|
Name |
Accession |
Description |
Interval |
E-value |
| DSRM_SON-like |
cd19870 |
double-stranded RNA binding motif of protein SON and similar proteins; Protein SON (also known ... |
2369-2419 |
9.79e-25 |
|
double-stranded RNA binding motif of protein SON and similar proteins; Protein SON (also known as Bax antagonist selected in saccharomyces 1 (BASS1), negative regulatory element-binding protein (NRE-binding protein), or protein DBP-5, or SON3) is an RNA-binding protein which acts as an mRNA splicing cofactor by promoting efficient splicing of transcripts that possess weak splice sites. It specifically promotes splicing of many cell-cycle and DNA-repair transcripts that possess weak splice sites, such as TUBG1, KATNB1, TUBGCP2, AURKB, PCNT, AKT1, RAD23A, and FANCG. Members of this group contain a double-stranded RNA binding motif (DSRM) at the C-terminus. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380699 Cd Length: 75 Bit Score: 99.66 E-value: 9.79e-25
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 17046383 2369 GKHPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVLRNGALTRPNC 2419
Cdd:cd19870 1 GKHPVSALMELCNKRKWGPPEFRLVEESGPPHRKHFLFKVVVNGVEYQPSV 51
|
|
| G-patch |
pfam01585 |
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ... |
2305-2349 |
5.95e-17 |
|
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.
Pssm-ID: 396249 [Multi-domain] Cd Length: 45 Bit Score: 76.39 E-value: 5.95e-17
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 17046383 2305 TGGMGAVLMRKMGWREGEGLGKNKEGNKEPILVDFKTDRKGLVAV 2349
Cdd:pfam01585 1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLGAE 45
|
|
| G_patch |
smart00443 |
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ... |
2303-2349 |
2.34e-15 |
|
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.
Pssm-ID: 197727 [Multi-domain] Cd Length: 47 Bit Score: 71.81 E-value: 2.34e-15
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 17046383 2303 PVTGGMGAVLMRKMGWREGEGLGKNKEGNKEPILVDFKTDRKGLVAV 2349
Cdd:smart00443 1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAV 47
|
|
| PspC_subgroup_2 |
NF033839 |
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, ... |
308-493 |
1.61e-10 |
|
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, as described in Streptococcus pneumoniae, is a repetitive and highly variable protein, recognized by a conserved N-terminal domain and also by genomic location. This form, subgroup 2, is anchored covalently after cleavage by sortase at a C-terminal LPXTG site. The other form, subgroup 1, has variable numbers of a choline-binding repeat in the C-terminal region, and is also known as choline-binding protein A.
Pssm-ID: 468202 [Multi-domain] Cd Length: 557 Bit Score: 66.33 E-value: 1.61e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 308 VSSETPTE-VYPEPSTSTT--MDFPESSAIEALRLPEQPVDVPSEIADSSMTRPQELPELPKTTA---LELQESSVASAM 381
Cdd:NF033839 279 LTQDTPKEpGNKKPSAPKPgmQPSPQPEKKEVKPEPETPKPEVKPQLEKPKPEVKPQPEKPKPEVkpqLETPKPEVKPQP 358
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 382 ELPGPPATSMPELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQE--LPGLPAP 459
Cdd:NF033839 359 EKPKPEVKPQPEKPKPEVKPQPETPKPEVKPQPEKPKPEVKPQPEKPKPEVKPQPEKPKPEVKPQPEKPKPevKPQPEKP 438
|
170 180 190
....*....|....*....|....*....|....
gi 17046383 460 SMGLEPPQEVPEPSVMAQELPGLPLVTAAVELPE 493
Cdd:NF033839 439 KPEVKPQPEKPKPEVKPQPETPKPEVKPQPEKPK 472
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
170-474 |
8.52e-09 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 61.49 E-value: 8.52e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 170 PTRAFGPSETNESPAVVLEPPVVSMEVSEPHIleTLKPATK-TAELSVVSTSVISEQSEQSVAVMPEPSMTKILdsfAAA 248
Cdd:PHA03247 2704 PPPTPEPAPHALVSATPLPPGPAAARQASPAL--PAAPAPPaVPAGPATPGGPARPARPPTTAGPPAPAPPAAP---AAG 2778
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 249 PVPTTTLVLKSSEPVVTMSVeyqmksvlksveSTSPEPSKIMLVEPPVAKVLEPSETLVVSSETPTEVYPEPSTSTTMDF 328
Cdd:PHA03247 2779 PPRRLTRPAVASLSESRESL------------PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPP 2846
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 329 PESSAIEALRLPEQPVD--VPSEIADSSMTRPQElPELPKTTALELQESSVASAMELPGPPATSMPELQGPPVTPVLELP 406
Cdd:PHA03247 2847 PPSLPLGGSVAPGGDVRrrPPSRSPAAKPAAPAR-PPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPP 2925
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17046383 407 GPSATPVPELPGPLSTPVPELPGP-----PATAVPE------LPGPSVTPVPQLSQELPGLPAPSMGLEPPQEVPEPSV 474
Cdd:PHA03247 2926 PPQPQPPPPPPPRPQPPLAPTTDPagagePSGAVPQpwlgalVPGRVAVPRFRVPQPAPSREAPASSTPPLTGHSLSRV 3004
|
|
| PHA03379 |
PHA03379 |
EBNA-3A; Provisional |
340-673 |
2.68e-08 |
|
EBNA-3A; Provisional
Pssm-ID: 223066 [Multi-domain] Cd Length: 935 Bit Score: 59.69 E-value: 2.68e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 340 PEQPVDVPSeiadssmtrpqelPELPKttalELQESSVASAMELPGPPATSMPElQGPPVTPVLELPGPSA----TPVPE 415
Cdd:PHA03379 416 PRPPVEKPR-------------PEVPQ----SLETATSHGSAQVPEPPPVHDLE-PGPLHDQHSMAPCPVAqlppGPLQD 477
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 416 L-PGPLSTPVPELPGPPATAVPELPGPSVTP-VPQLSQELPGLPAPSMGLEPPQE-VPEPSVmAQELPGLPLVT-AAVEL 491
Cdd:PHA03379 478 LePGDQLPGVVQDGRPACAPVPAPAGPIVRPwEASLSQVPGVAFAPVMPQPMPVEpVPVPTV-ALERPVCPAPPlIAMQG 556
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 492 PEQPA--VTVAMELTEQPVTTTELEQPVGMTTVEHP--GHPE--VTTATGLLGQPEATMV-----LELPGQPVATTaleL 560
Cdd:PHA03379 557 PGETSgiVRVRERWRPAPWTPNPPRSPSQMSVRDRLarLRAEaqPYQASVEVQPPQLTQVspqqpMEYPLEPEQQM---F 633
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 561 PGQP--SVTGVPELPGLPS---ATRALELSgQPVATGAlelPGPLMAAGALEFS--GQSGAAGALELLGQPLATGVLE-- 631
Cdd:PHA03379 634 PGSPfsQVADVMRAGGVPAmqpQYFDLPLQ-QPISQGA---PLAPLRASMGPVPpvPATQPQYFDIPLTEPINQGASAah 709
|
330 340 350 360
....*....|....*....|....*....|....*....|....*
gi 17046383 632 -LPGQPGAPEL--PGQPVATVALEISVQSVVTTSELSTMTVSQSL 673
Cdd:PHA03379 710 fLPQQPMEGPLvpERWMFQGATLSQSVRPGVAQSQYFDLPLTQPI 754
|
|
| DSRM |
smart00358 |
Double-stranded RNA binding motif; |
2372-2408 |
2.75e-07 |
|
Double-stranded RNA binding motif;
Pssm-ID: 214634 [Multi-domain] Cd Length: 67 Bit Score: 49.57 E-value: 2.75e-07
10 20 30
....*....|....*....|....*....|....*..
gi 17046383 2372 PVSALMEICNKRRWqPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:smart00358 1 PKSLLQELAQKRKL-PPEYELVKEEGPDHAPRFTVTV 36
|
|
| DND1_DSRM |
pfam14709 |
double strand RNA binding domain from DEAD END PROTEIN 1; A C-terminal domain in human dead ... |
2372-2412 |
8.48e-07 |
|
double strand RNA binding domain from DEAD END PROTEIN 1; A C-terminal domain in human dead end protein 1 (DND1_HUMAN) homologous to double strand RNA binding domains (PF00035, PF00333)
Pssm-ID: 405408 Cd Length: 80 Bit Score: 48.88 E-value: 8.48e-07
10 20 30 40
....*....|....*....|....*....|....*....|.
gi 17046383 2372 PVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVLRNG 2412
Cdd:pfam14709 3 AVSHLEELCQKNKWGSPVYELHSTAGPDGKQLFTYKVVIPG 43
|
|
| PspC_subgroup_2 |
NF033839 |
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, ... |
258-459 |
1.32e-06 |
|
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, as described in Streptococcus pneumoniae, is a repetitive and highly variable protein, recognized by a conserved N-terminal domain and also by genomic location. This form, subgroup 2, is anchored covalently after cleavage by sortase at a C-terminal LPXTG site. The other form, subgroup 1, has variable numbers of a choline-binding repeat in the C-terminal region, and is also known as choline-binding protein A.
Pssm-ID: 468202 [Multi-domain] Cd Length: 557 Bit Score: 53.62 E-value: 1.32e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 258 KSSEPVVTMSVEYQMKSVLKSVESTSPEPSKIMLVEPPVAKVLEPSETlvvsseTPTEVYPEPSTSTTMDFPESSAIEAL 337
Cdd:NF033839 291 KPSAPKPGMQPSPQPEKKEVKPEPETPKPEVKPQLEKPKPEVKPQPEK------PKPEVKPQLETPKPEVKPQPEKPKPE 364
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 338 RLPEQPVDVPSEIADSSMTRPQELPELPKTT-----ALELQESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSATP 412
Cdd:NF033839 365 VKPQPEKPKPEVKPQPETPKPEVKPQPEKPKpevkpQPEKPKPEVKPQPEKPKPEVKPQPEKPKPEVKPQPEKPKPEVKP 444
|
170 180 190 200
....*....|....*....|....*....|....*....|....*..
gi 17046383 413 VPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAP 459
Cdd:NF033839 445 QPEKPKPEVKPQPETPKPEVKPQPEKPKPEVKPQPEKPKPDNSKPQA 491
|
|
| Herpes_BLLF1 |
pfam05109 |
Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ... |
205-534 |
1.44e-05 |
|
Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 viral late glycoprotein, also termed gp350/220. It is the most abundantly expressed glycoprotein in the viral envelope of the Herpesviruses and is the major antigen responsible for stimulating the production of neutralising antibodies in vivo.
