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Concise Results
Standard Results
Full Results
putative RNA polymerase [Ralstonia phage RSJ2]
Protein Classification
DNA-directed RNA polymerase ( domain architecture ID 11475972 )
DNA-directed RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates
List of domain hits
Name
Accession
Description
Interval
E-value
PHA00452
PHA00452 T3/T7-like RNA polymerase
3-819
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 882.05
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 3 Q VE LE Q E IRQA G RD R A R RMM ER NE EAG R AD N N AY A NV L YRRY L L P LIDL I REGRKGAG K A GR R A AHVA LL EPL D ES V A A M 82
Cdd:PHA00452 9 Q LQ LE E E AYGE G EE R F R KAL ER QL EAG E AD D N PV A RR L LATL L P P VAEA I DAWKEEYK K R GR A A KARG LL RLV D PE V L A V 88
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 83 I AVRA TL TA L MV K GEAQ A R AV GRN IG L A VQR E LALSLFSVDQ P DLYWEITAD L D R RHSK S QN H RYNAL V SS A KTAGV - DI 161
Cdd:PHA00452 89 I TLKV TL DM L LS K ETPT A Q AV ATA IG R A IED E IRFGRIEDLN P KYFKKVVEY L K R SRTG S VY H IAFMM V VE A DMVLL g EW 168
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 162 PD W GPQGREQL G L W M LE Q L R - S LNM V DITLAHT G G tlrgg G S K SEYLID L TP EA RGVINQVKDLVEVTT P YHL P FIEQ PK 240
Cdd:PHA00452 169 DP W PKEDYIHV G K W L LE A L I e S TGL V ELVRHTG G N ----- G G K DHEYLE L SE EA VELLQDIAAAAAGIS P MYQ P MVVP PK 243
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 241 D W VTFDN GGYHT NEM R AQL P YCVNLQR A R R AV R DEYRNNP alteqm RG A I N K LQ SVP W Q IN R D M LA AIKDIAQHLDTDEI 320
Cdd:PHA00452 244 P W TSIVG GGYHT EGR R PLA P LVRKTKK A L R RY R QKQMPEV ------ YK A V N A LQ NTA W R IN K D V LA VVNEVVNWGPVGDV 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 321 VKQAEI P K P K KPE W L sddhdkasmt PDQL E Q F TD WKR LMRE WYT DM K L R GT K WG R FYTAR R L A D KFA E Y DS IYF L Y QA D F 400
Cdd:PHA00452 318 LGIPRR P L P P KPE F L ---------- DENE E A F KA WKR AAAA WYT KE K E R VS K RR R LEFML R V A N KFA D Y KA IYF P Y NM D W 387
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 401 RGR L YA i TTG L S PQGSDL S KALLRFA R G E PL d TSDAVR W F K INI AN KF GVDKV PY D D R IK WVD D N DQFLR A MGS D C L SHR 480
Cdd:PHA00452 388 RGR V YA - VSM L N PQGSDL Q KALLRFA E G K PL - GKRGLY W L K VHG AN CY GVDKV TF D E R AA WVD E N HDNIL A AAE D P L NNT 465
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 481 G W M EAD C PL Q FLA C C M EYA RWRDNP T GFL S HI PV GL DG S C N GLQHFSAMLRDEVGG K A T NLLP G D R P N DIYG Q VA G V TQK 560
Cdd:PHA00452 466 W W A EAD S PL C FLA A C F EYA AAVHSG T SYV S GL PV AM DG T C S GLQHFSAMLRDEVGG R A V NLLP S D K P Q DIYG I VA E V VNE 545
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 561 R LE Q i D PAKLKEKEVSICAR W V A H GI N RS IV KR S VMTLPYGSTRFS SG DYI AK D Y LQ H G KAVEFSKPEYQ QAA NFLSFRV 640
Cdd:PHA00452 546 K LE R - D AINGTDNTRALARL W L A Y GI T RS LT KR P VMTLPYGSTRFS CR DYI LE D L LQ P G IDEGDGAMFTN QAA SYMAKLI 624
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 641 WD S I G E V V V AA RS AM D WLQ KS A VSVIR gvhgg EPLQQIE W D TP S GF R V F Q V Y DENDIVVINSK LMG GC R IKVGSYS D RPA 720
Cdd:PHA00452 625 WD A I S E T V P AA VE AM N WLQ QA A KLLAA ----- KGAEALH W T TP T GF P V W Q E Y RKPEEKRVRLR LMG VA R VQLYVNT D TID 699
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 721 VNH H KN G LS PNFVHS M DASHL TICTL AC P E L --- DL A M IHD DY GTHA KH A QT L FTR IRETFV R MYEEND P LA Q FA SRYP - 796
Cdd:PHA00452 700 ARK H AS G IA PNFVHS L DASHL RLTVV AC A E K gie SF A V IHD SF GTHA AD A DN L HRA IRETFV E MYEEND V LA D FA DQFG d 779
810 820
....*....|....*....|....*..
