|
Name |
Accession |
Description |
Interval |
E-value |
| Cas3 |
COG1203 |
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ... |
202-734 |
2.86e-87 |
|
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; CRISPR-Cas type I system-associated endonuclease/helicase Cas3 is part of the Pathway/BioSystem: CRISPR-Cas system
Pssm-ID: 440816 [Multi-domain] Cd Length: 535 Bit Score: 288.52 E-value: 2.86e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 202 EGDFTCVEAVFEHIVAIRKETDAQREASFALYALIKLNSSVLTAADYLAThaymtgrqvkeAGIFEDRHRVEEMighlrn 281
Cdd:COG1203 47 LLLAALELALLLLLLLLLLLLLLLLLLDLLLDDLAFLFLLLLIDADWLDS-----------ANFDMARQALDHL------ 109
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 282 ykHNRGIYEQLDKFvfeypqEKSGDHLNRLRTGMAVEVIRTVREhsDDRLFYIEAPTGGGKTNLSMLAVTELMAVHpEIQ 361
Cdd:COG1203 110 --LAERLERLLPKK------SKPRTPINPLQNEALELALEAAEE--EPGLFILTAPTGGGKTEAALLFALRLAAKH-GGR 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 362 KVFYVFPYTTLITQTNQTLKNALGltsTELAELHSKAGFNEKTEEREDGLYADKKQDYIDRLFAlfPVCVMSHVKFFDML 441
Cdd:COG1203 179 RIIYALPFTSIINQTYDRLRDLFG---EDVLLHHSLADLDLLEEEEEYESEARWLKLLKELWDA--PVVVTTIDQLFESL 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 442 KTNRKEANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEhYARFFQVRFILMSATLPKIGKLRipLKERTGFVDLLPQA 521
Cdd:COG1203 254 FSNRKGQERRLHNLANSVIILDEVQAYPPYMLALLLRLLE-WLKNLGGSVILMTATLPPLLREE--LLEAYELIPDEPEE 330
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 522 ksymQNPNFAGRVEFRFELFQEEIDMNDLADFVL-----GKSVeyrdkpgkngtvhtIIEFITKKSAAEFYAFIQEKEPF 596
Cdd:COG1203 331 ----LPEYFRAFVRKRVELKEGPLSDEELAELILealhkGKSV--------------LVIVNTVKDAQELYEALKEKLPD 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 597 fDEVFLLSGTILEPRRREIINELKNPLSRKKNILLITTQVVEAGVDIDMDLGFKNISLIDSDEQLAGRVNRNACKVG-CE 675
Cdd:COG1203 393 -EEVYLLHSRFCPADRSEIEKEIKERLERGKPCILVSTQVVEAGVDIDFDVVIRDLAPLDSLIQRAGRCNRHGRKEEeGN 471
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 753800852 676 VYLFRLDnasvlygkDKRYQMVREQISVGEYERILREKDFGCLYEL------VFEKINWMNEQTY 734
Cdd:COG1203 472 VYVFDPE--------DEGGGYVYDKPLLERTRELLREHDEILPEDKrelieeYYRELYELLPDEL 528
|
|
| Cas3_I |
cd09639 |
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ... |
331-692 |
1.56e-30 |
|
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I
Pssm-ID: 187770 [Multi-domain] Cd Length: 353 Bit Score: 124.08 E-value: 1.56e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 331 LFYIEAPTGGGKTNLSMLAVTELmAVHPEIQKVFYVFPYTTLITQTNQTLKNALGltstELAELHSKAGFNEKTEEREDG 410
Cdd:cd09639 1 LLVIEAPTGYGKTEAALLWALHS-LKSQKADRVIIALPTRATINAMYRRAKEAFG----ETGLYHSSILSSRIKEMGDSE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 411 LYADKKQDYIDRLFALF----PVCVMSHV-KFFDMlktNRKEANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEHYAR 485
Cdd:cd09639 76 EFEHLFPLYIHSNDTLFldpiTVCTIDQVlKSVFG---EFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKD 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 486 FfQVRFILMSATLPKigklriplkertgFVDLLPQAKSYMQNPNFAGRVEFRFELFQEEIDMNDLADFVLGKSVEYRDKP 565
Cdd:cd09639 153 N-DVPILLMSATLPK-------------FLKEYAEKIGYVEENEPLDLKPNERAPFIKIESDKVGEISSLERLLEFIKKG 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 566 GKNgtvhtIIEFITKKSAAEFYAFIQEKEPFFdEVFLLSGTILEPRRREIINELKNPLSRKKNILLITTQVVEAGVDIDM 645
Cdd:cd09639 219 GSV-----AIIVNTVDRAQEFYQQLKEKGPEE-EIMLIHSRFTEKDRAKKEAELLLEFKKSEKFVIVATQVIEASLDISV 292
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|
