NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|55741849|ref|NP_003852|]
View 

DDB1- and CUL4-associated factor 5 isoform 1 [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

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
49-362 1.63e-33

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 133.88  E-value: 1.63e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHMEQAihsrvKPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILH 128
Cdd:COG2319 116 LTGHTGAVRSVAFSPDG-KTLASGSADGTVRLWDLATG-----KLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLW 189

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 129 DVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIRESPhgEPFCLANYPSAFHSVMFNPvEPRLLATAN 207
Cdd:COG2319 190 DLATGKLLRTLtGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK--LLRTLTGHSGSVRSVAFSP-DGRLLASGS 265

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 208 SKEGVGLWDIRKPQSsLLRYGGNLSlqSAMSVRFNSNGTQLLA------LRrrlppvLYDIHSRLPVFQFdnQGYFNSCT 281
Cdd:COG2319 266 ADGTVRLWDLATGEL-LRTLTGHSG--GVNSVAFSPDGKLLASgsddgtVR------LWDLATGKLLRTL--TGHTGAVR 334

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 282 mkSCCFAGDrDQYILSGSDDFNLYMWripaDPEAGGIGRVvngafmvLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 361
Cdd:COG2319 335 --SVAFSPD-GKTLASGSDDGTVRLW----DLATGELLRT-------LTGHTGAVTSVAFSPDGRTLASGSADGTVRLWD 400


                .
gi 55741849 362 P 362
Cdd:COG2319 401 L 401
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
49-362 1.63e-33

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 133.88  E-value: 1.63e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHMEQAihsrvKPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILH 128
Cdd:COG2319 116 LTGHTGAVRSVAFSPDG-KTLASGSADGTVRLWDLATG-----KLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLW 189

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 129 DVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIRESPhgEPFCLANYPSAFHSVMFNPvEPRLLATAN 207
Cdd:COG2319 190 DLATGKLLRTLtGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK--LLRTLTGHSGSVRSVAFSP-DGRLLASGS 265

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 208 SKEGVGLWDIRKPQSsLLRYGGNLSlqSAMSVRFNSNGTQLLA------LRrrlppvLYDIHSRLPVFQFdnQGYFNSCT 281
Cdd:COG2319 266 ADGTVRLWDLATGEL-LRTLTGHSG--GVNSVAFSPDGKLLASgsddgtVR------LWDLATGKLLRTL--TGHTGAVR 334

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 282 mkSCCFAGDrDQYILSGSDDFNLYMWripaDPEAGGIGRVvngafmvLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 361
Cdd:COG2319 335 --SVAFSPD-GKTLASGSDDGTVRLW----DLATGELLRT-------LTGHTGAVTSVAFSPDGRTLASGSADGTVRLWD 400


                .
gi 55741849 362 P 362
Cdd:COG2319 401 L 401
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 49-361 4.47e-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: 123.98  E-value: 4.47e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHMEQAIHSRvkpiQLKGeHHSNIFCLAFNSGNTKVFSGGNDEQVILH 128
Cdd:cd00200   5 LKGHTGGVTCVAFSPDG-KLLATGSGDGTIKVWDLETGELLR----TLKG-HTGPVRDVAASADGTYLASGSSDKTIRLW 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 129 DVESSETLDVFA-HEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIRESPhgepfCLANYPSAFHSVM---FNPvEPRLLA 204
Cdd:cd00200  79 DLETGECVRTLTgHTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGK-----CLTTLRGHTDWVNsvaFSP-DGTFVA 151

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 205 TAnSKEG-VGLWDIRKPQSSLLRYGGNLSLQSamsVRFNSNGTQLLA------LRrrlppvLYDIHSRLPVFQFD-NQGY 276
Cdd:cd00200 152 SS-SQDGtIKLWDLRTGKCVATLTGHTGEVNS---VAFSPDGEKLLSsssdgtIK------LWDLSTGKCLGTLRgHENG 221

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 277 FNSCtmkscCFAGDRDqYILSGSDDFNLYMWRIpadpeagGIGRVVngafMVLKGHRSIVNQVRFNPHTYMICSSGVEKI 356
Cdd:cd00200 222 VNSV-----AFSPDGY-LLASGSEDGTIRVWDL-------RTGECV----QTLSGHTNSVTSLAWSPDGKRLASGSADGT 284


