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Concise Results
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DNA-directed RNA polymerase [Limnobacter sp.]
Protein Classification
List of domain hits
Name
Accession
Description
Interval
E-value
PHA00452 super family
cl42978 T3/T7-like RNA polymerase
3-794
0e+00
T3/T7-like RNA polymerase
PHA00452 :Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 615.11
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 3 Q FD LE Q E MLKM G Q ER YQAKVS R AK E MNLESTH P AGQK LL QHSVVSL A DHF D N W IDHATT s A G KRHT A LPY L NQ V PTK V S A 82
Cdd:PHA00452 9 Q LQ LE E E AYGE G E ER FRKALE R QL E AGEADDN P VARR LL ATLLPPV A EAI D A W KEEYKK - R G RAAK A RGL L RL V DPE V L A 87
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 83 AL T ARA TLD AISNGR -- KLIST A AN IG GL IEDE VKYRTLK D DYAALWQQLNRVMD R YKS - AYTKKK F IEKSLRHH -- DIV 157
Cdd:PHA00452 88 VI T LKV TLD MLLSKE tp TAQAV A TA IG RA IEDE IRFGRIE D LNPKYFKKVVEYLK R SRT g SVYHIA F MMVVEADM vl LGE 167
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 158 IPR W SAQER I K VG LVC LE LMRQ STGL I E INT - RKNQH GK AEQWV E P S NDLI E W L KNAH A HMEMLD P VFL PM IEQ P V PW QD 236
Cdd:PHA00452 168 WDP W PKEDY I H VG KWL LE ALIE STGL V E LVR h TGGNG GK DHEYL E L S EEAV E L L QDIA A AAAGIS P MYQ PM VVP P K PW TS 247
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 237 YIV GGY SSGVF R RRPLVKT K D K GH L ELVNAST MP K VY R A L NA I Q G T PFKV N TA VL E V MKHCW N KN i AIDGLVTAEDE PLP 316
Cdd:PHA00452 248 IVG GGY HTEGR R PLAPLVR K T K KA L RRYRQKQ MP E VY K A V NA L Q N T AWRI N KD VL A V VNEVV N WG - PVGDVLGIPRR PLP 326
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 317 A KP TDI D T N R E SRRE W R R R AA RQHFENERQR SKR LHAMRVMSL A E KF K D - ER I W FP HDL D F RGR A Y PMP y F L Q PQG PSFA 395
Cdd:PHA00452 327 P KP EFL D E N E E AFKA W K R A AA AWYTKEKERV SKR RRLEFMLRV A N KF A D y KA I Y FP YNM D W RGR V Y AVS - M L N PQG SDLQ 405
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 396 RS LL T F DRTTVMTDV G EQ WL RI H I ANC W G M DK NNY D Q R IQ W TH EN SGMLHQIGR DP MS N MD W TQ AD D P WR FLAAC V EYA E 475
Cdd:PHA00452 406 KA LL R F AEGKPLGKR G LY WL KV H G ANC Y G V DK VTF D E R AA W VD EN HDNILAAAE DP LN N TW W AE AD S P LC FLAAC F EYA A 485
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 476 MM - K G GQFHTS LP IGI D A T NQ GLQ IYALA LRD HTSAQ A T N C LP CEL P N DIY QQ V CDT V ------- LDMIATD T HEY A KG W 547
Cdd:PHA00452 486 AV h S G TSYVSG LP VAM D G T CS GLQ HFSAM LRD EVGGR A V N L LP SDK P Q DIY GI V AEV V neklerd AINGTDN T RAL A RL W 565
