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Conserved domains on  [gi|295391943|ref|NP_795914|]
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NACHT domain- and WD repeat-containing protein 1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
WD40 super family cl29593
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 860-1156 7.09e-28

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.


The actual alignment was detected with superfamily member cd00200:

Pssm-ID: 475233 [Multi-domain]  Cd Length: 289  Bit Score: 115.12  E-value: 7.09e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  860 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 939
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  940 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 1018
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1019 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 1095
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295391943 1096 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWD 1156
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
1051-1420 1.15e-25

WD40 repeat [General function prediction only];


:

Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 111.54  E-value: 1.15e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1051 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 1126
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1127 HEDMVETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEE 1206
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLAS--GSDDGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1207 QDCLD-TSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLD 1284
Cdd:COG2319   197 LRTLTgHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGS--VRSVAFSPDGRLLASGsADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1285 ISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAV 1362
Cdd:COG2319   275 LATGELLRTLTGHS--------GGVNSVAFSPDgKLLASGSDDGTVRLWDLATGKlLRTLTGHTGAVRSVAFSPDGKTLA 346

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 295391943 1363 SGAEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHVFAGMEDRSVTAWST 1420
Cdd:COG2319   347 SGSDDGTVRLWDLATGELLRTLTGHTG---AVTSVAFSPDGRTLASGSADGTVRLWDL 401
ExeA super family cl30749
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 315-421 1.76e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


The actual alignment was detected with superfamily member COG3267:

Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  315 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 394
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 295391943  395 CLAYGLPLPPAQVLEAHSRVGHFFHTL 421
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 860-1156 7.09e-28

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: 115.12  E-value: 7.09e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  860 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 939
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  940 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 1018
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1019 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 1095
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295391943 1096 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWD 1156
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
854-1159 2.30e-27

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 116.55  E-value: 2.30e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  854 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 933
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  934 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGAR---------INMWNLETSKLVFCITGDVSDPW- 1003
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLlasgsadgtVRLWDLATGKLLRTLTGHSGSVRs 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1004 ----------VCVallaaqglllalSKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVS 1073
Cdd:COG2319   252 vafspdgrllASG------------SADGTVRLWDLATGEL--LRTLTGHSGGVNSVAFSPDGK-LLASGSDDGTVRLWD 316

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1074 AGEDRLLEKLP---EAVGFLVVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSR 1148
Cdd:COG2319   317 LATGKLLRTLTghtGAVRSVAFSPDGKTLAsGSDDGTVRLWdLATGELLRTLTG----HTGAVTSVAFSPDGRTLASGSA 392

                         330
                  ....*....|.
gi 295391943 1149 DALIQVWDLKS 1159
Cdd:COG2319   393 DGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
1051-1420 1.15e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 111.54  E-value: 1.15e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1051 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 1126
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1127 HEDMVETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEE 1206
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLAS--GSDDGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1207 QDCLD-TSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLD 1284
Cdd:COG2319   197 LRTLTgHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGS--VRSVAFSPDGRLLASGsADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1285 ISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAV 1362
Cdd:COG2319   275 LATGELLRTLTGHS--------GGVNSVAFSPDgKLLASGSDDGTVRLWDLATGKlLRTLTGHTGAVRSVAFSPDGKTLA 346

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 295391943 1363 SGAEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHVFAGMEDRSVTAWST 1420
Cdd:COG2319   347 SGSDDGTVRLWDLATGELLRTLTGHTG---AVTSVAFSPDGRTLASGSADGTVRLWDL 401
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1138-1419 3.14e-21

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 95.86  E-value: 3.14e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1138 PENNLIITGSRDALIQVWDLKSTKKLQSPT-PFLDRTGLAAVSHHGSFVyfpKVGDKNKVTIWDLAEGEeqdCLDT---- 1212
Cdd:cd00200    19 PDGKLLATGSGDGTIKVWDLETGELLRTLKgHTGPVRDVAASADGTYLA---SGSSDKTIRLWDLETGE---CVRTltgh 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1213 SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPC 1291
Cdd:cd00200    93 TSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTD--WVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCV 170

