|
Name |
Accession |
Description |
Interval |
E-value |
| rpoB |
PRK00405 |
DNA-directed RNA polymerase subunit beta; Reviewed |
1-1357 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta; Reviewed
Pssm-ID: 234749 [Multi-domain] Cd Length: 1112 Bit Score: 2256.52 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1 MAYSYTEKKRIRKDFSKLPDVMDVPYLLAIQLDSYREFLQAGATKEqfrDVGLHAAFKSVFPIISYSGNAALEYVGYRLG 80
Cdd:PRK00405 1 MVYSYTGKKRIRKSFGKIKEVLELPNLLEIQLDSFDWFLQLDVPPE---DEGLEEVFRSIFPIEDFNGNLSLEFVSYELG 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 81 EPAFDVKECVLRGVTFAVPLRVKVRLIifdressNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVF 160
Cdd:PRK00405 78 EPKYDVEECKERGLTYSAPLRVKLRLI-------NKETGEIKEQEVYMGDIPLMTENGTFIINGTERVIVSQLHRSPGVY 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 161 FDHDRGKThSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSTEEILNAFYATNVFHIKget 240
Cdd:PRK00405 151 FDHDKDKT-SSGKLLYSARIIPYRGSWLEFEFDPKDILYVRIDRRRKLPVTVLLRALGYSDEEILDLFYEKEEFGKE--- 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 241 lnlelvpqrlrgevasidikdgsgkviveqgrritarhinqlekagvsqLEVPFDYLIGRTIAKAIVHPATGEIIAECNT 320
Cdd:PRK00405 227 -------------------------------------------------IEVPVEYLLGKVLAEDIVDEETGEVLAEAND 257
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 321 ELTLDLlakvakaqvvrietlytndidCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERY 400
Cdd:PRK00405 258 EITEEL---------------------DGPYIRNTLEKDPTSSREEALVEIYRRLRPGEPPTVEAARSLLENLFFDPKRY 316
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 401 DLSAVGRMKFNRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAV 480
Cdd:PRK00405 317 DLSKVGRYKLNKKLGLDEDEDVRVLTKEDIIATIKYLINLRNGKGEVDDIDHLGNRRVRSVGELLQNQFRIGLSRMERAV 396
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 481 KERLSMAESEGLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHY 560
Cdd:PRK00405 397 RERMSLQDLDTLTPQDLINAKPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHY 476
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 561 GRVCPIETPEGPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVA 640
Cdd:PRK00405 477 GRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKVTDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVT 556
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 641 VRHLNEFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVARDSGVC 720
Cdd:PRK00405 557 ARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLLRPEAPLVGTGMERRVARDSGAV 636
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 721 VVARRGGVIDSVDASRVVVRVadDEVETGEAGVDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELA 800
Cdd:PRK00405 637 VVAKRDGVVEYVDASRIVVRV--EELDPGEDGVDIYNLIKFQRSNQNTCINQRPIVKVGDRVEKGDVLADGPSTDNGELA 714
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 801 LGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGA 880
Cdd:PRK00405 715 LGQNVLVAFMPWNGYNFEDAILISERLVKEDVFTSIHIEEYEIEARDTKLGPEEITRDIPNVSEEALRNLDESGIVRIGA 794
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 881 EVQAGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRdgverdsralsiekmqldq 960
Cdd:PRK00405 795 EVKPGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVKDTSLRVPHGEEGTVIDVKVFTR------------------- 855
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 961 irkdlneefrivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrq 1040
Cdd:PRK00405 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1041 llddkfedkkrkLQQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGV 1120
Cdd:PRK00405 856 ------------IEQGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGV 923
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1121 PSRMNVGQILETHLGLAAKGLGEKinrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrggvpMATP 1200
Cdd:PRK00405 924 PSRMNIGQILETHLGWAAKGLGIK----------------------------------------------------FATP 951
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1201 VFDGAKEREIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQF 1280
Cdd:PRK00405 952 VFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLHHLVDDKIHARSTGPYSLVTQQPLGGKAQF 1031
|
1290 1300 1310 1320 1330 1340 1350
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489205283 1281 GGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIELETE 1357
Cdd:PRK00405 1032 GGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVVGRTKVYEAIVKGENIPEPGIPESFNVLVKELQSLGLDVELLDE 1108
|
|
| rpoB |
TIGR02013 |
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ... |
8-1354 |
0e+00 |
|
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit. [Transcription, DNA-dependent RNA polymerase]
Pssm-ID: 273928 [Multi-domain] Cd Length: 1065 Bit Score: 1824.66 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 8 KKRIRKDFSKLPDVMDVPYLLAIQLDSYREFLQAGATKEQFRDVGLHAAFKSVFPIISYSGNAALEYVGYRLGEPAFDVK 87
Cdd:TIGR02013 1 KKRIRIDFGKIPEVLEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDYTGNIELEYLSYRLGEPKYSVE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 88 ECVLRGVTFAVPLRVKVRLIIFDRessnKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGk 167
Cdd:TIGR02013 81 ECKERGLTYSAPLKVKLRLINKEE----DGTKEIKEQDVYMGDIPLMTDRGTFIINGAERVVVSQLHRSPGVFFSSEKD- 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 168 THSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSteeilnafyatnvfhikgetlnlelvp 247
Cdd:TIGR02013 156 TTKSGKVLFSARIIPYRGSWLEFETDKKDVLYVRIDRKRKLPATVLLRALGYT--------------------------- 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 248 qrlrgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakaivhpatgeiiaecnteltldll 327
Cdd:TIGR02013 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 328 akvakaqvvrIETLYTNDIDCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERYDLSAVGR 407
Cdd:TIGR02013 209 ----------IDTLILNRLGSGEYIRNTLRKDPTNSEEEALVEIYRKLRPGEPPTVEAARSLLENLFFDPKRYDLGRVGR 278
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 408 MKFNRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMA 487
Cdd:TIGR02013 279 YKLNKKLGLDVPESIGVLTKEDIIATIKYLIKLRNGKGEIDDIDHLGNRRIRSVGELLQNQFRVGLARMERIVRERMSTQ 358
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 488 ESEGLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIE 567
Cdd:TIGR02013 359 DTDTLTPQDLINAKPISAAIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIE 438
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 568 TPEGPNIGLINSLATYARTNKYGFLESPYRVVKD--SLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVAVRHLN 645
Cdd:TIGR02013 439 TPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDgkVVVTDEIDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRG 518