Pssm-ID: 282904 [Multi-domain] Cd Length: 886 Bit Score: 50.69 E-value: 1.44e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 205 LKPATKTAELSVVSTSVISEQSEQSVAVMPEPSMTKILDSFAAAPVPTTTLVLKSSEPVVT-MSVEYQMKSVLKSVESTS 283
Cdd:pfam05109 396 LGTAPKTLIITRTATNATTTTHKVIFSKAPESTTTSPTLNTTGFAAPNTTTGLPSSTHVPTnLTAPASTGPTVSTADVTS 475
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 284 PEPSKIMLVEPPVAKVLEP-------------SETLVVSSETPTEVYPEPSTSTTMDFPESSAIEALRlPEQPVDVPSEI 350
Cdd:pfam05109 476 PTPAGTTSGASPVTPSPSPrdngteskapdmtSPTSAVTTPTPNATSPTPAVTTPTPNATSPTLGKTS-PTSAVTTPTPN 554
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 351 ADSSMtrPQELPELPKTTALELQESSVASAMELPGPPATSmpelqgppvtPVLELPGPSA-TPVPELPGPLSTPVPELPg 429
Cdd:pfam05109 555 ATSPT--PAVTTPTPNATIPTLGKTSPTSAVTTPTPNATS----------PTVGETSPQAnTTNHTLGGTSSTPVVTSP- 621
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 430 ppatavpelPGPSVTPVPQLSQELPGLPAPSMGLEPPQ--EVPEPSVMAQELPGLPLVTAAVELPEQ------PAVTVAM 501
Cdd:pfam05109 622 ---------PKNATSAVTTGQHNITSSSTSSMSLRPSSisETLSPSTSDNSTSHMPLLTSAHPTGGEnitqvtPASTSTH 692
|
330 340 350
....*....|....*....|....*....|....*...
gi 17046383 502 ELTE-----QPVTTTELEQPVGMTTVEHPGHPEVTTAT 534
Cdd:pfam05109 693 HVSTsspapRPGTTSQASGPGNSSTSTKPGEVNVTKGT 730
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1289-1481 |
8.66e-05 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 48.11 E-value: 8.66e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1289 PAMsAEPTVLASEPPVMSETAETFDSMRASGHVASEVSTSLLVPAVTTPVLAESILEPPAMAAPESSAMAVLESSAVTVL 1368
Cdd:PRK10811 834 PEM-ASGKVWIRYPVVRPQDVQVEEQREAEEVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEEVVVV 912
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1369 ESSTVTVLESSTVTvlepsvvtvpePPVVAEPDYVTIPVPVVSALEPSVPVLEPAVSVLQPS----MIVSEPSVSVQEST 1444
Cdd:PRK10811 913 ETTHPEVIAAPVTE-----------QPQVITESDVAVAQEVAEHAEPVVEPQDETADIEEAAetaeVVVAEPEVVAQPAA 981
|
170 180 190
....*....|....*....|....*....|....*..
gi 17046383 1445 VTVSEPAVTVSEQTQVIPTEVAIESTPMILESSIMSS 1481
Cdd:PRK10811 982 PVVAEVAAEVETVTAVEPEVAPAQVPEATVEHNHATA 1018
|
|
| half-pint |
TIGR01645 |
poly-U binding splicing factor, half-pint family; The proteins represented by this model ... |
312-477 |
9.54e-05 |
|
poly-U binding splicing factor, half-pint family; The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Pssm-ID: 130706 [Multi-domain] Cd Length: 612 Bit Score: 47.76 E-value: 9.54e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 312 TPTEVYPEPSTSTTMdfPESSAIEALRLPEQPVDVPSEIADSSMTRPQELPELPkttalelqESSVASAMELPG--PPAT 389
Cdd:TIGR01645 283 TPPDALLQPATVSAI--PAAAAVAAAAATAKIMAAEAVAGAAVLGPRAQSPATP--------SSSLPTDIGNKAvvSSAK 352
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 390 SMPELQG--PPVTPVLELPGPSATPVPELPGPLstPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAPSMGLEPPQ 467
Cdd:TIGR01645 353 KEAEEVPplPQAAPAVVKPGPMEIPTPVPPPGL--AIPSLVAPPGLVAPTEINPSFLASPRKKMKREKLPVTFGALDDTL 430
|
170
....*....|
gi 17046383 468 EVPEPSVMAQ 477
Cdd:TIGR01645 431 AWKEPSKEDQ 440
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1195-1381 |
1.17e-04 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 47.73 E-value: 1.17e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1195 WPTEVPsLPSEESVSQPEPPVSQSEISEPSAVPTDYSVSASDPSVLVSEAAVTVPEPPPEpessiTLTPVESAVVAEEHE 1274
Cdd:PRK10811 819 YPTQSP-MPLTVACASPEMASGKVWIRYPVVRPQDVQVEEQREAEEVQVQPVVAEVPVAA-----AVEPVVSAPVVEAVA 892
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1275 VVPERPVtcmVSETPAMSAEPTVLASEPPVMSETA-ETFDSMRASGHVASEVSTSLLVPAVTTPVLAESILEPPAMAAPE 1353
Cdd:PRK10811 893 EVVEEPV---VVAEPQPEEVVVVETTHPEVIAAPVtEQPQVITESDVAVAQEVAEHAEPVVEPQDETADIEEAAETAEVV 969
|
170 180
....*....|....*....|....*...
gi 17046383 1354 SSAMAVLESSAVTVLESSTVTVLESSTV 1381
Cdd:PRK10811 970 VAEPEVVAQPAAPVVAEVAAEVETVTAV 997
|
|
| SAV_2336_NTERM |
NF041121 |
SAV_2336 family N-terminal domain; This HMM describes an N-terminal domain shared by SAV_2336 ... |
405-503 |
2.36e-03 |
|
SAV_2336 family N-terminal domain; This HMM describes an N-terminal domain shared by SAV_2336 (BAC70047.1) whose C-terminal region suggests restriction enzyme activity (PMID: 18456708), and with other proteins with unrelated C-terminal regions. A member protein was also identified in a kanamycin biosynthetic gene cluster (PMID:16766657), while N-terminal regions of two other member proteins were named Trypco1 in a bioinformatic study (PMID:32101166) of predicted bacterial conflict systems.
Pssm-ID: 469044 [Multi-domain] Cd Length: 473 Bit Score: 43.07 E-value: 2.36e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 405 LPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQlsqelpglPAPSMGLEPPQEVPEPSVMAQELPGLPL 484
Cdd:NF041121 15 MGRAAAPPSPEGPAPTAASQPATPPPPAAPPSPPGDPPEPPAPE--------PAPLPAPYPGSLAPPPPPPPGPAGAAPG 86
|
90
....*....|....*....
gi 17046383 485 VTAAVELPEQPAVTVAMEL 503
Cdd:NF041121 87 AALPVRVPAPPALPNPLEL 105
|
|
| Rnc |
COG0571 |
dsRNA-specific ribonuclease [Transcription]; |
2362-2409 |
4.81e-03 |
|
dsRNA-specific ribonuclease [Transcription];
Pssm-ID: 440336 [Multi-domain] Cd Length: 229 Bit Score: 40.85 E-value: 4.81e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 17046383 2362 AAMKDLSGKHPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVL 2409
Cdd:COG0571 149 EIAPGGAGKDYKTALQEWLQARGLPLPEYEVVEEEGPDHAKTFTVEVL 196
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| DSRM_SON-like |
cd19870 |
double-stranded RNA binding motif of protein SON and similar proteins; Protein SON (also known ... |
2369-2419 |
9.79e-25 |
|
double-stranded RNA binding motif of protein SON and similar proteins; Protein SON (also known as Bax antagonist selected in saccharomyces 1 (BASS1), negative regulatory element-binding protein (NRE-binding protein), or protein DBP-5, or SON3) is an RNA-binding protein which acts as an mRNA splicing cofactor by promoting efficient splicing of transcripts that possess weak splice sites. It specifically promotes splicing of many cell-cycle and DNA-repair transcripts that possess weak splice sites, such as TUBG1, KATNB1, TUBGCP2, AURKB, PCNT, AKT1, RAD23A, and FANCG. Members of this group contain a double-stranded RNA binding motif (DSRM) at the C-terminus. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380699 Cd Length: 75 Bit Score: 99.66 E-value: 9.79e-25
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 17046383 2369 GKHPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVLRNGALTRPNC 2419
Cdd:cd19870 1 GKHPVSALMELCNKRKWGPPEFRLVEESGPPHRKHFLFKVVVNGVEYQPSV 51
|
|
| G-patch |
pfam01585 |
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ... |
2305-2349 |
5.95e-17 |
|
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.
Pssm-ID: 396249 [Multi-domain] Cd Length: 45 Bit Score: 76.39 E-value: 5.95e-17
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 17046383 2305 TGGMGAVLMRKMGWREGEGLGKNKEGNKEPILVDFKTDRKGLVAV 2349
Cdd:pfam01585 1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLGAE 45
|
|
| G_patch |
smart00443 |
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ... |
2303-2349 |
2.34e-15 |
|
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.
Pssm-ID: 197727 [Multi-domain] Cd Length: 47 Bit Score: 71.81 E-value: 2.34e-15
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 17046383 2303 PVTGGMGAVLMRKMGWREGEGLGKNKEGNKEPILVDFKTDRKGLVAV 2349
Cdd:smart00443 1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAV 47
|
|
| PspC_subgroup_2 |
NF033839 |
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, ... |
308-493 |
1.61e-10 |
|
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, as described in Streptococcus pneumoniae, is a repetitive and highly variable protein, recognized by a conserved N-terminal domain and also by genomic location. This form, subgroup 2, is anchored covalently after cleavage by sortase at a C-terminal LPXTG site. The other form, subgroup 1, has variable numbers of a choline-binding repeat in the C-terminal region, and is also known as choline-binding protein A.