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1292 PAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSKVF-PLEAHGSRVSCVEVSHSEQLAVSGAEDAL 1369
Cdd:cd00200   171 ATLTGHT--------GEVNSVAFSPDgEKLLSSSSDGTIKLWDLSTGKCLgTLRGHENGVNSVAFSPDGYLLASGSEDGT 242

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 295391943 1370 LCLWDLQACRGMFEMS-YENSccrgVRCACFSRDDKHVFAGMEDRSVTAWS 1419
Cdd:cd00200   243 IRVWDLRTGECVQTLSgHTNS----VTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 901-938 1.06e-06

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: 46.54  E-value: 1.06e-06
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 295391943    901 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 938
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
901-938 1.11e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.49  E-value: 1.11e-05
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 295391943   901 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 938
Cdd:pfam00400    2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 315-421 1.76e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  315 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 394
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 295391943  395 CLAYGLPLPPAQVLEAHSRVGHFFHTL 421
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 315-361 6.90e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 41.75  E-value: 6.90e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 295391943  315 GHQELLAQLRQQLRQDESRthtPLVLFGPPGIGKTSLMCKLAQQVPE 361
Cdd:cd00009     2 GQEEAIEALREALELPPPK---NLLLYGPPGTGKTTLARAIANELFR 45
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 313-351 7.18e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 44.14  E-value: 7.18e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 295391943  313 FCGHQELLAQLRQQLRQdESRTHTPLVLFGPPGIGKTSL 351
Cdd:NF040586    8 FTGREELLERLRDQLRS-GGAAVVPQALHGLGGVGKTQL 45
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1337-1374 1.97e-03

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: 37.29  E-value: 1.97e-03
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 295391943   1337 SKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1374
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
NACHT pfam05729
NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in ...
 337-504 2.06e-03

NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.


Pssm-ID: 428606 [Multi-domain]  Cd Length: 166  Bit Score: 40.75  E-value: 2.06e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943   337 PLVLFGPPGIGKTSLMCKLAQ--QVPELLGHKTVVVLRLLGTSKLSLDARSlLRSLSFQVCLAYGLPLPP--AQVLEAHS 412
Cdd:pfam05729    2 TVILQGEAGSGKTTLLQKLALlwAQGKLPQGFDFVFFLPCRELSRSGNARS-LADLLFSQWPEPAAPVSEvwAVILELPE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943   413 RVGHFFHTLLHTVSQRNFESLVLLLDSVDDldsichsprvSWLPLKCPPRVHLILSTCSGQqvLHNLQQTLKDPsTYWEV 492
Cdd:pfam05729   81 RLLLILDGLDELVSDLGQLDGPCPVLTLLS----------SLLRKKLLPGASLLLTVRPDA--LRDLRRGLEEP-RYLEV 147

                          170
                   ....*....|..
gi 295391943   493 KALSGSQGQEFI 504
Cdd:pfam05729  148 RGFSESDRKQYV 159
WD40 pfam00400
WD domain, G-beta repeat;
1342-1374 2.36e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.36e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 295391943  1342 LEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1374
Cdd:pfam00400    7 LEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 313-351 6.18e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.36  E-value: 6.18e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 295391943   313 FCGHQELLAQLRQQLRQDESRTHTP--LVLFGPPGIGKTSL 351
Cdd:TIGR00635    6 FIGQEKVKEQLQLFIEAAKMRQEALdhLLLYGPPGLGKTTL 46
 
Name Accession Description Interval E-value
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 860-1156 7.09e-28