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 646 EFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVARDSGVCVVARR 725
Cdd:TIGR02013 519 EITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLLRSEAPLVGTGMEAKVARDSGAVIVAKR 598
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 726 GGVIDSVDASRVVVRvADDEVETGEAGVDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELALGQNM 805
Cdd:TIGR02013 599 GGVVEYVDAKRIVIR-YDEDEEEPDGGIDIYRLLKYQRSNQDTCINQRPIVSVGDRVEAGDVLADGPSTDLGELALGRNV 677
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 806 RVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVQAG 885
Cdd:TIGR02013 678 LVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEYEVEARDTKLGPEEITRDIPNVSEEALRNLDENGIVRIGAEVKAG 757
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 886 DILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRDgverdsralsiekmqldqirkdl 965
Cdd:TIGR02013 758 DILVGKVTPKGETELTPEEKLLRAIFGEKARDVRDTSLRVPPGVEGTVIDVKVFSRE----------------------- 814
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 966 neefrivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddk 1045
Cdd:TIGR02013 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1046 fedkkrklqQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMN 1125
Cdd:TIGR02013 815 ---------QGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMN 885
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1126 VGQILETHLGLAAKGLGEKinrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrgGVPMATPVFDGA 1205
Cdd:TIGR02013 886 IGQILETHLGWAGKRLGRK-------------------------------------------------GVPIATPVFDGA 916
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1206 KEREIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRF 1285
Cdd:TIGR02013 917 SEEEIKEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRF 996
|
1290 1300 1310 1320 1330 1340
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489205283 1286 GEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIEL 1354
Cdd:TIGR02013 997 GEMEVWALEAYGAAYTLQEMLTVKSDDVVGRTKAYEAIVKGENVPEPGIPESFNVLIKELQSLGLDIEL 1065
|
|
| RpoB |
COG0085 |
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ... |
12-1357 |
0e+00 |
|
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA polymerase, beta subunit/140 kD subunit is part of the Pathway/BioSystem: RNA polymerase
Pssm-ID: 439855 [Multi-domain] Cd Length: 1001 Bit Score: 1630.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 12 RKDFSKLPDVMDVPYLLAIQLDSYREFLqagatkeqfrDVGLHAAFKSVFPIISYSGNAALEYVGYRLGEPAFDVKECVL 91
Cdd:COG0085 1 RWSFAKIKEPLELPNLLEIQLDSFNWFL----------EEGLQEIFDEISPIEDFTGNLSLEFGDYRLGEPKYTPEECKE 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 92 RGVTFAVPLRVKVRLIifdressNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGKthsS 171
Cdd:COG0085 71 RDLTYAAPLYVKVRLV-------NKETGEIKEQEVFMGDFPLMTDSGTFIINGTERVIVSQLVRSPGVYFVEEEDK---S 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 172 GKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYST-EEILNAFYatnvfhikgetlnlelvpqrl 250
Cdd:COG0085 141 GKDLYSAKVIPSRGAWLEFETDKDGTIYVRIDRKRKIPVTVLLRALGLETdEEILEAFG--------------------- 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 251 rgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakaivhpatgeiiaecnteltldllakv 330
Cdd:COG0085 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 331 akaqvvrietlytnDIDCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERYDLSAVGRMKF 410
Cdd:COG0085 200 --------------DDPIQEYILATLEKDNTKTQEEALLEIYRKLRPGEPPTIERAEQLLDNLFFDPKRYDLAHVGRYKI 265
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 411 NRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMAESE 490
Cdd:COG0085 266 NKKLGLDVPPEDRVLTAEDIVATIKYLLELHLGEREPDDIDHLGNRRVRLVGELLQNQFRVGLSRMERVVRERMTTQDVE 345
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 491 GLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPE 570
Cdd:COG0085 346 AITPQSLINIRPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLSRERAGFEVRDVHPSHYGRMCPIETPE 425
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 571 GPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVAVRHLNEFTVK 650
Cdd:COG0085 426 GPNIGLIGSLALYARVNEYGFIETPYRKVENGKVTDEIEYLTADEEENYYIAQANAPLDEDGNFLEERVLVRYRGEEVLV 505
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 651 APEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLvgtgmernvardsgvcvvarrggvid 730
Cdd:COG0085 506 PPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRALMGANMQRQAVPLLRPEAPL-------------------------- 559
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 731 svdasrvvvrvaddevetgeagvDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELALGQNMRVAFM 810
Cdd:COG0085 560 -----------------------LHYPLQKFQRSNQGTCINQRPIVRVGDRVEKGDVLADGPATDNGELALGQNLLVAFM 616
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 811 PWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVQAGDILVG 890
Cdd:COG0085 617 PWEGYNYEDAIIISERLVKDDVLTSIHIEEYEIEARDTKLGPEEITRDIPNVSEEALRNLDEDGIIRIGAEVKGGDILVG 696
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 891 KVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRDgverdsralsiekmqldqirkdlneefr 970
Cdd:COG0085 697 KVTPKGETELTPEERLLRAIFGEKAREVRDTSLRVPHGEKGKVIDVKVFSRE---------------------------- 748
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 971 ivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkk 1050
Cdd:COG0085 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1051 rklqQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQIL 1130
Cdd:COG0085 749 ----EGDELPPGVNKLVRVYVAQKRKIEVGDKLAGRHGNKGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVL 824
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1131 ETHLGLAAKGLGEKInrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrggvpmATPVFDGAKEREI 1210
Cdd:COG0085 825 ETHLGWAAALLGRRV----------------------------------------------------ATPVFDGAPEEEI 852
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1211 KAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEV 1290
Cdd:COG0085 853 RELLEKAGLPPDGKEVLYDGRTGEPFDNPVTVGYMYYLKLHHMVDDKIHARSTGPYSLITQQPLGGKAQFGGQRFGEMEV 932
|
1290 1300 1310 1320 1330 1340
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489205283 1291 WALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIELETE 1357
Cdd:COG0085 933 WALEAYGAAYTLQERLTIKSDDVCGRVKVYEAIVKGENIPEPGIPESFKVLLKELQSLGLDVEVLSE 999
|
|
| RNA_pol_B_RPB2 |
cd00653 |
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ... |
27-1355 |
0e+00 |
|
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.