gi 753800852 646 DLGFKNISLIDSDEQLAGRVNRNACKVGCEVYLFRL---DNASVLYGKDK 692
Cdd:cd09639 293 DVMITELAPIDSLIQRLGRLHRYGEKNGEEVYIITDapdGKGQKPYPYDL 342
|
|
| cas3_core |
TIGR01587 |
CRISPR-associated helicase Cas3; This model represents the highly conserved core region of an ... |
331-680 |
7.48e-28 |
|
CRISPR-associated helicase Cas3; This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Pssm-ID: 273707 [Multi-domain] Cd Length: 359 Bit Score: 116.01 E-value: 7.48e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 331 LFYIEAPTGGGKTNLSMLAVTELMAvHPEIQKVFYVFPYTTLItqtNQTLKNALGLTSTELAELHSKAGFNEKTEEREDG 410
Cdd:TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIK-SQKADRVIIALPTRATI---NAMYRRAKELFGSELVGLHHSSSFSRIKEMGDSE 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 411 LYADKKQDYIDRLFALF----PVCVMSHV-KFFDMlktNRKEANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEHYAR 485
Cdd:TIGR01587 77 EFEHLFPLYIHSNDKLFldpiTVCTIDQVlKSVFG---EFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKD 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 486 FfQVRFILMSATLPKIgklriplkertgFVDLLPQAKSYMQNPNFAGRVEFRFELFQEEIDMND-LADF-VLGKSVEYRD 563
Cdd:TIGR01587 154 N-DVPILLMSATLPKF------------LKEYAEKIGYVEFNEPLDLKEERRFENHRFILIESDkVGEIsSLERLLEFIK 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 564 KPGKNgtvhtIIEFITKKSAAEFYAFIQEKEPFFdEVFLLSGTILEPRRREIINELKNPLSR-KKNILLITTQVVEAGVD 642
Cdd:TIGR01587 221 KGGSI-----AIIVNTVDRAQEFYQQLKEKAPEE-EIILYHSRFTEKDRAKKEAELLREMKKsNEKFVIVATQVIEASLD 294
|
330 340 350 360
....*....|....*....|....*....|....*....|
gi 753800852 643 IDMDLGFKNISLIDSDEQLAGRVNRNACKVGC--EVYLFR 680
Cdd:TIGR01587 295 ISADVMITELAPIDSLIQRLGRLHRYGRKIGEnfEVYIIT 334
|
|
| Cas3''_I |
cd09641 |
CRISPR/Cas system-associated protein Cas3''; CRISPR (Clustered Regularly Interspaced Short ... |
35-255 |
4.23e-14 |
|
CRISPR/Cas system-associated protein Cas3''; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; HD-like nuclease, specifically digesting double-stranded oligonucleotides and preferably cleaving at G:C pairs; signature gene for Type I
Pssm-ID: 193608 [Multi-domain] Cd Length: 200 Bit Score: 71.92 E-value: 4.23e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 35 ESLQEHTAKVVERACWLIgkhglekvvdrliPGIAGKYSENVQEELKRMFMAVFvFHDTGKVNDNFQYSRMLNRLFKHRK 114
Cdd:cd09641 7 QPLLEHLLDVAAWDAELA-------------EEFARKLGLELGLSRELLALAGL-LHDLGKATPAFQKYLRGGKEALREG 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 115 TEILVPaygHSFLSAWLFLAFELDRVWQDPclteeekkmlfvYAFFFAYVIRQHHsGGLGCADEEEFFNSFAGGYEELHT 194
Cdd:cd09641 73 KRKEVR---HSLLGALLLYELLKELGLDEE------------LALLLAYAIAGHH-GGLPDVLLLLDEDDESALKERLEE 136
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 753800852 195 YLTVWGYEGDFTC-VEAVFEHIVAIRKETDAQREASFALYALIKLNSSVLTAADYLATHAYM 255
Cdd:cd09641 137 LDEEKLLLELWEEeLEELLDELLKELLLLLLPELLSFELYLLLRLLFSLLVDADWLASAEFF 198
|
|
| cas3_HD |
TIGR01596 |
CRISPR-associated endonuclease Cas3-HD; CRISPR/Cas systems are widespread, mobile systems for ... |
37-251 |
3.27e-11 |
|
CRISPR-associated endonuclease Cas3-HD; CRISPR/Cas systems are widespread, mobile systems for host defense against invasive elements such as phage. In these systems, Cas3 designates one of the core proteins shared widely by multiple types of CRISPR/Cas system. This model represents an HD-like endonuclease that occurs either separately or as the N-terminal region of Cas3, the helicase-containing CRISPR-associated protein.