gi 662242604 797 ---- GLAAV P PR GSLDL RQ VL A S PY FF 819
Cdd:PHA00452 780 qlql KMPEL P EK GSLDL EE VL D S DF FF 806
Name
Accession
Description
Interval
E-value
PHA00452
PHA00452 T3/T7-like RNA polymerase
3-819
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 882.05
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 3 Q VE LE Q E IRQA G RD R A R RMM ER NE EAG R AD N N AY A NV L YRRY L L P LIDL I REGRKGAG K A GR R A AHVA LL EPL D ES V A A M 82
Cdd:PHA00452 9 Q LQ LE E E AYGE G EE R F R KAL ER QL EAG E AD D N PV A RR L LATL L P P VAEA I DAWKEEYK K R GR A A KARG LL RLV D PE V L A V 88
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 83 I AVRA TL TA L MV K GEAQ A R AV GRN IG L A VQR E LALSLFSVDQ P DLYWEITAD L D R RHSK S QN H RYNAL V SS A KTAGV - DI 161
Cdd:PHA00452 89 I TLKV TL DM L LS K ETPT A Q AV ATA IG R A IED E IRFGRIEDLN P KYFKKVVEY L K R SRTG S VY H IAFMM V VE A DMVLL g EW 168
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 162 PD W GPQGREQL G L W M LE Q L R - S LNM V DITLAHT G G tlrgg G S K SEYLID L TP EA RGVINQVKDLVEVTT P YHL P FIEQ PK 240
Cdd:PHA00452 169 DP W PKEDYIHV G K W L LE A L I e S TGL V ELVRHTG G N ----- G G K DHEYLE L SE EA VELLQDIAAAAAGIS P MYQ P MVVP PK 243
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 241 D W VTFDN GGYHT NEM R AQL P YCVNLQR A R R AV R DEYRNNP alteqm RG A I N K LQ SVP W Q IN R D M LA AIKDIAQHLDTDEI 320
Cdd:PHA00452 244 P W TSIVG GGYHT EGR R PLA P LVRKTKK A L R RY R QKQMPEV ------ YK A V N A LQ NTA W R IN K D V LA VVNEVVNWGPVGDV 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 321 VKQAEI P K P K KPE W L sddhdkasmt PDQL E Q F TD WKR LMRE WYT DM K L R GT K WG R FYTAR R L A D KFA E Y DS IYF L Y QA D F 400
Cdd:PHA00452 318 LGIPRR P L P P KPE F L ---------- DENE E A F KA WKR AAAA WYT KE K E R VS K RR R LEFML R V A N KFA D Y KA IYF P Y NM D W 387
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 401 RGR L YA i TTG L S PQGSDL S KALLRFA R G E PL d TSDAVR W F K INI AN KF GVDKV PY D D R IK WVD D N DQFLR A MGS D C L SHR 480
Cdd:PHA00452 388 RGR V YA - VSM L N PQGSDL Q KALLRFA E G K PL - GKRGLY W L K VHG AN CY GVDKV TF D E R AA WVD E N HDNIL A AAE D P L NNT 465
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 481 G W M EAD C PL Q FLA C C M EYA RWRDNP T GFL S HI PV GL DG S C N GLQHFSAMLRDEVGG K A T NLLP G D R P N DIYG Q VA G V TQK 560
Cdd:PHA00452 466 W W A EAD S PL C FLA A C F EYA AAVHSG T SYV S GL PV AM DG T C S GLQHFSAMLRDEVGG R A V NLLP S D K P Q DIYG I VA E V VNE 545
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 561 R LE Q i D PAKLKEKEVSICAR W V A H GI N RS IV KR S VMTLPYGSTRFS SG DYI AK D Y LQ H G KAVEFSKPEYQ QAA NFLSFRV 640
Cdd:PHA00452 546 K LE R - D AINGTDNTRALARL W L A Y GI T RS LT KR P VMTLPYGSTRFS CR DYI LE D L LQ P G IDEGDGAMFTN QAA SYMAKLI 624
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 641 WD S I G E V V V AA RS AM D WLQ KS A VSVIR gvhgg EPLQQIE W D TP S GF R V F Q V Y DENDIVVINSK LMG GC R IKVGSYS D RPA 720
