISYFTKGEYILLGGS-DKQVSLFTKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDG 232
Cdd:COG2319  313 LETGKLLSSLTLkghEGPVSSLSFSPDGSLLVSGGSdDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDG 392

                 ....*
gi 16554625  233 TISFY 237
Cdd:COG2319  393 TVRLW 397
PEP_TPR_lipo super family cl37187
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
599-807 1.90e-04

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


The actual alignment was detected with superfamily member TIGR02917:

Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 45.46  E-value: 1.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    599 AKLYKRSGHENLALEMYTDLcmfeYAKD-------------FLGSGDPKETKMLITKQADWARnikEPKAAVEM----YI 661
Cdd:TIGR02917  540 AGLYLRTGNEEEAVAWLEKA----AELNpqeiepalalaqyYLGKGQLKKALAILNEAADAAP---DSPEAWLMlgraQL 612
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    662 SAGEHVKAIEIcgdhgwvdmlidiARKLdkAEREP------LLLCATYLKKLDSPGyaAETYLKmgdlKSLvqlhvetqr 735
Cdd:TIGR02917  613 AAGDLNKAVSS-------------FKKL--LALQPdsalalLLLADAYAVMKNYAK--AITSLK----RAL--------- 662
                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16554625    736 wdeafalgEKHPEFKDDIYMpYAQWLAENDRFEEAQKAFHKAGRQR-EAVQVLEQLTNNAVAESRFNDAAYYY 807
Cdd:TIGR02917  663 --------ELKPDNTEAQIG-LAQLLLAAKRTESAKKIAKSLQKQHpKAALGFELEGDLYLRQKDYPAAIQAY 726
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
15-237 3.21e-15

WD40 repeat [General function prediction only];


Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 79.75  E-value: 3.21e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   15 INDIAFKPDGTQLILAAG--SRLLVYDTSDGTLLQPLKGHKDTVYCVAYAKDG--------------LWSPE--QKSVSK 76
Cdd:COG2319  158 VTSLAFSPDGKLLASGSSldGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGglliasgssdgtirLWDLStgKLLRST 237
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   77 HKSSSKIICCSWTNDGQYLALGMFNGIISIRNKNGEEKvKIERPGGSLSPIWSICWNPSreerNDILAVADWGQKVSFYQ 156
Cdd:COG2319  238 LSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSS-LLRTLSGHSSSVLSVAFSPD----GKLLASGSSDGTVRLWD 312
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  157 LSGKQIGKDRAL---NFDPCCISYFTKGEYILLGGS-DKQVSLFTKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDG 232
Cdd:COG2319  313 LETGKLLSSLTLkghEGPVSSLSFSPDGSLLVSGGSdDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDG 392

                 ....*
gi 16554625  233 TISFY 237
Cdd:COG2319  393 TVRLW 397
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
12-239 1.03e-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: 73.14  E-value: 1.03e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   12 EHCINDIAFKPDGTQLILAAGSRLL-VYDTSDGTLLQPLKGHKDTVYcvayakdglwspeqksvskhkssskiiCCSWTN 90
Cdd:cd00200   51 TGPVRDVAASADGTYLASGSSDKTIrLWDLETGECVRTLTGHTSYVS---------------------------SVAFSP 103
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   91 DGQYLALGMFNGiiSIR---NKNGEEKVKIErpgGSLSPIWSICWNPSreerNDILAVADWGQKVSFYQLSGKQI----- 162
Cdd:cd00200  104 DGRILSSSSRDK--TIKvwdVETGKCLTTLR---GHTDWVNSVAFSPD----GTFVASSSQDGTIKLWDLRTGKCvatlt 174
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 16554625  163 GKDRALNfdpcCISYFTKGEYILLGGSDKQVSLF-TKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDGTISFYQL 239
Cdd:cd00200  175 GHTGEVN----SVAFSPDGEKLLSSSSDGTIKLWdLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDL 248
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
599-807 1.90e-04