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 548 REF G L TR KT TKR QT MTLPYGST F FSC KK Y TA E wfy D E L KK G KTNPF G D - Q T Y Q PCGWL A EK IW E AI GQV V H AA RVG M D WL 626
Cdd:PHA00452 566 LAY G I TR SL TKR PV MTLPYGST R FSC RD Y IL E --- D L L QP G IDEGD G A m F T N Q AASYM A KL IW D AI SET V P AA VEA M N WL 642
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 627 Q HV A ETCLDN G VTP - Q W V TP L GFPV YMH Y E K QDHLNIKTNVF GV I R QTR i RTDSGDPSK RK SMNAM APNFVHS I D gi GGL 705
Cdd:PHA00452 643 Q QA A KLLAAK G AEA l H W T TP T GFPV WQE Y R K PEEKRVRLRLM GV A R VQL - YVNTDTIDA RK HASGI APNFVHS L D -- ASH 719
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 706 L GE T TNRALDR G VTD F LMV HD EYSV HA PCVPIVGEEV R NAT V DLFSG N - I L K D LHT Q INTL L PSG iq LD E P P PQ G D LD IS 784
Cdd:PHA00452 720 L RL T VVACAEK G IES F AVI HD SFGT HA ADADNLHRAI R ETF V EMYEE N d V L A D FAD Q FGDQ L QLK -- MP E L P EK G S LD LE 797
810
....*....|
gi 2534951727 785 LINQAQYY F S 794
Cdd:PHA00452 798 EVLDSDFF F C 807
Name
Accession
Description
Interval
E-value
PHA00452
PHA00452 T3/T7-like RNA polymerase
3-794
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 615.11
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 3 Q FD LE Q E MLKM G Q ER YQAKVS R AK E MNLESTH P AGQK LL QHSVVSL A DHF D N W IDHATT s A G KRHT A LPY L NQ V PTK V S A 82
Cdd:PHA00452 9 Q LQ LE E E AYGE G E ER FRKALE R QL E AGEADDN P VARR LL ATLLPPV A EAI D A W KEEYKK - R G RAAK A RGL L RL V DPE V L A 87
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 83 AL T ARA TLD AISNGR -- KLIST A AN IG GL IEDE VKYRTLK D DYAALWQQLNRVMD R YKS - AYTKKK F IEKSLRHH -- DIV 157
Cdd:PHA00452 88 VI T LKV TLD MLLSKE tp TAQAV A TA IG RA IEDE IRFGRIE D LNPKYFKKVVEYLK R SRT g SVYHIA F MMVVEADM vl LGE 167
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 158 IPR W SAQER I K VG LVC LE LMRQ STGL I E INT - RKNQH GK AEQWV E P S NDLI E W L KNAH A HMEMLD P VFL PM IEQ P V PW QD 236
Cdd:PHA00452 168 WDP W PKEDY I H VG KWL LE ALIE STGL V E LVR h TGGNG GK DHEYL E L S EEAV E L L QDIA A AAAGIS P MYQ PM VVP P K PW TS 247
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 237 YIV GGY SSGVF R RRPLVKT K D K GH L ELVNAST MP K VY R A L NA I Q G T PFKV N TA VL E V MKHCW N KN i AIDGLVTAEDE PLP 316
Cdd:PHA00452 248 IVG GGY HTEGR R PLAPLVR K T K KA L RRYRQKQ MP E VY K A V NA L Q N T AWRI N KD VL A V VNEVV N WG - PVGDVLGIPRR PLP 326
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 317 A KP TDI D T N R E SRRE W R R R AA RQHFENERQR SKR LHAMRVMSL A E KF K D - ER I W FP HDL D F RGR A Y PMP y F L Q PQG PSFA 395