Pssm-ID: 273711 [Multi-domain] Cd Length: 176 Bit Score: 62.99 E-value: 3.27e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 37 LQEHTAKVVERAcwligkhglekvvdRLIPGIAGKYSENVQEELKRMFMAVFVFHDTGKVNDNFQysrmlNRLFKHRKTE 116
Cdd:TIGR01596 1 LKEHLLDVAAVA--------------EALPALRPRLAEKLGLELRELLKLAGLLHDLGKASPAFQ-----KKLRKAEERG 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 117 iLVPAYGHSFLSAWLFLAFELDRVWQDPclteeekkmlfvYAFFFAYVIRQHHSGGLGCADEEEffnsfaggYEELHTYL 196
Cdd:TIGR01596 62 -DRGEVRHSTLSAALLYDLLEELGLEEE------------LALLLALAIAGHHGGLIDDDDLEE--------LLELLERE 120
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 753800852 197 TVWGYEGDFTCVEAVFEHIV-AIRKETDAQREASFALYALIKLNSSVLTAADYLAT 251
Cdd:TIGR01596 121 LEEALGELLEELEELLDEVLkALPLRLLLDKEEPIELYLLARLLFGLLVDADWLAS 176
|
|
| DEAD |
pfam00270 |
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ... |
334-500 |
9.70e-08 |
|
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Pssm-ID: 425570 [Multi-domain] Cd Length: 165 Bit Score: 52.63 E-value: 9.70e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 334 IEAPTGGGKTNLSMLAVTELMAVHPEIQKVFYVFPYTTLITQTNQTLKNALGLTSTELAelhskagfnekteeredGLYA 413
Cdd:pfam00270 19 VQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVA-----------------SLLG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 414 DKKQDYIDRLFALFPVCVMSHVKFFDMLKTNRKeanylLHRLanAVVVIDELQTYnpLLWDKMYYLIEHYARF-FQVRFI 492
Cdd:pfam00270 82 GDSRKEQLEKLKGPDILVGTPGRLLDLLQERKL-----LKNL--KLLVLDEAHRL--LDMGFGPDLEEILRRLpKKRQIL 152
|
....*...