Pssm-ID: 468202 [Multi-domain] Cd Length: 557 Bit Score: 66.33 E-value: 1.61e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 308 VSSETPTE-VYPEPSTSTT--MDFPESSAIEALRLPEQPVDVPSEIADSSMTRPQELPELPKTTA---LELQESSVASAM 381
Cdd:NF033839 279 LTQDTPKEpGNKKPSAPKPgmQPSPQPEKKEVKPEPETPKPEVKPQLEKPKPEVKPQPEKPKPEVkpqLETPKPEVKPQP 358
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 382 ELPGPPATSMPELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQE--LPGLPAP 459
Cdd:NF033839 359 EKPKPEVKPQPEKPKPEVKPQPETPKPEVKPQPEKPKPEVKPQPEKPKPEVKPQPEKPKPEVKPQPEKPKPevKPQPEKP 438
|
170 180 190
....*....|....*....|....*....|....
gi 17046383 460 SMGLEPPQEVPEPSVMAQELPGLPLVTAAVELPE 493
Cdd:NF033839 439 KPEVKPQPEKPKPEVKPQPETPKPEVKPQPEKPK 472
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
170-474 |
8.52e-09 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 61.49 E-value: 8.52e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 170 PTRAFGPSETNESPAVVLEPPVVSMEVSEPHIleTLKPATK-TAELSVVSTSVISEQSEQSVAVMPEPSMTKILdsfAAA 248
Cdd:PHA03247 2704 PPPTPEPAPHALVSATPLPPGPAAARQASPAL--PAAPAPPaVPAGPATPGGPARPARPPTTAGPPAPAPPAAP---AAG 2778
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 249 PVPTTTLVLKSSEPVVTMSVeyqmksvlksveSTSPEPSKIMLVEPPVAKVLEPSETLVVSSETPTEVYPEPSTSTTMDF 328
Cdd:PHA03247 2779 PPRRLTRPAVASLSESRESL------------PSPWDPADPPAAVLAPAAALPPAASPAGPLPPPTSAQPTAPPPPPGPP 2846
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 329 PESSAIEALRLPEQPVD--VPSEIADSSMTRPQElPELPKTTALELQESSVASAMELPGPPATSMPELQGPPVTPVLELP 406
Cdd:PHA03247 2847 PPSLPLGGSVAPGGDVRrrPPSRSPAAKPAAPAR-PPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPP 2925
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 17046383 407 GPSATPVPELPGPLSTPVPELPGP-----PATAVPE------LPGPSVTPVPQLSQELPGLPAPSMGLEPPQEVPEPSV 474
Cdd:PHA03247 2926 PPQPQPPPPPPPRPQPPLAPTTDPagagePSGAVPQpwlgalVPGRVAVPRFRVPQPAPSREAPASSTPPLTGHSLSRV 3004
|
|
| PHA03379 |
PHA03379 |
EBNA-3A; Provisional |
340-673 |
2.68e-08 |
|
EBNA-3A; Provisional
Pssm-ID: 223066 [Multi-domain] Cd Length: 935 Bit Score: 59.69 E-value: 2.68e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 340 PEQPVDVPSeiadssmtrpqelPELPKttalELQESSVASAMELPGPPATSMPElQGPPVTPVLELPGPSA----TPVPE 415
Cdd:PHA03379 416 PRPPVEKPR-------------PEVPQ----SLETATSHGSAQVPEPPPVHDLE-PGPLHDQHSMAPCPVAqlppGPLQD 477
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 416 L-PGPLSTPVPELPGPPATAVPELPGPSVTP-VPQLSQELPGLPAPSMGLEPPQE-VPEPSVmAQELPGLPLVT-AAVEL 491
Cdd:PHA03379 478 LePGDQLPGVVQDGRPACAPVPAPAGPIVRPwEASLSQVPGVAFAPVMPQPMPVEpVPVPTV-ALERPVCPAPPlIAMQG 556
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 492 PEQPA--VTVAMELTEQPVTTTELEQPVGMTTVEHP--GHPE--VTTATGLLGQPEATMV-----LELPGQPVATTaleL 560
Cdd:PHA03379 557 PGETSgiVRVRERWRPAPWTPNPPRSPSQMSVRDRLarLRAEaqPYQASVEVQPPQLTQVspqqpMEYPLEPEQQM---F 633
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 561 PGQP--SVTGVPELPGLPS---ATRALELSgQPVATGAlelPGPLMAAGALEFS--GQSGAAGALELLGQPLATGVLE-- 631
Cdd:PHA03379 634 PGSPfsQVADVMRAGGVPAmqpQYFDLPLQ-QPISQGA---PLAPLRASMGPVPpvPATQPQYFDIPLTEPINQGASAah 709
|
330 340 350 360
....*....|....*....|....*....|....*....|....*
gi 17046383 632 -LPGQPGAPEL--PGQPVATVALEISVQSVVTTSELSTMTVSQSL 673
Cdd:PHA03379 710 fLPQQPMEGPLvpERWMFQGATLSQSVRPGVAQSQYFDLPLTQPI 754
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
340-648 |
1.78e-07 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 57.26 E-value: 1.78e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 340 PEQPVDVPSEIADSSM--TRPQELPELPKTTALEL------QESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSAT 411
Cdd:PHA03247 2553 PPLPPAAPPAAPDRSVppPRPAPRPSEPAVTSRARrpdappQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPS 2632
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 412 PVP-ELPGPLSTPVPELPGPPATAVPelpgPSVTPVPQLSQE--LPGLPAPSMGLEPPQEVPE-PSVMAQELPGLPlvta 487
Cdd:PHA03247 2633 PAAnEPDPHPPPTVPPPERPRDDPAP----GRVSRPRRARRLgrAAQASSPPQRPRRRAARPTvGSLTSLADPPPP---- 2704
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 488 avELPEQPAVTVAMELTEQPVTTTELEQPVGMTTVEhPGHPEVTTATGLLGQPEATMVLELPGQPVATTAlelPGQPSVT 567
Cdd:PHA03247 2705 --PPTPEPAPHALVSATPLPPGPAAARQASPALPAA-PAPPAVPAGPATPGGPARPARPPTTAGPPAPAP---PAAPAAG 2778
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 568 GVPELPGLPSATRALELSGQPVATGALELPGPLMAAGALEFSGQSGAAGAlellgqPLATGVlelpgQPGAPELPGQPVA 647
Cdd:PHA03247 2779 PPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGPL------PPPTSA-----QPTAPPPPPGPPP 2847
|
.
gi 17046383 648 T 648
Cdd:PHA03247 2848 P 2848
|
|
| DSRM |
smart00358 |
Double-stranded RNA binding motif; |
2372-2408 |
2.75e-07 |
|
Double-stranded RNA binding motif;
Pssm-ID: 214634 [Multi-domain] Cd Length: 67 Bit Score: 49.57 E-value: 2.75e-07
10 20 30
....*....|....*....|....*....|....*..
gi 17046383 2372 PVSALMEICNKRRWqPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:smart00358 1 PKSLLQELAQKRKL-PPEYELVKEEGPDHAPRFTVTV 36
|
|
| DSRM_RNAse_III_family |
cd10845 |
double-stranded RNA binding motif of ribonuclease III (RNase III) and similar proteins; RNase ... |
2370-2412 |
6.86e-07 |
|
double-stranded RNA binding motif of ribonuclease III (RNase III) and similar proteins; RNase III (EC 3.1.26.3; also known as ribonuclease 3) digests double-stranded RNA formed within single-strand substrates, but not RNA-DNA hybrids. It is involved in the processing of rRNA precursors, viral transcripts, some mRNAs, and at least 1 tRNA (metY, a minor form of tRNA-init-Met). It cleaves the 30S primary rRNA transcript to yield the immediate precursors to the 16S and 23S rRNAs. The cleavage can occur in assembled 30S, 50S, and even 70S subunits and is influenced by the presence of ribosomal proteins. The RNase III family also includes the mitochondrion-specific ribosomal protein mL44 subfamily, which is composed of mitochondrial 54S ribosomal protein L3 (MRPL3) and mitochondrial 39S ribosomal protein L44 (MRPL44). Members of this family contain an RNase III domain and a C-terminal double-stranded RNA binding motif (DSRM). DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380682 [Multi-domain] Cd Length: 69 Bit Score: 48.64 E-value: 6.86e-07
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 17046383 2370 KHPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVLRNG 2412
Cdd:cd10845 1 KDYKTALQEYLQKRGLPLPEYELVEEEGPDHNKTFTVEVKVNG 43
|
|
| DND1_DSRM |
pfam14709 |
double strand RNA binding domain from DEAD END PROTEIN 1; A C-terminal domain in human dead ... |
2372-2412 |
8.48e-07 |
|
double strand RNA binding domain from DEAD END PROTEIN 1; A C-terminal domain in human dead end protein 1 (DND1_HUMAN) homologous to double strand RNA binding domains (PF00035, PF00333)
Pssm-ID: 405408 Cd Length: 80 Bit Score: 48.88 E-value: 8.48e-07
10 20 30 40
....*....|....*....|....*....|....*....|.
gi 17046383 2372 PVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVLRNG 2412
Cdd:pfam14709 3 AVSHLEELCQKNKWGSPVYELHSTAGPDGKQLFTYKVVIPG 43
|
|
| PspC_subgroup_2 |
NF033839 |
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, ... |
258-459 |
1.32e-06 |
|
pneumococcal surface protein PspC, LPXTG-anchored form; The pneumococcal surface protein PspC, as described in Streptococcus pneumoniae, is a repetitive and highly variable protein, recognized by a conserved N-terminal domain and also by genomic location. This form, subgroup 2, is anchored covalently after cleavage by sortase at a C-terminal LPXTG site. The other form, subgroup 1, has variable numbers of a choline-binding repeat in the C-terminal region, and is also known as choline-binding protein A.
