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Conserved domains on  [gi|564356495|ref|XP_006240341|]
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DDB1- and CUL4-associated factor 5 isoform X2 [Rattus norvegicus]

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];
10-280 8.52e-25

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 107.69  E-value: 8.52e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  10 KPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIW 88
Cdd:COG2319  111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLtGHSGAVTSVAFSP-DGKLLASGSDDGTVRLW 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  89 DIREsphGEPFC-LANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQsSLLRYGGNLSlqSAMSVRFNSNGTQLL 167
Cdd:COG2319  190 DLAT---GKLLRtLTGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK-LLRTLTGHSG--SVRSVAFSPDGRLLA 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 168 A------LRrrlppvLYDIHSRLPVFQFDNQgyfnSCTMKSCCFAGDrDQYILSGSDDFNLYMWkvpaDPEAGGLGRvvn 241
Cdd:COG2319  263 SgsadgtVR------LWDLATGELLRTLTGH----SGGVNSVAFSPD-GKLLASGSDDGTVRLW----DLATGKLLR--- 324

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 564356495 242 gafmVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWSP 280
Cdd:COG2319  325 ----TLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDL 359
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
10-280 8.52e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 107.69  E-value: 8.52e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  10 KPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIW 88
Cdd:COG2319  111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLtGHSGAVTSVAFSP-DGKLLASGSDDGTVRLW 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  89 DIREsphGEPFC-LANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQsSLLRYGGNLSlqSAMSVRFNSNGTQLL 167
Cdd:COG2319  190 DLAT---GKLLRtLTGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK-LLRTLTGHSG--SVRSVAFSPDGRLLA 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 168 A------LRrrlppvLYDIHSRLPVFQFDNQgyfnSCTMKSCCFAGDrDQYILSGSDDFNLYMWkvpaDPEAGGLGRvvn 241
Cdd:COG2319  263 SgsadgtVR------LWDLATGELLRTLTGH----SGGVNSVAFSPD-GKLLASGSDDGTVRLW----DLATGKLLR--- 324

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 564356495 242 gafmVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWSP 280
Cdd:COG2319  325 ----TLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDL 359
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 13-317 3.19e-23

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: 100.87  E-value: 3.19e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  13 QLKGeHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIR 91
Cdd:cd00200    4 TLKG-HTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLkGHTGPVRDVAASA-DGTYLASGSSDKTIRLWDLE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  92 ESPhgEPFCLANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQSsLLRYGGNLSlqSAMSVRFNSNGTQLLA--- 168
Cdd:cd00200   82 TGE--CVRTLTGHTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGKC-LTTLRGHTD--WVNSVAFSPDGTFVASssq 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 169 ---LRrrlppvLYDIHSRLPVFQFdnqgYFNSCTMKSCCFAGDRDQYILSGSDDfNLYMWkvpaDPEAGGLgrvvngaFM 245
Cdd:cd00200  156 dgtIK------LWDLRTGKCVATL----TGHTGEVNSVAFSPDGEKLLSSSSDG-TIKLW----DLSTGKC-------LG 213

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 564356495 246 VLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWspykqpgctgdlDGRIEDDSRCLYTHEEYISLVLNSGSG 317
Cdd:cd00200  214 TLRGHENGVNSVAFSPDGYLLASGSEDGTIRVW------------DLRTGECVQTLSGHTNSVTSLAWSPDG 273
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 58-89 3.21e-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: 41.53  E-value: 3.21e-05
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564356495    58 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 89
Cdd:smart00320  10 GHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
PTZ00420 PTZ00420
coronin; Provisional
 204-278 2.18e-04

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 44.94  E-value: 2.18e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564356495 204 CFAgdrdQYILSGSDDFNLYMWKVPADPEAGglgRVVNGAFMVLKGHRSIVNQVRFNPHTYMI-CSSGVEKIIKIW 278
Cdd:PTZ00420  85 CFS----EILASGSEDLTIRVWEIPHNDESV---KEIKDPQCILKGHKKKISIIDWNPMNYYImCSSGFDSFVNIW 153
WD40 pfam00400
WD domain, G-beta repeat;
58-89 2.26e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 39.25  E-value: 2.26e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 564356495   58 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 89
Cdd:pfam00400   9 GHTGSVTSLAFSP-DGKLLASGSDDGTVKVWD 39
 