gi 753800852 493 LMSATLPK 500
Cdd:pfam00270 153 LLSATLPR 160
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
313-500 |
5.78e-07 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 50.95 E-value: 5.78e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 313 TGMAVEVIRTVREHSDDRLfyIEAPTGGGKTNLSMLAVTELMAVHPEIQkVFYVFPYTTLITQTNQTLKNALGLTSTELA 392
Cdd:smart00487 10 RPYQKEAIEALLSGLRDVI--LAAPTGSGKTLAALLPALEALKRGKGGR-VLVLVPTRELAEQWAEELKKLGPSLGLKVV 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 393 ELHSkagfNEKTEEREDGLYADKkqdyidrlfalFPVCVMSHVKFFDMLKTNRKEANYLlhrlanAVVVIDELQTynpLL 472
Cdd:smart00487 87 GLYG----GDSKREQLRKLESGK-----------TDILVTTPGRLLDLLENDKLSLSNV------DLVILDEAHR---LL 142
|
170 180 190
....*....|....*....|....*....|
gi 753800852 473 WDKMYYLIEHYARFF--QVRFILMSATLPK 500
Cdd:smart00487 143 DGGFGDQLEKLLKLLpkNVQLLLLSATPPE 172
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| Cas3 |
COG1203 |
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; ... |
202-734 |
2.86e-87 |
|
CRISPR-Cas type I system-associated endonuclease/helicase Cas3 [Defense mechanisms]; CRISPR-Cas type I system-associated endonuclease/helicase Cas3 is part of the Pathway/BioSystem: CRISPR-Cas system
Pssm-ID: 440816 [Multi-domain] Cd Length: 535 Bit Score: 288.52 E-value: 2.86e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 202 EGDFTCVEAVFEHIVAIRKETDAQREASFALYALIKLNSSVLTAADYLAThaymtgrqvkeAGIFEDRHRVEEMighlrn 281
Cdd:COG1203 47 LLLAALELALLLLLLLLLLLLLLLLLLDLLLDDLAFLFLLLLIDADWLDS-----------ANFDMARQALDHL------ 109
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 282 ykHNRGIYEQLDKFvfeypqEKSGDHLNRLRTGMAVEVIRTVREhsDDRLFYIEAPTGGGKTNLSMLAVTELMAVHpEIQ 361
Cdd:COG1203 110 --LAERLERLLPKK------SKPRTPINPLQNEALELALEAAEE--EPGLFILTAPTGGGKTEAALLFALRLAAKH-GGR 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 362 KVFYVFPYTTLITQTNQTLKNALGltsTELAELHSKAGFNEKTEEREDGLYADKKQDYIDRLFAlfPVCVMSHVKFFDML 441
Cdd:COG1203 179 RIIYALPFTSIINQTYDRLRDLFG---EDVLLHHSLADLDLLEEEEEYESEARWLKLLKELWDA--PVVVTTIDQLFESL 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 442 KTNRKEANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEhYARFFQVRFILMSATLPKIGKLRipLKERTGFVDLLPQA 521
Cdd:COG1203 254 FSNRKGQERRLHNLANSVIILDEVQAYPPYMLALLLRLLE-WLKNLGGSVILMTATLPPLLREE--LLEAYELIPDEPEE 330
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 522 ksymQNPNFAGRVEFRFELFQEEIDMNDLADFVL-----GKSVeyrdkpgkngtvhtIIEFITKKSAAEFYAFIQEKEPF 596
Cdd:COG1203 331 ----LPEYFRAFVRKRVELKEGPLSDEELAELILealhkGKSV--------------LVIVNTVKDAQELYEALKEKLPD 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 597 fDEVFLLSGTILEPRRREIINELKNPLSRKKNILLITTQVVEAGVDIDMDLGFKNISLIDSDEQLAGRVNRNACKVG-CE 675
Cdd:COG1203 393 -EEVYLLHSRFCPADRSEIEKEIKERLERGKPCILVSTQVVEAGVDIDFDVVIRDLAPLDSLIQRAGRCNRHGRKEEeGN 471
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 753800852 676 VYLFRLDnasvlygkDKRYQMVREQISVGEYERILREKDFGCLYEL------VFEKINWMNEQTY 734
Cdd:COG1203 472 VYVFDPE--------DEGGGYVYDKPLLERTRELLREHDEILPEDKrelieeYYRELYELLPDEL 528
|
|
| Cas3_I |
cd09639 |
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ... |
331-692 |
1.56e-30 |
|
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I
Pssm-ID: 187770 [Multi-domain] Cd Length: 353 Bit Score: 124.08 E-value: 1.56e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 331 LFYIEAPTGGGKTNLSMLAVTELmAVHPEIQKVFYVFPYTTLITQTNQTLKNALGltstELAELHSKAGFNEKTEEREDG 410
Cdd:cd09639 1 LLVIEAPTGYGKTEAALLWALHS-LKSQKADRVIIALPTRATINAMYRRAKEAFG----ETGLYHSSILSSRIKEMGDSE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 411 LYADKKQDYIDRLFALF----PVCVMSHV-KFFDMlktNRKEANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEHYAR 485
