|
Name |
Accession |
Description |
Interval |
E-value |
| CafA |
COG1530 |
Ribonuclease G or E [Translation, ribosomal structure and biogenesis]; |
2-482 |
0e+00 |
|
Ribonuclease G or E [Translation, ribosomal structure and biogenesis];
Pssm-ID: 441139 [Multi-domain] Cd Length: 490 Bit Score: 741.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 2 KRMLINATHAEeVRVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFQAD 81
Cdd:COG1530 1 KEILINATPQE-TRVALVEGGRLVELDIERPGREQLVGNIYKGKVTRVLPGLQAAFVDIGLERHGFLHVKDISPEYFSLG 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 82 PRQTS---NIRELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNpKGGGISRQISGSV-REELKEILASLN 157
Cdd:COG1530 80 KEDSGkrpNIQDVLKEGQEVLVQVVKEPRGTKGARLTTFISLAGRYLVLMPNN-RHVGVSRRIEGEEeRERLKELLSELK 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 158 VPRGMSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNE 237
Cdd:COG1530 159 VPEGMGLIVRTAAEGASEEELQWDLDYLLKLWEAIQEAAKSAKAPFLIYQELDLIIRALRDYFRPDIGEILVDSREAYEK 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 238 AYNFVKAVMPRQLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETAL 317
Cdd:COG1530 239 AKDFISLVMPDLADRVKLYTGERPLFDRYQIESQIESALERRVWLKSGGYLVIDQTEALTTIDVNSGRFTGGRNIEETAF 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 318 NTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEAT 397
Cdd:COG1530 319 KTNLEAADEIARQLRLRDLGGIIVIDFIDMEDEEHQREVENRLKEALKKDRARTQIGGISRFGLVEMTRQRLRPSLGESL 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 398 GYVCPRCHGTGMVRDLRSLSLSIMRKVEEIALRERHGEVQVEVPVEIAAFLLNEKRHSLVYLEQTSGVRVTVLPHPHLET 477
Cdd:COG1530 399 CEPCPRCEGRGTIKSVETVALEILREIEREARKENTREVLVQAPPEVAAYLLNEKRQELAELEKRYGVSIKLIPNPSLET 478
|
....*
gi 446750063 478 PHYEI 482
Cdd:COG1530 479 EQYDI 483
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1-1043 |
0e+00 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 652.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 1 MKRMLINATHAEEVRVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFQA 80
Cdd:PRK10811 1 MKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFPA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 81 D--PRQTSNIRELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNPKGGGISRQISGSVREELKEILASLNV 158
Cdd:PRK10811 81 NysAHGRPNIKDVLREGQEVIVQIDKEERGNKGAALTTFISLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALASLEL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 159 PRGMSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNEA 238
Cdd:PRK10811 161 PEGMGLIVRTAGVGKSAEALQWDLSFRLKHWEAIKKAAESRPAPFLIHQESNVIVRAFRDYLRQDIGEILIDNPKVLELA 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 239 YNFVKAV-MPRQLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETAL 317
Cdd:PRK10811 241 RQHIAALgRPDFSSKIKLYTGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDSTEALTAIDINSARATRGGDIEETAF 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 318 NTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEAT 397
Cdd:PRK10811 321 NTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQRAVENRLREAVRQDRARIQISHISRFGLLEMSRQRLSPSLGESS 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 398 GYVCPRCHGTGMVRDLRSLSLSIMRKVEEIALRERHGEVQVEVPVEIAAFLLNEKRHSLVYLE-QTSGVRVTVLPHPHLE 476
Cdd:PRK10811 401 HHVCPRCSGTGTVRDNESLSLSILRLIEEEALKENTQEVHAIVPVPIASYLLNEKRSAVNAIEtRQGGVRCVIVPNDQMQ 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 477 TPHYeiaynpdgfapsSYERteaTRSSEK--ELGYESSEWHLEEAdhghahvtATASTHAAAQKKAnhATQPV----AQP 550
Cdd:PRK10811 481 TPHY------------SVLR---VRKGEEtpTLSYMLPKLHEEAM--------ALPSEEEFAERKR--PEQPAlatfAMP 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 551 SAQKAASPcawlenlfvQKQAQTVDQSRSAQNAAAAIEQmvnTGAVSR------GQFGQvavpavaevapvqsnnayiSQ 624
Cdd:PRK10811 536 DVPPAPTP---------AEPAAPVVAAAPKAAAATPPAQ---PGLLSRffgalkALFSG-------------------GE 584
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 625 SPVKQDVREHVEKDDKSQQQ-----RQNNKKRKHKEQREQHHQSHEQQHQVHEEVVQLSRQEQRELKRQQKRQQQQDQQH 699
Cdd:PRK10811 585 ETKPQEQPAPKAEAKPERQQdrrkpRQNNRRDRNERRDTRDNRTRREGRENREENRRNRRQAQQQTAETRESQQAEVTEK 664
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 700 QNNDVQHTENavPRRDRnnQQRPNRPNRHRDPSVLNENQNTPVVVDEKQ--IKVDVIDAPKHDVMNTALIInvdQGQSEI 777
Cdd:PRK10811 665 ARTQDEQQQA--PRRER--QRRRNDEKRQAQQEAKALNVEEQSVQETEQeeRVQQVQPRRKQRQLNQKVRI---EQSVAE 737
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 778 VALTPERRHVERVETTSTEVAQEPT-----PAPVVAEKAAVVETKEEAQPSQEAAQPQIKRASndPR------MRRRQQR 846
Cdd:PRK10811 738 EAVAPVVEETVAAEPVVQEVPAPRTelvkvPLPVVAQTAPEQDEENNAENRDNNGMPRRSRRS--PRhlrvsgQRRRRYR 815
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 847 EAK----------HAkAATPSIAPSQ------IPTLAQHTIGSLIRHVYGEDCTVLIEQFGLVPtfnralqkfAEQYAST 910
Cdd:PRK10811 816 DERyptqspmpltVA-CASPEMASGKvwirypVVRPQDVQVEEQREAEEVQVQPVVAEVPVAAA---------VEPVVSA 885
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 911 LVVEVTAETEEKKPVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRVANDPrerrrLAKLAAEQAfEQVKQQHSAQEEV 990
Cdd:PRK10811 886 PVVEAVAEVVEEPVVVAEPQPEEVVVVETTHPEVIAAPVTEQPQVITESDVA-----VAQEVAEHA-EPVVEPQDETADI 959
|
1050 1060 1070 1080 1090
....*....|....*....|....*....|....*....|....*....|...