Cdd:PHA00452 327 P KP EFL D E N E E AFKA W K R A AA AWYTKEKERV SKR RRLEFMLRV A N KF A D y KA I Y FP YNM D W RGR V Y AVS - M L N PQG SDLQ 405
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 396 RS LL T F DRTTVMTDV G EQ WL RI H I ANC W G M DK NNY D Q R IQ W TH EN SGMLHQIGR DP MS N MD W TQ AD D P WR FLAAC V EYA E 475
Cdd:PHA00452 406 KA LL R F AEGKPLGKR G LY WL KV H G ANC Y G V DK VTF D E R AA W VD EN HDNILAAAE DP LN N TW W AE AD S P LC FLAAC F EYA A 485
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 476 MM - K G GQFHTS LP IGI D A T NQ GLQ IYALA LRD HTSAQ A T N C LP CEL P N DIY QQ V CDT V ------- LDMIATD T HEY A KG W 547
Cdd:PHA00452 486 AV h S G TSYVSG LP VAM D G T CS GLQ HFSAM LRD EVGGR A V N L LP SDK P Q DIY GI V AEV V neklerd AINGTDN T RAL A RL W 565
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 548 REF G L TR KT TKR QT MTLPYGST F FSC KK Y TA E wfy D E L KK G KTNPF G D - Q T Y Q PCGWL A EK IW E AI GQV V H AA RVG M D WL 626
Cdd:PHA00452 566 LAY G I TR SL TKR PV MTLPYGST R FSC RD Y IL E --- D L L QP G IDEGD G A m F T N Q AASYM A KL IW D AI SET V P AA VEA M N WL 642
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 627 Q HV A ETCLDN G VTP - Q W V TP L GFPV YMH Y E K QDHLNIKTNVF GV I R QTR i RTDSGDPSK RK SMNAM APNFVHS I D gi GGL 705
Cdd:PHA00452 643 Q QA A KLLAAK G AEA l H W T TP T GFPV WQE Y R K PEEKRVRLRLM GV A R VQL - YVNTDTIDA RK HASGI APNFVHS L D -- ASH 719
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 706 L GE T TNRALDR G VTD F LMV HD EYSV HA PCVPIVGEEV R NAT V DLFSG N - I L K D LHT Q INTL L PSG iq LD E P P PQ G D LD IS 784
Cdd:PHA00452 720 L RL T VVACAEK G IES F AVI HD SFGT HA ADADNLHRAI R ETF V EMYEE N d V L A D FAD Q FGDQ L QLK -- MP E L P EK G S LD LE 797
810
....*....|
gi 2534951727 785 LINQAQYY F S 794
Cdd:PHA00452 798 EVLDSDFF F C 807
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
2-794
0e+00
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 573.40
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 2 K Q FD LE Q EM LKM G QE R YQAKVSR A KEMNL ES THPA G QKLLQHS V VS LA DHFDNW ID - HATTS AG KR HTA LP YL NQVPTK V 80
Cdd:COG5108 13 R Q IA LE E EM AEA G RS R FVERIEK A RKRGE ES GTQY G RRIISDA V EL LA EAIEAT ID e SSSGG AG NW HTA YA YL RELDAE V 92
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 81 S A A L TA R AT LDA ISNGRK L IST A AN I GGLI EDEV KYRTLKDDYAALWQQLNRVMD - R YKS A YTK K KFI E KSLRHHDIVIP 159
Cdd:COG5108 93 L A Y L AL R QC LDA VTQRHT L QAV A IR I ASMV EDEV RGEAIREAFKDFYPRGKKKIE s R TSR A VRY K DDF E RRVKNAVAKEE 172