Cdd:PHA00452 625 WD A I S E T V P AA VE AM N WLQ QA A KLLAA ----- KGAEALH W T TP T GF P V W Q E Y RKPEEKRVRLR LMG VA R VQLYVNT D TID 699
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 721 VNH H KN G LS PNFVHS M DASHL TICTL AC P E L --- DL A M IHD DY GTHA KH A QT L FTR IRETFV R MYEEND P LA Q FA SRYP - 796
Cdd:PHA00452 700 ARK H AS G IA PNFVHS L DASHL RLTVV AC A E K gie SF A V IHD SF GTHA AD A DN L HRA IRETFV E MYEEND V LA D FA DQFG d 779
810 820
....*....|....*....|....*..
gi 662242604 797 ---- GLAAV P PR GSLDL RQ VL A S PY FF 819
Cdd:PHA00452 780 qlql KMPEL P EK GSLDL EE VL D S DF FF 806
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
3-819
0e+00
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 557.22
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 3 Q VE LE Q E IRQ AGR D R ARRMM E RNEEA G RADNNA Y ANVLYRRYLLP L IDL I REGRKGA -- G K AG RRAAHV A L L EP LD ES V A 80
Cdd:COG5108 14 Q IA LE E E MAE AGR S R FVERI E KARKR G EESGTQ Y GRRIISDAVEL L AEA I EATIDES ss G G AG NWHTAY A Y L RE LD AE V L 93
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 81 A MI A V R AT L T A LMVKGEA QA ra V GRN I GLA V QR E LALSLFSVDQP D L Y WEITADLDR R H S KSQ n HRYNALVSSA K T A GVD 160
Cdd:COG5108 94 A YL A L R QC L D A VTQRHTL QA -- V AIR I ASM V ED E VRGEAIREAFK D F Y PRGKKKIES R T S RAV - RYKDDFERRV K N A VAK 170
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 161 IP DW GPQGREQL G LWML E QLRS lnmv DIT L AHTGGTLR G GGSKSEYLI d L T PEARGV I NQVKDLVEVTT P YH LP FIEQ P K 240
Cdd:COG5108 171 EE DW PVSDKIHV G FKLI E LVVE ---- STG L VEIARDTE G INDTPVFVR - P T ETTLEW I AEANLRMAMLS P AY LP MVVP P R 245
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 241 D W V T FDN GGY HTN E M R a Q LP Y cvn LQRAR R AVRD E YR N N -- P ALTE qmrg A I N K LQ SV PW Q INR DM LA AI K DIAQHLDTD 318
Cdd:COG5108 246 N W T T PFR GGY LSG E V R - R LP L --- VKTRN R KYLE E LK N G dm P EVYA ---- A V N A LQ QT PW T INR YV LA VM K WLWERDLDL 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 319 EIVKQAE I PK P K KPE WLS D dhdkas M T PD Q LEQ f TD WK RLM R EW Y TDMKLRGT K WGR F YTARRL A DK F AE Y DSI YF L YQ A 398
Cdd:COG5108 318 GLPQREP I TP P I KPE NRE D ------ I T TN Q VAR - KR WK KAA R KI Y IANAKLCS K RVQ F RRDLNE A ER F SD Y REF YF P YQ L 390
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 399 DFRGR L YA ITTG L S PQG S D LS K A LL R FA R G E P L d TSDAVR W FK I NI AN KF G V DK VPYDD R I KWV D DN DQFLR A MGS D c LS 478
Cdd:COG5108 391 DFRGR V YA VPAF L N PQG Q D HA K G LL M FA D G K P I - GDGGAK W LA I HG AN VW G Y DK ASLEE R V KWV E DN YEAIL A AAA D - YV 468
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 479 HRG W ME AD C P L QFLA C C M E YARWRDNPT G FL S HI P VGL DGSC N GLQH F SAMLRDEVGG K A T NL L P G D R P N DIY GQ VA G V T 558
Cdd:COG5108 469 AEF W SK AD K P W QFLA F C R E WYGYDQHGE G YV S GL P IAM DGSC S GLQH Y SAMLRDEVGG A A V NL V P S D K P Q DIY AF VA E V D 548