gi 446750063 991 ATPAPVAEETVAAPTAETQATVEPAQqplelNQSTEVVQPEAAPAEEKATEET 1043
Cdd:PRK10811 960 EEAAETAEVVVAEPEVVAQPAAPVVA-----EVAAEVETVTAVEPEVAPAQVP 1007
|
|
| RNaseEG |
TIGR00757 |
ribonuclease, Rne/Rng family; This model describes ribonuclease G (formerly CafA, cytoplasmic ... |
15-422 |
1.17e-177 |
|
ribonuclease, Rne/Rng family; This model describes ribonuclease G (formerly CafA, cytoplasmic axial filament protein A), the N-terminal domain of ribonuclease E in which ribonuclease activity resides, and related proteins. In E. coli, both RNase E and RNase G have been shown to play a role in the maturation of the 5' end of 16S RNA. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome. [Transcription, Degradation of RNA]
Pssm-ID: 273254 [Multi-domain] Cd Length: 414 Bit Score: 526.12 E-value: 1.17e-177
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 15 RVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFQADPRQTS-----NIR 89
Cdd:TIGR00757 2 RVALVEGGRLFDLIIERPKSRQLKGNIYKGRVTRILPSLQAAFVDIGLEKNGFLHASDIGPNYECLAPAEAKreagpSIS 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 90 ELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNPkGGGISRQI-SGSVREELKEILASLNVPRGMSVIVRT 168
Cdd:TIGR00757 82 ELLRPGQSVLVQVVKEPRGNKGARLTTDISLPGRYLVLMPNNS-HVGVSRRIeSGEERERLKKLLRSEELPEGMGLIIRT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 169 AGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNEAYNFVKAVMPR 248
Cdd:TIGR00757 161 AAEGASEEALIKDLEFLLRKWEKIKEKAQKRPAPCLIYGEPDIIKRVIRDYLDTDVKEILIDSKEIYEEAKEFIQLYAPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 249 QLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETALNTNLEAAEEIA 328
Cdd:TIGR00757 241 LVSKLKLYRGSDPLFEGFQIEKQIDKATQRKVWLPSGGYIVIDQTEALTTIDVNSGRFTGGGNLEETALNTNLEAAKEIA 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 329 RQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEATGYVCPRCHGTG 408
Cdd:TIGR00757 321 RQLRLRNLGGIIIIDFIDMKSEKNQRRVLERLKEALRRDRARIQISGISEFGLVEMTRKRLRESLMEVLGTVCPHCSGTG 400
|
410
....*....|....
gi 446750063 409 MVRDLRSLSLSIMR 422
Cdd:TIGR00757 401 IVKTSESVLLEIER 414
|
|
| RNase_E_G |
pfam10150 |
Ribonuclease E/G family; Ribonuclease E and Ribonuclease G are related enzymes that cleave a ... |
120-387 |
3.85e-124 |
|
Ribonuclease E/G family; Ribonuclease E and Ribonuclease G are related enzymes that cleave a wide variety of RNAs.
Pssm-ID: 462965 Cd Length: 267 Bit Score: 380.97 E-value: 3.85e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 120 LAGRYLVLMPNNpKGGGISRQISG-SVREELKEILASLNvPRGMSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASS 198
Cdd:pfam10150 1 LPGRYLVLMPFG-KIVGVSRKIEDeEERERLKEILESLK-PEGMGVIVRTAAEGASEEELQADLEYLLKLWEEILKKAKK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 199 GPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNEAYNFVKAVMPRQLDKLKTYTLNEPLFAHFGIESQIQTAYER 278
Cdd:pfam10150 79 AKAPSLLYEELDLILRVLRDLLNDDIDEIIVDDEEVYEEIKEFLEEIAPDLKKRVELYEGERPLFDLYGIEKQIEKALSR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 279 EVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETALNTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEA 358
Cdd:pfam10150 159 KVWLKSGGYLVIDQTEALTVIDVNSGKFTGKKNLEETALKTNLEAAKEIARQLRLRNLGGIIVIDFIDMKDEENREKVLE 238
|
250 260
....*....|....*....|....*....