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 160 R W SAQER I K VG LVCL EL MRQ STGL I EI NTRKNQHGKAEQW V E P SNDLI EW LKN A HAH M E ML D P VF LPM IEQ P VP W QDYIV 239
Cdd:COG5108 173 D W PVSDK I H VG FKLI EL VVE STGL V EI ARDTEGINDTPVF V R P TETTL EW IAE A NLR M A ML S P AY LPM VVP P RN W TTPFR 252
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 240 GGY S SG VF RR R PLVKT KDKGH LE LVNAST MP K VY R A L NA I Q G TP FKV N TA VL E VMK HC W NKNIAI d GL VTA E DEPL P A KP 319
Cdd:COG5108 253 GGY L SG EV RR L PLVKT RNRKY LE ELKNGD MP E VY A A V NA L Q Q TP WTI N RY VL A VMK WL W ERDLDL - GL PQR E PITP P I KP 331
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 320 T --- DI D TN RES R RE W RRR A ARQHFE N ERQR SKR LHAM R VMSL AE K F K D E R - IW FP HD LDFRGR A Y PM P Y FL Q PQG PSF A 395
Cdd:COG5108 332 E nre DI T TN QVA R KR W KKA A RKIYIA N AKLC SKR VQFR R DLNE AE R F S D Y R e FY FP YQ LDFRGR V Y AV P A FL N PQG QDH A 411
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 396 RS LL T F DRTTVMT D V G EQ WL R IH I AN C WG M DK NNYDQ R IQ W THE N SGMLHQIGR D p MSNMD W TQ AD D PW R FLA A C V E YAE 475
Cdd:COG5108 412 KG LL M F ADGKPIG D G G AK WL A IH G AN V WG Y DK ASLEE R VK W VED N YEAILAAAA D - YVAEF W SK AD K PW Q FLA F C R E WYG 490
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 476 MMKG G Q - FHTS LPI GI D ATNQ GLQ I Y ALA LRD HTSAQ A T N CL P CEL P N DIY QQ V CDTVLDMIA ------- TD T H E YAK G - 546
Cdd:COG5108 491 YDQH G E g YVSG LPI AM D GSCS GLQ H Y SAM LRD EVGGA A V N LV P SDK P Q DIY AF V AEVDINLAQ rigcpde LT T N E ILN G i 570
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 547 ------ W RE FG L TRK T TKR QT MTLPYGST FFSCKKYTA E WFYDEL K -- K G KTN PFG DQTYQPCG WLA EK IW E AIG Q VV H A 618
Cdd:COG5108 571 mdmahn W LA FG I TRK V TKR NV MTLPYGST EYGFRDQVR E DMITRK K ee E G EPF PFG GDGFSAAM WLA KL IW D AIG E VV V A 650
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 619 AR V GMDWLQ HV A ETCLDN G VTPQ W V TPLGFPV YMH Y EKQDHLN I K T NVFG V IRQTRI R TDSGDPS KRK SMNAM APNFVHS 698
Cdd:COG5108 651 AR R GMDWLQ DL A GIAAKE G LPVI W T TPLGFPV MQD Y RSSKARR I N T TTRK V RVRLTL R EEQDTID KRK QKQGI APNFVHS 730
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 699 I D GIGGLL ge T T NR ALDR G VTD F LM VHD EYSVH A PCVPIVGEEV R N A TVD L FS - GNI L K D LHTQ I NTL L P - SGIQ L D E P P 776
Cdd:COG5108 731 M D ATHLMM -- T V NR SNEY G ASS F AL VHD SFGTD A GSAELMLDCL R K A FIE L YE e SDV L E D FKSE I ADM L S d DAYA L P E V P 808
810
....*....|....*...