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: 115.12  E-value: 7.09e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  860 LRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWSl 939
Cdd:cd00200     1 LRRTLKGHTGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASGSSDKTIRLWD- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  940 LSGQEKVTILDGGSQNPTepqSWDLHVDERnnVVYSTSGAR-INMWNLETSKLVFCITGdVSDPWVCVALLAAQGLLLAL 1018
Cdd:cd00200    80 LETGECVRTLTGHTSYVS---SVAFSPDGR--ILSSSSRDKtIKVWDVETGKCLTTLRG-HTDWVNSVAFSPDGTFVASS 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1019 SKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSiQSRARLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVSED 1095
Cdd:cd00200   154 SQDGTIKLWDLRTGKC--VATLTGHTGEVNSVAFS-PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRgheNGVNSVAFSPD 230

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 295391943 1096 DSLLVAG-FGRFVRIFlaDSQGFhRFMASDLEHEDMVETAVLGPENNLIITGSRDALIQVWD 1156
Cdd:cd00200   231 GYLLASGsEDGTIRVW--DLRTG-ECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
854-1159 2.30e-27

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 116.55  E-value: 2.30e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  854 QPPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHT 933
Cdd:COG2319   106 DLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLASGSDDGT 185

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  934 LRLWSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGAR---------INMWNLETSKLVFCITGDVSDPW- 1003
Cdd:COG2319   186 VRLWDLATGKL-LRTLTG-------------HTGAVRSVAFSPDGKLlasgsadgtVRLWDLATGKLLRTLTGHSGSVRs 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1004 ----------VCVallaaqglllalSKGGQVSLWSSAMGKLqeKHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVS 1073
Cdd:COG2319   252 vafspdgrllASG------------SADGTVRLWDLATGEL--LRTLTGHSGGVNSVAFSPDGK-LLASGSDDGTVRLWD 316

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1074 AGEDRLLEKLP---EAVGFLVVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSR 1148
Cdd:COG2319   317 LATGKLLRTLTghtGAVRSVAFSPDGKTLAsGSDDGTVRLWdLATGELLRTLTG----HTGAVTSVAFSPDGRTLASGSA 392

                         330
                  ....*....|.
gi 295391943 1149 DALIQVWDLKS 1159
Cdd:COG2319   393 DGTVRLWDLAT 403
WD40 COG2319
WD40 repeat [General function prediction only];
857-1231 1.43e-26

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 114.24  E-value: 1.43e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  857 GGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRL 936
Cdd:COG2319    67 AGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLASGSADGTVRL 146

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  937 WSLLSGQEkVTILDGgsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqglll 1016
Cdd:COG2319   147 WDLATGKL-LRTLTG-------------HSGAVTSVAFSPDGKLL-------------ASG------------------- 180

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1017 alSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVS 1093
Cdd:COG2319   181 --SDDGTVRLWDLATGKLL--RTLTGHTGAVRSVAFSPDGK-LLASGSADGTVRLWDLATGKLLRTLTghsGSVRSVAFS 255

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1094 EDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMVETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLD 1171
Cdd:COG2319   256 PDGRLLAsGSADGTVRLWdLATGELLRTLTG----HSGGVNSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTG 331

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 295391943 1172 RTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLDT-SNEVRCLEVAEQAKLLFTG 1231
Cdd:COG2319   332 AVRSVAFSPDGKTLAS--GSDDGTVRLWDLATGELLRTLTGhTGAVTSVAFSPDGRTLASG 390
WD40 COG2319
WD40 repeat [General function prediction only];
1051-1420 1.15e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 111.54  E-value: 1.15e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1051 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPE---AVGFLVVSEDDSLLV-AGFGRFVRIFLADSQGFHRFMAsdlE 1126
Cdd:COG2319    42 LAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGhtaAVLSVAFSPDGRLLAsASADGTVRLWDLATGLLLRTLT---G 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1127 HEDMVETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEE 1206
Cdd:COG2319   119 HTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLRTLTGHSGAVTSVAFSPDGKLLAS--GSDDGTVRLWDLATGKL 196