Pssm-ID: 238353 [Multi-domain] Cd Length: 866 Bit Score: 874.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 27 LLAIQLDSYREFLQagatkeqfrdVGLHAAFKSVFPIISYS--GNAALEYVGYRLGEP---------AFDVKECVLRGVT 95
Cdd:cd00653 1 LVKQQIDSFNYFLN----------VGLQEIVKSIPPITDTDddGRLKLKFGDIYLGKPkveeggvtrKLTPNECRLRDLT 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 96 FAVPLRVKVRLIIFDREssnkaikDIKEQEVYMGEIPLMTE------------------------NGTFIINGTERVIVS 151
Cdd:cd00653 71 YSAPLYVDIRLTVNDKG-------KIKEQEVFIGEIPIMLRsklcnlngltpeeliklgecpldpGGYFIINGTEKVIIN 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 152 QLHRSPGVFFDHDrgkthSSGKLLYSARIIP----YRGSWLDFEFDPKDCV-FVRIDRRrklpasvllralgysteeiln 226
Cdd:cd00653 144 QEQRSPNVIIVED-----SKGKRIYTKTSIPsyspYRGSWLEVKSDKKKDRiYVRIDLK--------------------- 197
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 227 afyatnvfhikgetlnlelvpqrlrgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakai 306
Cdd:cd00653 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 307 vhpatgeiiaecnteltldllakvakaqvvrietlytndidcgpfisdtlkidntsNQLEALVEIYRmmrpgepptkeaa 386
Cdd:cd00653 198 --------------------------------------------------------RQEEALKYIGK------------- 208
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 387 etlfgnlffsaerydlsavgrmKFnrrigrteiegpgvlskEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAE 466
Cdd:cd00653 209 ----------------------RF-----------------EDLIYMIRKLILLVLGKGKLDDIDHLGNKRVRLAGELLQ 249
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 467 NQFRVGLVRVERAVKERLSMAESEG--LMPQDLINAKPVAAAIKEFFGSSQ------------LSQFMDQNNPLSEITHK 532
Cdd:cd00653 250 NLFRSGLKRLEREVKEKLQKQLSKKkdLTPQLLINSKPITSGIKEFLATGNwgskrflmqrsgLSQVLDRLNPLSELSHK 329
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 533 RRVSAlgpGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLATYARTNkyGFLESPYRVVKdslvtdeivfls 612
Cdd:cd00653 330 RRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--GRIERPYRIVE------------ 392
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 613 aieeadhviaqasatlnekgqlvdelvavrhlneftvkapEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQR 692
Cdd:cd00653 393 ----------------------------------------KEVTHIEISPSQILSVAASLIPFPEHNQSPRNLYQSNMQK 432
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 693 QAVPT----------------LRADKPLVGTGMERNVARDsgvcvvarrggvidsvdasrvvvrvaddevetgeagvdiy 756
Cdd:cd00653 433 QAVGTpalnqqyrmdtklyllLYPQKPLVGTGIEEYIAFG---------------------------------------- 472
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 757 nltkytrsnqntcinqrplvskgdvvargdiladgpstdmgELALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTI 836
Cdd:cd00653 473 -----------------------------------------ELPLGQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSI 511
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 837 HIQELTCVARDTKLGPEEIT-ADIPNVGEAALNKLDEAGIVYVGAEVQAGDILVGKVTPKGETQLTPeekllraIFGEKA 915
Cdd:cd00653 512 HYKKYEIELRKTKNGPEEITrGDIPNVSEEKLKNLDEDGIIRPGARVEPGDILVGKITPKGETESTP-------IFGEKA 584
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 916 SDVKDTSLRVPTGTKGTVIDVQVFTRDgverdsralsiekmqldqirkdlneefrivegatferlraalvgakaeggpal 995
Cdd:cd00653 585 RDVRDTSLKYPGGEKGIVDDVKIFSRE----------------------------------------------------- 611
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 996 kkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkkrklqqgddLAPGVLKIVKVYLAIKR 1075
Cdd:cd00653 612 ---------------------------------------------------------------LNDGGNKLVKVYIRQKR 628
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1076 RIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAAKGLGEKINrmleeqrkv 1155
Cdd:cd00653 629 KPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAGALLGKFGD--------- 699
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1156 aelrkflheiyneiggreenldelgdneilalaknlrggvpmATPvFDGAKEREIKAMLKLADLPESGQMRLFDGRTGNQ 1235
Cdd:cd00653 700 ------------------------------------------ATP-FDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEP 736
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1236 FERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNG 1315
Cdd:cd00653 737 LEAPIFVGPVYYQRLKHMVDDKIHARSTGPYSLLTRQPLKGRSRGGGQRFGEMERDALIAHGAAYLLQERLTIKSDDVVA 816
|
1370 1380 1390 1400 1410
....*....|....*....|....*....|....*....|....*....|
gi 489205283 1316 RTKMYKNIV----------DGDHRMEAGMPESFNVLIKEIRSLGIDIELE 1355
Cdd:cd00653 817 RVCVKCGIIlsanlcrlckKGTNISKVGIPYAFKLLFQELQSMNIDPRLK 866
|
|
| RNA_pol_Rpb2_6 |
pfam00562 |
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ... |
722-1279 |
1.24e-165 |
|
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain represents the hybrid binding domain and the wall domain. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion. This domain is also involved in binding to Rpb1 and Rpb3. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).