gi 446750063 359 KLREATQSDRARIQFGQLSRFGLMEMSRQ 387
Cdd:pfam10150 239 ALKEALKKDRAKTQVLGITKLGLVEMTRK 267
|
|
| PRK11712 |
PRK11712 |
ribonuclease G; Provisional |
4-473 |
2.83e-97 |
|
ribonuclease G; Provisional
Pssm-ID: 183285 [Multi-domain] Cd Length: 489 Bit Score: 317.72 E-value: 2.83e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 4 MLINATHAEeVRVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIA-NSYFQADP 82
Cdd:PRK11712 5 LLVNVTPSE-TRVALIEGGILQEIHIEREAKRGIVGNIYKGRVSRVLPGMQAAFVDIGLDKAAFLHASDIVpHTECVAGE 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 83 RQTS----NIRELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNPKGGgISRQI-SGSVREELKEILASLN 157
Cdd:PRK11712 84 EQKQfvvrDISELVRQGQDIMVQVVKDPLGTKGARLTTDITLPSRYLVFMPGASHVG-VSQRIeSEEERERLKKIVAPYC 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 158 VPRGmSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNE 237
Cdd:PRK11712 163 DEQG-GFIIRTAAEGVGEEELAQDAAFLKRLWTKVMERKKRYQTRYQLYGELALAQRVLRDFVGAELDRIRVDSRLTYEE 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 238 AYNFVKAVMPRQLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTrGH-DVEETA 316
Cdd:PRK11712 242 LKEFTSEYIPEMTDKLEHYSGRQPIFDLYDVENEIQRALERKVELKSGGYLIIDQTEAMTTVDINTGAFV-GHrNLEETI 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 317 LNTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEA 396
Cdd:PRK11712 321 FNTNIEATQAIARQLRLRNLGGIIIIDFIDMNNEDHRRRVLHSLEQALSKDRVKTNINGFSQLGLVEMTRKRTRESLEHV 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 397 TGYVCPRCHGTGMVRDLRSLSLSIMRkveEIaLRERHG----EVQVEVPVEIAAFLLNEKRHSLVYLEQTSGVRVTVLPH 472
Cdd:PRK11712 401 LCGECPTCHGRGTVKTVETVCYEIMR---EI-VRVHHAydsdRFLVYASPAVAEALKGEESHALAELEIFVGKQVKVQIE 476
|
.
gi 446750063 473 P 473
Cdd:PRK11712 477 P 477
|
|
| S1_RNase_E |
cd04453 |
S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential ... |
32-123 |
2.22e-29 |
|
S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain that is highly homologous to that of RNase E. RNase G not only shares sequence similarity with RNase E, but also functionally overlaps with RNase E. In Escherichia coli, RNase G is involved in the maturation of the 5' end of the 16S rRNA. RNase G plays a secondary role in mRNA decay.
Pssm-ID: 239900 [Multi-domain] Cd Length: 88 Bit Score: 112.30 E-value: 2.22e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 32 RTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFqadpRQTSNIRELITEGTELLVQVEKEERGNKG 111
Cdd:cd04453 1 PNREPIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYF----KKHKKIAKLLKEGQEILVQVVKEPIGTKG 76
|
90
....*....|..
gi 446750063 112 AALSTFISLAGR 123
Cdd:cd04453 77 PRLTTNISLPGR 88
|
|
| S1 |
smart00316 |
Ribosomal protein S1-like RNA-binding domain; |
37-116 |
1.54e-06 |
|
Ribosomal protein S1-like RNA-binding domain;
Pssm-ID: 197648 [Multi-domain] Cd Length: 72 Bit Score: 46.83 E-value: 1.54e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 37 KKSNIYKGHVTRVEPSleAVFVEYGAGRQGFLSMREIANSYfqadprqTSNIRELITEGTELLVQVEKEERGNKGAALST 116
Cdd:smart00316 1 EVGDVVEGTVTEITPG--GAFVDLGNGVEGLIPISELSDKR-------VKDPEEVLKVGDEVKVKVLSVDEEKGRIILSL 71
|
|
| Rib_recp_KP_reg |
pfam05104 |
Ribosome receptor lysine/proline rich region; This highly conserved region is found towards ... |
921-1035 |
6.12e-03 |
|
Ribosome receptor lysine/proline rich region; This highly conserved region is found towards the C-terminus of the transmembrane domain. The function is unclear.