Cdd:cd09639 76 EFEHLFPLYIHSNDTLFldpiTVCTIDQVlKSVFG---EFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKD 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 486 FfQVRFILMSATLPKigklriplkertgFVDLLPQAKSYMQNPNFAGRVEFRFELFQEEIDMNDLADFVLGKSVEYRDKP 565
Cdd:cd09639 153 N-DVPILLMSATLPK-------------FLKEYAEKIGYVEENEPLDLKPNERAPFIKIESDKVGEISSLERLLEFIKKG 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 566 GKNgtvhtIIEFITKKSAAEFYAFIQEKEPFFdEVFLLSGTILEPRRREIINELKNPLSRKKNILLITTQVVEAGVDIDM 645
Cdd:cd09639 219 GSV-----AIIVNTVDRAQEFYQQLKEKGPEE-EIMLIHSRFTEKDRAKKEAELLLEFKKSEKFVIVATQVIEASLDISV 292
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|
gi 753800852 646 DLGFKNISLIDSDEQLAGRVNRNACKVGCEVYLFRL---DNASVLYGKDK 692
Cdd:cd09639 293 DVMITELAPIDSLIQRLGRLHRYGEKNGEEVYIITDapdGKGQKPYPYDL 342
|
|
| cas3_core |
TIGR01587 |
CRISPR-associated helicase Cas3; This model represents the highly conserved core region of an ... |
331-680 |
7.48e-28 |
|
CRISPR-associated helicase Cas3; This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Pssm-ID: 273707 [Multi-domain] Cd Length: 359 Bit Score: 116.01 E-value: 7.48e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 331 LFYIEAPTGGGKTNLSMLAVTELMAvHPEIQKVFYVFPYTTLItqtNQTLKNALGLTSTELAELHSKAGFNEKTEEREDG 410
Cdd:TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIK-SQKADRVIIALPTRATI---NAMYRRAKELFGSELVGLHHSSSFSRIKEMGDSE 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 411 LYADKKQDYIDRLFALF----PVCVMSHV-KFFDMlktNRKEANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEHYAR 485
Cdd:TIGR01587 77 EFEHLFPLYIHSNDKLFldpiTVCTIDQVlKSVFG---EFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLKD 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 486 FfQVRFILMSATLPKIgklriplkertgFVDLLPQAKSYMQNPNFAGRVEFRFELFQEEIDMND-LADF-VLGKSVEYRD 563
Cdd:TIGR01587 154 N-DVPILLMSATLPKF------------LKEYAEKIGYVEFNEPLDLKEERRFENHRFILIESDkVGEIsSLERLLEFIK 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 564 KPGKNgtvhtIIEFITKKSAAEFYAFIQEKEPFFdEVFLLSGTILEPRRREIINELKNPLSR-KKNILLITTQVVEAGVD 642
Cdd:TIGR01587 221 KGGSI-----AIIVNTVDRAQEFYQQLKEKAPEE-EIILYHSRFTEKDRAKKEAELLREMKKsNEKFVIVATQVIEASLD 294
|
330 340 350 360
....*....|....*....|....*....|....*....|
gi 753800852 643 IDMDLGFKNISLIDSDEQLAGRVNRNACKVGC--EVYLFR 680
Cdd:TIGR01587 295 ISADVMITELAPIDSLIQRLGRLHRYGRKIGEnfEVYIIT 334
|
|
| DEXHc_cas3 |
cd17930 |
DEXH/Q-box helicase domain of Cas3; CRISPR-associated (Cas) 3 is a nuclease-helicase ... |
329-501 |
1.20e-26 |
|
DEXH/Q-box helicase domain of Cas3; CRISPR-associated (Cas) 3 is a nuclease-helicase responsible for degradation of dsDNA. The two enzymatic units of Cas3, a histidine-aspartate (HD) nuclease and a Superfamily 2 (SF2) helicase, may be expressed from separate genes as Cas3' (SF2 helicase) and Cas3'' (HD nuclease) or may be fused as a single HD-SF2 polypeptide. The nucleolytic activity of most Cas3 enzymes is transition metal ion-dependent. Cas3 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350688 [Multi-domain] Cd Length: 186 Bit Score: 107.76 E-value: 1.20e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 329 DRLFYIEAPTGGGKTNLSmLAVTELMAVHPEIQKVFYVFPYTTLITQTNQTLKNALG--LTSTELAELHSKAGFNEKTEE 406
Cdd:cd17930 1 PGLVILEAPTGSGKTEAA-LLWALKLAARGGKRRIIYALPTRATINQMYERIREILGrlDDEDKVLLLHSKAALELLESD 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 407 REDGLYADKKQDYIDRL--FALFPVCVMSHVKFFDMLKTNRKeANYLLHRLANAVVVIDELQTYNPLLWDKMYYLIEHYA 484
Cdd:cd17930 80 EEPDDDPVEAVDWALLLkrSWLAPIVVTTIDQLLESLLKYKH-FERRLHGLANSVVVLDEVQAYDPEYMALLLKALLELL 158
|
170
....*....|....*..