Pssm-ID: 459854 [Multi-domain] Cd Length: 371 Bit Score: 499.36 E-value: 1.24e-165
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 722 VARRGGVIDSVDASRVVVRVADdevetGEAGVDIYNLTKYTRSNQNT---CINQRPLVSKGDVVArgdiladgpsTDMGE 798
Cdd:pfam00562 1 VASLIPFVDHNQSPRNTYQCAM-----GKQAMGIYTLNKFYRSDQNTyvlCYPQKPLVKTGAVEA----------GGFGE 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 799 LALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQEltCVARDTKLGP-EEITADIPNVGEAALNKLDEAGIVY 877
Cdd:pfam00562 66 LPLGQNAIVAVMSYTGYNQEDAIIINKSSVDRGFFTSIHIKE--IEARKTKLGPiEEITRDIPNVSEEALKKLDEDGIVR 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 878 VGAEVQAGDILVGKVtpkGETQLTpeeKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFtrdgverdsralsiekmq 957
Cdd:pfam00562 144 VGAEVKPGDILVGKV---GPTELT---KLLRAIFGEKARDVKDTSLKVPPGEEGVVDDVIVF------------------ 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 958 ldqirkdlneefrivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisd 1037
Cdd:pfam00562 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1038 rrqllddkfedkkrklqqgdDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNP 1117
Cdd:pfam00562 200 --------------------ELPPGGIKMVKVYIRQKRKPEVGDKFASRHGQKGVVSRILPQEDMPFTEDGIPPDIILNP 259
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1118 LGVPSRMNVGQILETHLGLAAKGLgekinrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrgGVPM 1197
Cdd:pfam00562 260 HGVPSRMTIGQLLETHLGKAAALL----------------------------------------------------GVFV 287
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1198 ATPVFDGAKER--EIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLG 1275
Cdd:pfam00562 288 DATPFDGASTEveDIGELLEKAGYNYYGKEVLYDGRTGEPFEAPIFVGPIYYQKLKHMVDDKIHARSTGPYSLLTRQPLG 367
|
....
gi 489205283 1276 GKAQ 1279
Cdd:pfam00562 368 GRAR 371
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| rpoB |
PRK00405 |
DNA-directed RNA polymerase subunit beta; Reviewed |
1-1357 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta; Reviewed
Pssm-ID: 234749 [Multi-domain] Cd Length: 1112 Bit Score: 2256.52 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1 MAYSYTEKKRIRKDFSKLPDVMDVPYLLAIQLDSYREFLQAGATKEqfrDVGLHAAFKSVFPIISYSGNAALEYVGYRLG 80
Cdd:PRK00405 1 MVYSYTGKKRIRKSFGKIKEVLELPNLLEIQLDSFDWFLQLDVPPE---DEGLEEVFRSIFPIEDFNGNLSLEFVSYELG 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 81 EPAFDVKECVLRGVTFAVPLRVKVRLIifdressNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVF 160
Cdd:PRK00405 78 EPKYDVEECKERGLTYSAPLRVKLRLI-------NKETGEIKEQEVYMGDIPLMTENGTFIINGTERVIVSQLHRSPGVY 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 161 FDHDRGKThSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSTEEILNAFYATNVFHIKget 240
Cdd:PRK00405 151 FDHDKDKT-SSGKLLYSARIIPYRGSWLEFEFDPKDILYVRIDRRRKLPVTVLLRALGYSDEEILDLFYEKEEFGKE--- 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 241 lnlelvpqrlrgevasidikdgsgkviveqgrritarhinqlekagvsqLEVPFDYLIGRTIAKAIVHPATGEIIAECNT 320
Cdd:PRK00405 227 -------------------------------------------------IEVPVEYLLGKVLAEDIVDEETGEVLAEAND 257
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 321 ELTLDLlakvakaqvvrietlytndidCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERY 400
Cdd:PRK00405 258 EITEEL---------------------DGPYIRNTLEKDPTSSREEALVEIYRRLRPGEPPTVEAARSLLENLFFDPKRY 316
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 401 DLSAVGRMKFNRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAV 480
Cdd:PRK00405 317 DLSKVGRYKLNKKLGLDEDEDVRVLTKEDIIATIKYLINLRNGKGEVDDIDHLGNRRVRSVGELLQNQFRIGLSRMERAV 396
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 481 KERLSMAESEGLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHY 560
Cdd:PRK00405 397 RERMSLQDLDTLTPQDLINAKPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLTRERAGFEVRDVHPTHY 476
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 561 GRVCPIETPEGPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVA 640
Cdd:PRK00405 477 GRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKVTDEIVYLTADEEDNYVIAQANAPLDEDGRFVDELVT 556
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 641 VRHLNEFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVARDSGVC 720
Cdd:PRK00405 557 ARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLLRPEAPLVGTGMERRVARDSGAV 636
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 721 VVARRGGVIDSVDASRVVVRVadDEVETGEAGVDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELA 800
Cdd:PRK00405 637 VVAKRDGVVEYVDASRIVVRV--EELDPGEDGVDIYNLIKFQRSNQNTCINQRPIVKVGDRVEKGDVLADGPSTDNGELA 714
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 801 LGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGA 880