                ....*
gi 55741849 357 IKIWS 361
Cdd:cd00200 285 IRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 140-171 3.02e-05

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: 41.91  E-value: 3.02e-05
                           10        20        30
                   ....*....|....*....|....*....|..
gi 55741849    140 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 171
Cdd:smart00320  10 GHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
PTZ00420 PTZ00420
coronin; Provisional
 286-360 1.21e-04

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 45.71  E-value: 1.21e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 55741849  286 CFAgdrdQYILSGSDDFNLYMWRIPADPEAGgigRVVNGAFMVLKGHRSIVNQVRFNPHTYMI-CSSGVEKIIKIW 360
Cdd:PTZ00420  85 CFS----EILASGSEDLTIRVWEIPHNDESV---KEIKDPQCILKGHKKKISIIDWNPMNYYImCSSGFDSFVNIW 153
WD40 pfam00400
WD domain, G-beta repeat;
49-81 1.61e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 39.64  E-value: 1.61e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 55741849    49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLW 81
Cdd:pfam00400   7 LEGHTGSVTSLAFSPDG-KLLASGSDDGTVKVW 38
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
49-362 1.63e-33

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 133.88  E-value: 1.63e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHMEQAihsrvKPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILH 128
Cdd:COG2319 116 LTGHTGAVRSVAFSPDG-KTLASGSADGTVRLWDLATG-----KLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLW 189

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 129 DVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIRESPhgEPFCLANYPSAFHSVMFNPvEPRLLATAN 207
Cdd:COG2319 190 DLATGKLLRTLtGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK--LLRTLTGHSGSVRSVAFSP-DGRLLASGS 265

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 208 SKEGVGLWDIRKPQSsLLRYGGNLSlqSAMSVRFNSNGTQLLA------LRrrlppvLYDIHSRLPVFQFdnQGYFNSCT 281
Cdd:COG2319 266 ADGTVRLWDLATGEL-LRTLTGHSG--GVNSVAFSPDGKLLASgsddgtVR------LWDLATGKLLRTL--TGHTGAVR 334

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 282 mkSCCFAGDrDQYILSGSDDFNLYMWripaDPEAGGIGRVvngafmvLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 361
Cdd:COG2319 335 --SVAFSPD-GKTLASGSDDGTVRLW----DLATGELLRT-------LTGHTGAVTSVAFSPDGRTLASGSADGTVRLWD 400


                .
gi 55741849 362 P 362
Cdd:COG2319 401 L 401
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 49-361 4.47e-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: 123.98  E-value: 4.47e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHMEQAIHSRvkpiQLKGeHHSNIFCLAFNSGNTKVFSGGNDEQVILH 128
Cdd:cd00200   5 LKGHTGGVTCVAFSPDG-KLLATGSGDGTIKVWDLETGELLR----TLKG-HTGPVRDVAASADGTYLASGSSDKTIRLW 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 129 DVESSETLDVFA-HEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIRESPhgepfCLANYPSAFHSVM---FNPvEPRLLA 204
Cdd:cd00200  79 DLETGECVRTLTgHTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGK-----CLTTLRGHTDWVNsvaFSP-DGTFVA 151

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 205 TAnSKEG-VGLWDIRKPQSSLLRYGGNLSLQSamsVRFNSNGTQLLA------LRrrlppvLYDIHSRLPVFQFD-NQGY 276
Cdd:cd00200 152 SS-SQDGtIKLWDLRTGKCVATLTGHTGEVNS---VAFSPDGEKLLSsssdgtIK------LWDLSTGKCLGTLRgHENG 221

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 277 FNSCtmkscCFAGDRDqYILSGSDDFNLYMWRIpadpeagGIGRVVngafMVLKGHRSIVNQVRFNPHTYMICSSGVEKI 356
Cdd:cd00200 222 VNSV-----AFSPDGY-LLASGSEDGTIRVWDL-------RTGECV----QTLSGHTNSVTSLAWSPDGKRLASGSADGT 284


                ....*
gi 55741849 357 IKIWS 361
Cdd:cd00200 285 IRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
3-362 2.44e-30