Pssm-ID: 468202 [Multi-domain] Cd Length: 557 Bit Score: 53.62 E-value: 1.32e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 258 KSSEPVVTMSVEYQMKSVLKSVESTSPEPSKIMLVEPPVAKVLEPSETlvvsseTPTEVYPEPSTSTTMDFPESSAIEAL 337
Cdd:NF033839 291 KPSAPKPGMQPSPQPEKKEVKPEPETPKPEVKPQLEKPKPEVKPQPEK------PKPEVKPQLETPKPEVKPQPEKPKPE 364
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 338 RLPEQPVDVPSEIADSSMTRPQELPELPKTT-----ALELQESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSATP 412
Cdd:NF033839 365 VKPQPEKPKPEVKPQPETPKPEVKPQPEKPKpevkpQPEKPKPEVKPQPEKPKPEVKPQPEKPKPEVKPQPEKPKPEVKP 444
|
170 180 190 200
....*....|....*....|....*....|....*....|....*..
gi 17046383 413 VPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAP 459
Cdd:NF033839 445 QPEKPKPEVKPQPETPKPEVKPQPEKPKPEVKPQPEKPKPDNSKPQA 491
|
|
| Atrophin-1 |
pfam03154 |
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ... |
97-579 |
1.49e-06 |
|
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.
Pssm-ID: 460830 [Multi-domain] Cd Length: 991 Bit Score: 54.00 E-value: 1.49e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 97 TDPTDEIPTKKSKKHKKHKNKKKKKKKEKEKKYKRQPEESE----SKTKSHDDGNIDLESDSFLKfDSEPSAVALELPTR 172
Cdd:pfam03154 55 NDSKAESMKKSSKKIKEEAPSPLKSAKRQREKGASDTEEPErataKKSKTQEISRPNSPSEGEGE-SSDGRSVNDEGSSD 133
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 173 AFGPSETNESPAVVLEPP----VVSMEVSEPHILETLKPATKTAELSVVSTSVISEQSEQSVAVMPEPSMTkildSFAAA 248
Cdd:pfam03154 134 PKDIDQDNRSTSPSIPSPqdneSDSDSSAQQQILQTQPPVLQAQSGAASPPSPPPPGTTQAATAGPTPSAP----SVPPQ 209
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 249 PVPTTTLVLKSSEPVVTMSVEYQMKSVLKSVESTSPEPSKIMLVEPPVAKVLEPSETLVVSSETPTEVYPEPSTSTTMDF 328
Cdd:pfam03154 210 GSPATSQPPNQTQSTAAPHTLIQQTPTLHPQRLPSPHPPLQPMTQPPPPSQVSPQPLPQPSLHGQMPPMPHSLQTGPSHM 289
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 329 PESsaiealrLPEQPVDVPSEIADS------SMTRPQELPELPKTTALELQESSVASAMELPGPPA-TSMPELQGPPVTP 401
Cdd:pfam03154 290 QHP-------VPPQPFPLTPQSSQSqvppgpSPAAPGQSQQRIHTPPSQSQLQSQQPPREQPLPPApLSMPHIKPPPTTP 362
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 402 VLELPGPSATPVP---ELPGPLSTPvPELPGPPA----TAVPELPGPSVTPVP-QL---SQELPGLPAPSMGLEPPQEVP 470
Cdd:pfam03154 363 IPQLPNPQSHKHPphlSGPSPFQMN-SNLPPPPAlkplSSLSTHHPPSAHPPPlQLmpqSQQLPPPPAQPPVLTQSQSLP 441
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 471 EPSVMAQELPGLPLVTAAVELPEQPAVTVAMELTEQPvTTTELEQPVGMTTVEHPGHPEVTTATGLLGQPEATmvleLPG 550
Cdd:pfam03154 442 PPAASHPPTSGLHQVPSQSPFPQHPFVPGGPPPITPP-SGPPTSTSSAMPGIQPPSSASVSSSGPVPAAVSCP----LPP 516
|
490 500
....*....|....*....|....*....
gi 17046383 551 QPVATTALELPGQPSVTGVPELPGLPSAT 579
Cdd:pfam03154 517 VQIKEEALDEAEEPESPPPPPRSPSPEPT 545
|
|
| DSRM_PRKRA-like_rpt2 |
cd19863 |
second double-stranded RNA binding motif of PRKRA, TARBP2 and similar proteins; The family ... |
2371-2404 |
2.15e-06 |
|
second double-stranded RNA binding motif of PRKRA, TARBP2 and similar proteins; The family includes protein activator of the interferon-induced protein kinase (PRKRA) and the RISC-loading complex subunit TARBP2. PRKRA (also known as interferon-inducible double-stranded RNA-dependent protein kinase activator A, PKR-associated protein X (RAX), PKR-associating protein X, protein kinase, interferon-inducible double-stranded RNA-dependent activator, PACT, or HSD14) is a cellular activator for double-stranded RNA-dependent protein kinase during stress signaling. TARBP2 (also called TAR RNA-binding protein 2, or trans-activation-responsive RNA-binding protein (TRBP)) participates in the formation of the RNA-induced silencing complex (RISC). It is part of the RISC-loading complex (RLC), together with dicer1 and eif2c2/ago2, and is required to process precursor miRNAs. The family also includes Drosophila melanogaster Loquacious and similar proteins. Loquacious (Loqs) is a double-stranded RNA-binding domain (dsRBD) protein, a homolog of human TAR RNA binding protein (TRBP) that is a protein first identified as binding the HIV trans-activator RNA (TAR). Loqs interacts with Dicer1 (dmDcr1) to facilitate miRNA processing. PRKRA family proteins contain three double-stranded RNA binding motifs (DSRMs). This model describes the second motif. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380692 Cd Length: 67 Bit Score: 46.99 E-value: 2.15e-06
10 20 30
....*....|....*....|....*....|....
gi 17046383 2371 HPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHF 2404
Cdd:cd19863 1 NPVGILQELCVQRRWRLPEYEVEQESGPPHEKEF 34
|
|
| G-patch_2 |
pfam12656 |
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ... |
2301-2346 |
2.96e-06 |
|
G-patch domain; Yeast Spp2, a G-patch protein and spliceosome component, interacts with the ATP-dependent DExH-box splicing factor Prp2. As this interaction involves the G-patch sequence in Spp2 and is required for the recruitment of Prp2 to the spliceosome before the first catalytic step of splicing, it is proposed that Spp2 might be an accessory factor that confers spliceosome specificity on Prp2.
Pssm-ID: 432700 [Multi-domain] Cd Length: 61 Bit Score: 46.50 E-value: 2.96e-06
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 17046383 2301 AAPVtGGMGAVLMRKMGWREGEGLGKNKEGNKEPILVDFKTDRKGL 2346
Cdd:pfam12656 11 KVPV-EEFGAAMLRGMGWKPGQGIGKNKKGDVKPKEYKRRPGGLGL 55
|
|
| PHA03378 |
PHA03378 |
EBNA-3B; Provisional |
181-480 |
3.19e-06 |
|
EBNA-3B; Provisional
Pssm-ID: 223065 [Multi-domain] Cd Length: 991 Bit Score: 52.76 E-value: 3.19e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 181 ESPAVVLEPPVVSMEVSEPhILETLKPATKTAELSVVSTSViseqseqsvavmpEPSMTKILDSFAAAPVPTTTLVLKSS 260
Cdd:PHA03378 486 VTPVILHQPPAQGVQAHGS-MLDLLEKDDEDMEQRVMATLL-------------PPSPPQPRAGRRAPCVYTEDLDIESD 551
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 261 EPVVTMSVEYQMKSV-----LKSVESTSPEPSKIMLVEPPVAKVLEPSETLVVSSETPTEVYPEPSTSTTMDFPESSAIE 335
Cdd:PHA03378 552 EPASTEPVHDQLLPApglgpLQIQPLTSPTTSQLASSAPSYAQTPWPVPHPSQTPEPPTTQSHIPETSAPRQWPMPLRPI 631
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 336 ALRL---------------PEQPVDVPSEIADSSMTRPQELPELPKTT--ALELQESSVASAMELPGPPATSMPELQGPP 398
Cdd:PHA03378 632 PMRPlrmqpitfnvlvfptPHQPPQVEITPYKPTWTQIGHIPYQPSPTgaNTMLPIQWAPGTMQPPPRAPTPMRPPAAPP 711
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 399 V------TPVLELPGPSATP-VPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSqelPGLPAPSmglEPPQEVPE 471
Cdd:PHA03378 712 GraqrpaAATGRARPPAAAPgRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAA---PGAPTPQ---PPPQAPPA 785
|
....*....
gi 17046383 472 PSVMAQELP 480
Cdd:PHA03378 786 PQQRPRGAP 794
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
318-525 |
5.32e-06 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 52.25 E-value: 5.32e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 318 PEPSTSTTMDFPESSAIEALRLPEQPVDVPSEIADSSMTRPQEL----PELPKTTALElqessvASAMELPGPPATSMP- 392
Cdd:PHA03247 2779 PPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAAspagPLPPPTSAQP------TAPPPPPGPPPPSLPl 2852
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 393 ----------ELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAPSMG 462
Cdd:PHA03247 2853 ggsvapggdvRRRPPSRSPAAKPAAPARPPVRRLARPAVSRSTESFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPP 2932
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 17046383 463 LEPPQEVPEPSVMAQELPGLPLVTAAVELPEQPA-----VTVAMELTEQPVTTTELEQPVGMTTVEHP 525
Cdd:PHA03247 2933 PPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGAlvpgrVAVPRFRVPQPAPSREAPASSTPPLTGHS 3000
|
|
| DSRM_DCL_plant |
cd19869 |
double-stranded RNA binding motif of plant Dicer-like proteins; The family includes plant ... |
2378-2408 |
5.72e-06 |
|
double-stranded RNA binding motif of plant Dicer-like proteins; The family includes plant Dicer-like (DCL) proteins and other ribonuclease (RNase) III-like (RTL) proteins. DCLs are endoribonucleases involved in RNA-mediated post-transcriptional gene silencing (PTGS). They function in the microRNA (miRNA) biogenesis pathway by cleaving primary miRNAs (pri-miRNAs) and precursor miRNAs (pre-miRNAs). Family members contain a double-stranded RNA binding motif (DSRM) at the C-terminus. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380698 Cd Length: 70 Bit Score: 46.21 E-value: 5.72e-06
10 20 30
....*....|....*....|....*....|.
gi 17046383 2378 EICNKRRWQPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:cd19869 2 EICLKRRWPMPVYRCVEEEGPAHAKRFTYMV 32
|
|
| PRK07994 |
PRK07994 |
DNA polymerase III subunits gamma and tau; Validated |
387-558 |
1.21e-05 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236138 [Multi-domain] Cd Length: 647 Bit Score: 50.63 E-value: 1.21e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 387 PATSMPELQGPPVtPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAPSMGLEPP 466
Cdd:PRK07994 361 PAAPLPEPEVPPQ-SAAPAASAQATAAPTAAVAPPQAPAVPPPPASAPQQAPAVPLPETTSQLLAARQQLQRAQGATKAK 439
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 467 QEVPEPSVMAQELPGL-----PLVTAAVELPEQPAVTVAMELTEQPVTTTELEQPVGMT----TVEHPGHPEVTTATGLL 537
Cdd:PRK07994 440 KSEPAAASRARPVNSAlerlaSVRPAPSALEKAPAKKEAYRWKATNPVEVKKEPVATPKalkkALEHEKTPELAAKLAAE 519
|
170 180
....*....|....*....|....*.
gi 17046383 538 GQPE---ATMV--LELPGqPVATTAL 558
Cdd:PRK07994 520 AIERdpwAALVsqLGLPG-LVEQLAL 544
|
|
| Herpes_BLLF1 |
pfam05109 |
Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 ... |
205-534 |
1.44e-05 |
|
Herpes virus major outer envelope glycoprotein (BLLF1); This family consists of the BLLF1 viral late glycoprotein, also termed gp350/220. It is the most abundantly expressed glycoprotein in the viral envelope of the Herpesviruses and is the major antigen responsible for stimulating the production of neutralising antibodies in vivo.