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1207 QDCLD-TSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLD 1284
Cdd:COG2319   197 LRTLTgHTGAVRSVAFSPDGKLLASGSADGTVRLWDLATGKLLRTLTGHSGS--VRSVAFSPDGRLLASGsADGTVRLWD 274

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1285 ISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAV 1362
Cdd:COG2319   275 LATGELLRTLTGHS--------GGVNSVAFSPDgKLLASGSDDGTVRLWDLATGKlLRTLTGHTGAVRSVAFSPDGKTLA 346

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 295391943 1363 SGAEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHVFAGMEDRSVTAWST 1420
Cdd:COG2319   347 SGSDDGTVRLWDLATGELLRTLTGHTG---AVTSVAFSPDGRTLASGSADGTVRLWDL 401
WD40 COG2319
WD40 repeat [General function prediction only];
1051-1432 4.30e-25

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 109.62  E-value: 4.30e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1051 AVSIQSRARLVAGFSSGSIALVSAGEDRLLEKLPEAVGFLVVSEDDSLLVAGFGRFVRIFLADSQGFHRfmASDLEHEDM 1130
Cdd:COG2319     3 SADGAALAAASADLALALLAAALGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALL--ATLLGHTAA 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1131 VETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCL 1210
Cdd:COG2319    81 VLSVAFSPDGRLLASASADGTVRLWDLATGLLLRTLTGHTGAVRSVAFSPDGKTLAS--GSADGTVRLWDLATGKLLRTL 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1211 DT-SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPG 1288
Cdd:COG2319   159 TGhSGAVTSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGA--VRSVAFSPDGKLLASGsADGTVRLWDLATG 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1289 DPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAE 1366
Cdd:COG2319   237 KLLRTLTGHS--------GSVRSVAFSPDgRLLASGSADGTVRLWDLATGElLRTLTGHSGGVNSVAFSPDGKLLASGSD 308

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 295391943 1367 DALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHVFAGMEDRSVTAWSTVDGTLLAVQFVH 1432
Cdd:COG2319   309 DGTVRLWDLATGKLLRTLTGHTG---AVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTLTGH 371
WD40 COG2319
WD40 repeat [General function prediction only];
857-1286 7.41e-24

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 106.15  E-value: 7.41e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  857 GGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRL 936
Cdd:COG2319    25 LGALLLLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHTAAVLSVAFSPDGRLLASASADGTVRL 104

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  937 WSLLSGQEKVTILDggsqnptepqswdlHVDERNNVVYSTSGARInmwnletsklvfcITGdvsdpwvcvallaaqglll 1016
Cdd:COG2319   105 WDLATGLLLRTLTG--------------HTGAVRSVAFSPDGKTL-------------ASG------------------- 138

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1017 alSKGGQVSLWSSAMGKLQekHQLSSIKEETPTCAVSIQSRaRLVAGFSSGSIALVSAGEDRLLEKLP---EAVGFLVVS 1093
Cdd:COG2319   139 --SADGTVRLWDLATGKLL--RTLTGHSGAVTSVAFSPDGK-LLASGSDDGTVRLWDLATGKLLRTLTghtGAVRSVAFS 213

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1094 EDDSLLV-AGFGRFVRIFLADSQGFHRFMASdleHEDMVETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLDR 1172
Cdd:COG2319   214 PDGKLLAsGSADGTVRLWDLATGKLLRTLTG---HSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGG 290

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1173 TGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLD-TSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCI 1251
Cdd:COG2319   291 VNSVAFSPDGKLLAS--GSDDGTVRLWDLATGKLLRTLTgHTGAVRSVAFSPDGKTLASGSDDGTVRLWDLATGELLRTL 368

                         410       420       430
                  ....*....|....*....|....*....|....*.
gi 295391943 1252 PPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDIS 1286
Cdd:COG2319   369 TGHTG--AVTSVAFSPDGRTLASGsADGTVRLWDLA 402
WD40 COG2319
WD40 repeat [General function prediction only];
1057-1376 1.13e-22