Cdd:PRK00405 715 LGQNVLVAFMPWNGYNFEDAILISERLVKEDVFTSIHIEEYEIEARDTKLGPEEITRDIPNVSEEALRNLDESGIVRIGA 794
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 881 EVQAGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRdgverdsralsiekmqldq 960
Cdd:PRK00405 795 EVKPGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVKDTSLRVPHGEEGTVIDVKVFTR------------------- 855
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 961 irkdlneefrivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrq 1040
Cdd:PRK00405 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1041 llddkfedkkrkLQQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGV 1120
Cdd:PRK00405 856 ------------IEQGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGV 923
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1121 PSRMNVGQILETHLGLAAKGLGEKinrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrggvpMATP 1200
Cdd:PRK00405 924 PSRMNIGQILETHLGWAAKGLGIK----------------------------------------------------FATP 951
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1201 VFDGAKEREIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQF 1280
Cdd:PRK00405 952 VFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLHHLVDDKIHARSTGPYSLVTQQPLGGKAQF 1031
|
1290 1300 1310 1320 1330 1340 1350
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489205283 1281 GGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIELETE 1357
Cdd:PRK00405 1032 GGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVVGRTKVYEAIVKGENIPEPGIPESFNVLVKELQSLGLDVELLDE 1108
|
|
| rpoB |
TIGR02013 |
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ... |
8-1354 |
0e+00 |
|
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit. [Transcription, DNA-dependent RNA polymerase]
Pssm-ID: 273928 [Multi-domain] Cd Length: 1065 Bit Score: 1824.66 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 8 KKRIRKDFSKLPDVMDVPYLLAIQLDSYREFLQAGATKEQFRDVGLHAAFKSVFPIISYSGNAALEYVGYRLGEPAFDVK 87
Cdd:TIGR02013 1 KKRIRIDFGKIPEVLEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDYTGNIELEYLSYRLGEPKYSVE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 88 ECVLRGVTFAVPLRVKVRLIIFDRessnKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGk 167
Cdd:TIGR02013 81 ECKERGLTYSAPLKVKLRLINKEE----DGTKEIKEQDVYMGDIPLMTDRGTFIINGAERVVVSQLHRSPGVFFSSEKD- 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 168 THSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSteeilnafyatnvfhikgetlnlelvp 247
Cdd:TIGR02013 156 TTKSGKVLFSARIIPYRGSWLEFETDKKDVLYVRIDRKRKLPATVLLRALGYT--------------------------- 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 248 qrlrgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakaivhpatgeiiaecnteltldll 327
Cdd:TIGR02013 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 328 akvakaqvvrIETLYTNDIDCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERYDLSAVGR 407
Cdd:TIGR02013 209 ----------IDTLILNRLGSGEYIRNTLRKDPTNSEEEALVEIYRKLRPGEPPTVEAARSLLENLFFDPKRYDLGRVGR 278
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 408 MKFNRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMA 487
Cdd:TIGR02013 279 YKLNKKLGLDVPESIGVLTKEDIIATIKYLIKLRNGKGEIDDIDHLGNRRIRSVGELLQNQFRVGLARMERIVRERMSTQ 358
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 488 ESEGLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIE 567
Cdd:TIGR02013 359 DTDTLTPQDLINAKPISAAIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGFEVRDVHPTHYGRICPIE 438
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 568 TPEGPNIGLINSLATYARTNKYGFLESPYRVVKD--SLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVAVRHLN 645
Cdd:TIGR02013 439 TPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDgkVVVTDEIDYLTADEEDNYVIAQANAPLDENGRFVEDLVVARYRG 518
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 646 EFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVARDSGVCVVARR 725
Cdd:TIGR02013 519 EITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLLRSEAPLVGTGMEAKVARDSGAVIVAKR 598
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 726 GGVIDSVDASRVVVRvADDEVETGEAGVDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELALGQNM 805
Cdd:TIGR02013 599 GGVVEYVDAKRIVIR-YDEDEEEPDGGIDIYRLLKYQRSNQDTCINQRPIVSVGDRVEAGDVLADGPSTDLGELALGRNV 677
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 806 RVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVQAG 885
Cdd:TIGR02013 678 LVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEYEVEARDTKLGPEEITRDIPNVSEEALRNLDENGIVRIGAEVKAG 757
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 886 DILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRDgverdsralsiekmqldqirkdl 965
Cdd:TIGR02013 758 DILVGKVTPKGETELTPEEKLLRAIFGEKARDVRDTSLRVPPGVEGTVIDVKVFSRE----------------------- 814