gi 753800852 485 RFFQVRFILMSATLPKI 501
Cdd:cd17930 159 GELGGPVVLMTATLPAL 175
|
|
| Cas3''_I |
cd09641 |
CRISPR/Cas system-associated protein Cas3''; CRISPR (Clustered Regularly Interspaced Short ... |
35-255 |
4.23e-14 |
|
CRISPR/Cas system-associated protein Cas3''; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; HD-like nuclease, specifically digesting double-stranded oligonucleotides and preferably cleaving at G:C pairs; signature gene for Type I
Pssm-ID: 193608 [Multi-domain] Cd Length: 200 Bit Score: 71.92 E-value: 4.23e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 35 ESLQEHTAKVVERACWLIgkhglekvvdrliPGIAGKYSENVQEELKRMFMAVFvFHDTGKVNDNFQYSRMLNRLFKHRK 114
Cdd:cd09641 7 QPLLEHLLDVAAWDAELA-------------EEFARKLGLELGLSRELLALAGL-LHDLGKATPAFQKYLRGGKEALREG 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 115 TEILVPaygHSFLSAWLFLAFELDRVWQDPclteeekkmlfvYAFFFAYVIRQHHsGGLGCADEEEFFNSFAGGYEELHT 194
Cdd:cd09641 73 KRKEVR---HSLLGALLLYELLKELGLDEE------------LALLLAYAIAGHH-GGLPDVLLLLDEDDESALKERLEE 136
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 753800852 195 YLTVWGYEGDFTC-VEAVFEHIVAIRKETDAQREASFALYALIKLNSSVLTAADYLATHAYM 255
Cdd:cd09641 137 LDEEKLLLELWEEeLEELLDELLKELLLLLLPELLSFELYLLLRLLFSLLVDADWLASAEFF 198
|
|
| cas3_HD |
TIGR01596 |
CRISPR-associated endonuclease Cas3-HD; CRISPR/Cas systems are widespread, mobile systems for ... |
37-251 |
3.27e-11 |
|
CRISPR-associated endonuclease Cas3-HD; CRISPR/Cas systems are widespread, mobile systems for host defense against invasive elements such as phage. In these systems, Cas3 designates one of the core proteins shared widely by multiple types of CRISPR/Cas system. This model represents an HD-like endonuclease that occurs either separately or as the N-terminal region of Cas3, the helicase-containing CRISPR-associated protein.
Pssm-ID: 273711 [Multi-domain] Cd Length: 176 Bit Score: 62.99 E-value: 3.27e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 37 LQEHTAKVVERAcwligkhglekvvdRLIPGIAGKYSENVQEELKRMFMAVFVFHDTGKVNDNFQysrmlNRLFKHRKTE 116
Cdd:TIGR01596 1 LKEHLLDVAAVA--------------EALPALRPRLAEKLGLELRELLKLAGLLHDLGKASPAFQ-----KKLRKAEERG 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 117 iLVPAYGHSFLSAWLFLAFELDRVWQDPclteeekkmlfvYAFFFAYVIRQHHSGGLGCADEEEffnsfaggYEELHTYL 196
Cdd:TIGR01596 62 -DRGEVRHSTLSAALLYDLLEELGLEEE------------LALLLALAIAGHHGGLIDDDDLEE--------LLELLERE 120
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 753800852 197 TVWGYEGDFTCVEAVFEHIV-AIRKETDAQREASFALYALIKLNSSVLTAADYLAT 251
Cdd:TIGR01596 121 LEEALGELLEELEELLDEVLkALPLRLLLDKEEPIELYLLARLLFGLLVDADWLAS 176
|
|
| DEXHc_Ski2 |
cd17921 |
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases ... |
318-499 |
5.47e-08 |
|
DEXH-box helicase domain of DEAD-like helicase Ski2 family proteins; Ski2-like RNA helicases play an important role in RNA degradation, processing, and splicing pathways. They belong to the type II DEAD box helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350679 [Multi-domain] Cd Length: 181 Bit Score: 53.80 E-value: 5.47e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 318 EVIRTVrEHSDDRLFyIEAPTGGGKTNLSMLAVTELMAVHpeIQKVFYVFPYTTLITQTnqtlknalgltsteLAELHSK 397
Cdd:cd17921 8 EALRAL-YLSGDSVL-VSAPTSSGKTLIAELAILRALATS--GGKAVYIAPTRALVNQK--------------EADLRER 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 398 AGFNEKTEEREDGLYADKKQDYIDRlfalfPVCVMSHVKfFDMLKTNRKEANYLLHRLanavVVIDELQTYNP----LLW 473
Cdd:cd17921 70 FGPLGKNVGLLTGDPSVNKLLLAEA-----DILVATPEK-LDLLLRNGGERLIQDVRL----VVVDEAHLIGDgergVVL 139
|
170 180
....*....|....*....|....*..