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 45.46  E-value: 1.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    599 AKLYKRSGHENLALEMYTDLcmfeYAKD-------------FLGSGDPKETKMLITKQADWARnikEPKAAVEM----YI 661
Cdd:TIGR02917  540 AGLYLRTGNEEEAVAWLEKA----AELNpqeiepalalaqyYLGKGQLKKALAILNEAADAAP---DSPEAWLMlgraQL 612
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    662 SAGEHVKAIEIcgdhgwvdmlidiARKLdkAEREP------LLLCATYLKKLDSPGyaAETYLKmgdlKSLvqlhvetqr 735
Cdd:TIGR02917  613 AAGDLNKAVSS-------------FKKL--LALQPdsalalLLLADAYAVMKNYAK--AITSLK----RAL--------- 662
                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16554625    736 wdeafalgEKHPEFKDDIYMpYAQWLAENDRFEEAQKAFHKAGRQR-EAVQVLEQLTNNAVAESRFNDAAYYY 807
Cdd:TIGR02917  663 --------ELKPDNTEAQIG-LAQLLLAAKRTESAKKIAKSLQKQHpKAALGFELEGDLYLRQKDYPAAIQAY 726
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
15-237 3.21e-15

WD40 repeat [General function prediction only];


Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 79.75  E-value: 3.21e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   15 INDIAFKPDGTQLILAAG--SRLLVYDTSDGTLLQPLKGHKDTVYCVAYAKDG--------------LWSPE--QKSVSK 76
Cdd:COG2319  158 VTSLAFSPDGKLLASGSSldGTIKLWDLRTGKPLSTLAGHTDPVSSLAFSPDGglliasgssdgtirLWDLStgKLLRST 237
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   77 HKSSSKIICCSWTNDGQYLALGMFNGIISIRNKNGEEKvKIERPGGSLSPIWSICWNPSreerNDILAVADWGQKVSFYQ 156
Cdd:COG2319  238 LSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDLRSSSS-LLRTLSGHSSSVLSVAFSPD----GKLLASGSSDGTVRLWD 312
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  157 LSGKQIGKDRAL---NFDPCCISYFTKGEYILLGGS-DKQVSLFTKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDG 232
Cdd:COG2319  313 LETGKLLSSLTLkghEGPVSSLSFSPDGSLLVSGGSdDGTIRLWDLRTGKPLKTLEGHSNVLSVSFSPDGRVVSSGSTDG 392

                 ....*
gi 16554625  233 TISFY 237
Cdd:COG2319  393 TVRLW 397
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
12-239 1.03e-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: 73.14  E-value: 1.03e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   12 EHCINDIAFKPDGTQLILAAGSRLL-VYDTSDGTLLQPLKGHKDTVYcvayakdglwspeqksvskhkssskiiCCSWTN 90
Cdd:cd00200   51 TGPVRDVAASADGTYLASGSSDKTIrLWDLETGECVRTLTGHTSYVS---------------------------SVAFSP 103
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   91 DGQYLALGMFNGiiSIR---NKNGEEKVKIErpgGSLSPIWSICWNPSreerNDILAVADWGQKVSFYQLSGKQI----- 162
Cdd:cd00200  104 DGRILSSSSRDK--TIKvwdVETGKCLTTLR---GHTDWVNSVAFSPD----GTFVASSSQDGTIKLWDLRTGKCvatlt 174
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 16554625  163 GKDRALNfdpcCISYFTKGEYILLGGSDKQVSLF-TKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDGTISFYQL 239
Cdd:cd00200  175 GHTGEVN----SVAFSPDGEKLLSSSSDGTIKLWdLSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDL 248
WD40 COG2319
WD40 repeat [General function prediction only];
15-237 1.16e-13

WD40 repeat [General function prediction only];


Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 74.74  E-value: 1.16e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   15 INDIAFKPDGTQLILAAGS--RLLVYDTSDGTLLQP-LKGHKDTV---------YCVAYAKDG---LW---SPEQKSVSK 76
Cdd:COG2319  201 VSSLAFSPDGGLLIASGSSdgTIRLWDLSTGKLLRStLSGHSDSVvssfspdgsLLASGSSDGtirLWdlrSSSSLLRTL 280
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   77 HKSSSKIICCSWTNDGQYLALGMFNGIISIRNKNGEEKVKIERPGGSLSPIWSICWNPSreeRNDILAVADWGQKVSFYQ 156
Cdd:COG2319  281 SGHSSSVLSVAFSPDGKLLASGSSDGTVRLWDLETGKLLSSLTLKGHEGPVSSLSFSPD---GSLLVSGGSDDGTIRLWD 357
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  157 L-SGKQIGKDRALNFDPcCISYFTKGEYILLGGSDKQVSLF-TKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDGTI 234
Cdd:COG2319  358 LrTGKPLKTLEGHSNVL-SVSFSPDGRVVSSGSTDGTVRLWdLSTGSLLRNLDGHTSRVTSLDFSPDGKSLASGSSDNTI 436