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 102.30  E-value: 1.13e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1057 RARLVAGFSSGSIAL---VSAGEDRLLEKLPEAVGFLVVSEDDSLLV-AGFGRFVRIF-LADSQGFHRFMAsdleHEDMV 1131
Cdd:COG2319    90 GRLLASASADGTVRLwdlATGLLLRTLTGHTGAVRSVAFSPDGKTLAsGSADGTVRLWdLATGKLLRTLTG----HSGAV 165

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1132 ETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFLDRTGLAAVSHHGSFVYFpkVGDKNKVTIWDLAEGEEQDCLD 1211
Cdd:COG2319   166 TSVAFSPDGKLLASGSDDGTVRLWDLATGKLLRTLTGHTGAVRSVAFSPDGKLLAS--GSADGTVRLWDLATGKLLRTLT 243

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1212 T-SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEARkaVNCMSLSKSENRLAIA-YDNIVLVLDISPGD 1289
Cdd:COG2319   244 GhSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSGG--VNSVAFSPDGKLLASGsDDGTVRLWDLATGK 321

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1290 PCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAED 1367
Cdd:COG2319   322 LLRTLTGHT--------GAVRSVAFSPDgKTLASGSDDGTVRLWDLATGElLRTLTGHTGAVTSVAFSPDGRTLASGSAD 393


                  ....*....
gi 295391943 1368 ALLCLWDLQ 1376
Cdd:COG2319   394 GTVRLWDLA 402
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1138-1419 3.14e-21

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


Pssm-ID: 238121 [Multi-domain]  Cd Length: 289  Bit Score: 95.86  E-value: 3.14e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1138 PENNLIITGSRDALIQVWDLKSTKKLQSPT-PFLDRTGLAAVSHHGSFVyfpKVGDKNKVTIWDLAEGEeqdCLDT---- 1212
Cdd:cd00200    19 PDGKLLATGSGDGTIKVWDLETGELLRTLKgHTGPVRDVAASADGTYLA---SGSSDKTIRLWDLETGE---CVRTltgh 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1213 SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPC 1291
Cdd:cd00200    93 TSYVSSVAFSPDGRILSSSSRDKTIKVWDVETGKCLTTLRGHTD--WVNSVAFSPDGTFVASSsQDGTIKLWDLRTGKCV 170

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1292 PAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDGSLFLYDCACSKVF-PLEAHGSRVSCVEVSHSEQLAVSGAEDAL 1369
Cdd:cd00200   171 ATLTGHT--------GEVNSVAFSPDgEKLLSSSSDGTIKLWDLSTGKCLgTLRGHENGVNSVAFSPDGYLLASGSEDGT 242

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|.
gi 295391943 1370 LCLWDLQACRGMFEMS-YENSccrgVRCACFSRDDKHVFAGMEDRSVTAWS 1419
Cdd:cd00200   243 IRVWDLRTGECVQTLSgHTNS----VTSLAWSPDGKRLASGSADGTIRIWD 289
WD40 COG2319
WD40 repeat [General function prediction only];
1091-1428 3.93e-21

WD40 repeat [General function prediction only];


Pssm-ID: 441893 [Multi-domain]  Cd Length: 403  Bit Score: 97.67  E-value: 3.93e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1091 VVSEDDSLLVAGFGRFVRIFLADSQGFHRfmASDLEHEDMVETAVLGPENNLIITGSRDALIQVWDLKSTKKLQSPTPFL 1170
Cdd:COG2319     1 ALSADGAALAAASADLALALLAAALGALL--LLLLGLAAAVASLAASPDGARLAAGAGDLTLLLLDAAAGALLATLLGHT 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1171 DRTGLAAVSHHGSfvYFPKVGDKNKVTIWDLAEGEEQDCL-DTSNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVL 1249
Cdd:COG2319    79 AAVLSVAFSPDGR--LLASASADGTVRLWDLATGLLLRTLtGHTGAVRSVAFSPDGKTLASGSADGTVRLWDLATGKLLR 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1250 CIPPPEArkAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPCPAIEGPTytfytqlpETIVSVAVLAD-YRVVYGMSDG 1327
Cdd:COG2319   157 TLTGHSG--AVTSVAFSPDGKLLASGsDDGTVRLWDLATGKLLRTLTGHT--------GAVRSVAFSPDgKLLASGSADG 226