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 559 QKRLEQ I - D P AK L KEK E V ----- SICAR W V A H GI N R SIV KR S VMTLPYGST RFSSG D YIAK D YLQH g K AV E FSK P ----- 627
Cdd:COG5108 549 INLAQR I g C P DE L TTN E I lngim DMAHN W L A F GI T R KVT KR N VMTLPYGST EYGFR D QVRE D MITR - K KE E EGE P fpfgg 627
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 628 EYQQ AA NF L SFRV WD S IGEVVVAAR SA MDWLQ KS A - VSVIR G VH ggeplqq IE W D TP S GF R V F Q V Y DENDIVV IN SKL m G 706
Cdd:COG5108 628 DGFS AA MW L AKLI WD A IGEVVVAAR RG MDWLQ DL A g IAAKE G LP ------- VI W T TP L GF P V M Q D Y RSSKARR IN TTT - R 699
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 707 GC R IKVGSYSDRPAVNHH K -- N G LS PNFVHSMDA S HL TICTLACP E L --- DL A MI HD DY GT H A KH A QTLFTRI R ET F VRM 781
Cdd:COG5108 700 KV R VRLTLREEQDTIDKR K qk Q G IA PNFVHSMDA T HL MMTVNRSN E Y gas SF A LV HD SF GT D A GS A ELMLDCL R KA F IEL 779
810 820 830 840
....*....|....*....|....*....|....*....|....*.
gi 662242604 782 YEE N D P L AQ F A S RYP -------- G L AA VP PR GSLD LRQ VL A S PY FF 819
Cdd:COG5108 780 YEE S D V L ED F K S EIA dmlsdday A L PE VP KK GSLD VSA VL E S DF FF 825
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
438-819
5.39e-121
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 371.07
E-value: 5.39e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 438 RW F KI NI AN KF G V DK VPY D D R IKW V D DN DQFLRAMGSDC L SH R G - W ME A DC P L Q F LA C C M E Y A R - W R - DN P TGFL SH I PV 514
Cdd:pfam00940 9 RW L KI HL AN LY G F DK ASL D E R VAF V E DN LEDILDSAENP L DG R R w W LK A ED P W Q C LA A C F E L A N a L R s PD P EEYV SH L PV 88
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 515 GL DGSCNGLQH FS A MLR DE V G G K AT NL L P G DRP N D I Y GQ VA GVTQKRL E Q i D P AK LK E K evsic A RWVAHG I N R SI VK RS 594
Cdd:pfam00940 89 HQ DGSCNGLQH YA A LGG DE E G A K QV NL V P S DRP Q D V Y SG VA ELVEEKI E K - D A AK GN E I ----- A KLLKGK I T R KV VK QT 162
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 595 VMT LP YG S T RFSSGDY I A K DYLQH G KAVEFSKP ey QQ A ANF L SFRVW DSIGE VVVA A RSAM DWL QKS A VSVIRG V HGGEP 674
Cdd:pfam00940 163 VMT NV YG V T FIGAREQ I E K QLKEI G DFPGEEDL -- YK A SSY L AKKIF DSIGE LFTG A HEIQ DWL GEC A KRIAKS V PPEQS 240
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 675 LQQIE W D TP S G FR V F Q V Y DENDIVVINSK L M g GCR I KVGSYS D RPAVNHHKNGLS PNF V HS M DA S H LTICT LAC P E LD L - 753
Cdd:pfam00940 241 MSPVI W T TP L G LP V V Q P Y RKSKKKQVKTN L Q - SVS I SDPNDT D PVDKRKQLQAFP PNF I HS L DA T H MMLTA LAC D E AG L t 319
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 754 - A MI HD DYG THA KHAQTLFTRI RE T FV RMYE E N --- DPLAQ F AS RY P G --------------------- LAA VP PR G SL D 808
Cdd:pfam00940 320 f A AV HD SFW THA CDVDEMNKIL RE Q FV KLHS E D ile RLREE F KE RY K G slqlakipkdspltpvwlplt FPE VP KK G DF D 399
410
....*....|.