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 124.64  E-value: 2.44e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849   3 RRAGLGGSMRSVVGFLSQRGLHGDPLLTQDFQRRRLRGcRNLYKKDLLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWH 82
Cdd:COG2319  29 LLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAA-AGALLATLLGHTAAVLSVAFSPDG-RLLASASADGTVRLWD 106

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  83 MEQAihsrvKPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASS 161
Cdd:COG2319 107 LATG-----LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLtGHSGAVTSVAFSP-DGKLLASG 180

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 162 SDDGRVLIWDIREsphGEPFC-LANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQsSLLRYGGNLSlqSAMSVR 240
Cdd:COG2319 181 SDDGTVRLWDLAT---GKLLRtLTGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK-LLRTLTGHSG--SVRSVA 253

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849 241 FNSNGTQLLA------LRrrlppvLYDIHSRLPVFQFDNQgyfnSCTMKSCCFAGDrDQYILSGSDDFNLYMWRIPAdpe 314
Cdd:COG2319 254 FSPDGRLLASgsadgtVR------LWDLATGELLRTLTGH----SGGVNSVAFSPD-GKLLASGSDDGTVRLWDLAT--- 319

                       330       340       350       360
                ....*....|....*....|....*....|....*....|....*...
gi 55741849 315 aggiGRVVNGafmvLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWSP 362
Cdd:COG2319 320 ----GKLLRT----LTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDL 359
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 46-171 3.19e-14

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 74.29  E-value: 3.19e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  46 KKDLLGHFGCVNAIEFSNNGGQwLVSGGDDRRVLLW--HMEQAIHsrvkpiQLKGeHHSNIFCLAFNSGNTKVFSGGNDE 123
Cdd:cd00200 170 VATLTGHTGEVNSVAFSPDGEK-LLSSSSDGTIKLWdlSTGKCLG------TLRG-HENGVNSVAFSPDGYLLASGSEDG 241

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*....
gi 55741849 124 QVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 171
Cdd:cd00200 242 TIRVWDLRTGECVQTLsGHTNSVTSLAWSP-DGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
49-132 3.26e-09

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 59.92  E-value: 3.26e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHMEQAihsrvKPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILH 128
Cdd:COG2319 326 LTGHTGAVRSVAFSPDG-KTLASGSDDGTVRLWDLATG-----ELLRTLTGHTGAVTSVAFSPDGRTLASGSADGTVRLW 399


                ....
gi 55741849 129 DVES 132
Cdd:COG2319 400 DLAT 403
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 140-171 3.02e-05

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: 41.91  E-value: 3.02e-05
                           10        20        30
                   ....*....|....*....|....*....|..
gi 55741849    140 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 171
Cdd:smart00320  10 GHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
PTZ00420 PTZ00420
coronin; Provisional
 286-360 1.21e-04

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 45.71  E-value: 1.21e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 55741849  286 CFAgdrdQYILSGSDDFNLYMWRIPADPEAGgigRVVNGAFMVLKGHRSIVNQVRFNPHTYMI-CSSGVEKIIKIW 360
Cdd:PTZ00420  85 CFS----EILASGSEDLTIRVWEIPHNDESV---KEIKDPQCILKGHKKKISIIDWNPMNYYImCSSGFDSFVNIW 153
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 327-361 1.56e-04

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: 39.99  E-value: 1.56e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 55741849    327 MVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 361
Cdd:smart00320   6 KTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
49-81 1.61e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 39.64  E-value: 1.61e-04
                          10        20        30
                  ....*....|....*....|....*....|...
gi 55741849    49 LLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLW 81
Cdd:pfam00400   7 LEGHTGSVTSLAFSPDG-KLLASGSDDGTVKVW 38
PLN00181 PLN00181
protein SPA1-RELATED; Provisional
 19-224 1.73e-04

protein SPA1-RELATED; Provisional


Pssm-ID: 177776 [Multi-domain]  Cd Length: 793  Bit Score: 45.46  E-value: 1.73e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849   19 SQRGLHGDPLLTQ-----DFQRRRLRGcrNLYKKDLLGHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWHME------QAI 87
Cdd:PLN00181 446 SRQGGWIDPFLEGlckylSFSKLRVKA--DLKQGDLLNSSNLVCAIGFDRDG-EFFATAGVNKKIKIFECEsiikdgRDI 522

