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DNA/RNA polymerases superfamily protein [Arabidopsis thaliana]
Protein Classification
RPOL_N and RNA_pol domain-containing protein ( domain architecture ID 13418561 )
RPOL_N and RNA_pol domain-containing protein
List of domain hits
Name
Accession
Description
Interval
E-value
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
602-993
0e+00
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 686.93
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 602 R PLG KS GL H WLKIHLANLY ag G VE K L S H D A R L AFVE NH L D DI M DSAENP IH G K RWWLKAEDP F QCLAAC VI L TQ AL K SP S 681
Cdd:pfam00940 1 K PLG ER GL R WLKIHLANLY -- G FD K A S L D E R V AFVE DN L E DI L DSAENP LD G R RWWLKAEDP W QCLAAC FE L AN AL R SP D 78
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 682 P YSVI SHLP I HQDGSCNGLQHYAALG R D SFE A AA VNLV AGEK P A DVYS EISRR V H E IMK KD SS K DP E snptaa L AK I L IT 761
Cdd:pfam00940 79 P EEYV SHLP V HQDGSCNGLQHYAALG G D EEG A KQ VNLV PSDR P Q DVYS GVAEL V E E KIE KD AA K GN E ------ I AK L L KG 152
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 762 QVD RK L VKQTVMT S VYGVT YV GAREQI KRR L E E K G VITD E RM L FA A AC Y S AK VTLAAL GE I F EA A RA I MS WLG D CAK I IA 841
Cdd:pfam00940 153 KIT RK V VKQTVMT N VYGVT FI GAREQI EKQ L K E I G DFPG E ED L YK A SS Y L AK KIFDSI GE L F TG A HE I QD WLG E CAK R IA 232
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 842 S ------ DNH PV R W I TPLGLPVVQPY CR S ERHLIR T S LQ VLALQR -- EGNT VD V RKQ RT AFPPNF V HSLD G THMM M TA V A 913
Cdd:pfam00940 233 K svppeq SMS PV I W T TPLGLPVVQPY RK S KKKQVK T N LQ SVSISD pn DTDP VD K RKQ LQ AFPPNF I HSLD A THMM L TA L A 312
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 914 C R EAGL N FA G VHDS Y WTHACDVD T MN R ILRE K FV E L YNTP ILE D L LQS F Q E S Y PN ------------------- L V FP P V 974
Cdd:pfam00940 313 C D EAGL T FA A VHDS F WTHACDVD E MN K ILRE Q FV K L HSED ILE R L REE F K E R Y KG slqlakipkdspltpvwlp L T FP E V 392
410
....*....|....*....
gi 15224093 975 PK R GDFDL KE VL K S Q YFF N 993
Cdd:pfam00940 393 PK K GDFDL NR VL D S K YFF S 411
PHA00452 super family
cl42978 T3/T7-like RNA polymerase
162-992
0e+00
T3/T7-like RNA polymerase
PHA00452 :Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 575.82
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 162 L RRR Q VKE E T EA WERMVDEY R DLEKEMC E KNL A PNL P YVKHMFLGWFQ P LKDV I EREQKLQ K NKSKK vr A AYAPHIE L LP 241
Cdd:PHA00452 5 L AAE Q LQL E E EA YGEGEERF R KALERQL E AGE A DDN P VARRLLATLLP P VAEA I DAWKEEY K KRGRA -- A KARGLLR L VD 82
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 242 ADKM AVI VMHKMMGLVM S G h E DGCI Q V V qa A VS IG I AIE Q E V R IHNF lkrt RKN N AGDSQEELKE kq L L R K R VN S LIRRK 321
Cdd:PHA00452 83 PEVL AVI TLKVTLDMLL S K - E TPTA Q A V -- A TA IG R AIE D E I R FGRI ---- EDL N PKYFKKVVEY -- L K R S R TG S VYHIA 153
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 322 RIID - ALKV V KSEGTK PW GRATQAKL G SR LLE L LIE A ayvqppltqsg DSIP E F rpafrhrf KTV T KYP G S K LVRRYGVI 400
Cdd:PHA00452 154 FMMV v EADM V LLGEWD PW PKEDYIHV G KW LLE A LIE S ----------- TGLV E L -------- VRH T GGN G G K DHEYLELS 214
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 401 E CDSL LL AGLDKS A KHMLIP Y V PM L VPPK R W KGYDK GGY L --- FL P SYIMRTHGS K kqqd AL KDISH K TAHR V FE A LDT L 477
Cdd:PHA00452 215 E EAVE LL QDIAAA A AGISPM Y Q PM V VPPK P W TSIVG GGY H teg RR P LAPLVRKTK K ---- AL RRYRQ K QMPE V YK A VNA L 290
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 478 G NT K WR V N RNI L D VV ERLWAD G g NIAGLVNREDV P I P E KP SSE D -- P E ELQS WK WS A RKANKINR ER H S L R CDV E LK L S V 555