gi 662242604 809 L RQ VL A S P YFF 819
Cdd:pfam00940 400 L NR VL D S K YFF 410
Name
Accession
Description
Interval
E-value
PHA00452
PHA00452 T3/T7-like RNA polymerase
3-819
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 882.05
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 3 Q VE LE Q E IRQA G RD R A R RMM ER NE EAG R AD N N AY A NV L YRRY L L P LIDL I REGRKGAG K A GR R A AHVA LL EPL D ES V A A M 82
Cdd:PHA00452 9 Q LQ LE E E AYGE G EE R F R KAL ER QL EAG E AD D N PV A RR L LATL L P P VAEA I DAWKEEYK K R GR A A KARG LL RLV D PE V L A V 88
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 83 I AVRA TL TA L MV K GEAQ A R AV GRN IG L A VQR E LALSLFSVDQ P DLYWEITAD L D R RHSK S QN H RYNAL V SS A KTAGV - DI 161
Cdd:PHA00452 89 I TLKV TL DM L LS K ETPT A Q AV ATA IG R A IED E IRFGRIEDLN P KYFKKVVEY L K R SRTG S VY H IAFMM V VE A DMVLL g EW 168
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 162 PD W GPQGREQL G L W M LE Q L R - S LNM V DITLAHT G G tlrgg G S K SEYLID L TP EA RGVINQVKDLVEVTT P YHL P FIEQ PK 240
Cdd:PHA00452 169 DP W PKEDYIHV G K W L LE A L I e S TGL V ELVRHTG G N ----- G G K DHEYLE L SE EA VELLQDIAAAAAGIS P MYQ P MVVP PK 243
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 241 D W VTFDN GGYHT NEM R AQL P YCVNLQR A R R AV R DEYRNNP alteqm RG A I N K LQ SVP W Q IN R D M LA AIKDIAQHLDTDEI 320
Cdd:PHA00452 244 P W TSIVG GGYHT EGR R PLA P LVRKTKK A L R RY R QKQMPEV ------ YK A V N A LQ NTA W R IN K D V LA VVNEVVNWGPVGDV 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 321 VKQAEI P K P K KPE W L sddhdkasmt PDQL E Q F TD WKR LMRE WYT DM K L R GT K WG R FYTAR R L A D KFA E Y DS IYF L Y QA D F 400
Cdd:PHA00452 318 LGIPRR P L P P KPE F L ---------- DENE E A F KA WKR AAAA WYT KE K E R VS K RR R LEFML R V A N KFA D Y KA IYF P Y NM D W 387
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 401 RGR L YA i TTG L S PQGSDL S KALLRFA R G E PL d TSDAVR W F K INI AN KF GVDKV PY D D R IK WVD D N DQFLR A MGS D C L SHR 480
Cdd:PHA00452 388 RGR V YA - VSM L N PQGSDL Q KALLRFA E G K PL - GKRGLY W L K VHG AN CY GVDKV TF D E R AA WVD E N HDNIL A AAE D P L NNT 465
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 481 G W M EAD C PL Q FLA C C M EYA RWRDNP T GFL S HI PV GL DG S C N GLQHFSAMLRDEVGG K A T NLLP G D R P N DIYG Q VA G V TQK 560
Cdd:PHA00452 466 W W A EAD S PL C FLA A C F EYA AAVHSG T SYV S GL PV AM DG T C S GLQHFSAMLRDEVGG R A V NLLP S D K P Q DIYG I VA E V VNE 545
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 561 R LE Q i D PAKLKEKEVSICAR W V A H GI N RS IV KR S VMTLPYGSTRFS SG DYI AK D Y LQ H G KAVEFSKPEYQ QAA NFLSFRV 640
Cdd:PHA00452 546 K LE R - D AINGTDNTRALARL W L A Y GI T RS LT KR P VMTLPYGSTRFS CR DYI LE D L LQ P G IDEGDGAMFTN QAA SYMAKLI 624