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 966 neefrivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddk 1045
Cdd:TIGR02013 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1046 fedkkrklqQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMN 1125
Cdd:TIGR02013 815 ---------QGDELPPGVNKLVKVYIAQKRKIQVGDKMAGRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMN 885
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1126 VGQILETHLGLAAKGLGEKinrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrgGVPMATPVFDGA 1205
Cdd:TIGR02013 886 IGQILETHLGWAGKRLGRK-------------------------------------------------GVPIATPVFDGA 916
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1206 KEREIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRF 1285
Cdd:TIGR02013 917 SEEEIKEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRF 996
|
1290 1300 1310 1320 1330 1340
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489205283 1286 GEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIEL 1354
Cdd:TIGR02013 997 GEMEVWALEAYGAAYTLQEMLTVKSDDVVGRTKAYEAIVKGENVPEPGIPESFNVLIKELQSLGLDIEL 1065
|
|
| RpoB |
COG0085 |
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ... |
12-1357 |
0e+00 |
|
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA polymerase, beta subunit/140 kD subunit is part of the Pathway/BioSystem: RNA polymerase
Pssm-ID: 439855 [Multi-domain] Cd Length: 1001 Bit Score: 1630.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 12 RKDFSKLPDVMDVPYLLAIQLDSYREFLqagatkeqfrDVGLHAAFKSVFPIISYSGNAALEYVGYRLGEPAFDVKECVL 91
Cdd:COG0085 1 RWSFAKIKEPLELPNLLEIQLDSFNWFL----------EEGLQEIFDEISPIEDFTGNLSLEFGDYRLGEPKYTPEECKE 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 92 RGVTFAVPLRVKVRLIifdressNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGKthsS 171
Cdd:COG0085 71 RDLTYAAPLYVKVRLV-------NKETGEIKEQEVFMGDFPLMTDSGTFIINGTERVIVSQLVRSPGVYFVEEEDK---S 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 172 GKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYST-EEILNAFYatnvfhikgetlnlelvpqrl 250
Cdd:COG0085 141 GKDLYSAKVIPSRGAWLEFETDKDGTIYVRIDRKRKIPVTVLLRALGLETdEEILEAFG--------------------- 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 251 rgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakaivhpatgeiiaecnteltldllakv 330
Cdd:COG0085 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 331 akaqvvrietlytnDIDCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERYDLSAVGRMKF 410
Cdd:COG0085 200 --------------DDPIQEYILATLEKDNTKTQEEALLEIYRKLRPGEPPTIERAEQLLDNLFFDPKRYDLAHVGRYKI 265
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 411 NRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMAESE 490
Cdd:COG0085 266 NKKLGLDVPPEDRVLTAEDIVATIKYLLELHLGEREPDDIDHLGNRRVRLVGELLQNQFRVGLSRMERVVRERMTTQDVE 345
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 491 GLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPE 570
Cdd:COG0085 346 AITPQSLINIRPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLSRERAGFEVRDVHPSHYGRMCPIETPE 425
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 571 GPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVAVRHLNEFTVK 650
Cdd:COG0085 426 GPNIGLIGSLALYARVNEYGFIETPYRKVENGKVTDEIEYLTADEEENYYIAQANAPLDEDGNFLEERVLVRYRGEEVLV 505
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 651 APEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLvgtgmernvardsgvcvvarrggvid 730
Cdd:COG0085 506 PPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRALMGANMQRQAVPLLRPEAPL-------------------------- 559
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 731 svdasrvvvrvaddevetgeagvDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELALGQNMRVAFM 810
Cdd:COG0085 560 -----------------------LHYPLQKFQRSNQGTCINQRPIVRVGDRVEKGDVLADGPATDNGELALGQNLLVAFM 616
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 811 PWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVQAGDILVG 890
Cdd:COG0085 617 PWEGYNYEDAIIISERLVKDDVLTSIHIEEYEIEARDTKLGPEEITRDIPNVSEEALRNLDEDGIIRIGAEVKGGDILVG 696
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 891 KVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRDgverdsralsiekmqldqirkdlneefr 970
Cdd:COG0085 697 KVTPKGETELTPEERLLRAIFGEKAREVRDTSLRVPHGEKGKVIDVKVFSRE---------------------------- 748
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 971 ivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkk 1050
Cdd:COG0085 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1051 rklqQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQIL 1130
Cdd:COG0085 749 ----EGDELPPGVNKLVRVYVAQKRKIEVGDKLAGRHGNKGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVL 824