Cdd:PHA00452 291 Q NT A WR I N KDV L A VV NEVVNW G - PVGDVLGIPRR P L P P KP EFL D en E E AFKA WK RA A AAWYTKEK ER V S K R RRL E FM L R V 369
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 556 A R K MK D EEGF Y Y P H N L D F RGR A Y PM h PH LN HLS SDL CRGT L E FAEG R PLGK S GL H WLK I H L AN L Y ag GV E K LSH D A R L A F 635
Cdd:PHA00452 370 A N K FA D YKAI Y F P Y N M D W RGR V Y AV - SM LN PQG SDL QKAL L R FAEG K PLGK R GL Y WLK V H G AN C Y -- GV D K VTF D E R A A W 446
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 636 V ENHL D D I MDS AE N P IHG k R WW LK A ED P FQC LAAC VILTQ A LK S PSP Y sv I S H LP IHQ DG S C N GLQH YA A LG RD SFEAA A 715
Cdd:PHA00452 447 V DENH D N I LAA AE D P LNN - T WW AE A DS P LCF LAAC FEYAA A VH S GTS Y -- V S G LP VAM DG T C S GLQH FS A ML RD EVGGR A 523
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 716 VNL VAGE KP A D V Y SEISRR V H E IMKK D s SKDPES N PT A ALAKI L ITQVD R K L V K QT VMT SV YG V T YVGA R EQ I KRR L EEK 795
Cdd:PHA00452 524 VNL LPSD KP Q D I Y GIVAEV V N E KLER D - AINGTD N TR A LARLW L AYGIT R S L T K RP VMT LP YG S T RFSC R DY I LED L LQP 602
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 796 G VI - T D ER M L - FA AA C Y S AK VTLA A LG E IFE AA RAI M S WL GDC AK II A SD - NHPVR W I TP L G L PV V Q P Y CRS E RHLI R TS 872
Cdd:PHA00452 603 G ID e G D GA M F t NQ AA S Y M AK LIWD A IS E TVP AA VEA M N WL QQA AK LL A AK g AEALH W T TP T G F PV W Q E Y RKP E EKRV R LR 682
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 873 L -- QV - LA L QREGN T V D V RK QRTAFP PNFVHSLD GT H MMM T A VAC R E A G L - N FA GV HDS YW THA C D V D TMN R IL RE K FVE 948
Cdd:PHA00452 683 L mg VA r VQ L YVNTD T I D A RK HASGIA PNFVHSLD AS H LRL T V VAC A E K G I e S FA VI HDS FG THA A D A D NLH R AI RE T FVE 762
810 820 830 840
....*....|....*....|....*....|....*....|....*..
gi 15224093 949 L Y NTP ile D L L QS F QESYPN --- L VF P PV P KR G DF DL K EVL K S QY FF 992
Cdd:PHA00452 763 M Y EEN --- D V L AD F ADQFGD qlq L KM P EL P EK G SL DL E EVL D S DF FF 806
Name
Accession
Description
Interval
E-value
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
602-993
0e+00
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 686.93
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 602 R PLG KS GL H WLKIHLANLY ag G VE K L S H D A R L AFVE NH L D DI M DSAENP IH G K RWWLKAEDP F QCLAAC VI L TQ AL K SP S 681
Cdd:pfam00940 1 K PLG ER GL R WLKIHLANLY -- G FD K A S L D E R V AFVE DN L E DI L DSAENP LD G R RWWLKAEDP W QCLAAC FE L AN AL R SP D 78
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 682 P YSVI SHLP I HQDGSCNGLQHYAALG R D SFE A AA VNLV AGEK P A DVYS EISRR V H E IMK KD SS K DP E snptaa L AK I L IT 761
Cdd:pfam00940 79 P EEYV SHLP V HQDGSCNGLQHYAALG G D EEG A KQ VNLV PSDR P Q DVYS GVAEL V E E KIE KD AA K GN E ------ I AK L L KG 152
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 762 QVD RK L VKQTVMT S VYGVT YV GAREQI KRR L E E K G VITD E RM L FA A AC Y S AK VTLAAL GE I F EA A RA I MS WLG D CAK I IA 841
Cdd:pfam00940 153 KIT RK V VKQTVMT N VYGVT FI GAREQI EKQ L K E I G DFPG E ED L YK A SS Y L AK KIFDSI GE L F TG A HE I QD WLG E CAK R IA 232
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 842 S ------ DNH PV R W I TPLGLPVVQPY CR S ERHLIR T S LQ VLALQR -- EGNT VD V RKQ RT AFPPNF V HSLD G THMM M TA V A 913
Cdd:pfam00940 233 K svppeq SMS PV I W T TPLGLPVVQPY RK S KKKQVK T N LQ SVSISD pn DTDP VD K RKQ LQ AFPPNF I HSLD A THMM L TA L A 312
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 914 C R EAGL N FA G VHDS Y WTHACDVD T MN R ILRE K FV E L YNTP ILE D L LQS F Q E S Y PN ------------------- L V FP P V 974
Cdd:pfam00940 313 C D EAGL T FA A VHDS F WTHACDVD E MN K ILRE Q FV K L HSED ILE R L REE F K E R Y KG slqlakipkdspltpvwlp L T FP E V 392
410
....*....|....*....