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 641 WD S I G E V V V AA RS AM D WLQ KS A VSVIR gvhgg EPLQQIE W D TP S GF R V F Q V Y DENDIVVINSK LMG GC R IKVGSYS D RPA 720
Cdd:PHA00452 625 WD A I S E T V P AA VE AM N WLQ QA A KLLAA ----- KGAEALH W T TP T GF P V W Q E Y RKPEEKRVRLR LMG VA R VQLYVNT D TID 699
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 721 VNH H KN G LS PNFVHS M DASHL TICTL AC P E L --- DL A M IHD DY GTHA KH A QT L FTR IRETFV R MYEEND P LA Q FA SRYP - 796
Cdd:PHA00452 700 ARK H AS G IA PNFVHS L DASHL RLTVV AC A E K gie SF A V IHD SF GTHA AD A DN L HRA IRETFV E MYEEND V LA D FA DQFG d 779
810 820
....*....|....*....|....*..
gi 662242604 797 ---- GLAAV P PR GSLDL RQ VL A S PY FF 819
Cdd:PHA00452 780 qlql KMPEL P EK GSLDL EE VL D S DF FF 806
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
3-819
0e+00
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 557.22
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 3 Q VE LE Q E IRQ AGR D R ARRMM E RNEEA G RADNNA Y ANVLYRRYLLP L IDL I REGRKGA -- G K AG RRAAHV A L L EP LD ES V A 80
Cdd:COG5108 14 Q IA LE E E MAE AGR S R FVERI E KARKR G EESGTQ Y GRRIISDAVEL L AEA I EATIDES ss G G AG NWHTAY A Y L RE LD AE V L 93
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 81 A MI A V R AT L T A LMVKGEA QA ra V GRN I GLA V QR E LALSLFSVDQP D L Y WEITADLDR R H S KSQ n HRYNALVSSA K T A GVD 160
Cdd:COG5108 94 A YL A L R QC L D A VTQRHTL QA -- V AIR I ASM V ED E VRGEAIREAFK D F Y PRGKKKIES R T S RAV - RYKDDFERRV K N A VAK 170
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 161 IP DW GPQGREQL G LWML E QLRS lnmv DIT L AHTGGTLR G GGSKSEYLI d L T PEARGV I NQVKDLVEVTT P YH LP FIEQ P K 240
Cdd:COG5108 171 EE DW PVSDKIHV G FKLI E LVVE ---- STG L VEIARDTE G INDTPVFVR - P T ETTLEW I AEANLRMAMLS P AY LP MVVP P R 245
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 241 D W V T FDN GGY HTN E M R a Q LP Y cvn LQRAR R AVRD E YR N N -- P ALTE qmrg A I N K LQ SV PW Q INR DM LA AI K DIAQHLDTD 318
Cdd:COG5108 246 N W T T PFR GGY LSG E V R - R LP L --- VKTRN R KYLE E LK N G dm P EVYA ---- A V N A LQ QT PW T INR YV LA VM K WLWERDLDL 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 319 EIVKQAE I PK P K KPE WLS D dhdkas M T PD Q LEQ f TD WK RLM R EW Y TDMKLRGT K WGR F YTARRL A DK F AE Y DSI YF L YQ A 398
Cdd:COG5108 318 GLPQREP I TP P I KPE NRE D ------ I T TN Q VAR - KR WK KAA R KI Y IANAKLCS K RVQ F RRDLNE A ER F SD Y REF YF P YQ L 390
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 399 DFRGR L YA ITTG L S PQG S D LS K A LL R FA R G E P L d TSDAVR W FK I NI AN KF G V DK VPYDD R I KWV D DN DQFLR A MGS D c LS 478
Cdd:COG5108 391 DFRGR V YA VPAF L N PQG Q D HA K G LL M FA D G K P I - GDGGAK W LA I HG AN VW G Y DK ASLEE R V KWV E DN YEAIL A AAA D - YV 468