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1131 ETHLGLAAKGLGEKInrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrggvpmATPVFDGAKEREI 1210
Cdd:COG0085 825 ETHLGWAAALLGRRV----------------------------------------------------ATPVFDGAPEEEI 852
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1211 KAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEV 1290
Cdd:COG0085 853 RELLEKAGLPPDGKEVLYDGRTGEPFDNPVTVGYMYYLKLHHMVDDKIHARSTGPYSLITQQPLGGKAQFGGQRFGEMEV 932
|
1290 1300 1310 1320 1330 1340
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489205283 1291 WALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIELETE 1357
Cdd:COG0085 933 WALEAYGAAYTLQERLTIKSDDVCGRVKVYEAIVKGENIPEPGIPESFKVLLKELQSLGLDVEVLSE 999
|
|
| PRK09603 |
PRK09603 |
DNA-directed RNA polymerase subunit beta/beta'; |
1-1354 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta/beta';
Pssm-ID: 181983 [Multi-domain] Cd Length: 2890 Bit Score: 1435.87 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1 MAYSYTEKKRIRKDFSKLPDVMDVPYLLAIQLDSYREFLQAGATKEQfrdvGLHAAFKSVFPIISYSGNAALEYVGYRLG 80
Cdd:PRK09603 1 MSKKIPLKNRLRADFTKTPTDLEVPNLLLLQRDSYDSFLYSKDGKES----GIEKVFKSIFPIQDEHNRITLEYAGCEFG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 81 EPAFDVKECVLRGVTFAVPLRVKVRLIIFDRESSNK---AIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSP 157
Cdd:PRK09603 77 KSKYTVREAMERGITYSIPLKIKVRLILWEKDTKSGeknGIKDIKEQSIFIREIPLMTERTSFIINGVERVVVNQLHRSP 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 158 GVFFDHDRGKThSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSTEEILNAFYATNVFHIK 237
Cdd:PRK09603 157 GVIFKEEESST-SLNKLIYTGQIIPDRGSWLYFEYDSKDVLYARINKRRKVPVTILFRAMDYQKQDIIKMFYPLVKVRYE 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 238 GETLNLELVPQRLRGEVaSIDIKDGSGKVIVEQGRRITARHINQLEKAGVSQLEVPFDYLIGRTIAKAIVHPatgeiiae 317
Cdd:PRK09603 236 NDKYLIPFASLDANQRM-EFDLKDPQGKIILLAGKKLTSRKIKELKENHLEWVEYPMDILLNRHLAEPVMVG-------- 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 318 cnTELTLDLLAKVAKAQVVRI------ETLYTNDIDCG-------PFISD---------TLKIDNtSNQLEAlVEIYRMM 375
Cdd:PRK09603 307 --KEVLLDMLTQLDKNKLEKIhdlgvqEFVIINDLALGhdasiihSFSADseslkllkqTEKIDD-ENALAA-IRIHKVM 382
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 376 RPGEPPTKEAAETLFGNLFFSAERYDLSAVGRMKFNRRIGrteIEGPG---VLSKEDIIDVLKTLVDIRNGKGIVDDIDH 452
Cdd:PRK09603 383 KPGDPVTTEVAKQFVKKLFFDPERYDLTMVGRMKMNHKLG---LHVPDyitTLTHEDIITTVKYLMKIKNNQGKIDDRDH 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 453 LGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMAES--EGLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEIT 530
Cdd:PRK09603 460 LGNRRIRAVGELLANELHSGLVKMQKTIKDKLTTMSGafDSLMPHDLVNSKMITSTIMEFFMGGQLSQFMDQTNPLSEVT 539
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 531 HKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVF 610
Cdd:PRK09603 540 HKRRLSALGEGGLVKDRVGFEARDVHPTHYGRICPIETPEGQNIGLINTLSTFTRVNDLGFIEAPYKKVVDGKVVGETIY 619
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 611 LSAIEEADHVIAQASATLNEKGQLVDELVAVRHLNEFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNM 690
Cdd:PRK09603 620 LTAIQEDSHIIAPASTPIDEEGNILGDLIETRVEGEIVLNEKSKVTLMDLSSSMLVGVAASLIPFLEHDDANRALMGTNM 699
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 691 QRQAVPTLRADKPLVGTGMERNVARDSGVCVVARRGGVIDSVDASRVVVRVADDEvetgEAGVDIYNLTKYTRSNQNTCI 770
Cdd:PRK09603 700 QRQAVPLLRSDAPIVGTGIEKIIARDSWGAIKANRAGVVEKIDSKNIYILGEGKE----EAYIDAYSLQKNLRTNQNTSF 775
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 771 NQRPLVSKGDVVARGDILADGPSTDMGELALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKL 850
Cdd:PRK09603 776 NQVPIVKVGDKVEAGQIIADGPSMDRGELALGKNVRVAFMPWNGYNFEDAIVVSERITKDDIFTSTHIYEKEVDARELKH 855
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 851 GPEEITADIPNVGEAALNKLDEAGIVYVGAEVQAGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTK 930
Cdd:PRK09603 856 GVEEFTADIPDVKEEALAHLDESGIVKVGTYVSAGMILVGKTSPKGEIKSTPEERLLRAIFGDKAGHVVNKSLYCPPSLE 935
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 931 GTVIDVQVFTRDGVERDSRALSI---EKMQLDQIRKD----LNEEfrivegatfERLRAALVGAKAE-------GGPALK 996
Cdd:PRK09603 936 GTVIDVKVFTKKGYEKDARVLSAyeeEKAKLDMEHFDrltmLNRE---------ELLRVSSLLSQAIleepfshNGKDYK 1006
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 997 KGTEITDDYLDGLERGQWFKL-RMADDALNEQLEKAQAYISDRRQLLDDKFEDKKRKLQQGDDLAPGVLKIVKVYLAIKR 1075
Cdd:PRK09603 1007 EGDQIPKEEIASINRFTLASLvKKYSKEVQNHYEITKNNFLEQKKVLGEEHEEKLSILEKDDILPNGVIKKVKLYIATKR 1086
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1076 RIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAAKGLGEKINRMLEEQRK- 1154
Cdd:PRK09603 1087 KLKVGDKMAGRHGNKGIVSNIVPVADMPYTADGEPVDIVLNPLGVPSRMNIGQILEMHLGLVGKEFGKQIASMLEDKTKd 1166