gi 15224093 975 PK R GDFDL KE VL K S Q YFF N 993
Cdd:pfam00940 393 PK K GDFDL NR VL D S K YFF S 411
PHA00452
PHA00452 T3/T7-like RNA polymerase
162-992
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 575.82
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 162 L RRR Q VKE E T EA WERMVDEY R DLEKEMC E KNL A PNL P YVKHMFLGWFQ P LKDV I EREQKLQ K NKSKK vr A AYAPHIE L LP 241
Cdd:PHA00452 5 L AAE Q LQL E E EA YGEGEERF R KALERQL E AGE A DDN P VARRLLATLLP P VAEA I DAWKEEY K KRGRA -- A KARGLLR L VD 82
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 242 ADKM AVI VMHKMMGLVM S G h E DGCI Q V V qa A VS IG I AIE Q E V R IHNF lkrt RKN N AGDSQEELKE kq L L R K R VN S LIRRK 321
Cdd:PHA00452 83 PEVL AVI TLKVTLDMLL S K - E TPTA Q A V -- A TA IG R AIE D E I R FGRI ---- EDL N PKYFKKVVEY -- L K R S R TG S VYHIA 153
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 322 RIID - ALKV V KSEGTK PW GRATQAKL G SR LLE L LIE A ayvqppltqsg DSIP E F rpafrhrf KTV T KYP G S K LVRRYGVI 400
Cdd:PHA00452 154 FMMV v EADM V LLGEWD PW PKEDYIHV G KW LLE A LIE S ----------- TGLV E L -------- VRH T GGN G G K DHEYLELS 214
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 401 E CDSL LL AGLDKS A KHMLIP Y V PM L VPPK R W KGYDK GGY L --- FL P SYIMRTHGS K kqqd AL KDISH K TAHR V FE A LDT L 477
Cdd:PHA00452 215 E EAVE LL QDIAAA A AGISPM Y Q PM V VPPK P W TSIVG GGY H teg RR P LAPLVRKTK K ---- AL RRYRQ K QMPE V YK A VNA L 290
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 478 G NT K WR V N RNI L D VV ERLWAD G g NIAGLVNREDV P I P E KP SSE D -- P E ELQS WK WS A RKANKINR ER H S L R CDV E LK L S V 555
Cdd:PHA00452 291 Q NT A WR I N KDV L A VV NEVVNW G - PVGDVLGIPRR P L P P KP EFL D en E E AFKA WK RA A AAWYTKEK ER V S K R RRL E FM L R V 369
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 556 A R K MK D EEGF Y Y P H N L D F RGR A Y PM h PH LN HLS SDL CRGT L E FAEG R PLGK S GL H WLK I H L AN L Y ag GV E K LSH D A R L A F 635
Cdd:PHA00452 370 A N K FA D YKAI Y F P Y N M D W RGR V Y AV - SM LN PQG SDL QKAL L R FAEG K PLGK R GL Y WLK V H G AN C Y -- GV D K VTF D E R A A W 446
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 636 V ENHL D D I MDS AE N P IHG k R WW LK A ED P FQC LAAC VILTQ A LK S PSP Y sv I S H LP IHQ DG S C N GLQH YA A LG RD SFEAA A 715
Cdd:PHA00452 447 V DENH D N I LAA AE D P LNN - T WW AE A DS P LCF LAAC FEYAA A VH S GTS Y -- V S G LP VAM DG T C S GLQH FS A ML RD EVGGR A 523
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 716 VNL VAGE KP A D V Y SEISRR V H E IMKK D s SKDPES N PT A ALAKI L ITQVD R K L V K QT VMT SV YG V T YVGA R EQ I KRR L EEK 795
Cdd:PHA00452 524 VNL LPSD KP Q D I Y GIVAEV V N E KLER D - AINGTD N TR A LARLW L AYGIT R S L T K RP VMT LP YG S T RFSC R DY I LED L LQP 602
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 796 G VI - T D ER M L - FA AA C Y S AK VTLA A LG E IFE AA RAI M S WL GDC AK II A SD - NHPVR W I TP L G L PV V Q P Y CRS E RHLI R TS 872
Cdd:PHA00452 603 G ID e G D GA M F t NQ AA S Y M AK LIWD A IS E TVP AA VEA M N WL QQA AK LL A AK g AEALH W T TP T G F PV W Q E Y RKP E EKRV R LR 682
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 873 L -- QV - LA L QREGN T V D V RK QRTAFP PNFVHSLD GT H MMM T A VAC R E A G L - N FA GV HDS YW THA C D V D TMN R IL RE K FVE 948
Cdd:PHA00452 683 L mg VA r VQ L YVNTD T I D A RK HASGIA PNFVHSLD AS H LRL T V VAC A E K G I e S FA VI HDS FG THA A D A D NLH R AI RE T FVE 762
810 820 830 840
....*....|....*....|....*....|....*....|....*..