gi 2534951727 777 PQ G D LD I S LINQAQYY F S 794
Cdd:COG5108 809 KK G S LD V S AVLESDFF F A 826
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
414-794
1.90e-92
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 295.57
E-value: 1.90e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 414 WL R IH I AN CW G M DK NNY D Q R IQWTHE N sgm L HQ I --- GRD P MS - NMD W TQ A D DPW RF LAAC V E Y A EMMKGG --- QFHTS L 486
Cdd:pfam00940 10 WL K IH L AN LY G F DK ASL D E R VAFVED N --- L ED I lds AEN P LD g RRW W LK A E DPW QC LAAC F E L A NALRSP dpe EYVSH L 86
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 487 P IGI D ATNQ GLQ I YA LALR D HTS A QAT N CL P CEL P N D I Y QQ V CDT V LDM I AT D --- TH E Y AK GWREF g L TRK TT K RQT MT 563
Cdd:pfam00940 87 P VHQ D GSCN GLQ H YA ALGG D EEG A KQV N LV P SDR P Q D V Y SG V AEL V EEK I EK D aak GN E I AK LLKGK - I TRK VV K QTV MT 165
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 564 LP YG S TF FSCKKY taew FYDE LK KGKTN P FGDQT Y QPCGW LA E KI WEA IG QVVHA A RVGM DWL QHV A ----- ETCLDNGV 638
Cdd:pfam00940 166 NV YG V TF IGAREQ ---- IEKQ LK EIGDF P GEEDL Y KASSY LA K KI FDS IG ELFTG A HEIQ DWL GEC A kriak SVPPEQSM 241
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 639 T P - Q W V TPLG F PV YMH Y E K QDHLNI KTN VFG V IRQTRIR TD S gd PS KRK SMN A MA PNF V HS I D GIGGL L ge T TNRALDR G 717
Cdd:pfam00940 242 S P v I W T TPLG L PV VQP Y R K SKKKQV KTN LQS V SISDPND TD P -- VD KRK QLQ A FP PNF I HS L D ATHMM L -- T ALACDEA G 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 718 V T d F LM VHD EYSV HA PC V PIVGEEV R NAT V D L F S GN IL KD L HTQINTLLPSGI QL D ------------------ E P P PQ G 779
Cdd:pfam00940 318 L T - F AA VHD SFWT HA CD V DEMNKIL R EQF V K L H S ED IL ER L REEFKERYKGSL QL A kipkdspltpvwlpltfp E V P KK G 396
410
....*....|....*
gi 2534951727 780 D L D ISLINQAQ Y Y FS 794
Cdd:pfam00940 397 D F D LNRVLDSK Y F FS 411
Name
Accession
Description
Interval
E-value
PHA00452
PHA00452 T3/T7-like RNA polymerase
3-794
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 615.11
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 3 Q FD LE Q E MLKM G Q ER YQAKVS R AK E MNLESTH P AGQK LL QHSVVSL A DHF D N W IDHATT s A G KRHT A LPY L NQ V PTK V S A 82
Cdd:PHA00452 9 Q LQ LE E E AYGE G E ER FRKALE R QL E AGEADDN P VARR LL ATLLPPV A EAI D A W KEEYKK - R G RAAK A RGL L RL V DPE V L A 87
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 83 AL T ARA TLD AISNGR -- KLIST A AN IG GL IEDE VKYRTLK D DYAALWQQLNRVMD R YKS - AYTKKK F IEKSLRHH -- DIV 157
Cdd:PHA00452 88 VI T LKV TLD MLLSKE tp TAQAV A TA IG RA IEDE IRFGRIE D LNPKYFKKVVEYLK R SRT g SVYHIA F MMVVEADM vl LGE 167
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 158 IPR W SAQER I K VG LVC LE LMRQ STGL I E INT - RKNQH GK AEQWV E P S NDLI E W L KNAH A HMEMLD P VFL PM IEQ P V PW QD 236