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1328 SLFLYDCA-CSKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQACRGMFEMSYENSccrGVRCACFSRDDKHV 1406
Cdd:COG2319   227 TVRLWDLAtGKLLRTLTGHSGSVRSVAFSPDGRLLASGSADGTVRLWDLATGELLRTLTGHSG---GVNSVAFSPDGKLL 303

                         330       340
                  ....*....|....*....|..
gi 295391943 1407 FAGMEDRSVTAWSTVDGTLLAV 1428
Cdd:COG2319   304 ASGSDDGTVRLWDLATGKLLRT 325
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 858-997 7.70e-18

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: 85.85  E-value: 7.70e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  858 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLW 937
Cdd:cd00200   125 GKCLTTLRGHTDWVNSVAFSPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSSSDGTIKLW 204

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 295391943  938 SLLSGQEKVTIldGGSQNPtepqSWDLHVDERNNVVYSTSGAR-INMWNLETSKLVFCITG 997
Cdd:cd00200   205 DLSTGKCLGTL--RGHENG----VNSVAFSPDGYLLASGSEDGtIRVWDLRTGECVQTLSG 259
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 855-938 2.10e-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: 75.45  E-value: 2.10e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  855 PPGGPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTL 934
Cdd:cd00200   206 LSTGKCLGTLRGHENGVNSVAFSPDGYLLASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASGSADGTI 285


                  ....
gi 295391943  935 RLWS 938
Cdd:cd00200   286 RIWD 289
WD40 cd00200
WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions ...
 1213-1432 1.36e-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: 1.36e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1213 SNEVRCLEVAEQAKLLFTGLVSGIVLVFPLNSRQDVLCIPppEARKAVNCMSLSKSENRLAIA-YDNIVLVLDISPGDPC 1291
Cdd:cd00200     9 TGGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLK--GHTGPVRDVAASADGTYLASGsSDKTIRLWDLETGECV 86

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1292 PAIEGPTytfytqlpETIVSVAVLADYRVVYG-MSDGSLFLYDCACSK-VFPLEAHGSRVSCVEVSHSEQLAVSGAEDAL 1369
Cdd:cd00200    87 RTLTGHT--------SYVSSVAFSPDGRILSSsSRDKTIKVWDVETGKcLTTLRGHTDWVNSVAFSPDGTFVASSSQDGT 158

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 295391943 1370 LCLWDLQA--CRGMFEMSYENsccrgVRCACFSRDDKHVFAGMEDRSVTAWSTVDGTLLAVQFVH 1432
Cdd:cd00200   159 IKLWDLRTgkCVATLTGHTGE-----VNSVAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH 218
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 901-938 1.06e-06

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: 46.54  E-value: 1.06e-06
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 295391943    901 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 938
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
WD40 pfam00400
WD domain, G-beta repeat;
901-938 1.11e-05

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 43.49  E-value: 1.11e-05
                           10        20        30
                   ....*....|....*....|....*....|....*...
gi 295391943   901 QVVHVLMGHTAEVKCVRVFAQGTLAISASKDHTLRLWS 938
Cdd:pfam00400    2 KLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 315-421 1.76e-04

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 45.16  E-value: 1.76e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943  315 GHQELLAQLRQQLRQDESrthtPLVLFGPPGIGKTSLMCKLAQQVPEllghkTVVVLRLLGTsklSLDARSLLRslsfQV 394
Cdd:COG3267    27 SHREALARLEYALAQGGG----FVVLTGEVGTGKTTLLRRLLERLPD-----DVKVAYIPNP---QLSPAELLR----AI 90