gi 15224093 949 L Y NTP ile D L L QS F QESYPN --- L VF P PV P KR G DF DL K EVL K S QY FF 992
Cdd:PHA00452 763 M Y EEN --- D V L AD F ADQFGD qlq L KM P EL P EK G SL DL E EVL D S DF FF 806
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
165-992
2.58e-153
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 474.40
E-value: 2.58e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 165 RQ VKE E T E AW E RMVDE - YRDL EK EMCEKNLAPN l P Y VKHMFLGWFQP L KDV IE REQKLQKNKSKKVRAAYAPHIEL L P A D 243
Cdd:COG5108 13 RQ IAL E E E MA E AGRSR f VERI EK ARKRGEESGT - Q Y GRRIISDAVEL L AEA IE ATIDESSSGGAGNWHTAYAYLRE L D A E 91
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 244 KM A VIVMHKMMGL V MSG H edgci QVVQA A VS I GIAI E Q EVR IHNFLKRTR knnag D SQEEL K E K ql LRK R VNSLI R R K RI 323
Cdd:COG5108 92 VL A YLALRQCLDA V TQR H ----- TLQAV A IR I ASMV E D EVR GEAIREAFK ----- D FYPRG K K K -- IES R TSRAV R Y K DD 159
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 324 IDALKVVKSEGTKP W GRATQAKL G SR L L EL LI E AAYV qppltqsgdsipefrpafrhr FKTVTKYP G SKLVRRYGVIECD 403
Cdd:COG5108 160 FERRVKNAVAKEED W PVSDKIHV G FK L I EL VV E STGL --------------------- VEIARDTE G INDTPVFVRPTET 218
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 404 S L - LL A GLDKSAKHMLIP Y V PM L VPP KR W KGYDK GGYL flp S YIM R T ----- HGSK K QQDA LK DISHK tah R V FE A LDT L 477
Cdd:COG5108 219 T L e WI A EANLRMAMLSPA Y L PM V VPP RN W TTPFR GGYL --- S GEV R R lplvk TRNR K YLEE LK NGDMP --- E V YA A VNA L 292
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 478 GN T K W RV NR NI L D V VER LW ADGGN i A GL VN RE DVPI P E KP SSE --- DPEEL -- QS WK WS ARK ANKI N RERH S L R CDVELK 552
Cdd:COG5108 293 QQ T P W TI NR YV L A V MKW LW ERDLD - L GL PQ RE PITP P I KP ENR edi TTNQV ar KR WK KA ARK IYIA N AKLC S K R VQFRRD 371
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 553 L SV A RKMK D EEG FY Y P HN LDFRGR A Y PMHPH LN HLSS D LCR G T L E FA E G R P L G KS G LH WL K IH L AN LY ag G VE K L S HDA R 632
Cdd:COG5108 372 L NE A ERFS D YRE FY F P YQ LDFRGR V Y AVPAF LN PQGQ D HAK G L L M FA D G K P I G DG G AK WL A IH G AN VW -- G YD K A S LEE R 449
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 633 LAF VE NHLDD I MDS A EN pi HGKRW W L KA ED P F Q C LA A C VILTQALKSP sp YSVI S H LPI HQ DGSC N GLQHY A A LG RD SFE 712
Cdd:COG5108 450 VKW VE DNYEA I LAA A AD -- YVAEF W S KA DK P W Q F LA F C REWYGYDQHG -- EGYV S G LPI AM DGSC S GLQHY S A ML RD EVG 525
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 713 A AAVNLV AGE KP A D V Y SEISR ---- RVHE I MKK D SSKDP E - S N PTAAL A - KI L ITQVD RK LV K QT VMT SV YG V T YV G A R E 786