Cdd:PHA00452 168 WDP W PKEDY I H VG KWL LE ALIE STGL V E LVR h TGGNG GK DHEYL E L S EEAV E L L QDIA A AAAGIS P MYQ PM VVP P K PW TS 247
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 237 YIV GGY SSGVF R RRPLVKT K D K GH L ELVNAST MP K VY R A L NA I Q G T PFKV N TA VL E V MKHCW N KN i AIDGLVTAEDE PLP 316
Cdd:PHA00452 248 IVG GGY HTEGR R PLAPLVR K T K KA L RRYRQKQ MP E VY K A V NA L Q N T AWRI N KD VL A V VNEVV N WG - PVGDVLGIPRR PLP 326
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 317 A KP TDI D T N R E SRRE W R R R AA RQHFENERQR SKR LHAMRVMSL A E KF K D - ER I W FP HDL D F RGR A Y PMP y F L Q PQG PSFA 395
Cdd:PHA00452 327 P KP EFL D E N E E AFKA W K R A AA AWYTKEKERV SKR RRLEFMLRV A N KF A D y KA I Y FP YNM D W RGR V Y AVS - M L N PQG SDLQ 405
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 396 RS LL T F DRTTVMTDV G EQ WL RI H I ANC W G M DK NNY D Q R IQ W TH EN SGMLHQIGR DP MS N MD W TQ AD D P WR FLAAC V EYA E 475
Cdd:PHA00452 406 KA LL R F AEGKPLGKR G LY WL KV H G ANC Y G V DK VTF D E R AA W VD EN HDNILAAAE DP LN N TW W AE AD S P LC FLAAC F EYA A 485
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 476 MM - K G GQFHTS LP IGI D A T NQ GLQ IYALA LRD HTSAQ A T N C LP CEL P N DIY QQ V CDT V ------- LDMIATD T HEY A KG W 547
Cdd:PHA00452 486 AV h S G TSYVSG LP VAM D G T CS GLQ HFSAM LRD EVGGR A V N L LP SDK P Q DIY GI V AEV V neklerd AINGTDN T RAL A RL W 565
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 548 REF G L TR KT TKR QT MTLPYGST F FSC KK Y TA E wfy D E L KK G KTNPF G D - Q T Y Q PCGWL A EK IW E AI GQV V H AA RVG M D WL 626
Cdd:PHA00452 566 LAY G I TR SL TKR PV MTLPYGST R FSC RD Y IL E --- D L L QP G IDEGD G A m F T N Q AASYM A KL IW D AI SET V P AA VEA M N WL 642
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 627 Q HV A ETCLDN G VTP - Q W V TP L GFPV YMH Y E K QDHLNIKTNVF GV I R QTR i RTDSGDPSK RK SMNAM APNFVHS I D gi GGL 705
Cdd:PHA00452 643 Q QA A KLLAAK G AEA l H W T TP T GFPV WQE Y R K PEEKRVRLRLM GV A R VQL - YVNTDTIDA RK HASGI APNFVHS L D -- ASH 719
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 706 L GE T TNRALDR G VTD F LMV HD EYSV HA PCVPIVGEEV R NAT V DLFSG N - I L K D LHT Q INTL L PSG iq LD E P P PQ G D LD IS 784
Cdd:PHA00452 720 L RL T VVACAEK G IES F AVI HD SFGT HA ADADNLHRAI R ETF V EMYEE N d V L A D FAD Q FGDQ L QLK -- MP E L P EK G S LD LE 797
810
....*....|
gi 2534951727 785 LINQAQYY F S 794
Cdd:PHA00452 798 EVLDSDFF F C 807
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
2-794
0e+00
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 573.40
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 2 K Q FD LE Q EM LKM G QE R YQAKVSR A KEMNL ES THPA G QKLLQHS V VS LA DHFDNW ID - HATTS AG KR HTA LP YL NQVPTK V 80
Cdd:COG5108 13 R Q IA LE E EM AEA G RS R FVERIEK A RKRGE ES GTQY G RRIISDA V EL LA EAIEAT ID e SSSGG AG NW HTA YA YL RELDAE V 92