Pssm-ID: 282904 [Multi-domain] Cd Length: 886 Bit Score: 50.69 E-value: 1.44e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 205 LKPATKTAELSVVSTSVISEQSEQSVAVMPEPSMTKILDSFAAAPVPTTTLVLKSSEPVVT-MSVEYQMKSVLKSVESTS 283
Cdd:pfam05109 396 LGTAPKTLIITRTATNATTTTHKVIFSKAPESTTTSPTLNTTGFAAPNTTTGLPSSTHVPTnLTAPASTGPTVSTADVTS 475
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 284 PEPSKIMLVEPPVAKVLEP-------------SETLVVSSETPTEVYPEPSTSTTMDFPESSAIEALRlPEQPVDVPSEI 350
Cdd:pfam05109 476 PTPAGTTSGASPVTPSPSPrdngteskapdmtSPTSAVTTPTPNATSPTPAVTTPTPNATSPTLGKTS-PTSAVTTPTPN 554
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 351 ADSSMtrPQELPELPKTTALELQESSVASAMELPGPPATSmpelqgppvtPVLELPGPSA-TPVPELPGPLSTPVPELPg 429
Cdd:pfam05109 555 ATSPT--PAVTTPTPNATIPTLGKTSPTSAVTTPTPNATS----------PTVGETSPQAnTTNHTLGGTSSTPVVTSP- 621
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 430 ppatavpelPGPSVTPVPQLSQELPGLPAPSMGLEPPQ--EVPEPSVMAQELPGLPLVTAAVELPEQ------PAVTVAM 501
Cdd:pfam05109 622 ---------PKNATSAVTTGQHNITSSSTSSMSLRPSSisETLSPSTSDNSTSHMPLLTSAHPTGGEnitqvtPASTSTH 692
|
330 340 350
....*....|....*....|....*....|....*...
gi 17046383 502 ELTE-----QPVTTTELEQPVGMTTVEHPGHPEVTTAT 534
Cdd:pfam05109 693 HVSTsspapRPGTTSQASGPGNSSTSTKPGEVNVTKGT 730
|
|
| PRK10263 |
PRK10263 |
DNA translocase FtsK; Provisional |
388-572 |
7.56e-05 |
|
DNA translocase FtsK; Provisional
Pssm-ID: 236669 [Multi-domain] Cd Length: 1355 Bit Score: 48.54 E-value: 7.56e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 388 ATSMPELQGPPVTPVLELPgpsatPVPELPGPLSTPVPELPGPPAtavPELPGPSVTPVPQLSQELPGLPAPSMGLEPPQ 467
Cdd:PRK10263 326 ATTATQSWAAPVEPVTQTP-----PVASVDVPPAQPTVAWQPVPG---PQTGEPVIAPAPEGYPQQSQYAQPAVQYNEPL 397
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 468 EVPEPSVMAQELPGLPLVTAAVELPEQPAVTVAMELTEQPVTTTELEQPVGMTTVEHPGHPEVTTatgllgQPEATMVLE 547
Cdd:PRK10263 398 QQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPVAGNAWQAEEQQSTFAPQSTY------QTEQTYQQP 471
|
170 180
....*....|....*....|....*
gi 17046383 548 LPGQPVATTALELPGQPSVTGVPEL 572
Cdd:PRK10263 472 AAQEPLYQQPQPVEQQPVVEPEPVV 496
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1289-1481 |
8.66e-05 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 48.11 E-value: 8.66e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1289 PAMsAEPTVLASEPPVMSETAETFDSMRASGHVASEVSTSLLVPAVTTPVLAESILEPPAMAAPESSAMAVLESSAVTVL 1368
Cdd:PRK10811 834 PEM-ASGKVWIRYPVVRPQDVQVEEQREAEEVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEEVVVV 912
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1369 ESSTVTVLESSTVTvlepsvvtvpePPVVAEPDYVTIPVPVVSALEPSVPVLEPAVSVLQPS----MIVSEPSVSVQEST 1444
Cdd:PRK10811 913 ETTHPEVIAAPVTE-----------QPQVITESDVAVAQEVAEHAEPVVEPQDETADIEEAAetaeVVVAEPEVVAQPAA 981
|
170 180 190
....*....|....*....|....*....|....*..
gi 17046383 1445 VTVSEPAVTVSEQTQVIPTEVAIESTPMILESSIMSS 1481
Cdd:PRK10811 982 PVVAEVAAEVETVTAVEPEVAPAQVPEATVEHNHATA 1018
|
|
| half-pint |
TIGR01645 |
poly-U binding splicing factor, half-pint family; The proteins represented by this model ... |
312-477 |
9.54e-05 |
|
poly-U binding splicing factor, half-pint family; The proteins represented by this model contain three RNA recognition motifs (rrm: pfam00076) and have been characterized as poly-pyrimidine tract binding proteins associated with RNA splicing factors. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Pssm-ID: 130706 [Multi-domain] Cd Length: 612 Bit Score: 47.76 E-value: 9.54e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 312 TPTEVYPEPSTSTTMdfPESSAIEALRLPEQPVDVPSEIADSSMTRPQELPELPkttalelqESSVASAMELPG--PPAT 389
Cdd:TIGR01645 283 TPPDALLQPATVSAI--PAAAAVAAAAATAKIMAAEAVAGAAVLGPRAQSPATP--------SSSLPTDIGNKAvvSSAK 352
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 390 SMPELQG--PPVTPVLELPGPSATPVPELPGPLstPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAPSMGLEPPQ 467
Cdd:TIGR01645 353 KEAEEVPplPQAAPAVVKPGPMEIPTPVPPPGL--AIPSLVAPPGLVAPTEINPSFLASPRKKMKREKLPVTFGALDDTL 430
|
170
....*....|
gi 17046383 468 EVPEPSVMAQ 477
Cdd:TIGR01645 431 AWKEPSKEDQ 440
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1195-1381 |
1.17e-04 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 47.73 E-value: 1.17e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1195 WPTEVPsLPSEESVSQPEPPVSQSEISEPSAVPTDYSVSASDPSVLVSEAAVTVPEPPPEpessiTLTPVESAVVAEEHE 1274
Cdd:PRK10811 819 YPTQSP-MPLTVACASPEMASGKVWIRYPVVRPQDVQVEEQREAEEVQVQPVVAEVPVAA-----AVEPVVSAPVVEAVA 892
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1275 VVPERPVtcmVSETPAMSAEPTVLASEPPVMSETA-ETFDSMRASGHVASEVSTSLLVPAVTTPVLAESILEPPAMAAPE 1353
Cdd:PRK10811 893 EVVEEPV---VVAEPQPEEVVVVETTHPEVIAAPVtEQPQVITESDVAVAQEVAEHAEPVVEPQDETADIEEAAETAEVV 969
|
170 180
....*....|....*....|....*...
gi 17046383 1354 SSAMAVLESSAVTVLESSTVTVLESSTV 1381
Cdd:PRK10811 970 VAEPEVVAQPAAPVVAEVAAEVETVTAV 997
|
|
| PHA03307 |
PHA03307 |
transcriptional regulator ICP4; Provisional |
319-677 |
1.40e-04 |
|
transcriptional regulator ICP4; Provisional
Pssm-ID: 223039 [Multi-domain] Cd Length: 1352 Bit Score: 47.47 E-value: 1.40e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 319 EPSTSTTMDFPESSAIEALRLPeQPVDVPSEIADSSMTRPQEL---PELPKTTALELQESSVASAMELP-GPPATSMPEL 394
Cdd:PHA03307 1 SDNAPDLYDLIEAAAEGGEFFP-RPPATPGDAADDLLSGSQGQlvsDSAELAAVTVVAGAAACDRFEPPtGPPPGPGTEA 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 395 QGPPVTPVLELPGPSATPVPELPGPLSTP--VPELPGPPATAVPELPGPSvtPVPQLSQELPglPAPSMGLEPPQEVPEP 472
Cdd:PHA03307 80 PANESRSTPTWSLSTLAPASPAREGSPTPpgPSSPDPPPPTPPPASPPPS--PAPDLSEMLR--PVGSPGPPPAASPPAA 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 473 SVMAQELPglplvtAAVELPEQPAVTVAM-ELTEQPVTTTELEQPVGMTTVEHPGHPEVttatglLGQPEATMVLELPGQ 551
Cdd:PHA03307 156 GASPAAVA------SDAASSRQAALPLSSpEETARAPSSPPAEPPPSTPPAAASPRPPR------RSSPISASASSPAPA 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 552 PVATTALELPGQPSVTGVPELPGLPSATRALELSGQPvatGALELPGPLMAA-----GALEFSGQSGAAGALELLGQPla 626
Cdd:PHA03307 224 PGRSAADDAGASSSDSSSSESSGCGWGPENECPLPRP---APITLPTRIWEAsgwngPSSRPGPASSSSSPRERSPSP-- 298
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|.
gi 17046383 627 tgvleLPGQPGAPELPGQPVAtVALEISVQSVVTTSELSTMTVSQSLEVPS 677
Cdd:PHA03307 299 -----SPSSPGSGPAPSSPRA-SSSSSSSRESSSSSTSSSSESSRGAAVSP 343
|
|
| DUF3729 |
pfam12526 |
Protein of unknown function (DUF3729); This family of proteins is found in viruses. Proteins ... |
369-452 |
2.31e-04 |
|
Protein of unknown function (DUF3729); This family of proteins is found in viruses. Proteins in this family are typically between 145 and 1707 amino acids in length. The family is found in association with pfam01443, pfam01661, pfam05417, pfam01660, pfam00978. There is a single completely conserved residue L that may be functionally important.