Name Accession Description Interval E-value
WD40 COG2319
WD40 repeat [General function prediction only];
10-280 8.52e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 107.69  E-value: 8.52e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  10 KPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIW 88
Cdd:COG2319  111 LLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLtGHSGAVTSVAFSP-DGKLLASGSDDGTVRLW 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  89 DIREsphGEPFC-LANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQsSLLRYGGNLSlqSAMSVRFNSNGTQLL 167
Cdd:COG2319  190 DLAT---GKLLRtLTGHTGAVRSVAFSP-DGKLLASGSADGTVRLWDLATGK-LLRTLTGHSG--SVRSVAFSPDGRLLA 262

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 168 A------LRrrlppvLYDIHSRLPVFQFDNQgyfnSCTMKSCCFAGDrDQYILSGSDDFNLYMWkvpaDPEAGGLGRvvn 241
Cdd:COG2319  263 SgsadgtVR------LWDLATGELLRTLTGH----SGGVNSVAFSPD-GKLLASGSDDGTVRLW----DLATGKLLR--- 324

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 564356495 242 gafmVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWSP 280
Cdd:COG2319  325 ----TLTGHTGAVRSVAFSPDGKTLASGSDDGTVRLWDL 359
WD40 COG2319
WD40 repeat [General function prediction only];
10-280 4.01e-24

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 105.76  E-value: 4.01e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  10 KPIQLKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIW 88
Cdd:COG2319  153 KLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLtGHTGAVRSVAFSP-DGKLLASGSADGTVRLW 231

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  89 DIRESPhgEPFCLANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQSsLLRYGGNLSlqSAMSVRFNSNGTQLLA 168
Cdd:COG2319  232 DLATGK--LLRTLTGHSGSVRSVAFSP-DGRLLASGSADGTVRLWDLATGEL-LRTLTGHSG--GVNSVAFSPDGKLLAS 305

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 169 ------LRrrlppvLYDIHSRLPVFQFdnQGYFNSCTmkSCCFAGDrDQYILSGSDDFNLYMWkvpaDPEAGGLGRVvng 242
Cdd:COG2319  306 gsddgtVR------LWDLATGKLLRTL--TGHTGAVR--SVAFSPD-GKTLASGSDDGTVRLW----DLATGELLRT--- 367

                        250       260       270
                 ....*....|....*....|....*....|....*...
gi 564356495 243 afmvLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWSP 280
Cdd:COG2319  368 ----LTGHTGAVTSVAFSPDGRTLASGSADGTVRLWDL 401
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 13-317 3.19e-23

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: 100.87  E-value: 3.19e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  13 QLKGeHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVF-AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIR 91
Cdd:cd00200    4 TLKG-HTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLkGHTGPVRDVAASA-DGTYLASGSSDKTIRLWDLE 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  92 ESPhgEPFCLANYPSAFHSVMFNPvEPRLLATANSKEGVGLWDIRKPQSsLLRYGGNLSlqSAMSVRFNSNGTQLLA--- 168
Cdd:cd00200   82 TGE--CVRTLTGHTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVETGKC-LTTLRGHTD--WVNSVAFSPDGTFVASssq 155

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 169 ---LRrrlppvLYDIHSRLPVFQFdnqgYFNSCTMKSCCFAGDRDQYILSGSDDfNLYMWkvpaDPEAGGLgrvvngaFM 245
Cdd:cd00200  156 dgtIK------LWDLRTGKCVATL----TGHTGEVNSVAFSPDGEKLLSSSSDG-TIKLW----DLSTGKC-------LG 213

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 564356495 246 VLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWspykqpgctgdlDGRIEDDSRCLYTHEEYISLVLNSGSG 317
Cdd:cd00200  214 TLRGHENGVNSVAFSPDGYLLASGSEDGTIRVW------------DLRTGECVQTLSGHTNSVTSLAWSPDG 273
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 13-279 4.04e-22

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: 97.41  E-value: 4.04e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  13 QLKGeHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVFA-HEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIR 91
Cdd:cd00200   46 TLKG-HTGPVRDVAASADGTYLASGSSDKTIRLWDLETGECVRTLTgHTSYVSSVAFSP-DGRILSSSSRDKTIKVWDVE 123