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 81 S A A L TA R AT LDA ISNGRK L IST A AN I GGLI EDEV KYRTLKDDYAALWQQLNRVMD - R YKS A YTK K KFI E KSLRHHDIVIP 159
Cdd:COG5108 93 L A Y L AL R QC LDA VTQRHT L QAV A IR I ASMV EDEV RGEAIREAFKDFYPRGKKKIE s R TSR A VRY K DDF E RRVKNAVAKEE 172
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 160 R W SAQER I K VG LVCL EL MRQ STGL I EI NTRKNQHGKAEQW V E P SNDLI EW LKN A HAH M E ML D P VF LPM IEQ P VP W QDYIV 239
Cdd:COG5108 173 D W PVSDK I H VG FKLI EL VVE STGL V EI ARDTEGINDTPVF V R P TETTL EW IAE A NLR M A ML S P AY LPM VVP P RN W TTPFR 252
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 240 GGY S SG VF RR R PLVKT KDKGH LE LVNAST MP K VY R A L NA I Q G TP FKV N TA VL E VMK HC W NKNIAI d GL VTA E DEPL P A KP 319
Cdd:COG5108 253 GGY L SG EV RR L PLVKT RNRKY LE ELKNGD MP E VY A A V NA L Q Q TP WTI N RY VL A VMK WL W ERDLDL - GL PQR E PITP P I KP 331
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 320 T --- DI D TN RES R RE W RRR A ARQHFE N ERQR SKR LHAM R VMSL AE K F K D E R - IW FP HD LDFRGR A Y PM P Y FL Q PQG PSF A 395
Cdd:COG5108 332 E nre DI T TN QVA R KR W KKA A RKIYIA N AKLC SKR VQFR R DLNE AE R F S D Y R e FY FP YQ LDFRGR V Y AV P A FL N PQG QDH A 411
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 396 RS LL T F DRTTVMT D V G EQ WL R IH I AN C WG M DK NNYDQ R IQ W THE N SGMLHQIGR D p MSNMD W TQ AD D PW R FLA A C V E YAE 475
Cdd:COG5108 412 KG LL M F ADGKPIG D G G AK WL A IH G AN V WG Y DK ASLEE R VK W VED N YEAILAAAA D - YVAEF W SK AD K PW Q FLA F C R E WYG 490
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 476 MMKG G Q - FHTS LPI GI D ATNQ GLQ I Y ALA LRD HTSAQ A T N CL P CEL P N DIY QQ V CDTVLDMIA ------- TD T H E YAK G - 546
Cdd:COG5108 491 YDQH G E g YVSG LPI AM D GSCS GLQ H Y SAM LRD EVGGA A V N LV P SDK P Q DIY AF V AEVDINLAQ rigcpde LT T N E ILN G i 570
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 547 ------ W RE FG L TRK T TKR QT MTLPYGST FFSCKKYTA E WFYDEL K -- K G KTN PFG DQTYQPCG WLA EK IW E AIG Q VV H A 618
Cdd:COG5108 571 mdmahn W LA FG I TRK V TKR NV MTLPYGST EYGFRDQVR E DMITRK K ee E G EPF PFG GDGFSAAM WLA KL IW D AIG E VV V A 650
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 619 AR V GMDWLQ HV A ETCLDN G VTPQ W V TPLGFPV YMH Y EKQDHLN I K T NVFG V IRQTRI R TDSGDPS KRK SMNAM APNFVHS 698
Cdd:COG5108 651 AR R GMDWLQ DL A GIAAKE G LPVI W T TPLGFPV MQD Y RSSKARR I N T TTRK V RVRLTL R EEQDTID KRK QKQGI APNFVHS 730
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 699 I D GIGGLL ge T T NR ALDR G VTD F LM VHD EYSVH A PCVPIVGEEV R N A TVD L FS - GNI L K D LHTQ I NTL L P - SGIQ L D E P P 776
Cdd:COG5108 731 M D ATHLMM -- T V NR SNEY G ASS F AL VHD SFGTD A GSAELMLDCL R K A FIE L YE e SDV L E D FKSE I ADM L S d DAYA L P E V P 808
810
....*....|....*...
