Conserved Protein Domain Family
Cas9_PI

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pfam16595: Cas9_PI 
PAM-interacting domain of CRISPR-associated endonuclease Cas9
Cas9_PI is a family found at the C-terminal of bacterial type II CRISPR system Cas9 endonuclease. This domain adopts a novel protein fold that is unique to the Cas9 family. It is positioned in the structure-DNA-complex to recognise the PAM sequence on the non-complementary DNA strand of the crRNA. PAM sequence is protospacer-adjacent motifs on DNA. See family CRISPR-DR2, Rfam:RF01315. Cas9 carries two nuclease domains, HNH and RuvC, which cleave the DNA strands that are complementary and non-complementary to the 20 nucleotide guide sequence in crRNAs, respectively.
Statistics
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PSSM-Id: 435449
Aligned: 23 rows
Threshold Bit Score: 176.358
Created: 17-Feb-2025
Updated: 28-Apr-2025
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Q73QW6        1095 KGELFNQTIM--------KKGLGQHPLKKEGPFSNISKYGGYNKVSAAYYTLIEYE-EKGNKIRS-----LETIPLYLVK 1160 Treponema de...
CDB03125      1107 KGELFNATIAk-------KDGGAEIPLKA---GLQTGKYGGYKSPNTSYFAAIEFDgKKGERVKN-----IMEVPVYIAN 1171
WP_014262094  1097 KGELFNATIQn-------KNGNSTVSLKK---GLDVKKYGGYFSANTSYFSLIEFEdKKGDRARH-----IIGVPIYIAN 1161 Filifactor a...
WP_007746220  1122 KGQLYDESRYpsv--lhdAKSKASINFDK---HKPVDLYGGFSSAKPAYAALIKFKnK------------FRLVNVLRQW 1184 Oenococcus k...
WP_014940461  1085 rGAMFNQTVYpa----sdAGKRKLIPVKA---DRPVNVYGGYSGSADAYMAIVRIHnKKGDKYR------VVGVPMRALD 1151 Lentilactoba...
WP_014082128  1084 HGALFKQTLYpsp--ahdIKKRQLIKPKD---NRPTDIYGGYTHEERKYMSLVKVIgKKDNEYR------MANVPLL--- 1149 Fructilactob...
WP_013252099  1138 ggrywGETIYsp-----kGKHKHEIPLKQ---GLDPNLYGGYSDLLYSYFLIYEASdVSSGERVLr----FIGIPTSIAA 1205 Olsenella uli
12_pfamImport    1 TGEFYKQTINakpe-kgkENNTKLLPIKK---GLSVEKYGGYQGGEAAYSCLVRYQqGRKTKLS------LEKISVIIAK 70  
Q8DTE3        1081 TGGFSKESILp------kGNSDKLIPRKTKKFYWDTKKYGGFDSPIVAYSILVIADiEKGKSKKLktvkaLVGVTIMEKM 1154 Streptococcu...
11_pfamImport    1 SGQMFNLTVLpndahspkGTTEAVIPVNK--NRKDVNKYGGFSGLQ---YVIVAIEgKKKRGKKTklvkkISGVPLHLKA 75  
Q73QW6        1161 DIQ-----KDQDv---LKSYL-----TDLLg---------KKEFKILVPKIKINSLLK-INGFPCHITGKT--NDSflLR 1215 Treponema de...
CDB03125      1172 ILL-----HDIDa---YIRYC-----ETVKg---------LKNVKILRPCIKKNALIS-VDGYPMRIRGANekNIL--LK 1226
WP_014262094  1162 MLE-----HSPSa---FLEYC-----EQKG----------YQNVRILVEKIKKNSLLI-INGYPLRIRGENevDTS--FK 1215 Filifactor a...
WP_007746220  1185 TYS-----DKNS-----EDYI-----LEQIrg-------kYPKAEMVLSHIPYGQLVK-KDGALVTISSATe------LH 1235 Oenococcus k...
WP_014940461  1152 RLDaaknvSDADfdraLKDVLapqltKTKKsrktgeitqvIEDFEIVLGKVMYRQLMI-DGDKKFMLGSSTy------QY 1224 Lentilactoba...
WP_014082128  1150 KIN-----KNND----IKEIL-----KSQFs---------NKKFEIVLPKVLKNQLFS-ENGALFVIGSKGy------KY 1199 Fructilactob...
WP_013252099  1206 RMA-----NQKR----LEEYV-----SRLAlq------enLEHVRMV-RKIMKKQLIE-VDNCRLLVTAADa------VT 1257 Olsenella uli
12_pfamImport   71 KIA-----EKEVs---LDRYL-----KEKLg---------VEEIVILRKKVMKNQLIEdSDGNRFYLTAATe------VV 122 
Q8DTE3        1155 TFE-----RDPV------AFL-----ERKGyr-------nVQEENII--KLPKYSLFKlENGRKRLLASARe------LQ 1203 Streptococcu...