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 479 HRG W ME AD C P L QFLA C C M E YARWRDNPT G FL S HI P VGL DGSC N GLQH F SAMLRDEVGG K A T NL L P G D R P N DIY GQ VA G V T 558
Cdd:COG5108 469 AEF W SK AD K P W QFLA F C R E WYGYDQHGE G YV S GL P IAM DGSC S GLQH Y SAMLRDEVGG A A V NL V P S D K P Q DIY AF VA E V D 548
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 559 QKRLEQ I - D P AK L KEK E V ----- SICAR W V A H GI N R SIV KR S VMTLPYGST RFSSG D YIAK D YLQH g K AV E FSK P ----- 627
Cdd:COG5108 549 INLAQR I g C P DE L TTN E I lngim DMAHN W L A F GI T R KVT KR N VMTLPYGST EYGFR D QVRE D MITR - K KE E EGE P fpfgg 627
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 628 EYQQ AA NF L SFRV WD S IGEVVVAAR SA MDWLQ KS A - VSVIR G VH ggeplqq IE W D TP S GF R V F Q V Y DENDIVV IN SKL m G 706
Cdd:COG5108 628 DGFS AA MW L AKLI WD A IGEVVVAAR RG MDWLQ DL A g IAAKE G LP ------- VI W T TP L GF P V M Q D Y RSSKARR IN TTT - R 699
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 707 GC R IKVGSYSDRPAVNHH K -- N G LS PNFVHSMDA S HL TICTLACP E L --- DL A MI HD DY GT H A KH A QTLFTRI R ET F VRM 781
Cdd:COG5108 700 KV R VRLTLREEQDTIDKR K qk Q G IA PNFVHSMDA T HL MMTVNRSN E Y gas SF A LV HD SF GT D A GS A ELMLDCL R KA F IEL 779
810 820 830 840
....*....|....*....|....*....|....*....|....*.
gi 662242604 782 YEE N D P L AQ F A S RYP -------- G L AA VP PR GSLD LRQ VL A S PY FF 819
Cdd:COG5108 780 YEE S D V L ED F K S EIA dmlsdday A L PE VP KK GSLD VSA VL E S DF FF 825
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
438-819
5.39e-121
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 371.07
E-value: 5.39e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 438 RW F KI NI AN KF G V DK VPY D D R IKW V D DN DQFLRAMGSDC L SH R G - W ME A DC P L Q F LA C C M E Y A R - W R - DN P TGFL SH I PV 514
Cdd:pfam00940 9 RW L KI HL AN LY G F DK ASL D E R VAF V E DN LEDILDSAENP L DG R R w W LK A ED P W Q C LA A C F E L A N a L R s PD P EEYV SH L PV 88
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 515 GL DGSCNGLQH FS A MLR DE V G G K AT NL L P G DRP N D I Y GQ VA GVTQKRL E Q i D P AK LK E K evsic A RWVAHG I N R SI VK RS 594
Cdd:pfam00940 89 HQ DGSCNGLQH YA A LGG DE E G A K QV NL V P S DRP Q D V Y SG VA ELVEEKI E K - D A AK GN E I ----- A KLLKGK I T R KV VK QT 162
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 595 VMT LP YG S T RFSSGDY I A K DYLQH G KAVEFSKP ey QQ A ANF L SFRVW DSIGE VVVA A RSAM DWL QKS A VSVIRG V HGGEP 674
Cdd:pfam00940 163 VMT NV YG V T FIGAREQ I E K QLKEI G DFPGEEDL -- YK A SSY L AKKIF DSIGE LFTG A HEIQ DWL GEC A KRIAKS V PPEQS 240
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 675 LQQIE W D TP S G FR V F Q V Y DENDIVVINSK L M g GCR I KVGSYS D RPAVNHHKNGLS PNF V HS M DA S H LTICT LAC P E LD L - 753