Pssm-ID: 461548 [Multi-domain] Cd Length: 140 Bit Score: 38.18 E-value: 6.12e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 921 EKKPVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRVANDPRERRRLAKLAAEQAFEQVKQQHSAQEEVATPAPVAEet 1000
Cdd:pfam05104 40 KKKEEKPNGKLPESEQADESEEEPREFKTPDEAPSAALEPEPVPTPVPAPVEPEPAPPSESPAPSPKEKKKKEKKSAK-- 117
|
90 100 110
....*....|....*....|....*....|....*
gi 446750063 1001 vaaptaetqatVEPAQQPlELNQSTEVVQPEAAPA 1035
Cdd:pfam05104 118 -----------VEPAETP-EAVQPKPALEKEEPPA 140
|
|
|
|
Name |
Accession |
Description |
Interval |
E-value |
| CafA |
COG1530 |
Ribonuclease G or E [Translation, ribosomal structure and biogenesis]; |
2-482 |
0e+00 |
|
Ribonuclease G or E [Translation, ribosomal structure and biogenesis];
Pssm-ID: 441139 [Multi-domain] Cd Length: 490 Bit Score: 741.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 2 KRMLINATHAEeVRVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFQAD 81
Cdd:COG1530 1 KEILINATPQE-TRVALVEGGRLVELDIERPGREQLVGNIYKGKVTRVLPGLQAAFVDIGLERHGFLHVKDISPEYFSLG 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 82 PRQTS---NIRELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNpKGGGISRQISGSV-REELKEILASLN 157
Cdd:COG1530 80 KEDSGkrpNIQDVLKEGQEVLVQVVKEPRGTKGARLTTFISLAGRYLVLMPNN-RHVGVSRRIEGEEeRERLKELLSELK 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 158 VPRGMSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNE 237
Cdd:COG1530 159 VPEGMGLIVRTAAEGASEEELQWDLDYLLKLWEAIQEAAKSAKAPFLIYQELDLIIRALRDYFRPDIGEILVDSREAYEK 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 238 AYNFVKAVMPRQLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETAL 317
Cdd:COG1530 239 AKDFISLVMPDLADRVKLYTGERPLFDRYQIESQIESALERRVWLKSGGYLVIDQTEALTTIDVNSGRFTGGRNIEETAF 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 318 NTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEAT 397
Cdd:COG1530 319 KTNLEAADEIARQLRLRDLGGIIVIDFIDMEDEEHQREVENRLKEALKKDRARTQIGGISRFGLVEMTRQRLRPSLGESL 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 398 GYVCPRCHGTGMVRDLRSLSLSIMRKVEEIALRERHGEVQVEVPVEIAAFLLNEKRHSLVYLEQTSGVRVTVLPHPHLET 477
Cdd:COG1530 399 CEPCPRCEGRGTIKSVETVALEILREIEREARKENTREVLVQAPPEVAAYLLNEKRQELAELEKRYGVSIKLIPNPSLET 478
|
....*
gi 446750063 478 PHYEI 482
Cdd:COG1530 479 EQYDI 483
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1-1043 |
0e+00 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 652.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 1 MKRMLINATHAEEVRVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFQA 80
Cdd:PRK10811 1 MKRMLINATQQEELRVALVDGQRLYDLDIESPGHEQKKANIYKGKITRIEPSLEAAFVDYGAERHGFLPLKEIAREYFPA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 81 D--PRQTSNIRELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNPKGGGISRQISGSVREELKEILASLNV 158
Cdd:PRK10811 81 NysAHGRPNIKDVLREGQEVIVQIDKEERGNKGAALTTFISLAGSYLVLMPNNPRAGGISRRIEGDDRTELKEALASLEL 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 159 PRGMSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNEA 238
Cdd:PRK10811 161 PEGMGLIVRTAGVGKSAEALQWDLSFRLKHWEAIKKAAESRPAPFLIHQESNVIVRAFRDYLRQDIGEILIDNPKVLELA 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 239 YNFVKAV-MPRQLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETAL 317
Cdd:PRK10811 241 RQHIAALgRPDFSSKIKLYTGEIPLFSHYQIESQIESAFQREVRLPSGGSIVIDSTEALTAIDINSARATRGGDIEETAF 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 318 NTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEAT 397
Cdd:PRK10811 321 NTNLEAADEIARQLRLRDLGGLIVIDFIDMTPVRHQRAVENRLREAVRQDRARIQISHISRFGLLEMSRQRLSPSLGESS 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 398 GYVCPRCHGTGMVRDLRSLSLSIMRKVEEIALRERHGEVQVEVPVEIAAFLLNEKRHSLVYLE-QTSGVRVTVLPHPHLE 476
Cdd:PRK10811 401 HHVCPRCSGTGTVRDNESLSLSILRLIEEEALKENTQEVHAIVPVPIASYLLNEKRSAVNAIEtRQGGVRCVIVPNDQMQ 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 477 TPHYeiaynpdgfapsSYERteaTRSSEK--ELGYESSEWHLEEAdhghahvtATASTHAAAQKKAnhATQPV----AQP 550