                          90       100
                  ....*....|....*....|....*..
gi 295391943  395 CLAYGLPLPPAQVLEAHSRVGHFFHTL 421
Cdd:COG3267    91 ADELGLEPKGASKADLLRQLQEFLLEL 117
WDR74 cd22857
WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and ...
 1254-1376 1.78e-04

WD repeat-containing protein 74; WDR74 (WD repeat-containing protein 74) from mammals and plants is an essential factor for ribosome assembly. In cooperation with the assembly factor NVL2, WDR74 participates in an early cleavage of the pre-rRNA processing pathway. NVL2 is a type II double ring, AAA-ATPase, that may mediate the release of WDR74 from nucleolar pre-60S particles. WDR74 has been implicated in tumorigenesis. In lung cancer, it regulates cell proliferation, cell cycle progression, chemoresistance and cell aggressiveness, by inducing nuclear beta-catenin accumulation and driving downstream Wnt-responsive genes expression. In melanoma, it promotes apoptosis resistance and aggressive behavior by regulating the RPL5-MDM2-p53 pathway. WDR74 contains an N-terminal seven-bladed beta-propeller WD40 domain that associates with the D1-AAA domain of the AAA-ATPase NVL2, and a flexible lysine-rich C-terminus that extends outward from the WD40 domain, and is required for nucleolar localization.


Pssm-ID: 439303 [Multi-domain]  Cd Length: 325  Bit Score: 45.30  E-value: 1.78e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943 1254 PEARKAVNCMSLS--KSENRLAIAY-DNIVLVLDISPGDPCPAIEGPTYTFYTQLPETIVSVAVLAdyRVVYGMSD-GSL 1329
Cdd:cd22857    27 PDKSKAVQALSIAdrESEPLLAVARkNGTVEVLDPENGDLLASFSDSEPATKLSEEDHFVGLHLFS--GTLLTCTSkGSL 104

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 295391943 1330 FLY-----DCACSKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWDLQ 1376
Cdd:cd22857   105 RSTklpddSTASSSPTAWVCLGGNLLCMRVDPNENYFAFGGKEVELNVWDLE 156
ANAPC4_WD40 pfam12894
Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped ...
 871-916 3.07e-04

Anaphase-promoting complex subunit 4 WD40 domain; Apc4 contains an N-terminal propeller-shaped WD40 domain.The N-terminus of Afi1 serves to stabilize the union between Apc4 and Apc5, both of which lie towards the bottom-front of the APC,


Pssm-ID: 403945 [Multi-domain]  Cd Length: 91  Bit Score: 41.11  E-value: 3.07e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 295391943   871 ITAIAWSLEEKLLVVGTQDGAMVVWDVEEQQVVHVLMGHTAEVKCV 916
Cdd:pfam12894   41 VTSLAWRPDGKLLAVGYSDGTVRLLDAENGKIVHHFSAGSDLITCL 86
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 315-361 6.90e-04

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 41.75  E-value: 6.90e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 295391943  315 GHQELLAQLRQQLRQDESRthtPLVLFGPPGIGKTSLMCKLAQQVPE 361
Cdd:cd00009     2 GQEEAIEALREALELPPPK---NLLLYGPPGTGKTTLARAIANELFR 45
FxSxx_TPR NF040586
FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about ...
 313-351 7.18e-04

FxSxx-COOH system tetratricopeptide repeat protein; Members of this family are typically about 850 amino acids long, or 1300 long because of an additional N-terminal domain. Proteins have a P-loop motif, GxGGxGKT, near the N-terminus of the region covered by this HMM, and a region over 400 residues long of tetratricopeptide repeat sequence. The family is found regularly next to other components of FxSxx-COOH systems, which feature an FxsB family radical SAM protein and a protein modified by it, FxsA. Members of this FxsA family typically have an FxSxx motif as the final five amino acids.