gi 753800852 474 DkmyYLIEHYARFF-QVRFILMSATLP 499
Cdd:cd17921 140 E---LLLSRLLRINkNARFVGLSATLP 163
|
|
| DEAD |
pfam00270 |
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ... |
334-500 |
9.70e-08 |
|
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Pssm-ID: 425570 [Multi-domain] Cd Length: 165 Bit Score: 52.63 E-value: 9.70e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 334 IEAPTGGGKTNLSMLAVTELMAVHPEIQKVFYVFPYTTLITQTNQTLKNALGLTSTELAelhskagfnekteeredGLYA 413
Cdd:pfam00270 19 VQAPTGSGKTLAFLLPALEALDKLDNGPQALVLAPTRELAEQIYEELKKLGKGLGLKVA-----------------SLLG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 414 DKKQDYIDRLFALFPVCVMSHVKFFDMLKTNRKeanylLHRLanAVVVIDELQTYnpLLWDKMYYLIEHYARF-FQVRFI 492
Cdd:pfam00270 82 GDSRKEQLEKLKGPDILVGTPGRLLDLLQERKL-----LKNL--KLLVLDEAHRL--LDMGFGPDLEEILRRLpKKRQIL 152
|
....*...
gi 753800852 493 LMSATLPK 500
Cdd:pfam00270 153 LLSATLPR 160
|
|
| DEXDc |
smart00487 |
DEAD-like helicases superfamily; |
313-500 |
5.78e-07 |
|
DEAD-like helicases superfamily;
Pssm-ID: 214692 [Multi-domain] Cd Length: 201 Bit Score: 50.95 E-value: 5.78e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 313 TGMAVEVIRTVREHSDDRLfyIEAPTGGGKTNLSMLAVTELMAVHPEIQkVFYVFPYTTLITQTNQTLKNALGLTSTELA 392
Cdd:smart00487 10 RPYQKEAIEALLSGLRDVI--LAAPTGSGKTLAALLPALEALKRGKGGR-VLVLVPTRELAEQWAEELKKLGPSLGLKVV 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 393 ELHSkagfNEKTEEREDGLYADKkqdyidrlfalFPVCVMSHVKFFDMLKTNRKEANYLlhrlanAVVVIDELQTynpLL 472
Cdd:smart00487 87 GLYG----GDSKREQLRKLESGK-----------TDILVTTPGRLLDLLENDKLSLSNV------DLVILDEAHR---LL 142
|
170 180 190
....*....|....*....|....*....|
gi 753800852 473 WDKMYYLIEHYARFF--QVRFILMSATLPK 500
Cdd:smart00487 143 DGGFGDQLEKLLKLLpkNVQLLLLSATPPE 172
|
|
| SF2-N |
cd00046 |
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily ... |
332-497 |
2.56e-06 |
|
N-terminal DEAD/H-box helicase domain of superfamily 2 helicases; The DEAD/H-like superfamily 2 helicases comprise a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This N-terminal domain contains the ATP-binding region.