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  92 ESPhgepfCLANYPSAFHSVM---FNPvEPRLLATAnSKEG-VGLWDIRKPQSSLLRYGGNLSLQSamsVRFNSNGTQLL 167
Cdd:cd00200  124 TGK-----CLTTLRGHTDWVNsvaFSP-DGTFVASS-SQDGtIKLWDLRTGKCVATLTGHTGEVNS---VAFSPDGEKLL 193

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 168 A------LRrrlppvLYDIHSRLPVFQFD-NQGYFNSCtmkscCFAGDRDqYILSGSDDFNLYMWKVpadpeagGLGRVV 240
Cdd:cd00200  194 SsssdgtIK------LWDLSTGKCLGTLRgHENGVNSV-----AFSPDGY-LLASGSEDGTIRVWDL-------RTGECV 254

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 564356495 241 ngafMVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 279
Cdd:cd00200  255 ----QTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
14-280 1.14e-12

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 70.71  E-value: 1.14e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  14 LKGEHHSNIFCLAFNSGNTKVFSGGNDEQVILHDVESSETLDVFAHEDAVYGLSVSPvNDNIFASSSDDGRVLIWDIreS 93
Cdd:COG2319   32 LLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSP-DGRLLASASADGTVRLWDL--A 108

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495  94 PHGEPFCLANYPSAFHSVMFNPVEpRLLATANSKEGVGLWDIR--KPQSSLLRYGGNLSlqsamSVRFNSNGTQLLA--- 168
Cdd:COG2319  109 TGLLLRTLTGHTGAVRSVAFSPDG-KTLASGSADGTVRLWDLAtgKLLRTLTGHSGAVT-----SVAFSPDGKLLASgsd 182

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564356495 169 ---LRrrlppvLYDIHSRLPVFQFdnQGYFNSCTmkSCCFAGDrDQYILSGSDDFNLYMWkvpaDPEAGGLGRvvngafm 245
Cdd:COG2319  183 dgtVR------LWDLATGKLLRTL--TGHTGAVR--SVAFSPD-GKLLASGSADGTVRLW----DLATGKLLR------- 240

                        250       260       270
                 ....*....|....*....|....*....|....*
gi 564356495 246 VLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWSP 280
Cdd:COG2319  241 TLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWDL 275
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 58-89 3.21e-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: 41.53  E-value: 3.21e-05
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564356495    58 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 89
Cdd:smart00320  10 GHTGPVTSVAFSP-DGKYLASGSDDGTIKLWD 40
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 245-279 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: 39.60  E-value: 1.56e-04
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 564356495   245 MVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 279
Cdd:smart00320   6 KTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
PTZ00420 PTZ00420
coronin; Provisional
 204-278 2.18e-04

coronin; Provisional


Pssm-ID: 240412 [Multi-domain]  Cd Length: 568  Bit Score: 44.94  E-value: 2.18e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564356495 204 CFAgdrdQYILSGSDDFNLYMWKVPADPEAGglgRVVNGAFMVLKGHRSIVNQVRFNPHTYMI-CSSGVEKIIKIW 278
Cdd:PTZ00420  85 CFS----EILASGSEDLTIRVWEIPHNDESV---KEIKDPQCILKGHKKKISIIDWNPMNYYImCSSGFDSFVNIW 153
WD40 pfam00400
WD domain, G-beta repeat;
58-89 2.26e-04

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 39.25  E-value: 2.26e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 564356495   58 AHEDAVYGLSVSPvNDNIFASSSDDGRVLIWD 89
Cdd:pfam00400   9 GHTGSVTSLAFSP-DGKLLASGSDDGTVKVWD 39
WD40 pfam00400
WD domain, G-beta repeat;
245-279 1.37e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 1.37e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 564356495  245 MVLKGHRSIVNQVRFNPHTYMICSSGVEKIIKIWS 279
Cdd:pfam00400   5 KTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
8prop_hemeD1_NirF cd20778
eight-bladed heme d1-binding beta-propeller domain in cytochrome cd1 nitrate reductase NirF; ...
 35-93 8.21e-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: 8.21e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 564356495  35 FSGGNDE--QVIlhDVESSETLDVFAHEDAVYGLSVSPVNDNIFASSSDDGRVLIWDIRES 93
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.
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