Cdd:COG5108 526 G AAVNLV PSD KP Q D I Y AFVAE vdin LAQR I GCP D ELTTN E i L N GIMDM A h NW L AFGIT RK VT K RN VMT LP YG S T EY G F R D 605
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 787 Q IKRRL - EE K GVITD E RML F AAACY SA KVT LA ----- A L GE IFE AAR AI M S WL G D C A K I I A SDNH PV R W I TPLG L PV V Q P 860
Cdd:COG5108 606 Q VREDM i TR K KEEEG E PFP F GGDGF SA AMW LA kliwd A I GE VVV AAR RG M D WL Q D L A G I A A KEGL PV I W T TPLG F PV M Q D 685
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 861 Y CR S ERHL I R T SLQ ---- V L A L QR E GN T V D V RKQ RTAFP PNFVHS L D G TH M MMT AVACR E A G L - N FA G VHDS YW T H A CDV 935
Cdd:COG5108 686 Y RS S KARR I N T TTR kvrv R L T L RE E QD T I D K RKQ KQGIA PNFVHS M D A TH L MMT VNRSN E Y G A s S FA L VHDS FG T D A GSA 765
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15224093 936 DT M NRI LR EK F V ELY NT pil E D L L QS F QESY ------ PNLVF P P VPK R G DF D LKE VL K S QY FF 992
Cdd:COG5108 766 EL M LDC LR KA F I ELY EE --- S D V L ED F KSEI admlsd DAYAL P E VPK K G SL D VSA VL E S DF FF 825
RPOL_N
pfam14700 DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA ...
165-479
2.50e-91
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: 292.21
E-value: 2.50e-91
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 165 RQ VKE E TEAW E RM V DEY R DLEK E MCEKN L AP NLP - YVKHMFLG W FQP L KDV I ER E QK L Q K NKSK K V ------- R AA Y A P H 236
Cdd:pfam14700 1 RQ LRL E RDSV E AA V ERW R EEFE E LQKRG L NT NLP k SLNALLWQ W YEA L LPA I KE E IE L L K AAEA K P kktkdke R CE Y G P Y 80
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 237 IE LLP AD K M A V I VMHKMMG L VMS G HE D GCIQ V VQA A V SIG I A I E Q E V R IHNF LK RTR K N nagdsqeelkekqllrkrvns 316
Cdd:pfam14700 81 LR LLP PE K L A A I TILELLS L LST G GV D KGMK V SRL A I SIG K A V E D E Y R AQQL LK KEK K K --------------------- 139
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 317 lirrkriidalkvv KSEGTK PW GRATQ AK L G SR LL E LLIE A A Y V QPPLTQSGDSIPEFR -- PAF R H RFK tvtkypg S K LV 394
Cdd:pfam14700 140 -------------- IKKKKI PW PQEVR AK V G AV LL S LLIE T A K V PVTAEDPETGEKVIQ pq PAF Y H SYQ ------- Y K RG 198
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 395 RRY GVI ECDSL L LAG L - DKS A KHM L I P - YV PMLVPPK R W KG Y D KGGYL FL PS YI MRT HGSKK Q QDA LK D - ISHKTAHR VF 471
Cdd:pfam14700 199 KKV GVI KPHPE L VKL L l REP A RDT L T P r HL PMLVPPK P W TS Y N KGGYL LS PS KL MRT KDGDE Q RAY LK A a SERGDLDQ VF 278
....*...
gi 15224093 472 EA LD T LGN 479
Cdd:pfam14700 279 DG LD V LGN 286
Name
Accession
Description
Interval
E-value
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
602-993
0e+00
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 686.93
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 602 R PLG KS GL H WLKIHLANLY ag G VE K L S H D A R L AFVE NH L D DI M DSAENP IH G K RWWLKAEDP F QCLAAC VI L TQ AL K SP S 681
Cdd:pfam00940 1 K PLG ER GL R WLKIHLANLY -- G FD K A S L D E R V AFVE DN L E DI L DSAENP LD G R RWWLKAEDP W QCLAAC FE L AN AL R SP D 78
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 682 P YSVI SHLP I HQDGSCNGLQHYAALG R D SFE A AA VNLV AGEK P A DVYS EISRR V H E IMK KD SS K DP E snptaa L AK I L IT 761
Cdd:pfam00940 79 P EEYV SHLP V HQDGSCNGLQHYAALG G D EEG A KQ VNLV PSDR P Q DVYS GVAEL V E E KIE KD AA K GN E ------ I AK L L KG 152
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 762 QVD RK L VKQTVMT S VYGVT YV GAREQI KRR L E E K G VITD E RM L FA A AC Y S AK VTLAAL GE I F EA A RA I MS WLG D CAK I IA 841
Cdd:pfam00940 153 KIT RK V VKQTVMT N VYGVT FI GAREQI EKQ L K E I G DFPG E ED L YK A SS Y L AK KIFDSI GE L F TG A HE I QD WLG E CAK R IA 232
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 842 S ------ DNH PV R W I TPLGLPVVQPY CR S ERHLIR T S LQ VLALQR -- EGNT VD V RKQ RT AFPPNF V HSLD G THMM M TA V A 913
Cdd:pfam00940 233 K svppeq SMS PV I W T TPLGLPVVQPY RK S KKKQVK T N LQ SVSISD pn DTDP VD K RKQ LQ AFPPNF I HSLD A THMM L TA L A 312
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 914 C R EAGL N FA G VHDS Y WTHACDVD T MN R ILRE K FV E L YNTP ILE D L LQS F Q E S Y PN ------------------- L V FP P V 974
Cdd:pfam00940 313 C D EAGL T FA A VHDS F WTHACDVD E MN K ILRE Q FV K L HSED ILE R L REE F K E R Y KG slqlakipkdspltpvwlp L T FP E V 392
410
....*....|....*....
gi 15224093 975 PK R GDFDL KE VL K S Q YFF N 993
Cdd:pfam00940 393 PK K GDFDL NR VL D S K YFF S 411
PHA00452
PHA00452 T3/T7-like RNA polymerase
162-992
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 575.82
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 162 L RRR Q VKE E T EA WERMVDEY R DLEKEMC E KNL A PNL P YVKHMFLGWFQ P LKDV I EREQKLQ K NKSKK vr A AYAPHIE L LP 241
Cdd:PHA00452 5 L AAE Q LQL E E EA YGEGEERF R KALERQL E AGE A DDN P VARRLLATLLP P VAEA I DAWKEEY K KRGRA -- A KARGLLR L VD 82
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 242 ADKM AVI VMHKMMGLVM S G h E DGCI Q V V qa A VS IG I AIE Q E V R IHNF lkrt RKN N AGDSQEELKE kq L L R K R VN S LIRRK 321
Cdd:PHA00452 83 PEVL AVI TLKVTLDMLL S K - E TPTA Q A V -- A TA IG R AIE D E I R FGRI ---- EDL N PKYFKKVVEY -- L K R S R TG S VYHIA 153
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 322 RIID - ALKV V KSEGTK PW GRATQAKL G SR LLE L LIE A ayvqppltqsg DSIP E F rpafrhrf KTV T KYP G S K LVRRYGVI 400
Cdd:PHA00452 154 FMMV v EADM V LLGEWD PW PKEDYIHV G KW LLE A LIE S ----------- TGLV E L -------- VRH T GGN G G K DHEYLELS 214
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 401 E CDSL LL AGLDKS A KHMLIP Y V PM L VPPK R W KGYDK GGY L --- FL P SYIMRTHGS K kqqd AL KDISH K TAHR V FE A LDT L 477
Cdd:PHA00452 215 E EAVE LL QDIAAA A AGISPM Y Q PM V VPPK P W TSIVG GGY H teg RR P LAPLVRKTK K ---- AL RRYRQ K QMPE V YK A VNA L 290
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 478 G NT K WR V N RNI L D VV ERLWAD G g NIAGLVNREDV P I P E KP SSE D -- P E ELQS WK WS A RKANKINR ER H S L R CDV E LK L S V 555
Cdd:PHA00452 291 Q NT A WR I N KDV L A VV NEVVNW G - PVGDVLGIPRR P L P P KP EFL D en E E AFKA WK RA A AAWYTKEK ER V S K R RRL E FM L R V 369
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 556 A R K MK D EEGF Y Y P H N L D F RGR A Y PM h PH LN HLS SDL CRGT L E FAEG R PLGK S GL H WLK I H L AN L Y ag GV E K LSH D A R L A F 635
Cdd:PHA00452 370 A N K FA D YKAI Y F P Y N M D W RGR V Y AV - SM LN PQG SDL QKAL L R FAEG K PLGK R GL Y WLK V H G AN C Y -- GV D K VTF D E R A A W 446
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 636 V ENHL D D I MDS AE N P IHG k R WW LK A ED P FQC LAAC VILTQ A LK S PSP Y sv I S H LP IHQ DG S C N GLQH YA A LG RD SFEAA A 715
Cdd:PHA00452 447 V DENH D N I LAA AE D P LNN - T WW AE A DS P LCF LAAC FEYAA A VH S GTS Y -- V S G LP VAM DG T C S GLQH FS A ML RD EVGGR A 523
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 716 VNL VAGE KP A D V Y SEISRR V H E IMKK D s SKDPES N PT A ALAKI L ITQVD R K L V K QT VMT SV YG V T YVGA R EQ I KRR L EEK 795
Cdd:PHA00452 524 VNL LPSD KP Q D I Y GIVAEV V N E KLER D - AINGTD N TR A LARLW L AYGIT R S L T K RP VMT LP YG S T RFSC R DY I LED L LQP 602
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 796 G VI - T D ER M L - FA AA C Y S AK VTLA A LG E IFE AA RAI M S WL GDC AK II A SD - NHPVR W I TP L G L PV V Q P Y CRS E RHLI R TS 872
Cdd:PHA00452 603 G ID e G D GA M F t NQ AA S Y M AK LIWD A IS E TVP AA VEA M N WL QQA AK LL A AK g AEALH W T TP T G F PV W Q E Y RKP E EKRV R LR 682
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 873 L -- QV - LA L QREGN T V D V RK QRTAFP PNFVHSLD GT H MMM T A VAC R E A G L - N FA GV HDS YW THA C D V D TMN R IL RE K FVE 948
Cdd:PHA00452 683 L mg VA r VQ L YVNTD T I D A RK HASGIA PNFVHSLD AS H LRL T V VAC A E K G I e S FA VI HDS FG THA A D A D NLH R AI RE T FVE 762
810 820 830 840
....*....|....*....|....*....|....*....|....*..
gi 15224093 949 L Y NTP ile D L L QS F QESYPN --- L VF P PV P KR G DF DL K EVL K S QY FF 992
Cdd:PHA00452 763 M Y EEN --- D V L AD F ADQFGD qlq L KM P EL P EK G SL DL E EVL D S DF FF 806
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
165-992
2.58e-153
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 474.40
E-value: 2.58e-153
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 165 RQ VKE E T E AW E RMVDE - YRDL EK EMCEKNLAPN l P Y VKHMFLGWFQP L KDV IE REQKLQKNKSKKVRAAYAPHIEL L P A D 243
Cdd:COG5108 13 RQ IAL E E E MA E AGRSR f VERI EK ARKRGEESGT - Q Y GRRIISDAVEL L AEA IE ATIDESSSGGAGNWHTAYAYLRE L D A E 91
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 244 KM A VIVMHKMMGL V MSG H edgci QVVQA A VS I GIAI E Q EVR IHNFLKRTR knnag D SQEEL K E K ql LRK R VNSLI R R K RI 323
Cdd:COG5108 92 VL A YLALRQCLDA V TQR H ----- TLQAV A IR I ASMV E D EVR GEAIREAFK ----- D FYPRG K K K -- IES R TSRAV R Y K DD 159
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 324 IDALKVVKSEGTKP W GRATQAKL G SR L L EL LI E AAYV qppltqsgdsipefrpafrhr FKTVTKYP G SKLVRRYGVIECD 403
Cdd:COG5108 160 FERRVKNAVAKEED W PVSDKIHV G FK L I EL VV E STGL --------------------- VEIARDTE G INDTPVFVRPTET 218
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 404 S L - LL A GLDKSAKHMLIP Y V PM L VPP KR W KGYDK GGYL flp S YIM R T ----- HGSK K QQDA LK DISHK tah R V FE A LDT L 477
Cdd:COG5108 219 T L e WI A EANLRMAMLSPA Y L PM V VPP RN W TTPFR GGYL --- S GEV R R lplvk TRNR K YLEE LK NGDMP --- E V YA A VNA L 292
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 478 GN T K W RV NR NI L D V VER LW ADGGN i A GL VN RE DVPI P E KP SSE --- DPEEL -- QS WK WS ARK ANKI N RERH S L R CDVELK 552
Cdd:COG5108 293 QQ T P W TI NR YV L A V MKW LW ERDLD - L GL PQ RE PITP P I KP ENR edi TTNQV ar KR WK KA ARK IYIA N AKLC S K R VQFRRD 371
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 553 L SV A RKMK D EEG FY Y P HN LDFRGR A Y PMHPH LN HLSS D LCR G T L E FA E G R P L G KS G LH WL K IH L AN LY ag G VE K L S HDA R 632
Cdd:COG5108 372 L NE A ERFS D YRE FY F P YQ LDFRGR V Y AVPAF LN PQGQ D HAK G L L M FA D G K P I G DG G AK WL A IH G AN VW -- G YD K A S LEE R 449
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 633 LAF VE NHLDD I MDS A EN pi HGKRW W L KA ED P F Q C LA A C VILTQALKSP sp YSVI S H LPI HQ DGSC N GLQHY A A LG RD SFE 712
Cdd:COG5108 450 VKW VE DNYEA I LAA A AD -- YVAEF W S KA DK P W Q F LA F C REWYGYDQHG -- EGYV S G LPI AM DGSC S GLQHY S A ML RD EVG 525
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 713 A AAVNLV AGE KP A D V Y SEISR ---- RVHE I MKK D SSKDP E - S N PTAAL A - KI L ITQVD RK LV K QT VMT SV YG V T YV G A R E 786
Cdd:COG5108 526 G AAVNLV PSD KP Q D I Y AFVAE vdin LAQR I GCP D ELTTN E i L N GIMDM A h NW L AFGIT RK VT K RN VMT LP YG S T EY G F R D 605
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 787 Q IKRRL - EE K GVITD E RML F AAACY SA KVT LA ----- A L GE IFE AAR AI M S WL G D C A K I I A SDNH PV R W I TPLG L PV V Q P 860
Cdd:COG5108 606 Q VREDM i TR K KEEEG E PFP F GGDGF SA AMW LA kliwd A I GE VVV AAR RG M D WL Q D L A G I A A KEGL PV I W T TPLG F PV M Q D 685
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 861 Y CR S ERHL I R T SLQ ---- V L A L QR E GN T V D V RKQ RTAFP PNFVHS L D G TH M MMT AVACR E A G L - N FA G VHDS YW T H A CDV 935
Cdd:COG5108 686 Y RS S KARR I N T TTR kvrv R L T L RE E QD T I D K RKQ KQGIA PNFVHS M D A TH L MMT VNRSN E Y G A s S FA L VHDS FG T D A GSA 765
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15224093 936 DT M NRI LR EK F V ELY NT pil E D L L QS F QESY ------ PNLVF P P VPK R G DF D LKE VL K S QY FF 992
Cdd:COG5108 766 EL M LDC LR KA F I ELY EE --- S D V L ED F KSEI admlsd DAYAL P E VPK K G SL D VSA VL E S DF FF 825
RPOL_N
pfam14700 DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA ...
165-479
2.50e-91
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: 292.21
E-value: 2.50e-91
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 165 RQ VKE E TEAW E RM V DEY R DLEK E MCEKN L AP NLP - YVKHMFLG W FQP L KDV I ER E QK L Q K NKSK K V ------- R AA Y A P H 236
Cdd:pfam14700 1 RQ LRL E RDSV E AA V ERW R EEFE E LQKRG L NT NLP k SLNALLWQ W YEA L LPA I KE E IE L L K AAEA K P kktkdke R CE Y G P Y 80
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 237 IE LLP AD K M A V I VMHKMMG L VMS G HE D GCIQ V VQA A V SIG I A I E Q E V R IHNF LK RTR K N nagdsqeelkekqllrkrvns 316
Cdd:pfam14700 81 LR LLP PE K L A A I TILELLS L LST G GV D KGMK V SRL A I SIG K A V E D E Y R AQQL LK KEK K K --------------------- 139
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 317 lirrkriidalkvv KSEGTK PW GRATQ AK L G SR LL E LLIE A A Y V QPPLTQSGDSIPEFR -- PAF R H RFK tvtkypg S K LV 394
Cdd:pfam14700 140 -------------- IKKKKI PW PQEVR AK V G AV LL S LLIE T A K V PVTAEDPETGEKVIQ pq PAF Y H SYQ ------- Y K RG 198
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15224093 395 RRY GVI ECDSL L LAG L - DKS A KHM L I P - YV PMLVPPK R W KG Y D KGGYL FL PS YI MRT HGSKK Q QDA LK D - ISHKTAHR VF 471
Cdd:pfam14700 199 KKV GVI KPHPE L VKL L l REP A RDT L T P r HL PMLVPPK P W TS Y N KGGYL LS PS KL MRT KDGDE Q RAY LK A a SERGDLDQ VF 278
....*...
gi 15224093 472 EA LD T LGN 479
Cdd:pfam14700 279 DG LD V LGN 286
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