                 ...
gi 16554625  235 SFY 237
Cdd:COG2319  437 RLW 439
WD40 COG2319
WD40 repeat [General function prediction only];
4-239 2.12e-12

WD40 repeat [General function prediction only];


Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 70.89  E-value: 2.12e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    4 VLTWRDKAEHCINDIAFK-PDGTQLILAAGSR---LLVYD-TSDGTLLQPLKGHKDTVYCVAyakdglwspeqksvskhk 78
Cdd:COG2319  101 IKSLEGLHDSSVSKLALSsPDGNSILLASSSLdgtVKLWDlSTPGKLIRTLEGHSESVTSLA------------------ 162
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   79 ssskiiccsWTNDGQYLALG-MFNGIISIRNKNGEEKVKIERpgGSLSPIWSICWNPSReerNDILAVADWGQKVSFYQL 157
Cdd:COG2319  163 ---------FSPDGKLLASGsSLDGTIKLWDLRTGKPLSTLA--GHTDPVSSLAFSPDG---GLLIASGSSDGTIRLWDL 228
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  158 S-GKQIGKDRALNFDPCCISYFTKGEYILLGGSDKQVSLFT--KDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDGTI 234
Cdd:COG2319  229 StGKLLRSTLSGHSDSVVSSFSPDGSLLASGSSDGTIRLWDlrSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSSDGTV 308

                 ....*
gi 16554625  235 SFYQL 239
Cdd:COG2319  309 RLWDL 313
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
15-248 4.11e-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: 65.05  E-value: 4.11e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   15 INDIAFKPDGTqlILAAGSR---LLVYDTSDGTLLQPLKGHKDTVYCvayakdglwspeqksvskhkssskiicCSWTND 91
Cdd:cd00200   12 VTCVAFSPDGK--LLATGSGdgtIKVWDLETGELLRTLKGHTGPVRD---------------------------VAASAD 62
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   92 GQYLALGMFNGIISIRNKNGEEKVKIERpgGSLSPIWSICWNPSREerndILAVADWGQKVSFYQL-SGKQIGKDRALNF 170
Cdd:cd00200   63 GTYLASGSSDKTIRLWDLETGECVRTLT--GHTSYVSSVAFSPDGR----ILSSSSRDKTIKVWDVeTGKCLTTLRGHTD 136
                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 16554625  171 DPCCISYFTKGEYILLGGSDKQVSLF-TKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDGTISFYQLIFSTVHGLY 248
Cdd:cd00200  137 WVNSVAFSPDGTFVASSSQDGTIKLWdLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTL 215
WD40 COG2319
WD40 repeat [General function prediction only];
83-452 4.32e-11

WD40 repeat [General function prediction only];


Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 66.65  E-value: 4.32e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   83 IICCSWTNDGQYLALGMFNGIISIRNKNGEEKVKIERPGGSLSPIWSICWNpSREERNDILAVADWGQKVSFYQLS--GK 160
Cdd:COG2319   68 ITSIAFSPDGELLLSGSSDGTIKLWDLDNGEKLIKSLEGLHDSSVSKLALS-SPDGNSILLASSSLDGTVKLWDLStpGK 146
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  161 QIGKDRALNFDPCCISYFTKGEYILLGGS-DKQVSLF-TKDGVRLGTVGEQNSWVWTCQAKPDSNYVVVGC-QDGTISFY 237
Cdd:COG2319  147 LIRTLEGHSESVTSLAFSPDGKLLASGSSlDGTIKLWdLRTGKPLSTLAGHTDPVSSLAFSPDGGLLIASGsSDGTIRLW 226
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  238 QLIFSTVHglykdrYAYRDSMTDVIVqHLITEQKVRIKCKELVKKIAIYRNRlaiqlPEKILIYELYSEDlsdmhYRVKE 317
Cdd:COG2319  227 DLSTGKLL------RSTLSGHSDSVV-SSFSPDGSLLASGSSDGTIRLWDLR-----SSSSLLRTLSGHS-----SSVLS 289
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  318 KIIKKFECNLLVVCANHIIlcqekRLQCLSfSGVKEREWQMESLIRYIKVIGGPPGREGLLVGLKNGQILKIF-VDNLFA 396
Cdd:COG2319  290 VAFSPDGKLLASGSSDGTV-----RLWDLE-TGKLLSSLTLKGHEGPVSSLSFSPDGSLLVSGGSDDGTIRLWdLRTGKP 363
                        330       340       350       360       370
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16554625  397 IVLLKQATAVRCLDMSASRKKLAVVDENDTCLVYDIDTKELLFQEPNANSVAWNTQ 452
Cdd:COG2319  364 LKTLEGHSNVLSVSFSPDGRVVSSGSTDGTVRLWDLSTGSLLRNLDGHTSRVTSLD 419
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
12-106 4.77e-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: 55.80  E-value: 4.77e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   12 EHCINDIAFKPDGTQLILAAGSR-LLVYDTSDGTLLQPLKGHKDTVYCVAYAKDGLW---------------SPEQKSVS 75
Cdd:cd00200  177 TGEVNSVAFSPDGEKLLSSSSDGtIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLlasgsedgtirvwdlRTGECVQT 256
                         90       100       110
                 ....*....|....*....|....*....|.
gi 16554625   76 KHKSSSKIICCSWTNDGQYLALGMFNGIISI 106
Cdd:cd00200  257 LSGHTNSVTSLAWSPDGKRLASGSADGTIRI 287
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
122-240 2.75e-07