Cdd:PRK10811 481 TPHY------------SVLR---VRKGEEtpTLSYMLPKLHEEAM--------ALPSEEEFAERKR--PEQPAlatfAMP 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 551 SAQKAASPcawlenlfvQKQAQTVDQSRSAQNAAAAIEQmvnTGAVSR------GQFGQvavpavaevapvqsnnayiSQ 624
Cdd:PRK10811 536 DVPPAPTP---------AEPAAPVVAAAPKAAAATPPAQ---PGLLSRffgalkALFSG-------------------GE 584
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 625 SPVKQDVREHVEKDDKSQQQ-----RQNNKKRKHKEQREQHHQSHEQQHQVHEEVVQLSRQEQRELKRQQKRQQQQDQQH 699
Cdd:PRK10811 585 ETKPQEQPAPKAEAKPERQQdrrkpRQNNRRDRNERRDTRDNRTRREGRENREENRRNRRQAQQQTAETRESQQAEVTEK 664
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 700 QNNDVQHTENavPRRDRnnQQRPNRPNRHRDPSVLNENQNTPVVVDEKQ--IKVDVIDAPKHDVMNTALIInvdQGQSEI 777
Cdd:PRK10811 665 ARTQDEQQQA--PRRER--QRRRNDEKRQAQQEAKALNVEEQSVQETEQeeRVQQVQPRRKQRQLNQKVRI---EQSVAE 737
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 778 VALTPERRHVERVETTSTEVAQEPT-----PAPVVAEKAAVVETKEEAQPSQEAAQPQIKRASndPR------MRRRQQR 846
Cdd:PRK10811 738 EAVAPVVEETVAAEPVVQEVPAPRTelvkvPLPVVAQTAPEQDEENNAENRDNNGMPRRSRRS--PRhlrvsgQRRRRYR 815
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 847 EAK----------HAkAATPSIAPSQ------IPTLAQHTIGSLIRHVYGEDCTVLIEQFGLVPtfnralqkfAEQYAST 910
Cdd:PRK10811 816 DERyptqspmpltVA-CASPEMASGKvwirypVVRPQDVQVEEQREAEEVQVQPVVAEVPVAAA---------VEPVVSA 885
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 911 LVVEVTAETEEKKPVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRVANDPrerrrLAKLAAEQAfEQVKQQHSAQEEV 990
Cdd:PRK10811 886 PVVEAVAEVVEEPVVVAEPQPEEVVVVETTHPEVIAAPVTEQPQVITESDVA-----VAQEVAEHA-EPVVEPQDETADI 959
|
1050 1060 1070 1080 1090
....*....|....*....|....*....|....*....|....*....|...
gi 446750063 991 ATPAPVAEETVAAPTAETQATVEPAQqplelNQSTEVVQPEAAPAEEKATEET 1043
Cdd:PRK10811 960 EEAAETAEVVVAEPEVVAQPAAPVVA-----EVAAEVETVTAVEPEVAPAQVP 1007
|
|
| RNaseEG |
TIGR00757 |
ribonuclease, Rne/Rng family; This model describes ribonuclease G (formerly CafA, cytoplasmic ... |
15-422 |
1.17e-177 |
|
ribonuclease, Rne/Rng family; This model describes ribonuclease G (formerly CafA, cytoplasmic axial filament protein A), the N-terminal domain of ribonuclease E in which ribonuclease activity resides, and related proteins. In E. coli, both RNase E and RNase G have been shown to play a role in the maturation of the 5' end of 16S RNA. The C-terminal half of RNase E (excluded from the seed alignment for this model) lacks ribonuclease activity but participates in mRNA degradation by organizing the degradosome. [Transcription, Degradation of RNA]
Pssm-ID: 273254 [Multi-domain] Cd Length: 414 Bit Score: 526.12 E-value: 1.17e-177
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 15 RVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFQADPRQTS-----NIR 89
Cdd:TIGR00757 2 RVALVEGGRLFDLIIERPKSRQLKGNIYKGRVTRILPSLQAAFVDIGLEKNGFLHASDIGPNYECLAPAEAKreagpSIS 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 90 ELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNPkGGGISRQI-SGSVREELKEILASLNVPRGMSVIVRT 168
Cdd:TIGR00757 82 ELLRPGQSVLVQVVKEPRGNKGARLTTDISLPGRYLVLMPNNS-HVGVSRRIeSGEERERLKKLLRSEELPEGMGLIIRT 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 169 AGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNEAYNFVKAVMPR 248
Cdd:TIGR00757 161 AAEGASEEALIKDLEFLLRKWEKIKEKAQKRPAPCLIYGEPDIIKRVIRDYLDTDVKEILIDSKEIYEEAKEFIQLYAPE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 249 QLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETALNTNLEAAEEIA 328
Cdd:TIGR00757 241 LVSKLKLYRGSDPLFEGFQIEKQIDKATQRKVWLPSGGYIVIDQTEALTTIDVNSGRFTGGGNLEETALNTNLEAAKEIA 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 329 RQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEATGYVCPRCHGTG 408
Cdd:TIGR00757 321 RQLRLRNLGGIIIIDFIDMKSEKNQRRVLERLKEALRRDRARIQISGISEFGLVEMTRKRLRESLMEVLGTVCPHCSGTG 400
|
410
....*....|....
gi 446750063 409 MVRDLRSLSLSIMR 422
Cdd:TIGR00757 401 IVKTSESVLLEIER 414
|
|
| RNase_E_G |
pfam10150 |
Ribonuclease E/G family; Ribonuclease E and Ribonuclease G are related enzymes that cleave a ... |
120-387 |
3.85e-124 |
|
Ribonuclease E/G family; Ribonuclease E and Ribonuclease G are related enzymes that cleave a wide variety of RNAs.