gi 2534951727 777 PQ G D LD I S LINQAQYY F S 794
Cdd:COG5108 809 KK G S LD V S AVLESDFF F A 826
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
414-794
1.90e-92
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 295.57
E-value: 1.90e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 414 WL R IH I AN CW G M DK NNY D Q R IQWTHE N sgm L HQ I --- GRD P MS - NMD W TQ A D DPW RF LAAC V E Y A EMMKGG --- QFHTS L 486
Cdd:pfam00940 10 WL K IH L AN LY G F DK ASL D E R VAFVED N --- L ED I lds AEN P LD g RRW W LK A E DPW QC LAAC F E L A NALRSP dpe EYVSH L 86
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 487 P IGI D ATNQ GLQ I YA LALR D HTS A QAT N CL P CEL P N D I Y QQ V CDT V LDM I AT D --- TH E Y AK GWREF g L TRK TT K RQT MT 563
Cdd:pfam00940 87 P VHQ D GSCN GLQ H YA ALGG D EEG A KQV N LV P SDR P Q D V Y SG V AEL V EEK I EK D aak GN E I AK LLKGK - I TRK VV K QTV MT 165
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 564 LP YG S TF FSCKKY taew FYDE LK KGKTN P FGDQT Y QPCGW LA E KI WEA IG QVVHA A RVGM DWL QHV A ----- ETCLDNGV 638
Cdd:pfam00940 166 NV YG V TF IGAREQ ---- IEKQ LK EIGDF P GEEDL Y KASSY LA K KI FDS IG ELFTG A HEIQ DWL GEC A kriak SVPPEQSM 241
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 639 T P - Q W V TPLG F PV YMH Y E K QDHLNI KTN VFG V IRQTRIR TD S gd PS KRK SMN A MA PNF V HS I D GIGGL L ge T TNRALDR G 717
Cdd:pfam00940 242 S P v I W T TPLG L PV VQP Y R K SKKKQV KTN LQS V SISDPND TD P -- VD KRK QLQ A FP PNF I HS L D ATHMM L -- T ALACDEA G 317
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 718 V T d F LM VHD EYSV HA PC V PIVGEEV R NAT V D L F S GN IL KD L HTQINTLLPSGI QL D ------------------ E P P PQ G 779
Cdd:pfam00940 318 L T - F AA VHD SFWT HA CD V DEMNKIL R EQF V K L H S ED IL ER L REEFKERYKGSL QL A kipkdspltpvwlpltfp E V P KK G 396
410
....*....|....*
gi 2534951727 780 D L D ISLINQAQ Y Y FS 794
Cdd:pfam00940 397 D F D LNRVLDSK Y F FS 411
RPOL_N
pfam14700 DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA ...
3-278
5.73e-16
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: 79.19
E-value: 5.73e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 3 Q FD LE QEMLKMGQ ER YQAKVSRAKEMN L est HPAGQ K L L Q hsvvsla DHFDN W -------------- IDH A T ----- T SA 63
Cdd:pfam14700 2 Q LR LE RDSVEAAV ER WREEFEELQKRG L --- NTNLP K S L N ------- ALLWQ W yeallpaikeeiel LKA A E akpkk T KD 71
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 64 GK R HTAL PYL NQV P TKVS AA L T ARAT L DAI S N G R ----- K LIST A AN IG GLI EDE VKYRT L K ddyaalwqqlnrvmdryk 138
Cdd:pfam14700 72 KE R CEYG PYL RLL P PEKL AA I T ILEL L SLL S T G G vdkgm K VSRL A IS IG KAV EDE YRAQQ L L ------------------ 133
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 139 saytkkkfi E K SLRHHDIVIPR W SAQE R I KVG L V C L E L MRQS tgl IEIN - T RKNQHGK ------------ AE Q W ------ 199
Cdd:pfam14700 134 --------- K K EKKKIKKKKIP W PQEV R A KVG A V L L S L LIET --- AKVP v T AEDPETG ekviqpqpafyh SY Q Y krgkkv 201
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2534951727 200 -- VE P SND L IEW L KNAH A H m EM L D P VF LPM IEQ P V PW QD Y IV GGY ssg VFRRRP L VK TKD -- KGHLE L VN AS --- TMPK V 272
Cdd:pfam14700 202 gv IK P HPE L VKL L LREP A R - DT L T P RH LPM LVP P K PW TS Y NK GGY --- LLSPSK L MR TKD gd EQRAY L KA AS erg DLDQ V 277
....*.
gi 2534951727 273 YRA L NA 278
Cdd:pfam14700 278 FDG L DV 283
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