Cdd:pfam00940 241 MSPVI W T TP L G LP V V Q P Y RKSKKKQVKTN L Q - SVS I SDPNDT D PVDKRKQLQAFP PNF I HS L DA T H MMLTA LAC D E AG L t 319
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 754 - A MI HD DYG THA KHAQTLFTRI RE T FV RMYE E N --- DPLAQ F AS RY P G --------------------- LAA VP PR G SL D 808
Cdd:pfam00940 320 f A AV HD SFW THA CDVDEMNKIL RE Q FV KLHS E D ile RLREE F KE RY K G slqlakipkdspltpvwlplt FPE VP KK G DF D 399
410
....*....|.
gi 662242604 809 L RQ VL A S P YFF 819
Cdd:pfam00940 400 L NR VL D S K YFF 410
RPOL_N
pfam14700 DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA ...
3-256
2.45e-07
DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA polymerase. This domain has a role in interaction with regions of upstream promoter DNA and the nascent RNA chain, leading to the processivity of the enzyme. In order to make mRNA transcripts the RNA polymerase undergoes a transition from the initiation phase (which only makes short fragments of RNA) to an elongation phase. This domain undergoes a structural change in the transition from initiation to elongation phase. The structural change results in abolition of the promoter binding site, creation of a channel accommodating the heteroduplex in the active site and formation of an exit tunnel which the RNA transcript passes through after peeling off the heteroduplex.
Pssm-ID: 464270
Cd Length: 286
Bit Score: 53.00
E-value: 2.45e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 3 Q VE LE QEIRQ A GRD R A R RMM E RNEEA G RAD N - NAYA N V L YRRYLLP L IDL I R E --------- GRKGAG K AGR R AAHVAL L 72
Cdd:pfam14700 2 Q LR LE RDSVE A AVE R W R EEF E ELQKR G LNT N l PKSL N A L LWQWYEA L LPA I K E eiellkaae AKPKKT K DKE R CEYGPY L 81
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 73 EP L DESVA A M I AVRAT L TA L MVK G EAQ ---- A R AV g RN IG L AV QR E L alslfsvdqpdlyweitadldrrhs KS Q N hryn 148
Cdd:pfam14700 82 RL L PPEKL A A I TILEL L SL L STG G VDK gmkv S R LA - IS IG K AV ED E Y ------------------------- RA Q Q ---- 131
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 662242604 149 A L VSSA K TAGVDIPD W GPQG R EQL G LWM L EQ L - RSLNM - V DITLAH TG GTLRG ------------ G G S K SEYLI d LT PE a 214
Cdd:pfam14700 132 L L KKEK K KIKKKKIP W PQEV R AKV G AVL L SL L i ETAKV p V TAEDPE TG EKVIQ pqpafyhsyqyk R G K K VGVIK - PH PE - 209
250 260 270 280
....*....|....*....|....*....|....*....|....*..
gi 662242604 215 rg VINQVKD -- LVEVT TP Y HLP FIEQ PK D W VTFDN GGY HTNE --- MR 256
Cdd:pfam14700 210 -- LVKLLLR ep ARDTL TP R HLP MLVP PK P W TSYNK GGY LLSP skl MR 254
Blast search parameters
Data Source:
Precalculated data, version = cdd.v.3.21
Preset Options: Database: CDSEARCH/cdd Low complexity filter: no Composition Based Adjustment: yes E-value threshold: 0.01