Pssm-ID: 462965 Cd Length: 267 Bit Score: 380.97 E-value: 3.85e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 120 LAGRYLVLMPNNpKGGGISRQISG-SVREELKEILASLNvPRGMSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASS 198
Cdd:pfam10150 1 LPGRYLVLMPFG-KIVGVSRKIEDeEERERLKEILESLK-PEGMGVIVRTAAEGASEEELQADLEYLLKLWEEILKKAKK 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 199 GPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNEAYNFVKAVMPRQLDKLKTYTLNEPLFAHFGIESQIQTAYER 278
Cdd:pfam10150 79 AKAPSLLYEELDLILRVLRDLLNDDIDEIIVDDEEVYEEIKEFLEEIAPDLKKRVELYEGERPLFDLYGIEKQIEKALSR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 279 EVKLPSGGSIVIDQTEALVSIDINSAKSTRGHDVEETALNTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEA 358
Cdd:pfam10150 159 KVWLKSGGYLVIDQTEALTVIDVNSGKFTGKKNLEETALKTNLEAAKEIARQLRLRNLGGIIVIDFIDMKDEENREKVLE 238
|
250 260
....*....|....*....|....*....
gi 446750063 359 KLREATQSDRARIQFGQLSRFGLMEMSRQ 387
Cdd:pfam10150 239 ALKEALKKDRAKTQVLGITKLGLVEMTRK 267
|
|
| PRK11712 |
PRK11712 |
ribonuclease G; Provisional |
4-473 |
2.83e-97 |
|
ribonuclease G; Provisional
Pssm-ID: 183285 [Multi-domain] Cd Length: 489 Bit Score: 317.72 E-value: 2.83e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 4 MLINATHAEeVRVALITGNRLYDFDLENRTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIA-NSYFQADP 82
Cdd:PRK11712 5 LLVNVTPSE-TRVALIEGGILQEIHIEREAKRGIVGNIYKGRVSRVLPGMQAAFVDIGLDKAAFLHASDIVpHTECVAGE 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 83 RQTS----NIRELITEGTELLVQVEKEERGNKGAALSTFISLAGRYLVLMPNNPKGGgISRQI-SGSVREELKEILASLN 157
Cdd:PRK11712 84 EQKQfvvrDISELVRQGQDIMVQVVKDPLGTKGARLTTDITLPSRYLVFMPGASHVG-VSQRIeSEEERERLKKIVAPYC 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 158 VPRGmSVIVRTAGIGRTQEELQLDLQHLLDLWAQIQGTASSGPSPMLVHQEAGVVTRAIRDYLRDDVAEILIDSEQAYNE 237
Cdd:PRK11712 163 DEQG-GFIIRTAAEGVGEEELAQDAAFLKRLWTKVMERKKRYQTRYQLYGELALAQRVLRDFVGAELDRIRVDSRLTYEE 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 238 AYNFVKAVMPRQLDKLKTYTLNEPLFAHFGIESQIQTAYEREVKLPSGGSIVIDQTEALVSIDINSAKSTrGH-DVEETA 316
Cdd:PRK11712 242 LKEFTSEYIPEMTDKLEHYSGRQPIFDLYDVENEIQRALERKVELKSGGYLIIDQTEAMTTVDINTGAFV-GHrNLEETI 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 317 LNTNLEAAEEIARQLRLRDIGGLVVIDFIDMTKERNQRMVEAKLREATQSDRARIQFGQLSRFGLMEMSRQRLRPSLEEA 396
Cdd:PRK11712 321 FNTNIEATQAIARQLRLRNLGGIIIIDFIDMNNEDHRRRVLHSLEQALSKDRVKTNINGFSQLGLVEMTRKRTRESLEHV 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 397 TGYVCPRCHGTGMVRDLRSLSLSIMRkveEIaLRERHG----EVQVEVPVEIAAFLLNEKRHSLVYLEQTSGVRVTVLPH 472
Cdd:PRK11712 401 LCGECPTCHGRGTVKTVETVCYEIMR---EI-VRVHHAydsdRFLVYASPAVAEALKGEESHALAELEIFVGKQVKVQIE 476
|
.
gi 446750063 473 P 473
Cdd:PRK11712 477 P 477
|
|
| S1_RNase_E |
cd04453 |
S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential ... |
32-123 |
2.22e-29 |
|
S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain that is highly homologous to that of RNase E. RNase G not only shares sequence similarity with RNase E, but also functionally overlaps with RNase E. In Escherichia coli, RNase G is involved in the maturation of the 5' end of the 16S rRNA. RNase G plays a secondary role in mRNA decay.
Pssm-ID: 239900 [Multi-domain] Cd Length: 88 Bit Score: 112.30 E-value: 2.22e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 32 RTREQKKSNIYKGHVTRVEPSLEAVFVEYGAGRQGFLSMREIANSYFqadpRQTSNIRELITEGTELLVQVEKEERGNKG 111
Cdd:cd04453 1 PNREPIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYF----KKHKKIAKLLKEGQEILVQVVKEPIGTKG 76
|
90
....*....|..
gi 446750063 112 AALSTFISLAGR 123
Cdd:cd04453 77 PRLTTNISLPGR 88
|
|
| S1 |
smart00316 |
Ribosomal protein S1-like RNA-binding domain; |
37-116 |
1.54e-06 |
|
Ribosomal protein S1-like RNA-binding domain;
Pssm-ID: 197648 [Multi-domain] Cd Length: 72 Bit Score: 46.83 E-value: 1.54e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 37 KKSNIYKGHVTRVEPSleAVFVEYGAGRQGFLSMREIANSYfqadprqTSNIRELITEGTELLVQVEKEERGNKGAALST 116
Cdd:smart00316 1 EVGDVVEGTVTEITPG--GAFVDLGNGVEGLIPISELSDKR-------VKDPEEVLKVGDEVKVKVLSVDEEKGRIILSL 71
|
|
| S1 |
pfam00575 |
S1 RNA binding domain; The S1 domain occurs in a wide range of RNA associated proteins. It is ... |
37-116 |
3.00e-05 |
|
S1 RNA binding domain; The S1 domain occurs in a wide range of RNA associated proteins. It is structurally similar to cold shock protein which binds nucleic acids. The S1 domain has an OB-fold structure.