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: 53.49  E-value: 2.75e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625  122 GSLSPIWSICWNPSreerNDILAVADWGQKVSFYQLSGKQIGKDRALNFDP-CCISYFTKGEYILLGGSDKQVSLF-TKD 199
Cdd:cd00200    7 GHTGGVTCVAFSPD----GKLLATGSGDGTIKVWDLETGELLRTLKGHTGPvRDVAASADGTYLASGSSDKTIRLWdLET 82
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|.
gi 16554625  200 GVRLGTVGEQNSWVWTCQAKPDSNYVVVGCQDGTISFYQLI 240
Cdd:cd00200   83 GECVRTLTGHTSYVSSVAFSPDGRILSSSSRDKTIKVWDVE 123
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
599-807 1.90e-04

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 45.46  E-value: 1.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    599 AKLYKRSGHENLALEMYTDLcmfeYAKD-------------FLGSGDPKETKMLITKQADWARnikEPKAAVEM----YI 661
Cdd:TIGR02917  540 AGLYLRTGNEEEAVAWLEKA----AELNpqeiepalalaqyYLGKGQLKKALAILNEAADAAP---DSPEAWLMlgraQL 612
                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625    662 SAGEHVKAIEIcgdhgwvdmlidiARKLdkAEREP------LLLCATYLKKLDSPGyaAETYLKmgdlKSLvqlhvetqr 735
Cdd:TIGR02917  613 AAGDLNKAVSS-------------FKKL--LALQPdsalalLLLADAYAVMKNYAK--AITSLK----RAL--------- 662
                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16554625    736 wdeafalgEKHPEFKDDIYMpYAQWLAENDRFEEAQKAFHKAGRQR-EAVQVLEQLTNNAVAESRFNDAAYYY 807
Cdd:TIGR02917  663 --------ELKPDNTEAQIG-LAQLLLAAKRTESAKKIAKSLQKQHpKAALGFELEGDLYLRQKDYPAAIQAY 726
WD40 COG2319
WD40 repeat [General function prediction only];
12-130 8.70e-03

WD40 repeat [General function prediction only];


Pssm-ID: 225201 [Multi-domain]  Cd Length: 466  Bit Score: 40.07  E-value: 8.70e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16554625   12 EHCINDIAFKPDGTQLILAAGS--RLLVYDTSDGTLLQPLKGHkDTVYCVAYAKDG-------------LWSPEQKSVSK 76
Cdd:COG2319  328 EGPVSSLSFSPDGSLLVSGGSDdgTIRLWDLRTGKPLKTLEGH-SNVLSVSFSPDGrvvssgstdgtvrLWDLSTGSLLR 406
                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 16554625   77 HKS--SSKIICCSWTNDGQYLALGMFNGIISIRNKNGEEKVKIERPGGSLSPIWSI 130
Cdd:COG2319  407 NLDghTSRVTSLDFSPDGKSLASGSSDNTIRLWDLKTSLKSVSFSPDGKVLASKSS 462
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.20
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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