Pssm-ID: 372164 [Multi-domain] Cd Length: 115 Bit Score: 42.76 E-value: 2.31e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 369 ALELQESSVASAMELPGPPATSMPelqgPPVTPVLELPGPSATPVPELPGPlsTPVPELPGPPATAVPELPGPSVTPVPQ 448
Cdd:pfam12526 31 PPESAHPDPPPPVGDPRPPVVDTP----PPVSAVWVLPPPSEPAAPEPDLV--PPVTGPAGPPSPLAPPAPAQKPPLPPP 104
|
....
gi 17046383 449 LSQE 452
Cdd:pfam12526 105 RPQR 108
|
|
| DSRM_PRKRA-like_rpt1 |
cd19862 |
first double-stranded RNA binding motif of protein activator of the interferon-induced protein ... |
2370-2408 |
2.85e-04 |
|
first double-stranded RNA binding motif of protein activator of the interferon-induced protein kinase (PRKRA) and similar proteins; This family includes protein activator of the interferon-induced protein kinase (PRKRA) and the RISC-loading complex subunit TARBP2. PRKRA (also known as interferon-inducible double-stranded RNA-dependent protein kinase activator A, PKR-associated protein X (RAX), PKR-associating protein X, protein kinase, interferon-inducible double-stranded RNA-dependent activator, PACT, or HSD14) is a cellular activator for double-stranded RNA-dependent protein kinase during stress signaling. TARBP2 (also called TAR RNA-binding protein 2, or trans-activation-responsive RNA-binding protein (TRBP)), participates in the formation of the RNA-induced silencing complex (RISC). It is part of the RISC-loading complex (RLC), together with dicer1 and eif2c2/ago2, and is required to process precursor miRNAs. This family also includes Drosophila melanogaster Loquacious and similar proteins. Loquacious (Loqs) is a double-stranded RNA-binding domain (dsRBD) protein, a homolog of human TAR RNA binding protein (TRBP) that is a protein first identified as binding the HIV trans-activator RNA (TAR). Loqs interacts with Dicer1 (dmDcr1) to facilitate miRNA processing. PRKRA family proteins contain three double-stranded RNA binding motifs (DSRMs). This model describes the first motif. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380691 [Multi-domain] Cd Length: 70 Bit Score: 41.09 E-value: 2.85e-04
10 20 30
....*....|....*....|....*....|....*....
gi 17046383 2370 KHPVSALMEICNKRRWqPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:cd19862 1 KTPISVLQELCAKRGI-TPKYELISSEGAVHEPTFTFRV 38
|
|
| PRK12323 |
PRK12323 |
DNA polymerase III subunit gamma/tau; |
332-520 |
3.08e-04 |
|
DNA polymerase III subunit gamma/tau;
Pssm-ID: 237057 [Multi-domain] Cd Length: 700 Bit Score: 46.02 E-value: 3.08e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 332 SAIEALRLPEQPVDVPSEIADSSMTRPQELPELPKTTALELQESSVASAMELPGP---PATSMPELQGPPVTPVLElPGP 408
Cdd:PRK12323 376 TAAAAPVAQPAPAAAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPealAAARQASARGPGGAPAPA-PAP 454
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 409 SATPVPELPGPLSTPVPelPGPPATAVPELPGPSVTPVPQLSQELPGLPAPSMGLEPPQEVPEPSVMAQELPGLPLVTAA 488
Cdd:PRK12323 455 AAAPAAAARPAAAGPRP--VAAAAAAAPARAAPAAAPAPADDDPPPWEELPPEFASPAPAQPDAAPAGWVAESIPDPATA 532
|
170 180 190
....*....|....*....|....*....|..
gi 17046383 489 VELPEQPAVTVAMELTEQPVTTTELEQPVGMT 520
Cdd:PRK12323 533 DPDDAFETLAPAPAAAPAPRAAAATEPVVAPR 564
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
382-706 |
5.74e-04 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 45.70 E-value: 5.74e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 382 ELPGPPATSMPEL-----QGPPVTPVL--------ELPGPSA-TPVPELPGPLSTPVPELPGPPATAVPELPGPSVT--- 444
Cdd:PHA03247 2507 DAPPAPSRLAPAIlpdepVGEPVHPRMltwirgleELASDDAgDPPPPLPPAAPPAAPDRSVPPPRPAPRPSEPAVTsra 2586
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 445 -----PVPQLSQELPG------------LPAPSMGLEPPQEVPEPSVMAQELPGLPlvTAAVELPEQPAVTVAMELTEQP 507
Cdd:PHA03247 2587 rrpdaPPQSARPRAPVddrgdprgpappSPLPPDTHAPDPPPPSPSPAANEPDPHP--PPTVPPPERPRDDPAPGRVSRP 2664
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 508 VTTTELEQPVGMT-TVEHPGHPEVTTATGLL---GQPEATMVLELPGQPVATTALELPGQPSVTGvPELPGLPSATRALE 583
Cdd:PHA03247 2665 RRARRLGRAAQASsPPQRPRRRAARPTVGSLtslADPPPPPPTPEPAPHALVSATPLPPGPAAAR-QASPALPAAPAPPA 2743
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 584 LSGQPVATGALELPG-PLMAAGAlefsgQSGAAGALELLGQPLATGVleLPGQPGAPELPGQPVATVALEISVQSVVTTS 662
Cdd:PHA03247 2744 VPAGPATPGGPARPArPPTTAGP-----PAPAPPAAPAAGPPRRLTR--PAVASLSESRESLPSPWDPADPPAAVLAPAA 2816
|
330 340 350 360
....*....|....*....|....*....|....*....|....*
gi 17046383 663 ELSTMTVSQSLEVPSTTALESYNTVAQE-LPTTLVGETSVTVGVD 706
Cdd:PHA03247 2817 ALPPAASPAGPLPPPTSAQPTAPPPPPGpPPPSLPLGGSVAPGGD 2861
|
|
| dnaA |
PRK14086 |
chromosomal replication initiator protein DnaA; |
369-578 |
6.66e-04 |
|
chromosomal replication initiator protein DnaA;
Pssm-ID: 237605 [Multi-domain] Cd Length: 617 Bit Score: 44.82 E-value: 6.66e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 369 ALELQESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQ 448
Cdd:PRK14086 85 AITVDPSAGEPAPPPPHARRTSEPELPRPGRRPYEGYGGPRADDRPPGLPRQDQLPTARPAYPAYQQRPEPGAWPRAADD 164
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 449 LSQELP--GLPAPSMGLEPPQEVPEPSvmaQELPGLPLVTAAVELPEQPAVTVAMELTEQPVTTTELEQPvgmttveHPG 526
Cdd:PRK14086 165 YGWQQQrlGFPPRAPYASPASYAPEQE---RDREPYDAGRPEYDQRRRDYDHPRPDWDRPRRDRTDRPEP-------PPG 234
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 17046383 527 -HPEVTTATGLLGQPEATMVLELPGQPVAttaleLPGQPSVTGVpelPGLPSA 578
Cdd:PRK14086 235 aGHVHRGGPGPPERDDAPVVPIRPSAPGP-----LAAQPAPAPG---PGEPTA 279
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1271-1444 |
1.03e-03 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 44.65 E-value: 1.03e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1271 EEHEVVPERPVTcMVSETPAMSAEPTVLASEPPVMSETAETFDSMRASGHVASE--VSTSLLVPAVTTPVLAESILEPPA 1348
Cdd:PRK10811 851 QDVQVEEQREAE-EVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEpqPEEVVVVETTHPEVIAAPVTEQPQ 929
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1349 MAAPESSAMAvlessAVTVLESSTVTVLESSTVTVLEPSVVTVPEPpvvAEPDYVTIPVPVVSALEPSVPVLEPAVSVLQ 1428
Cdd:PRK10811 930 VITESDVAVA-----QEVAEHAEPVVEPQDETADIEEAAETAEVVV---AEPEVVAQPAAPVVAEVAAEVETVTAVEPEV 1001
|
170
....*....|....*.
gi 17046383 1429 PSMIVSEPSVSVQEST 1444
Cdd:PRK10811 1002 APAQVPEATVEHNHAT 1017
|
|
| PRK14951 |
PRK14951 |
DNA polymerase III subunits gamma and tau; Provisional |
378-513 |
1.21e-03 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237865 [Multi-domain] Cd Length: 618 Bit Score: 43.93 E-value: 1.21e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 378 ASAMELPGPPATSmpelqgPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQELPGLP 457
Cdd:PRK14951 367 AAAAEAAAPAEKK------TPARPEAAAPAAAPVAQAAAAPAPAAAPAAAASAPAAPPAAAPPAPVAAPAAAAPAAAPAA 440
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 17046383 458 APSmglEPPQEVPEPSVMAQELPGLPLVTAAVELPEQPAVTVAMELTEQPVTTTEL 513
Cdd:PRK14951 441 APA---AVALAPAPPAQAAPETVAIPVRVAPEPAVASAAPAPAAAPAAARLTPTEE 493
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
386-509 |
1.48e-03 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 44.16 E-value: 1.48e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 386 PPATSMPELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATA--VPELPGPSVTPVPQLSQELPGLPAPSMGL 463
Cdd:PHA03247 379 SLPTRKRRSARHAATPFARGPGGDDQTRPAAPVPASVPTPAPTPVPASAppPPATPLPSAEPGSDDGPAPPPERQPPAPA 458
|
90 100 110 120
....*....|....*....|....*....|....*....|....*.