Pssm-ID: 425760 [Multi-domain] Cd Length: 72 Bit Score: 43.04 E-value: 3.00e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 37 KKSNIYKGHVTRVEPslEAVFVEYGAGRQGFLSMREIANsyfqadpRQTSNIRELITEGTELLVQVEKEERGNKGAALST 116
Cdd:pfam00575 2 EKGDVVEGEVTRVTK--GGAFVDLGNGVEGFIPISELSD-------DHVEDPDEVIKVGDEVKVKVLKVDKDRRRIILSI 72
|
|
| PRK12323 |
PRK12323 |
DNA polymerase III subunit gamma/tau; |
908-1042 |
1.46e-04 |
|
DNA polymerase III subunit gamma/tau;
Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 46.02 E-value: 1.46e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 908 ASTLVVEVTAETEEKKPVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRVANDPRErrrlAKLAAEQAFEQVKQQHSAQ 987
Cdd:PRK12323 375 ATAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPE----ALAAARQASARGPGGAPAP 450
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*
gi 446750063 988 EEVATPAPVAEETVAAPTAETQATVEPAQQPLELNQSTEVVQPEAAPAEEKATEE 1042
Cdd:PRK12323 451 APAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAPAAAPAPADDDPPPWEELPPE 505
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
801-1014 |
9.65e-04 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 43.39 E-value: 9.65e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 801 PTPAPVVAEKAAVVETKEEAQPSQEAAQPQIKRASNDPRMRRRQQREAKHAKAATPSIAPSqiPTLAQHTIGSLirhvyg 880
Cdd:PHA03247 2624 PDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPR--RRAARPTVGSL------ 2695
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 881 edcTVLIEQFGLVPTFNRALQKFAEQYASTLVVEVTAETEEKKPVTRDAELPSHKPA----EEAEPAPVLPLTPPQAPAP 956
Cdd:PHA03247 2696 ---TSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPALPAAPAPPAVPAGPAtpggPARPARPPTTAGPPAPAPP 2772
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 446750063 957 RVANDPrERRRLAKLAAEQAFEQVKQQHSAQEEVATPAPVAEETVAAPTAETQATVEP 1014
Cdd:PHA03247 2773 AAPAAG-PPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPLP 2829
|
|
| S1_like |
cd00164 |
S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of ... |
42-115 |
1.04e-03 |
|
S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Pssm-ID: 238094 [Multi-domain] Cd Length: 65 Bit Score: 38.52 E-value: 1.04e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446750063 42 YKGHVTRVEPslEAVFVEYGAGRQGFLSMREIANSYFQadprqtsNIRELITEGTELLVQVEKEERGNKGAALS 115
Cdd:cd00164 1 VTGKVVSITK--FGVFVELEDGVEGLVHISELSDKFVK-------DPSEVFKVGDEVEVKVLEVDPEKGRISLS 65
|
|
| PRK07764 |
PRK07764 |
DNA polymerase III subunits gamma and tau; Validated |
932-1043 |
4.33e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 41.12 E-value: 4.33e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 932 PSHKPAEEAEPAPvlplTPPQAPAPRVANDPRERRRLAKLAAEQAFEQvkQQHSAQEEVATPAPVAEETVAAPTAETQAT 1011
Cdd:PRK07764 396 AAAPSAAAAAPAA----APAPAAAAPAAAAAPAPAAAPQPAPAPAPAP--APPSPAGNAPAGGAPSPPPAAAPSAQPAPA 469
|
90 100 110
....*....|....*....|....*....|..
gi 446750063 1012 VEPAQQPLELNQSTEVVQPEAAPAEEKATEET 1043
Cdd:PRK07764 470 PAAAPEPTAAPAPAPPAAPAPAAAPAAPAAPA 501
|
|
| Rib_recp_KP_reg |
pfam05104 |
Ribosome receptor lysine/proline rich region; This highly conserved region is found towards ... |
921-1035 |
6.12e-03 |
|
Ribosome receptor lysine/proline rich region; This highly conserved region is found towards the C-terminus of the transmembrane domain. The function is unclear.