Pssm-ID: 350668 [Multi-domain] Cd Length: 146 Bit Score: 47.78 E-value: 2.56e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 332 FYIEAPTGGGKTNLSMLAVTELMAvhPEIQKVFYVFPYTTLITQTNQTLKNALGLTSTeLAELHSKAGFNEKTEEREDgl 411
Cdd:cd00046 4 VLITAPTGSGKTLAALLAALLLLL--KKGKKVLVLVPTKALALQTAERLRELFGPGIR-VAVLVGGSSAEEREKNKLG-- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 412 yadkkqdyidrlfaLFPVCVMSHVKFFDMLktnrkEANYLLHRLANAVVVIDELQTynpLLWDK----MYYLIEHYARFF 487
Cdd:cd00046 79 --------------DADIIIATPDMLLNLL-----LREDRLFLKDLKLIIVDEAHA---LLIDSrgalILDLAVRKAGLK 136
|
170
....*....|
gi 753800852 488 QVRFILMSAT 497
Cdd:cd00046 137 NAQVILLSAT 146
|
|
| HELICc |
smart00490 |
helicase superfamily c-terminal domain; |
599-667 |
4.80e-04 |
|
helicase superfamily c-terminal domain;
Pssm-ID: 197757 [Multi-domain] Cd Length: 82 Bit Score: 39.89 E-value: 4.80e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 753800852 599 EVFLLSGTILEPRRREIINELKNplsrKKNILLITTQVVEAGVD-------IDMDLGFKnislIDSDEQLAGRVNR 667
Cdd:smart00490 13 KVARLHGGLSQEEREEILDKFNN----GKIKVLVATDVAERGLDlpgvdlvIIYDLPWS----PASYIQRIGRAGR 80
|
|
| SSL2 |
COG1061 |
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair]; |
316-386 |
7.80e-04 |
|
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
Pssm-ID: 440681 [Multi-domain] Cd Length: 566 Bit Score: 43.09 E-value: 7.80e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 753800852 316 AVEVIRTVREHSDDRlFYIEAPTGGGKTNLSMLAVTELMavhpEIQKVFYVFPYTTLITQTNQTLKNALGL 386
Cdd:COG1061 88 ALEALLAALERGGGR-GLVVAPTGTGKTVLALALAAELL----RGKRVLVLVPRRELLEQWAEELRRFLGD 153
|
|
| Helicase_C |
pfam00271 |
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ... |
567-667 |
4.09e-03 |
|
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.
Pssm-ID: 459740 [Multi-domain] Cd Length: 109 Bit Score: 37.96 E-value: 4.09e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 567 KNGTVHTIIEFITKKSAAEFyAFIQEKEPFfdEVFLLSGTILEPRRREIINELKNplsrKKNILLITTQVVEAGVD---- 642
Cdd:pfam00271 11 KKERGGKVLIFSQTKKTLEA-ELLLEKEGI--KVARLHGDLSQEEREEILEDFRK----GKIDVLVATDVAERGLDlpdv 83
|
90 100
....*....|....*....|....*...
gi 753800852 643 ---IDMDLgFKNISlidSDEQLAGRVNR 667
Cdd:pfam00271 84 dlvINYDL-PWNPA---SYIQRIGRAGR 107
|
|
| ResIII |
pfam04851 |
Type III restriction enzyme, res subunit; |
318-497 |
4.94e-03 |
|
Type III restriction enzyme, res subunit;
Pssm-ID: 398492 [Multi-domain] Cd Length: 162 Bit Score: 38.81 E-value: 4.94e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 318 EVIRTVREH--SDDRLFYIEAPTGGGKTNLSMLAVTELMAVHPeIQKVFYVFPYTTLITQTNQTLKNalgltstelaELH 395
Cdd:pfam04851 10 EAIENLLESikNGQKRGLIVMATGSGKTLTAAKLIARLFKKGP-IKKVLFLVPRKDLLEQALEEFKK----------FLP 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 753800852 396 SKAGFNEKTEEREdglyadKKQDYIDRlfalfPVCVMShvkfFDMLKTNRKEANYLLHRLANAVVVIDELQTYNPLLWDK 475
Cdd:pfam04851 79 NYVEIGEIISGDK------KDESVDDN-----KIVVTT----IQSLYKALELASLELLPDFFDVIIIDEAHRSGASSYRN 143
|
170 180
....*....|....*....|..
gi 753800852 476 myyLIEHYARFFQVRFilmSAT 497
Cdd:pfam04851 144 ---ILEYFKPAFLLGL---TAT 159
|
|
| |