Pssm-ID: 468560 [Multi-domain]  Cd Length: 836  Bit Score: 44.14  E-value: 7.18e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 295391943  313 FCGHQELLAQLRQQLRQdESRTHTPLVLFGPPGIGKTSL 351
Cdd:NF040586    8 FTGREELLERLRDQLRS-GGAAVVPQALHGLGGVGKTQL 45
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 1337-1374 1.97e-03

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: 37.29  E-value: 1.97e-03
                            10        20        30
                    ....*....|....*....|....*....|....*...
gi 295391943   1337 SKVFPLEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1374
Cdd:smart00320    3 ELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
NACHT pfam05729
NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in ...
 337-504 2.06e-03

NACHT domain; This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931.


Pssm-ID: 428606 [Multi-domain]  Cd Length: 166  Bit Score: 40.75  E-value: 2.06e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943   337 PLVLFGPPGIGKTSLMCKLAQ--QVPELLGHKTVVVLRLLGTSKLSLDARSlLRSLSFQVCLAYGLPLPP--AQVLEAHS 412
Cdd:pfam05729    2 TVILQGEAGSGKTTLLQKLALlwAQGKLPQGFDFVFFLPCRELSRSGNARS-LADLLFSQWPEPAAPVSEvwAVILELPE 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 295391943   413 RVGHFFHTLLHTVSQRNFESLVLLLDSVDDldsichsprvSWLPLKCPPRVHLILSTCSGQqvLHNLQQTLKDPsTYWEV 492
Cdd:pfam05729   81 RLLLILDGLDELVSDLGQLDGPCPVLTLLS----------SLLRKKLLPGASLLLTVRPDA--LRDLRRGLEEP-RYLEV 147

                          170
                   ....*....|..
gi 295391943   493 KALSGSQGQEFI 504
Cdd:pfam05729  148 RGFSESDRKQYV 159
WD40 pfam00400
WD domain, G-beta repeat;
1342-1374 2.36e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.36e-03
                           10        20        30
                   ....*....|....*....|....*....|...
gi 295391943  1342 LEAHGSRVSCVEVSHSEQLAVSGAEDALLCLWD 1374
Cdd:pfam00400    7 LEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 pfam00400
WD domain, G-beta repeat;
858-896 2.87e-03

WD domain, G-beta repeat;


Pssm-ID: 459801 [Multi-domain]  Cd Length: 39  Bit Score: 36.94  E-value: 2.87e-03
                           10        20        30
                   ....*....|....*....|....*....|....*....
gi 295391943   858 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWD 896
Cdd:pfam00400    1 GKLLKTLEGHTGSVTSLAFSPDGKLLASGSDDGTVKVWD 39
WD40 smart00320
WD40 repeats; Note that these repeats are permuted with respect to the structural repeats ...
 858-896 4.64e-03

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: 36.14  E-value: 4.64e-03
                            10        20        30
                    ....*....|....*....|....*....|....*....
gi 295391943    858 GPLRATLTGCHKGITAIAWSLEEKLLVVGTQDGAMVVWD 896
Cdd:smart00320    2 GELLKTLKGHTGPVTSVAFSPDGKYLASGSDDGTIKLWD 40
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 313-351 6.18e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.36  E-value: 6.18e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|.
gi 295391943   313 FCGHQELLAQLRQQLRQDESRTHTP--LVLFGPPGIGKTSL 351
Cdd:TIGR00635    6 FIGQEKVKEQLQLFIEAAKMRQEALdhLLLYGPPGLGKTTL 46
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
316-366 7.38e-03

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 40.34  E-value: 7.38e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 295391943  316 HQELLAQLRQQLRQDesRTHTPLVLFGPPGIGKTSLMCKLAQqvpELLGHK 366
Cdd:COG0470     1 QEEAWEQLLAAAESG--RLPHALLLHGPPGIGKTTLALALAR---DLLCEN 46
 
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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