gi 17046383 464 EPPQEVPEPSVMAQELPGLplvtAAVELPEQPAVTVAMELTEQPVT 509
Cdd:PHA03247 459 TEPAPDDPDDATRKALDAL----RERRPPEPPGADLAELLGRHPDT 500
|
|
| DSRM_A1CF |
cd19900 |
double-stranded RNA binding motif of APOBEC1 complementation factor (A1CF) and similar ... |
2370-2408 |
1.80e-03 |
|
double-stranded RNA binding motif of APOBEC1 complementation factor (A1CF) and similar proteins; A1CF (also known as APOBEC1-stimulating protein) is an essential component of the apolipoprotein B mRNA editing enzyme complex which is responsible for the posttranscriptional editing of a CAA codon for Gln to a UAA codon for stop in APOB mRNA. A1CF binds to APOB mRNA and is probably responsible for docking the catalytic subunit, APOBEC1, to the mRNA to allow it to deaminate its target cytosine. It contains three RNA recognition motifs (RRMs) and a C-terminal double-stranded RNA binding motif (DSRM) that is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380729 Cd Length: 81 Bit Score: 39.38 E-value: 1.80e-03
10 20 30
....*....|....*....|....*....|....*....
gi 17046383 2370 KHPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:cd19900 1 KSPPQILEEICQKNNWGQPVYQLHSTIGPDQRQLFLYKV 39
|
|
| SAV_2336_NTERM |
NF041121 |
SAV_2336 family N-terminal domain; This HMM describes an N-terminal domain shared by SAV_2336 ... |
405-503 |
2.36e-03 |
|
SAV_2336 family N-terminal domain; This HMM describes an N-terminal domain shared by SAV_2336 (BAC70047.1) whose C-terminal region suggests restriction enzyme activity (PMID: 18456708), and with other proteins with unrelated C-terminal regions. A member protein was also identified in a kanamycin biosynthetic gene cluster (PMID:16766657), while N-terminal regions of two other member proteins were named Trypco1 in a bioinformatic study (PMID:32101166) of predicted bacterial conflict systems.
Pssm-ID: 469044 [Multi-domain] Cd Length: 473 Bit Score: 43.07 E-value: 2.36e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 405 LPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQlsqelpglPAPSMGLEPPQEVPEPSVMAQELPGLPL 484
Cdd:NF041121 15 MGRAAAPPSPEGPAPTAASQPATPPPPAAPPSPPGDPPEPPAPE--------PAPLPAPYPGSLAPPPPPPPGPAGAAPG 86
|
90
....*....|....*....
gi 17046383 485 VTAAVELPEQPAVTVAMEL 503
Cdd:NF041121 87 AALPVRVPAPPALPNPLEL 105
|
|
| PRK14959 |
PRK14959 |
DNA polymerase III subunits gamma and tau; Provisional |
365-483 |
2.55e-03 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184923 [Multi-domain] Cd Length: 624 Bit Score: 43.13 E-value: 2.55e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 365 PKTTALELQESSVASAMELPG-------PPATSMPELQGPPVTPvlelpGPSATPVPELPGPLSTPVPELPGPPATAVPE 437
Cdd:PRK14959 381 PSGSAAEGPASGGAATIPTPGtqgpqgtAPAAGMTPSSAAPATP-----APSAAPSPRVPWDDAPPAPPRSGIPPRPAPR 455
|
90 100 110 120
....*....|....*....|....*....|....*....|....*..
gi 17046383 438 LPGPSvtpvpqlsqELPGLPAP-SMGLEPPQEVPEPSVMAQELPGLP 483
Cdd:PRK14959 456 MPEAS---------PVPGAPDSvASASDAPPTLGDPSDTAEHTPSGP 493
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
356-531 |
2.80e-03 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 43.10 E-value: 2.80e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 356 TRPQELPELPKTTALELQESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAV 435
Cdd:PRK10811 848 VRPQDVQVEEQREAEEVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVAEPQPEEVVVVETTHPEVIAAPVTEQ 927
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 436 PELPGPSVTPVPQLSQELPglpapsmglEPPQEVPEPSVMAQElpglPLVTAAVELPEQPAVTVAMELTEQPVTTTELEQ 515
Cdd:PRK10811 928 PQVITESDVAVAQEVAEHA---------EPVVEPQDETADIEE----AAETAEVVVAEPEVVAQPAAPVVAEVAAEVETV 994
|
170
....*....|....*.
gi 17046383 516 PVGMTTVEHPGHPEVT 531
Cdd:PRK10811 995 TAVEPEVAPAQVPEAT 1010
|
|
| DSRM_A1CF-like |
cd19872 |
double-stranded RNA binding motif of APOBEC1 complementation factor (A1CF), RNA-binding ... |
2371-2408 |
3.04e-03 |
|
double-stranded RNA binding motif of APOBEC1 complementation factor (A1CF), RNA-binding protein 46 (RBM46) and similar proteins; The family includes two dsRNA-binding motif-containing proteins, A1CF and RBM46. A1CF (also known as APOBEC1-stimulating protein) is an essential component of the apolipoprotein B mRNA editing enzyme complex which is responsible for the posttranscriptional editing of a CAA codon for Gln to a UAA codon for stop in APOB mRNA. A1CF binds to APOB mRNA and is probably responsible for docking the catalytic subunit, APOBEC1, to the mRNA to allow it to deaminate its target cytosine. RBM46 (also called cancer/testis antigen 68 (CT68), or RNA-binding motif protein 46) plays a novel role in the regulation of embryonic stem cell (ESC) differentiation by regulating the degradation of beta-catenin mRNA. It also regulates trophectoderm specification by stabilizing Cdx2 mRNA in early mouse embryos. Members of this family contain three RNA recognition motifs (RRMs) and a C-terminal double-stranded RNA binding motif (DSRM) that is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380701 Cd Length: 75 Bit Score: 38.43 E-value: 3.04e-03
10 20 30
....*....|....*....|....*....|....*...
gi 17046383 2371 HPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:cd19872 1 NPVQILEEICQKNGWGEPVYQLLSTSSNNEVQLFIYKV 38
|
|
| rne |
PRK10811 |
ribonuclease E; Reviewed |
1262-1472 |
3.63e-03 |
|
ribonuclease E; Reviewed
Pssm-ID: 236766 [Multi-domain] Cd Length: 1068 Bit Score: 42.72 E-value: 3.63e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1262 TPVESAVVAEEHEVVPERPVTCMVSETPAMSAEPTVLASEPPVMSETAETfdsmrasghvASEVSTSLLVPAVTTPVLAE 1341
Cdd:PRK10811 853 VQVEEQREAEEVQVQPVVAEVPVAAAVEPVVSAPVVEAVAEVVEEPVVVA----------EPQPEEVVVVETTHPEVIAA 922
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 1342 SILEPPAMAAPESSAMAvlessAVTVLESSTVTvlesstvtvlepsvvtvpeppvvaEPDYVTIPVPVVSALEPsVPVLE 1421
Cdd:PRK10811 923 PVTEQPQVITESDVAVA-----QEVAEHAEPVV------------------------EPQDETADIEEAAETAE-VVVAE 972
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 17046383 1422 PAVSVLQPSMIVSEPSVSVQESTVtvsEPAVTVSEQTQVIPTEVAIESTPM 1472
Cdd:PRK10811 973 PEVVAQPAAPVVAEVAAEVETVTA---VEPEVAPAQVPEATVEHNHATAPM 1020
|
|
| DSRM_DRADA_rpt2 |
cd19914 |
second double-stranded RNA binding motif of double-stranded RNA-specific adenosine deaminase ... |
2370-2408 |
4.46e-03 |
|
second double-stranded RNA binding motif of double-stranded RNA-specific adenosine deaminase (DRADA) and similar proteins; DRADA (EC 3.5.4.37; also known as 136 kDa double-stranded RNA-binding protein (p136), interferon-inducible protein 4 (IFI-4), K88DSRBP, ADAR1, G1P1, or ADAR) catalyzes the hydrolytic deamination of adenosine to inosine in double-stranded RNA (dsRNA), referred to as A-to-I RNA editing. Vertebrate DRADA contains three double-stranded RNA binding motifs (DSRMs). This model describes the second motif. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380743 Cd Length: 71 Bit Score: 37.90 E-value: 4.46e-03
10 20 30
....*....|....*....|....*....|....*....
gi 17046383 2370 KHPVSALMEiCNKRRWQPPEFLLVHDSGPDHRKHFLFRV 2408
Cdd:cd19914 1 KNPISVLME-HSQKSGNMCEFQLLSQEGPPHDPKFTYCV 38
|
|
| Rnc |
COG0571 |
dsRNA-specific ribonuclease [Transcription]; |
2362-2409 |
4.81e-03 |
|
dsRNA-specific ribonuclease [Transcription];
Pssm-ID: 440336 [Multi-domain] Cd Length: 229 Bit Score: 40.85 E-value: 4.81e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*...
gi 17046383 2362 AAMKDLSGKHPVSALMEICNKRRWQPPEFLLVHDSGPDHRKHFLFRVL 2409
Cdd:COG0571 149 EIAPGGAGKDYKTALQEWLQARGLPLPEYEVVEEEGPDHAKTFTVEVL 196
|
|
| PHA03369 |
PHA03369 |
capsid maturational protease; Provisional |
353-691 |
5.19e-03 |
|
capsid maturational protease; Provisional
Pssm-ID: 223061 [Multi-domain] Cd Length: 663 Bit Score: 41.91 E-value: 5.19e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 353 SSMTRPQELPELPKTTALELQESSVASAMELP--GPPAT-SMPELQGPPVTP---VLELPGPSAT----PVPELPGPLST 422
Cdd:PHA03369 336 STINGLKAHNEILKTASLTAPSRVLAAAAKVAviAAPQThTGPADRQRPQRPdgiPYSVPARSPMtaypPVPQFCGDPGL 415
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 423 PVPELPGPPATAVPELPGPSVTPVPqlsqelpglpapsmgleppqevPEPSVMAQELPGLPLVTAAVELPEQPAVTVAME 502
Cdd:PHA03369 416 VSPYNPQSPGTSYGPEPVGPVPPQP----------------------TNPYVMPISMANMVYPGHPQEHGHERKRKRGGE 473
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 503 LTEQpvtTTELEQPVGMTTVEHPGHPEVTTATGLLGQPEATMVLELPGQPVATTALELPGQPSVT-GVPELPGLPSATRA 581
Cdd:PHA03369 474 LKEE---LIETLKLVKKLKEEQESLAKELEATAHKSEIKKIAESEFKNAGAKTAAANIEPNCSADaAAPATKRARPETKT 550
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 582 LELSGQPVATGALELPGPlMAAGALEFSGQSGAAGALELLGQPLATGVLEL----PGQPGAPELPGQPVATVALeiSVQS 657
Cdd:PHA03369 551 ELEAVVRFPYQIRNMESP-AFVHSFTSTTLAAAAGQGSDTAEALAGAIETLltqaSAQPAGLSLPAPAVPVNAS--TPAS 627
|
330 340 350
....*....|....*....|....*....|....