Pssm-ID: 461548 [Multi-domain] Cd Length: 140 Bit Score: 38.18 E-value: 6.12e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 921 EKKPVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRVANDPRERRRLAKLAAEQAFEQVKQQHSAQEEVATPAPVAEet 1000
Cdd:pfam05104 40 KKKEEKPNGKLPESEQADESEEEPREFKTPDEAPSAALEPEPVPTPVPAPVEPEPAPPSESPAPSPKEKKKKEKKSAK-- 117
|
90 100 110
....*....|....*....|....*....|....*
gi 446750063 1001 vaaptaetqatVEPAQQPlELNQSTEVVQPEAAPA 1035
Cdd:pfam05104 118 -----------VEPAETP-EAVQPKPALEKEEPPA 140
|
|
| PRK07764 |
PRK07764 |
DNA polymerase III subunits gamma and tau; Validated |
924-1035 |
6.73e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 40.74 E-value: 6.73e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 924 PVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRVANDPRERRRLAKLAAEQAFEqvkQQHSAQEEVATPAPVAEETVAA 1003
Cdd:PRK07764 403 AAAPAAAPAPAAAAPAAAAAPAPAAAPQPAPAPAPAPAPPSPAGNAPAGGAPSPP---PAAAPSAQPAPAPAAAPEPTAA 479
|
90 100 110
....*....|....*....|....*....|..
gi 446750063 1004 PTAETQATVEPAQQPlelnqstEVVQPEAAPA 1035
Cdd:PRK07764 480 PAPAPPAAPAPAAAP-------AAPAAPAAPA 504
|
|
| PRK10263 |
PRK10263 |
DNA translocase FtsK; Provisional |
756-1014 |
7.10e-03 |
|
DNA translocase FtsK; Provisional
Pssm-ID: 236669 [Multi-domain] Cd Length: 1355 Bit Score: 40.45 E-value: 7.10e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 756 APKHDVMNTALIINVDQG-QSEIVALTPerrhVERVETTSTEVAQEPTPAPVVAEKAAVVETKEEaqPSQEAAQPQIKRA 834
Cdd:PRK10263 335 APVEPVTQTPPVASVDVPpAQPTVAWQP----VPGPQTGEPVIAPAPEGYPQQSQYAQPAVQYNE--PLQQPVQPQQPYY 408
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 835 SNDPRMRRRQQREAKHAkaATPSIAPSQIPTLAQHTIGSLIRHVYGEdctvliEQFGLVPTFnralqkfaeQYASTLVVE 914
Cdd:PRK10263 409 APAAEQPAQQPYYAPAP--EQPAQQPYYAPAPEQPVAGNAWQAEEQQ------STFAPQSTY---------QTEQTYQQP 471
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 915 VTAETEEKKPvtrdaelPSHKPAEEAEPAPVLPLTPPQAPaPRVANDPRERRRLAKLAAEQAFEQVKQQHSAQEEVATPA 994
Cdd:PRK10263 472 AAQEPLYQQP-------QPVEQQPVVEPEPVVEETKPARP-PLYYFEEVEEKRAREREQLAAWYQPIPEPVKEPEPIKSS 543
|
250 260
....*....|....*....|
gi 446750063 995 PVAEETVAAPTAETQATVEP 1014
Cdd:PRK10263 544 LKAPSVAAVPPVEAAAAVSP 563
|
|
| PRK10263 |
PRK10263 |
DNA translocase FtsK; Provisional |
800-1039 |
7.28e-03 |
|
DNA translocase FtsK; Provisional
Pssm-ID: 236669 [Multi-domain] Cd Length: 1355 Bit Score: 40.45 E-value: 7.28e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 800 EPTPAPVVAEKAAVVETKEEAQPSQEAAQ-PQIKRASNDPRMRRRQQREAKHAKAATPSIAPsQIPTLAQHTIGSLIRHV 878
Cdd:PRK10263 314 APITEPVAVAAAATTATQSWAAPVEPVTQtPPVASVDVPPAQPTVAWQPVPGPQTGEPVIAP-APEGYPQQSQYAQPAVQ 392
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 879 YGEDCTVLIEQFGLVPTFNRALQKFAEQYASTLVVEVTAETEEKKPVTRDAELPSHKPAEEAEPAPVLPLTPPQAPAPRV 958
Cdd:PRK10263 393 YNEPLQQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPVAGNAWQAEEQQSTFAPQSTYQTEQTYQQPA 472
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 959 ANDPRErrrlaklaaeqafeqVKQQHSAQEEVATPAPVAEETVAAP--------------------TAETQATVEPAQQP 1018
Cdd:PRK10263 473 AQEPLY---------------QQPQPVEQQPVVEPEPVVEETKPARpplyyfeeveekrarereqlAAWYQPIPEPVKEP 537
|
250 260
....*....|....*....|.
gi 446750063 1019 LELNQSTEVVQPEAAPAEEKA 1039
Cdd:PRK10263 538 EPIKSSLKAPSVAAVPPVEAA 558
|
|
| PRK07994 |
PRK07994 |
DNA polymerase III subunits gamma and tau; Validated |
932-1042 |
9.09e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236138 [Multi-domain] Cd Length: 647 Bit Score: 40.23 E-value: 9.09e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446750063 932 PSHKPAEEAEPAPVLPLTPPQAPAPRVANDPRERRRLAKLAAEQAFEQVKQQHSAQEEVATPAPVAEETVAAPTaETQAT 1011
Cdd:PRK07994 383 ATAAPTAAVAPPQAPAVPPPPASAPQQAPAVPLPETTSQLLAARQQLQRAQGATKAKKSEPAAASRARPVNSAL-ERLAS 461
|
90 100 110
....*....|....*....|....*....|..
gi 446750063 1012 VEPAQQPLELN-QSTEVVQPEAAPAEEKATEE 1042
Cdd:PRK07994 462 VRPAPSALEKApAKKEAYRWKATNPVEVKKEP 493
|
|
|