11_pfamImport   76 ASL-----DEKI------KYI-----EEKEn---------LTDVKIIKDSIPVNQMIE-MDGGEYLLTSPIe------FV 123 
Q73QW6        1216 PAVQFCCSNNEVLYFKKIirfseirsqrekigktispyedlsfrsyikenlwKKTKNDEIGEKEFYDl--lQKKNLEIYD 1293 Treponema de...
CDB03125      1227 NNLQPIFG-RHEETVRRIeky-----------------------------veKNQEFEVDEKFDGLN----EANLTDLYD 1272
WP_014262094  1216 RAIQLKLDQKNYELVRNIekfle-------------------------kyveKKGNYPIDENRDHIT----HEKMNQLYE 1266 Filifactor a...
WP_007746220  1236 NFEQLWLPLADYKLINTLlk------------------------------tkEDNLVDILHNRLDLPemtiESAFYKAFD 1285 Oenococcus k...
WP_014940461  1225 NAKQLVLSDQSVKTLA------------------------------------SKGRLDPLQE---------SMDYNNVYT 1259 Lentilactoba...
WP_014082128  1200 NANQLVLSDLDMKLLNDL----------------------------------SNNKSID------------EVTINQLFK 1233 Fructilactob...
WP_013252099  1258 NATELAFSLDEMKIISTCakcin------------------------gadpsAIDKI--------------GNAQDSFFD 1299 Olsenella uli
12_pfamImport  123 NAKQFILDGKHQHLLRTIaimekgey-------------------------------------ygyrldelENSMDELYA 165 
Q8DTE3        1204 KGNEIVLPNHLGTLLYHAk---------------------------------NIHKVDEPKHLDY------VDKHKDEFK 1244 Streptococcu...
11_pfamImport  124 NGRQLVLNEKQCALIADIynaiykqd----------------------------------------cdnlddvlMIQLYI 163 
Q73QW6        1294 MLLTKHKDTIYkKRPNSATIDILVKGK----EKFKSL-I----------IENQFEVILEILKLFSATR-NVSDLQHIGGS 1357 Treponema de...
CDB03125      1273 DITEKLCGPYV--ERPSNQGEYLMENR----EKFLNI-S----------LKEKAKLLAQMIKLVRCDTeTKADLRSIGAS 1335
WP_014262094  1267 VLLSKMKK--FnKKGMADPSDRIEKSK----PKFIKLeD----------LIDKINVINKMLNLLRCDNdTKADLSLIELP 1330 Filifactor a...
WP_007746220  1286 SILS------FaFNRYALHQNALVKLQah-rDDFNAL-N----------YEDKQQTLERILDALHASP-ASSDLKKINLS 1346 Oenococcus k...
WP_014940461  1260 EILDKVNQYFSlYDMNKFRHKLNLGF-----SKFISFpNhnvldgntkvSSGKREILQEILNGLHANP-TFGNLKDVGIT 1333 Lentilactoba...
WP_014082128  1234 NIVDSTNKYMPlYEIKNLNEVV---------EKFNNL-E----------FNDKKKTITDFLLATHANP-TMSNLKNIGLP 1292 Fructilactob...
WP_013252099  1300 NLKRR-------GSDRCALLFSQLKLDkl-sQNFYMI-S----------SDDKSKILISILDRIRAKS-NSVDLSLVGGA 1359 Olsenella uli
12_pfamImport  166 YYRMKIQQQYPaYESIVKKIVESHVYEslhvEEKIKA------------VQEKGKFLIQLLRLTEANA-ECIDLKTISDG 232 
Q8DTE3        1245 ELLDVVSNFSKkYTLAEGNLEKIKELYa--qNNGEDL-------------KELASSFINLLTFTAIGA--PATFKFFDKN 1307 Streptococcu...
11_pfamImport  164 ELINKMKALYPaYQSIAEKFESMT-------EDYVAV-S----------KEEKADIIKQMLIIMHRGP-RNGKIQY-ADF 223 
Q73QW6        1358 KYSGVAKIGNKIS---SLDNCILIYQSITGIFEK 1388 Treponema denticola
CDB03125      1336 KNAGVISVNKNTL---GGKRLILINQSVTGLFEN 1366
WP_014262094  1331 KNAGSFVVKKNTI---GKSKIILVNQSVTGLYEN 1361 Filifactor alocis
WP_007746220  1347 SGFGRLFSPSHFT---LADTDEFIFQSVTGLFST 1377 Oenococcus kitaharae
WP_014940461  1334 TPFGQLQQPNGIL---LSDETKIRYQSPTGLFER 1364 Lentilactobacillus buchneri
WP_014082128  1293 SYFGRFTSGNAGIk--LSENANVIYQSPTGLFSR 1324 Fructilactobacillus sanfranciscensis
WP_013252099  1360 KHAAQMKFDFNAKlnnPASSFVLIDQSVTGMFER 1393 Olsenella uli
12_pfamImport  233 RLADRIGRKNHYT---IKEGIKFIDQSITGLYER 263 
Q8DTE3        1308 IDRKRYTSTTEIL------NATLIHQSITGLYET 1335 Streptococcus mutans UA159
11_pfamImport  224 NVGDRIGRKNKMSl--DLERVTFVSQSPTGIYTK 255 
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