gi 17046383 658 VVTTSELSTMTVsqslEVPSTTALESYNTVAQEL 691
Cdd:PHA03369 628 TPPPLAPQEPPQ----PGTSAPSLETSLPQQKPV 657
|
|
| PLN03209 |
PLN03209 |
translocon at the inner envelope of chloroplast subunit 62; Provisional |
280-472 |
5.61e-03 |
|
translocon at the inner envelope of chloroplast subunit 62; Provisional
Pssm-ID: 178748 [Multi-domain] Cd Length: 576 Bit Score: 41.84 E-value: 5.61e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 280 ESTSPEPSKIMLVEPPVAKVLE--PSETLVVSS-----------ETPTEVYPEPSTSTTmdfPESSAIEALRLPEQPVDV 346
Cdd:PLN03209 337 DGPKPVPTKPVTPEAPSPPIEEepPQPKAVVPRplspytayedlKPPTSPIPTPPSSSP---ASSKSVDAVAKPAEPDVV 413
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 347 PSEIADSSMTRPQELPELPKTTA----------LELQESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSATPVPEL 416
Cdd:PLN03209 414 PSPGSASNVPEVEPAQVEAKKTRplspyaryedLKPPTSPSPTAPTGVSPSVSSTSSVPAVPDTAPATAATDAAAPPPAN 493
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 17046383 417 PGPLST-PVPELPGPPATAVPELPGPSVTPVPQLSQELPGLPAPSMGLEPPQEVPEP 472
Cdd:PLN03209 494 MRPLSPyAVYDDLKPPTSPSPAAPVGKVAPSSTNEVVKVGNSAPPTALADEQHHAQP 550
|
|
| PRK14960 |
PRK14960 |
DNA polymerase III subunit gamma/tau; |
347-597 |
5.80e-03 |
|
DNA polymerase III subunit gamma/tau;
Pssm-ID: 237868 [Multi-domain] Cd Length: 702 Bit Score: 41.96 E-value: 5.80e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 347 PSEIADSSMTRPQELPELPKTTALElQESSVASAMELPGPPATSMPELQGPPVTPVLElPGPSATPVPElpgplstPVPE 426
Cdd:PRK14960 363 PNEILVSEPVQQNGQAEVGLNSQAQ-TAQEITPVSAVQPVEVISQPAMVEPEPEPEPE-PEPEPEPEPE-------PEPE 433
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 427 lpgppatavpelPGPSVTPVPQLSQELPGLPAPS---MGLEppQEVPEPSVMAQELPGLPlvtaaveLPEQPAVTVamel 503
Cdd:PRK14960 434 ------------PEPEPEPEPQPNQDLMVFDPNHhelIGLE--SAVVQETVSVLEEDFIP-------VPEQKLVQV---- 488
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 504 teQPVTTTELEQPVGMTTVEHPGHPEVTTATGLLGQPeaTMVLELPGQPV--ATTALELPGQPSVTGVPElpglPSATRA 581
Cdd:PRK14960 489 --QAETQVKQIEPEPASTAEPIGLFEASSAEFSLAQD--TSAYDLVSEPVieQQSLVQAEIVETVAVVKE----PNATDN 560
|
250
....*....|....*.
gi 17046383 582 LELSGQPVatgaLELP 597
Cdd:PRK14960 561 SQLMPQDI----LKLP 572
|
|
| PHA03379 |
PHA03379 |
EBNA-3A; Provisional |
161-474 |
5.82e-03 |
|
EBNA-3A; Provisional
Pssm-ID: 223066 [Multi-domain] Cd Length: 935 Bit Score: 41.97 E-value: 5.82e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 161 EPSAVALELPTRAFGPSETNESPAVVLEPPVVSMEVSEP--HILETLKPAtktaeLSVVSTSVISEQSEQSVAVMPEPSM 238
Cdd:PHA03379 463 APCPVAQLPPGPLQDLEPGDQLPGVVQDGRPACAPVPAPagPIVRPWEAS-----LSQVPGVAFAPVMPQPMPVEPVPVP 537
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 239 TKILDSfAAAPVPTTTLVLKSSEPvvTMSVEYQMKSVLKSVESTSPEPSKIMLVEPPVAKV------------LEPSETL 306
Cdd:PHA03379 538 TVALER-PVCPAPPLIAMQGPGET--SGIVRVRERWRPAPWTPNPPRSPSQMSVRDRLARLraeaqpyqasveVQPPQLT 614
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 307 VVSSETPTEVYPEPSTSTTMDFPESSAIEALRLPEQPVDVPSEIaDSSMTRPQE--------------LPELPKTTALEL 372
Cdd:PHA03379 615 QVSPQQPMEYPLEPEQQMFPGSPFSQVADVMRAGGVPAMQPQYF-DLPLQQPISqgaplaplrasmgpVPPVPATQPQYF 693
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 373 Q-------ESSVASAMELPGPPATS--MPELQGPPVTPVLELPGPSATPVPELPGPLSTPV-------PELPGPPATA-- 434
Cdd:PHA03379 694 DipltepiNQGASAAHFLPQQPMEGplVPERWMFQGATLSQSVRPGVAQSQYFDLPLTQPInhgapaaHFLHQPPMEGpw 773
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 17046383 435 VPE---LPGPSVTP-VPQLSQELPGLPAPSMGLEPPQEVPEPSV 474
Cdd:PHA03379 774 VPEqwmFQGAPPSQgTDVVQHQLDALGYVLHVLNHPGVPVSPAV 817
|
|
| DSRM_DRADA |
cd19902 |
double-stranded RNA binding motif of double-stranded RNA-specific adenosine deaminase (DRADA) ... |
2370-2412 |
7.56e-03 |
|
double-stranded RNA binding motif of double-stranded RNA-specific adenosine deaminase (DRADA) and similar proteins; DRADA (EC 3.5.4.37; also known as 136 kDa double-stranded RNA-binding protein (p136), interferon-inducible protein 4 (IFI-4), K88DSRBP, ADAR1, G1P1, or ADAR) catalyzes the hydrolytic deamination of adenosine to inosine in double-stranded RNA (dsRNA), referred to as A-to-I RNA editing. DRADA family members contain at least one double-stranded RNA binding motifs (DSRM); vertebrate proteins contain three. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380731 Cd Length: 71 Bit Score: 37.27 E-value: 7.56e-03
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 17046383 2370 KHPVSALMEICNKRRwQPPEFLLVHDSGPDHRKHFLFRVLRNG 2412
Cdd:cd19902 1 KNPVSALMEYAQSRG-VTAEIEVLSQSGPPHNPRFKAAVFVGG 42
|
|
| PRK07764 |
PRK07764 |
DNA polymerase III subunits gamma and tau; Validated |
374-516 |
8.11e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 41.51 E-value: 8.11e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 374 ESSVASAMELPGPPATSMPELQGPPVTPVLELPGPSATPVPELPGPLSTPVPELPGPPATAVPELPGPSVTPVPQLSQEL 453
Cdd:PRK07764 638 EASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDP 717
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 17046383 454 PGLPA-PSMGLEPPQEVPEPSVMAQELPGLPLVTAAVEL---PEQPAVTVAMELTEQPVTTTELEQP 516
Cdd:PRK07764 718 AAQPPqAAQGASAPSPAADDPVPLPPEPDDPPDPAGAPAqppPPPAPAPAAAPAAAPPPSPPSEEEE 784
|
|
| PRK14951 |
PRK14951 |
DNA polymerase III subunits gamma and tau; Provisional |
347-474 |
8.83e-03 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 237865 [Multi-domain] Cd Length: 618 Bit Score: 41.24 E-value: 8.83e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 17046383 347 PSEIADSSMTRPQELPELPKTTALELQESSVASAMELPGPPATSMPELQgPPVTPVLELPGPSATPVPELPGPLSTPVPE 426
Cdd:PRK14951 348 PDEYAALTMVLLRLLAFKPAAAAEAAAPAEKKTPARPEAAAPAAAPVAQ-AAAAPAPAAAPAAAASAPAAPPAAAPPAPV 426
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 17046383 427 LPgPPATAVPELPGPSVTPVPQlSQELPGLPAPSMGLEPPQEVPEPSV 474
Cdd:PRK14951 427 AA-PAAAAPAAAPAAAPAAVAL-APAPPAQAAPETVAIPVRVAPEPAV 472
|
|
| DSRM_TARBP2_rpt2 |
cd10844 |
second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and ... |
2372-2404 |
9.45e-03 |
|
second double-stranded RNA binding motif of the RISC-loading complex subunit TARBP2 and similar proteins; TARBP2 (also known as TAR RNA-binding protein 2, or trans-activation-responsive RNA-binding protein (TRBP)) participates in the formation of the RNA-induced silencing complex (RISC). It is part of the RISC-loading complex (RLC), together with dicer1 and eif2c2/ago2, and is required to process precursor miRNAs. TARBP2 contains three double-stranded RNA binding motifs (DSRMs). This model describes the second motif. DSRM is not sequence specific, but highly specific for dsRNAs of various origin and structure.
Pssm-ID: 380681 Cd Length: 67 Bit Score: 37.01 E-value: 9.45e-03
10 20 30
....*....|....*....|....*....|...
gi 17046383 2372 PVSALMEICNKRRWQPPEFLLVHDSGPDHRKHF 2404
Cdd:cd10844 2 PVGALQELVVQKGWRLPEYTVTQESGPAHRKEF 34
|
|
| |