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849   88 HSRVkpIQLKGEhhSNIFCLAFNSG-NTKVFSGGNDEQVILHDVESSETL-DVFAHEDAVYGLSVSPVNDNIFASSSDDG 165
Cdd:PLN00181 523 HYPV--VELASR--SKLSGICWNSYiKSQVASSNFEGVVQVWDVARSQLVtEMKEHEKRVWSIDYSSADPTLLASGSDDG 598

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 55741849  166 RVLIWDIREsphGEPFCLANYPSAFHSVMFNPVEPRLLATANSKEGVGLWDIRKPQSSL 224
Cdd:PLN00181 599 SVKLWSINQ---GVSIGTIKTKANICCVQFPSESGRSLAFGSADHKVYYYDLRNPKLPL 654
WD40 pfam00400
WD domain, G-beta repeat;
140-171 2.27e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 39.25  E-value: 2.27e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 55741849   140 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 171
Cdd:pfam00400   9 GHTGSVTSLAFSP-DGKLLASGSDDGTVKVWD 39
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 51-82 9.34e-04

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: 37.68  E-value: 9.34e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 55741849     51 GHFGCVNAIEFSNNGgQWLVSGGDDRRVLLWH 82
Cdd:smart00320  10 GHTGPVTSVAFSPDG-KYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
327-361 1.39e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 37.32  E-value: 1.39e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 55741849   327 MVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 361
Cdd:pfam00400   5 KTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
YncE COG3391
DNA-binding beta-propeller fold protein YncE [General function prediction only];
59-172 1.92e-03

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


Pssm-ID: 442618 [Multi-domain]  Cd Length: 237  Bit Score: 40.83  E-value: 1.92e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 55741849  59 IEFSNNGGQWLVSGGDDRRVLLwhMEQAIHSRVKPIQLKGEHHSnifcLAFNSGNTKVF---SGGNDEQVILH--DVESS 133
Cdd:COG3391 115 LAVDPDGGRLYVADSGNGRVSV--IDTATGKVVATIPVGAGPHG----IAVDPDGKRLYvanSGSNTVSVIVSviDTATG 188

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 55741849 134 ETLDVFAHEDAVYGLSVSPVNDNIF-------ASSSDDGRVLIWDI 172
Cdd:COG3391 189 KVVATIPVGGGPVGVAVSPDGRRLYvanrgsnTSNGGSNTVSVIDL 234
8prop_hemeD1_NirF cd20778
eight-bladed heme d1-binding beta-propeller domain in cytochrome cd1 nitrate reductase NirF; ...
 117-175 9.09e-03

eight-bladed heme d1-binding beta-propeller domain in cytochrome cd1 nitrate reductase NirF; Denitrification is a process that enables biofilm formation of the opportunistic human pathogen Pseudomonas aeruginosa, making it more resilient to antibiotics and highly adaptable to different habitats. During denitrification, nitrate (Nar), nitrite (Nir), nitric oxide (Nor), and nitrous oxide (Nos) reductases catalyze the reaction cascade of NO3- -> NO2- -> NO -> N2O -> N2. The integral membrane proteins NorC, NorB, and NosR form the core assembly platform that binds the nitrate reductase NarGHI and the periplasmic cytochrome cd1 (nitrite reductase) NirS via its maturation factor NirF. The nirFDLGHJE genes encode proteins required for heme d1 biosynthesis. NirS, NirF, and NirN, the monomeric dihydro-heme d1 dehydrogenase form a stable complex during nitrite reductase maturation. The nitrite reductase NirS is bound to the denitrification supercomplex via NorB, while the electron donor system NirM and the enzyme maturation machinery NirN-NirF-NirQ, interacting with NirS, are bound via NorC.


Pssm-ID: 467722 [Multi-domain]  Cd Length: 381  Bit Score: 39.57  E-value: 9.09e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 55741849 117 FSGGNDE--QVIlhDVESSETLDVFAHEDAVYGLSVSPVNDNIFASSSDDGRVLIWDIRES 175
Cdd:cd20778 299 FSGPDNDtvQVI--DTKTLKVVKTLEPGKRVLHMEFTPRGEAVYISVNDDNKVVVYDTRTF 357
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH