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Concise Results
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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.
620-1001
0e+00
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 678.84
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 620 R P M G IS GLRWLKIHLANLY ag G V DK L SLD G R L AF T E NH L D DI F DSA DR PL E G S RWWL Q AEDP F QCLA V C IS L TE ALRSP S 699
Cdd:pfam00940 1 K P L G ER GLRWLKIHLANLY -- G F DK A SLD E R V AF V E DN L E DI L DSA EN PL D G R RWWL K AEDP W QCLA A C FE L AN ALRSP D 78
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 700 PE TVL SH I P I HQDGSCNGLQHYAALG R D TL GA EA VNLV AGEK P A DVYSG I A TR V LDIMRR DA DRDP E V fpealr A RK L LN 779
Cdd:pfam00940 79 PE EYV SH L P V HQDGSCNGLQHYAALG G D EE GA KQ VNLV PSDR P Q DVYSG V A EL V EEKIEK DA AKGN E I ------ A KL L KG 152
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 780 QVD RK L VKQTVMT S VYGVT Y IGAR D QI KRR LKE RS DF GD E KEVFG A AC Y A AK VTLAA I D E M F QA A RA I MR W F GECAK I IA 859
Cdd:pfam00940 153 KIT RK V VKQTVMT N VYGVT F IGAR E QI EKQ LKE IG DF PG E EDLYK A SS Y L AK KIFDS I G E L F TG A HE I QD W L GECAK R IA 232
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 860 SE ------ NET V R WTTPLGLPVVQPY HQMGT K L VKT S LQ TL S LQ -- HE TD Q V IV R R Q RT AFPPNFIHSLD GS HMM M TA V A 931
Cdd:pfam00940 233 KS vppeqs MSP V I WTTPLGLPVVQPY RKSKK K Q VKT N LQ SV S IS dp ND TD P V DK R K Q LQ AFPPNFIHSLD AT HMM L TA L A 312
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 932 C KR AG VC FA G VHDSFWTHACDVD KL N I ILRE K FV E L Y S QP ILE N L L E S F EQSFPH ------------------- L D FP PL 992
Cdd:pfam00940 313 C DE AG LT FA A VHDSFWTHACDVD EM N K ILRE Q FV K L H S ED ILE R L R E E F KERYKG slqlakipkdspltpvwlp L T FP EV 392
....*....
gi 334187707 993 P ER GD L DL K 1001
Cdd:pfam00940 393 P KK GD F DL N 401
PHA00452 super family
cl42978 T3/T7-like RNA polymerase
174-1000
0e+00
T3/T7-like RNA polymerase
PHA00452 :Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 551.94
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 174 FQN L WRR Q VKI E T E EWERAAAEYMEL L TDMC E QKL A PNL P YVKS L FLGWFE P LRD AI AKDQ E L Y RLGKSK A TYAHY L DQL 253
Cdd:PHA00452 2 GED L AAE Q LQL E E E AYGEGEERFRKA L ERQL E AGE A DDN P VARR L LATLLP P VAE AI DAWK E E Y KKRGRA A KARGL L RLV 81
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 254 PADKIS VIT MHKLMGH L MTGGDNGCVK V VH A act V G D AIE Q EIR ICTFL D kkkkgddneesggvenetsmk EQD K LR KKV 333
Cdd:PHA00452 82 DPEVLA VIT LKVTLDM L LSKETPTAQA V AT A --- I G R AIE D EIR FGRIE D --------------------- LNP K YF KKV 137
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 334 N E LI K KQKLSA V RK I LQ ------- SHDY -- TK PW IADVRAK VG SR L I E L L vrtay I Q S padqqd ND L PD vrpa F V HTFKV 404
Cdd:PHA00452 138 V E YL K RSRTGS V YH I AF mmvvead MVLL ge WD PW PKEDYIH VG KW L L E A L ----- I E S ------ TG L VE ---- L V RHTGG 202
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 405 AK G SM nsgrk YGVI E CDPLVRKG L EKSGRY A -- VM P - Y M PM L VPP LK W SGYDK G A Y L ----- F L TSYIM KT HG A KQ q R EA 476
Cdd:PHA00452 203 NG G KD ----- HEYL E LSEEAVEL L QDIAAA A ag IS P m Y Q PM V VPP KP W TSIVG G G Y H tegrr P L APLVR KT KK A LR - R YR 276
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 477 L K SA P K gqlqp V FE A LDT L GS T K WR V NK R VL T VV DRIWSS G G c V A D MVDRSDV PLP E KP DTE DE GI -- L K K WK WEVKSAK 554
Cdd:PHA00452 277 Q K QM P E ----- V YK A VNA L QN T A WR I NK D VL A VV NEVVNW G P - V G D VLGIPRR PLP P KP EFL DE NE ea F K A WK RAAAAWY 350
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 555 KVNS ER H S Q R CDT E LK L S VA R K MK D EE A F Y Y P H NMD F RGR A Y P m PPH LN HL GSDL CRGV L E FAEG R P M G IS GL R WLK I H L 634
Cdd:PHA00452 351 TKEK ER V S K R RRL E FM L R VA N K FA D YK A I Y F P Y NMD W RGR V Y A - VSM LN PQ GSDL QKAL L R FAEG K P L G KR GL Y WLK V H G 429
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 635 AN L Y ag GVDK LSL D G R L A FTENHL D D I FDS A DR PL e GSR WW LQ A ED P FQC LA V C ISLTE A LR S P s PET V l S HI P IHQ DG S 714
Cdd:PHA00452 430 AN C Y -- GVDK VTF D E R A A WVDENH D N I LAA A ED PL - NNT WW AE A DS P LCF LA A C FEYAA A VH S G - TSY V - S GL P VAM DG T 504
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 715 C N GLQH YA A LG RD TL G AE AVNL VAGE KP A D V Y SGI A TR V LDIMR RDA D r DPEVFPE AL RARK L LNQVD R K L V K QT VMT SV 794
Cdd:PHA00452 505 C S GLQH FS A ML RD EV G GR AVNL LPSD KP Q D I Y GIV A EV V NEKLE RDA I - NGTDNTR AL ARLW L AYGIT R S L T K RP VMT LP 583
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 795 YG V T YIGA RD Q I KRR L k ERSDFGDEKE --- VFG AA C Y A AK VTLA AI D E MFQ AA RAI M R W FGEC AK II A SE - N E TVR WTTP 870
Cdd:PHA00452 584 YG S T RFSC RD Y I LED L - LQPGIDEGDG amf TNQ AA S Y M AK LIWD AI S E TVP AA VEA M N W LQQA AK LL A AK g A E ALH WTTP 662
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 871 L G L PV V Q P Y HQMGT K L V KTS L --- QTLS L QHE TD QVIV R RQRTAFP PNF I HSLD G SH MMM T A VAC KRA G VC - FA GV HDSF 946
Cdd:PHA00452 663 T G F PV W Q E Y RKPEE K R V RLR L mgv ARVQ L YVN TD TIDA R KHASGIA PNF V HSLD A SH LRL T V VAC AEK G IE s FA VI HDSF 742
810 820 830 840 850
....*....|....*....|....*....|....*....|....*....|....*
gi 334187707 947 W THA C D V D K L NIIL RE K FVE L Y SQP - I L ENLLES F EQSFPHLD f P P LPE R G D LDL 1000
Cdd:PHA00452 743 G THA A D A D N L HRAI RE T FVE M Y EEN d V L ADFADQ F GDQLQLKM - P E LPE K G S LDL 796
Name
Accession
Description
Interval
E-value
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
620-1001
0e+00
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 678.84
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 620 R P M G IS GLRWLKIHLANLY ag G V DK L SLD G R L AF T E NH L D DI F DSA DR PL E G S RWWL Q AEDP F QCLA V C IS L TE ALRSP S 699
Cdd:pfam00940 1 K P L G ER GLRWLKIHLANLY -- G F DK A SLD E R V AF V E DN L E DI L DSA EN PL D G R RWWL K AEDP W QCLA A C FE L AN ALRSP D 78
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 700 PE TVL SH I P I HQDGSCNGLQHYAALG R D TL GA EA VNLV AGEK P A DVYSG I A TR V LDIMRR DA DRDP E V fpealr A RK L LN 779
Cdd:pfam00940 79 PE EYV SH L P V HQDGSCNGLQHYAALG G D EE GA KQ VNLV PSDR P Q DVYSG V A EL V EEKIEK DA AKGN E I ------ A KL L KG 152
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 780 QVD RK L VKQTVMT S VYGVT Y IGAR D QI KRR LKE RS DF GD E KEVFG A AC Y A AK VTLAA I D E M F QA A RA I MR W F GECAK I IA 859
Cdd:pfam00940 153 KIT RK V VKQTVMT N VYGVT F IGAR E QI EKQ LKE IG DF PG E EDLYK A SS Y L AK KIFDS I G E L F TG A HE I QD W L GECAK R IA 232
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 860 SE ------ NET V R WTTPLGLPVVQPY HQMGT K L VKT S LQ TL S LQ -- HE TD Q V IV R R Q RT AFPPNFIHSLD GS HMM M TA V A 931
Cdd:pfam00940 233 KS vppeqs MSP V I WTTPLGLPVVQPY RKSKK K Q VKT N LQ SV S IS dp ND TD P V DK R K Q LQ AFPPNFIHSLD AT HMM L TA L A 312
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 932 C KR AG VC FA G VHDSFWTHACDVD KL N I ILRE K FV E L Y S QP ILE N L L E S F EQSFPH ------------------- L D FP PL 992
Cdd:pfam00940 313 C DE AG LT FA A VHDSFWTHACDVD EM N K ILRE Q FV K L H S ED ILE R L R E E F KERYKG slqlakipkdspltpvwlp L T FP EV 392
....*....
gi 334187707 993 P ER GD L DL K 1001
Cdd:pfam00940 393 P KK GD F DL N 401
PHA00452
PHA00452 T3/T7-like RNA polymerase
174-1000
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 551.94
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 174 FQN L WRR Q VKI E T E EWERAAAEYMEL L TDMC E QKL A PNL P YVKS L FLGWFE P LRD AI AKDQ E L Y RLGKSK A TYAHY L DQL 253
Cdd:PHA00452 2 GED L AAE Q LQL E E E AYGEGEERFRKA L ERQL E AGE A DDN P VARR L LATLLP P VAE AI DAWK E E Y KKRGRA A KARGL L RLV 81
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 254 PADKIS VIT MHKLMGH L MTGGDNGCVK V VH A act V G D AIE Q EIR ICTFL D kkkkgddneesggvenetsmk EQD K LR KKV 333
Cdd:PHA00452 82 DPEVLA VIT LKVTLDM L LSKETPTAQA V AT A --- I G R AIE D EIR FGRIE D --------------------- LNP K YF KKV 137
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 334 N E LI K KQKLSA V RK I LQ ------- SHDY -- TK PW IADVRAK VG SR L I E L L vrtay I Q S padqqd ND L PD vrpa F V HTFKV 404
Cdd:PHA00452 138 V E YL K RSRTGS V YH I AF mmvvead MVLL ge WD PW PKEDYIH VG KW L L E A L ----- I E S ------ TG L VE ---- L V RHTGG 202
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 405 AK G SM nsgrk YGVI E CDPLVRKG L EKSGRY A -- VM P - Y M PM L VPP LK W SGYDK G A Y L ----- F L TSYIM KT HG A KQ q R EA 476
Cdd:PHA00452 203 NG G KD ----- HEYL E LSEEAVEL L QDIAAA A ag IS P m Y Q PM V VPP KP W TSIVG G G Y H tegrr P L APLVR KT KK A LR - R YR 276
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 477 L K SA P K gqlqp V FE A LDT L GS T K WR V NK R VL T VV DRIWSS G G c V A D MVDRSDV PLP E KP DTE DE GI -- L K K WK WEVKSAK 554
Cdd:PHA00452 277 Q K QM P E ----- V YK A VNA L QN T A WR I NK D VL A VV NEVVNW G P - V G D VLGIPRR PLP P KP EFL DE NE ea F K A WK RAAAAWY 350
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 555 KVNS ER H S Q R CDT E LK L S VA R K MK D EE A F Y Y P H NMD F RGR A Y P m PPH LN HL GSDL CRGV L E FAEG R P M G IS GL R WLK I H L 634
Cdd:PHA00452 351 TKEK ER V S K R RRL E FM L R VA N K FA D YK A I Y F P Y NMD W RGR V Y A - VSM LN PQ GSDL QKAL L R FAEG K P L G KR GL Y WLK V H G 429
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 635 AN L Y ag GVDK LSL D G R L A FTENHL D D I FDS A DR PL e GSR WW LQ A ED P FQC LA V C ISLTE A LR S P s PET V l S HI P IHQ DG S 714
Cdd:PHA00452 430 AN C Y -- GVDK VTF D E R A A WVDENH D N I LAA A ED PL - NNT WW AE A DS P LCF LA A C FEYAA A VH S G - TSY V - S GL P VAM DG T 504
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 715 C N GLQH YA A LG RD TL G AE AVNL VAGE KP A D V Y SGI A TR V LDIMR RDA D r DPEVFPE AL RARK L LNQVD R K L V K QT VMT SV 794
Cdd:PHA00452 505 C S GLQH FS A ML RD EV G GR AVNL LPSD KP Q D I Y GIV A EV V NEKLE RDA I - NGTDNTR AL ARLW L AYGIT R S L T K RP VMT LP 583
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 795 YG V T YIGA RD Q I KRR L k ERSDFGDEKE --- VFG AA C Y A AK VTLA AI D E MFQ AA RAI M R W FGEC AK II A SE - N E TVR WTTP 870
Cdd:PHA00452 584 YG S T RFSC RD Y I LED L - LQPGIDEGDG amf TNQ AA S Y M AK LIWD AI S E TVP AA VEA M N W LQQA AK LL A AK g A E ALH WTTP 662
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 871 L G L PV V Q P Y HQMGT K L V KTS L --- QTLS L QHE TD QVIV R RQRTAFP PNF I HSLD G SH MMM T A VAC KRA G VC - FA GV HDSF 946
Cdd:PHA00452 663 T G F PV W Q E Y RKPEE K R V RLR L mgv ARVQ L YVN TD TIDA R KHASGIA PNF V HSLD A SH LRL T V VAC AEK G IE s FA VI HDSF 742
810 820 830 840 850
....*....|....*....|....*....|....*....|....*....|....*
gi 334187707 947 W THA C D V D K L NIIL RE K FVE L Y SQP - I L ENLLES F EQSFPHLD f P P LPE R G D LDL 1000
Cdd:PHA00452 743 G THA A D A D N L HRAI RE T FVE M Y EEN d V L ADFADQ F GDQLQLKM - P E LPE K G S LDL 796
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
170-1000
2.27e-140
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 442.05
E-value: 2.27e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 170 G R TKFQNLWR RQ VKI E T E EW E RAAAEYM E LLTDMCEQKLAPNLP Y VKSLFLGWF E P L RD AI AKDQELYRL G KS -- KA T YA 247
Cdd:COG5108 3 A R LDLTKPTA RQ IAL E E E MA E AGRSRFV E RIEKARKRGEESGTQ Y GRRIISDAV E L L AE AI EATIDESSS G GA gn WH T AY 82
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 248 H YL DQ L P A DKISVITMHKLMGHLMTG gdngc VKVVHA A CTVGDAI E Q E I R ICTFLDKK K K gddneesggvenetsmk EQD 327
Cdd:COG5108 83 A YL RE L D A EVLAYLALRQCLDAVTQR ----- HTLQAV A IRIASMV E D E V R GEAIREAF K D ----------------- FYP 140
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 328 KLR KK vnel I KKQKLS AVR kil QSH D YTK ---------- P W IADVRAK VG SR LIEL L V RTAYIQSP A DQQD -- ND L P dvr 395
Cdd:COG5108 141 RGK KK ---- I ESRTSR AVR --- YKD D FER rvknavakee D W PVSDKIH VG FK LIEL V V ESTGLVEI A RDTE gi ND T P --- 210
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 396 pafv HTFKVAKGSMNSGR kygviecdplvrkgl E KSG R Y A VMP -- Y M PM L VPP LK W SGYDK G A YL --- FLTSYIM KT h GA 470
Cdd:COG5108 211 ---- VFVRPTETTLEWIA --------------- E ANL R M A MLS pa Y L PM V VPP RN W TTPFR G G YL sge VRRLPLV KT - RN 270
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 471 KQQR E A LK S apk G QLQP V FE A LDT L GS T K W RV N KR VL T V VDRI W SSGGCVA d MVD R SDVPL P E KP D ----- T EDEGIL K K 545
Cdd:COG5108 271 RKYL E E LK N --- G DMPE V YA A VNA L QQ T P W TI N RY VL A V MKWL W ERDLDLG - LPQ R EPITP P I KP E nredi T TNQVAR K R 346
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 546 WK WEVKSAKKV N SERH S Q R CDTELK L SV A RKMK D EEA FY Y P HNM DFRGR A Y PM P PH LN HL G S D LCR G V L E FA E G R P M G IS 625
Cdd:COG5108 347 WK KAARKIYIA N AKLC S K R VQFRRD L NE A ERFS D YRE FY F P YQL DFRGR V Y AV P AF LN PQ G Q D HAK G L L M FA D G K P I G DG 426
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 626 G LR WL K IH L AN LY ag G V DK L SL DG R LAFT E NHLDD I FDS A DR pl EGSRW W LQ A ED P F Q C LA V C ISLTEALRSP sp E TVL S 705
Cdd:COG5108 427 G AK WL A IH G AN VW -- G Y DK A SL EE R VKWV E DNYEA I LAA A AD -- YVAEF W SK A DK P W Q F LA F C REWYGYDQHG -- E GYV S 500
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 706 HI PI HQ DGSC N GLQHY A A LG RD TL G AE AVNLV AGE KP A D V Y SGI A TRVLDIMR R --- DADRDPEVFPEALR -- A RKL L NQ 780
Cdd:COG5108 501 GL PI AM DGSC S GLQHY S A ML RD EV G GA AVNLV PSD KP Q D I Y AFV A EVDINLAQ R igc PDELTTNEILNGIM dm A HNW L AF 580
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 781 - VD RK LV K QT VMT SV YG V T YI G A RDQ IKR ---- R L KE RSD ---- FG DEK ev F G AA CYA AK VTLA AI D E MFQ AAR AI M R W F 851
Cdd:COG5108 581 g IT RK VT K RN VMT LP YG S T EY G F RDQ VRE dmit R K KE EEG epfp FG GDG -- F S AA MWL AK LIWD AI G E VVV AAR RG M D W L 658
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 852 GEC A K I I A S E NET V R WTTPLG L PV V Q P Y HQMGTKLVK T SLQT ---- L S L QH E T D QVIV R R Q RTAFP PNF I HS L D GS H M MM 927
Cdd:COG5108 659 QDL A G I A A K E GLP V I WTTPLG F PV M Q D Y RSSKARRIN T TTRK vrvr L T L RE E Q D TIDK R K Q KQGIA PNF V HS M D AT H L MM 738
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 928 T AVACKRA G V - C FA G VHDSF W T H A CDVDKLNII LR EK F V ELY SQ pil ENL LE S F EQ ------ S FPHLDF P PL P ER G D LD L 1000
Cdd:COG5108 739 T VNRSNEY G A s S FA L VHDSF G T D A GSAELMLDC LR KA F I ELY EE --- SDV LE D F KS eiadml S DDAYAL P EV P KK G S LD V 815
RPOL_N
pfam14700 DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA ...
180-497
1.82e-93
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: 299.14
E-value: 1.82e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 180 RQ VKI E TEEW E R A AAEYM E LLTDMCEQK L AP NLP - YVKS L FLG W F E P L RD AI AKDQ EL YRLGKS K --------- AT Y AH Y 249
Cdd:pfam14700 1 RQ LRL E RDSV E A A VERWR E EFEELQKRG L NT NLP k SLNA L LWQ W Y E A L LP AI KEEI EL LKAAEA K pkktkdker CE Y GP Y 80
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 250 L DQ LP AD K ISV IT MHK L MGH L M TGG DNGCV KV VHA A CTV G D A I E Q E I R I ctfldkkkkgddneesggvenetsmkeq DK L 329
Cdd:pfam14700 81 L RL LP PE K LAA IT ILE L LSL L S TGG VDKGM KV SRL A ISI G K A V E D E Y R A ---------------------------- QQ L 132
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 330 R KK VNEL IKK Q K L savrkilqshdytk PW IAD VRAKVG SR L IE LL VR TA YIQSP A DQQDNDLPDVR -- PAF V H TF kvakg 407
Cdd:pfam14700 133 L KK EKKK IKK K K I -------------- PW PQE VRAKVG AV L LS LL IE TA KVPVT A EDPETGEKVIQ pq PAF Y H SY ----- 193
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 408 SMNS G R K Y GVI ECD P LVR K G L - EKSG R YAVM P - YM PMLVPP LK W SG Y D KG A YL FLT S YI M K T HGAKQ QR EA LK S A PK - G Q 484
Cdd:pfam14700 194 QYKR G K K V GVI KPH P ELV K L L l REPA R DTLT P r HL PMLVPP KP W TS Y N KG G YL LSP S KL M R T KDGDE QR AY LK A A SE r G D 273
330
....*....|...
gi 334187707 485 L QP VF EA LD T LG S 497
Cdd:pfam14700 274 L DQ VF DG LD V LG N 286
Name
Accession
Description
Interval
E-value
RNA_pol
pfam00940 DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
620-1001
0e+00
DNA-dependent RNA polymerase; This is a family of single chain RNA polymerases.
Pssm-ID: 460006
Cd Length: 411
Bit Score: 678.84
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 620 R P M G IS GLRWLKIHLANLY ag G V DK L SLD G R L AF T E NH L D DI F DSA DR PL E G S RWWL Q AEDP F QCLA V C IS L TE ALRSP S 699
Cdd:pfam00940 1 K P L G ER GLRWLKIHLANLY -- G F DK A SLD E R V AF V E DN L E DI L DSA EN PL D G R RWWL K AEDP W QCLA A C FE L AN ALRSP D 78
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 700 PE TVL SH I P I HQDGSCNGLQHYAALG R D TL GA EA VNLV AGEK P A DVYSG I A TR V LDIMRR DA DRDP E V fpealr A RK L LN 779
Cdd:pfam00940 79 PE EYV SH L P V HQDGSCNGLQHYAALG G D EE GA KQ VNLV PSDR P Q DVYSG V A EL V EEKIEK DA AKGN E I ------ A KL L KG 152
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 780 QVD RK L VKQTVMT S VYGVT Y IGAR D QI KRR LKE RS DF GD E KEVFG A AC Y A AK VTLAA I D E M F QA A RA I MR W F GECAK I IA 859
Cdd:pfam00940 153 KIT RK V VKQTVMT N VYGVT F IGAR E QI EKQ LKE IG DF PG E EDLYK A SS Y L AK KIFDS I G E L F TG A HE I QD W L GECAK R IA 232
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 860 SE ------ NET V R WTTPLGLPVVQPY HQMGT K L VKT S LQ TL S LQ -- HE TD Q V IV R R Q RT AFPPNFIHSLD GS HMM M TA V A 931
Cdd:pfam00940 233 KS vppeqs MSP V I WTTPLGLPVVQPY RKSKK K Q VKT N LQ SV S IS dp ND TD P V DK R K Q LQ AFPPNFIHSLD AT HMM L TA L A 312
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 932 C KR AG VC FA G VHDSFWTHACDVD KL N I ILRE K FV E L Y S QP ILE N L L E S F EQSFPH ------------------- L D FP PL 992
Cdd:pfam00940 313 C DE AG LT FA A VHDSFWTHACDVD EM N K ILRE Q FV K L H S ED ILE R L R E E F KERYKG slqlakipkdspltpvwlp L T FP EV 392
....*....
gi 334187707 993 P ER GD L DL K 1001
Cdd:pfam00940 393 P KK GD F DL N 401
PHA00452
PHA00452 T3/T7-like RNA polymerase
174-1000
0e+00
T3/T7-like RNA polymerase
Pssm-ID: 222797 [Multi-domain]
Cd Length: 807
Bit Score: 551.94
E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 174 FQN L WRR Q VKI E T E EWERAAAEYMEL L TDMC E QKL A PNL P YVKS L FLGWFE P LRD AI AKDQ E L Y RLGKSK A TYAHY L DQL 253
Cdd:PHA00452 2 GED L AAE Q LQL E E E AYGEGEERFRKA L ERQL E AGE A DDN P VARR L LATLLP P VAE AI DAWK E E Y KKRGRA A KARGL L RLV 81
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 254 PADKIS VIT MHKLMGH L MTGGDNGCVK V VH A act V G D AIE Q EIR ICTFL D kkkkgddneesggvenetsmk EQD K LR KKV 333
Cdd:PHA00452 82 DPEVLA VIT LKVTLDM L LSKETPTAQA V AT A --- I G R AIE D EIR FGRIE D --------------------- LNP K YF KKV 137
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 334 N E LI K KQKLSA V RK I LQ ------- SHDY -- TK PW IADVRAK VG SR L I E L L vrtay I Q S padqqd ND L PD vrpa F V HTFKV 404
Cdd:PHA00452 138 V E YL K RSRTGS V YH I AF mmvvead MVLL ge WD PW PKEDYIH VG KW L L E A L ----- I E S ------ TG L VE ---- L V RHTGG 202
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 405 AK G SM nsgrk YGVI E CDPLVRKG L EKSGRY A -- VM P - Y M PM L VPP LK W SGYDK G A Y L ----- F L TSYIM KT HG A KQ q R EA 476
Cdd:PHA00452 203 NG G KD ----- HEYL E LSEEAVEL L QDIAAA A ag IS P m Y Q PM V VPP KP W TSIVG G G Y H tegrr P L APLVR KT KK A LR - R YR 276
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 477 L K SA P K gqlqp V FE A LDT L GS T K WR V NK R VL T VV DRIWSS G G c V A D MVDRSDV PLP E KP DTE DE GI -- L K K WK WEVKSAK 554
Cdd:PHA00452 277 Q K QM P E ----- V YK A VNA L QN T A WR I NK D VL A VV NEVVNW G P - V G D VLGIPRR PLP P KP EFL DE NE ea F K A WK RAAAAWY 350
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 555 KVNS ER H S Q R CDT E LK L S VA R K MK D EE A F Y Y P H NMD F RGR A Y P m PPH LN HL GSDL CRGV L E FAEG R P M G IS GL R WLK I H L 634
Cdd:PHA00452 351 TKEK ER V S K R RRL E FM L R VA N K FA D YK A I Y F P Y NMD W RGR V Y A - VSM LN PQ GSDL QKAL L R FAEG K P L G KR GL Y WLK V H G 429
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 635 AN L Y ag GVDK LSL D G R L A FTENHL D D I FDS A DR PL e GSR WW LQ A ED P FQC LA V C ISLTE A LR S P s PET V l S HI P IHQ DG S 714
Cdd:PHA00452 430 AN C Y -- GVDK VTF D E R A A WVDENH D N I LAA A ED PL - NNT WW AE A DS P LCF LA A C FEYAA A VH S G - TSY V - S GL P VAM DG T 504
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 715 C N GLQH YA A LG RD TL G AE AVNL VAGE KP A D V Y SGI A TR V LDIMR RDA D r DPEVFPE AL RARK L LNQVD R K L V K QT VMT SV 794
Cdd:PHA00452 505 C S GLQH FS A ML RD EV G GR AVNL LPSD KP Q D I Y GIV A EV V NEKLE RDA I - NGTDNTR AL ARLW L AYGIT R S L T K RP VMT LP 583
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 795 YG V T YIGA RD Q I KRR L k ERSDFGDEKE --- VFG AA C Y A AK VTLA AI D E MFQ AA RAI M R W FGEC AK II A SE - N E TVR WTTP 870
Cdd:PHA00452 584 YG S T RFSC RD Y I LED L - LQPGIDEGDG amf TNQ AA S Y M AK LIWD AI S E TVP AA VEA M N W LQQA AK LL A AK g A E ALH WTTP 662
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 871 L G L PV V Q P Y HQMGT K L V KTS L --- QTLS L QHE TD QVIV R RQRTAFP PNF I HSLD G SH MMM T A VAC KRA G VC - FA GV HDSF 946
Cdd:PHA00452 663 T G F PV W Q E Y RKPEE K R V RLR L mgv ARVQ L YVN TD TIDA R KHASGIA PNF V HSLD A SH LRL T V VAC AEK G IE s FA VI HDSF 742
810 820 830 840 850
....*....|....*....|....*....|....*....|....*....|....*
gi 334187707 947 W THA C D V D K L NIIL RE K FVE L Y SQP - I L ENLLES F EQSFPHLD f P P LPE R G D LDL 1000
Cdd:PHA00452 743 G THA A D A D N L HRAI RE T FVE M Y EEN d V L ADFADQ F GDQLQLKM - P E LPE K G S LDL 796
RPO41
COG5108 Mitochondrial DNA-directed RNA polymerase [Transcription];
170-1000
2.27e-140
Mitochondrial DNA-directed RNA polymerase [Transcription];
Pssm-ID: 444054 [Multi-domain]
Cd Length: 826
Bit Score: 442.05
E-value: 2.27e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 170 G R TKFQNLWR RQ VKI E T E EW E RAAAEYM E LLTDMCEQKLAPNLP Y VKSLFLGWF E P L RD AI AKDQELYRL G KS -- KA T YA 247
Cdd:COG5108 3 A R LDLTKPTA RQ IAL E E E MA E AGRSRFV E RIEKARKRGEESGTQ Y GRRIISDAV E L L AE AI EATIDESSS G GA gn WH T AY 82
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 248 H YL DQ L P A DKISVITMHKLMGHLMTG gdngc VKVVHA A CTVGDAI E Q E I R ICTFLDKK K K gddneesggvenetsmk EQD 327
Cdd:COG5108 83 A YL RE L D A EVLAYLALRQCLDAVTQR ----- HTLQAV A IRIASMV E D E V R GEAIREAF K D ----------------- FYP 140
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 328 KLR KK vnel I KKQKLS AVR kil QSH D YTK ---------- P W IADVRAK VG SR LIEL L V RTAYIQSP A DQQD -- ND L P dvr 395
Cdd:COG5108 141 RGK KK ---- I ESRTSR AVR --- YKD D FER rvknavakee D W PVSDKIH VG FK LIEL V V ESTGLVEI A RDTE gi ND T P --- 210
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 396 pafv HTFKVAKGSMNSGR kygviecdplvrkgl E KSG R Y A VMP -- Y M PM L VPP LK W SGYDK G A YL --- FLTSYIM KT h GA 470
Cdd:COG5108 211 ---- VFVRPTETTLEWIA --------------- E ANL R M A MLS pa Y L PM V VPP RN W TTPFR G G YL sge VRRLPLV KT - RN 270
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 471 KQQR E A LK S apk G QLQP V FE A LDT L GS T K W RV N KR VL T V VDRI W SSGGCVA d MVD R SDVPL P E KP D ----- T EDEGIL K K 545
Cdd:COG5108 271 RKYL E E LK N --- G DMPE V YA A VNA L QQ T P W TI N RY VL A V MKWL W ERDLDLG - LPQ R EPITP P I KP E nredi T TNQVAR K R 346
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 546 WK WEVKSAKKV N SERH S Q R CDTELK L SV A RKMK D EEA FY Y P HNM DFRGR A Y PM P PH LN HL G S D LCR G V L E FA E G R P M G IS 625
Cdd:COG5108 347 WK KAARKIYIA N AKLC S K R VQFRRD L NE A ERFS D YRE FY F P YQL DFRGR V Y AV P AF LN PQ G Q D HAK G L L M FA D G K P I G DG 426
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 626 G LR WL K IH L AN LY ag G V DK L SL DG R LAFT E NHLDD I FDS A DR pl EGSRW W LQ A ED P F Q C LA V C ISLTEALRSP sp E TVL S 705
Cdd:COG5108 427 G AK WL A IH G AN VW -- G Y DK A SL EE R VKWV E DNYEA I LAA A AD -- YVAEF W SK A DK P W Q F LA F C REWYGYDQHG -- E GYV S 500
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 706 HI PI HQ DGSC N GLQHY A A LG RD TL G AE AVNLV AGE KP A D V Y SGI A TRVLDIMR R --- DADRDPEVFPEALR -- A RKL L NQ 780
Cdd:COG5108 501 GL PI AM DGSC S GLQHY S A ML RD EV G GA AVNLV PSD KP Q D I Y AFV A EVDINLAQ R igc PDELTTNEILNGIM dm A HNW L AF 580
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 781 - VD RK LV K QT VMT SV YG V T YI G A RDQ IKR ---- R L KE RSD ---- FG DEK ev F G AA CYA AK VTLA AI D E MFQ AAR AI M R W F 851
Cdd:COG5108 581 g IT RK VT K RN VMT LP YG S T EY G F RDQ VRE dmit R K KE EEG epfp FG GDG -- F S AA MWL AK LIWD AI G E VVV AAR RG M D W L 658
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 852 GEC A K I I A S E NET V R WTTPLG L PV V Q P Y HQMGTKLVK T SLQT ---- L S L QH E T D QVIV R R Q RTAFP PNF I HS L D GS H M MM 927
Cdd:COG5108 659 QDL A G I A A K E GLP V I WTTPLG F PV M Q D Y RSSKARRIN T TTRK vrvr L T L RE E Q D TIDK R K Q KQGIA PNF V HS M D AT H L MM 738
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 928 T AVACKRA G V - C FA G VHDSF W T H A CDVDKLNII LR EK F V ELY SQ pil ENL LE S F EQ ------ S FPHLDF P PL P ER G D LD L 1000
Cdd:COG5108 739 T VNRSNEY G A s S FA L VHDSF G T D A GSAELMLDC LR KA F I ELY EE --- SDV LE D F KS eiadml S DDAYAL P EV P KK G S LD V 815
RPOL_N
pfam14700 DNA-directed RNA polymerase N-terminal; This is the N-terminal domain of DNA-directed RNA ...
180-497
1.82e-93
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: 299.14
E-value: 1.82e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 180 RQ VKI E TEEW E R A AAEYM E LLTDMCEQK L AP NLP - YVKS L FLG W F E P L RD AI AKDQ EL YRLGKS K --------- AT Y AH Y 249
Cdd:pfam14700 1 RQ LRL E RDSV E A A VERWR E EFEELQKRG L NT NLP k SLNA L LWQ W Y E A L LP AI KEEI EL LKAAEA K pkktkdker CE Y GP Y 80
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 250 L DQ LP AD K ISV IT MHK L MGH L M TGG DNGCV KV VHA A CTV G D A I E Q E I R I ctfldkkkkgddneesggvenetsmkeq DK L 329
Cdd:pfam14700 81 L RL LP PE K LAA IT ILE L LSL L S TGG VDKGM KV SRL A ISI G K A V E D E Y R A ---------------------------- QQ L 132
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 330 R KK VNEL IKK Q K L savrkilqshdytk PW IAD VRAKVG SR L IE LL VR TA YIQSP A DQQDNDLPDVR -- PAF V H TF kvakg 407
Cdd:pfam14700 133 L KK EKKK IKK K K I -------------- PW PQE VRAKVG AV L LS LL IE TA KVPVT A EDPETGEKVIQ pq PAF Y H SY ----- 193
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 334187707 408 SMNS G R K Y GVI ECD P LVR K G L - EKSG R YAVM P - YM PMLVPP LK W SG Y D KG A YL FLT S YI M K T HGAKQ QR EA LK S A PK - G Q 484
Cdd:pfam14700 194 QYKR G K K V GVI KPH P ELV K L L l REPA R DTLT P r HL PMLVPP KP W TS Y N KG G YL LSP S KL M R T KDGDE QR AY LK A A SE r G D 273
330
....*....|...
gi 334187707 485 L QP VF EA LD T LG S 497
Cdd:pfam14700 274 L DQ VF DG LD V LG N 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