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1155 -VAELRKFLHEIYNEIGGREENLDE----LGDNEILALAKNLRGGVPMATPVFDGAKEREIKAMLKLADLPESGQMRLFD 1229
Cdd:PRK09603 1167 fAKELRAKMLEIANAINEKDPLTIHalenCSDEELLEYAKDWSKGVKMAIPVFEGISQEKFYKLFELAKIAMDGKMDLYD 1246
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1230 GRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVK 1309
Cdd:PRK09603 1247 GRTGEKMRERVNVGYMYMIKLHHLVDEKVHARSTGPYSLVTHQPVGGKALFGGQRFGEMEVWALEAYGAAHTLKEMLTIK 1326
|
1370 1380 1390 1400
....*....|....*....|....*....|....*....|....*
gi 489205283 1310 SDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIEL 1354
Cdd:PRK09603 1327 SDDIRGRENAYRAIAKGEQVGESEIPETFYVLTKELQSLALDINI 1371
|
|
| PRK14844 |
PRK14844 |
DNA-directed RNA polymerase subunit beta/beta'; |
12-1355 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta/beta';
Pssm-ID: 173305 [Multi-domain] Cd Length: 2836 Bit Score: 1417.85 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 12 RKDFSKLPDVMD-VPYLLAIQLDSYREFLQAGATKEQfrdvgLHAAFKSVFPIISYSGNAALEYVGYRLGEPAFDVKECV 90
Cdd:PRK14844 16 RVSYSRSIDLKDsLLDLVKVQKESYDSFTPKNKGNER-----LEVIFHTIFPINDPLHRATIEFISCRVDDPKYDESECI 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 91 LRGVTFAVPLRVKVRLIIF----------------DRESSNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLH 154
Cdd:PRK14844 91 KRGITFSAQVIASIRLVIMqdgisldeyksikesgDHSKLATVIKSIEEQEVHFCELPMMTDKGTFIINGVEKVIVSQMH 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 155 RSPGVFFDHDRGKTHSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSTEEILNAFYATNVF 234
Cdd:PRK14844 171 RSPGVFFDSDKGKTYNSGKLIYSARVIPYRGSWLDIEFDVKDHLYFRIDRKRKLPISVLLKALGLSNNDILDRFYEKIKY 250
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 235 HIKGETLNLELVPQRLRGEVASIDIKDGSGKVIVEQGRRITARHINQLEKAGVSQLEVPFDYLIGRTIAKAIVHPATGEI 314
Cdd:PRK14844 251 IKHKDGWKVPFVPDKFKGVRLPFDLMDVEGNVLLKANVRITSRLAKKLYDNELKEYLVPFDSICGLFLAEDLIDSASSTK 330
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 315 IAECNTELTLDLLAKVAKAQVVRIETLYTNDIDCGPFISDTLKIDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLF 394
Cdd:PRK14844 331 ILSAGESIKLEDIKKLELLSIDEISVLNIDNLSVGPYILNTLFLDENMSYQDALYEIYKVLRPGEVPVLEIVEEFFRNLF 410
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 395 FSAERYDLSAVGRMKFNRRIGRTEIEGPGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLV 474
Cdd:PRK14844 411 FSPEYYDLSNIGRLKLNSYLGLNYDEDLTVLTHEDIIEIVRKIVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLL 490
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 475 RVERAVKERLSMAESEGLMPQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRD 554
Cdd:PRK14844 491 KLERAVVDSMSTSSLDKVSPSDFINPKVLTNVLRDFFNSSQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRD 570
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 555 VHPTHYGRVCPIETPEGPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVFLSAIEEADHVIAQASATLNEKGQL 634
Cdd:PRK14844 571 VHPTHYGRICPIETPEGQNIGLINSLAIYARINKYGFIESPYRKVVNRVVTDQIEYLSAIDEGLYYIADTSAKLDENNCF 650
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 635 VDELVAVRHLNEFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVA 714
Cdd:PRK14844 651 VDDMLYCRYAGSFVMVSSDQVSYIDVSPKQVISVAASLIPFLENDDANRALMGSNMQRQAVPLLKPTAPLVATGMESFVA 730
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 715 RDSGVCVVARRGGVIDSVDASRVVVRVADDEvETGEAGVDIYNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPST 794
Cdd:PRK14844 731 SGSGAVVLAKRDGIVDSSDSNSIVIRAFDKE-RVNYLDVDIYHLRKFQRSNHNTCINQKPLVCVGDYVKEGDVIADGPAI 809
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 795 DMGELALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAG 874
Cdd:PRK14844 810 NSGELALGQNLLVAFMSWQGYNFEDSIIISSEVVKKDLFTSIHIEEFECVVHDTPLGSEKITRAIPGVNEENLYHLDDSG 889
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 875 IVYVGAEVQAGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRDGVERDSRALSIE 954
Cdd:PRK14844 890 IVKIGTRVGPGYILVGKVTPKPSLSLPPETKLLMTIFGEKSFDCADSSLYTSPDVEGTVIDVQVFTRRGVEENERALLIK 969
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 955 KMQLDQIRKDLNEEFRIVEGATFERLRAALVGAKAEggpalkkgteiTDDYLDGLERGQWFKLRMADDALNEQLEKAQAY 1034
Cdd:PRK14844 970 QKEINDFEKERDYIINVTSEYFYDELKKLLINSGSQ-----------DREKFDSIEREQWWGIGLKNQSISEQVKSLKKD 1038
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1035 ISDRRQLLDDKFEDKKRKLQQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIV 1114
Cdd:PRK14844 1039 FDEKVSHAIAQFKRKVEKLHEGYDLPQGVSMSVKVFIAVKHSLQPGDKMAGRHGNKGVISRVVPVEDMPYLEDGTPVDII 1118
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1115 LNPLGVPSRMNVGQILETHLGLAAKGLGEKINRMLEEQRKV--------------------------------------- 1155
Cdd:PRK14844 1119 LNPLGVPSRMNVGQILETHVGWACKKLGEKVGNILDEINKIksafckgirslnddnftkfaaayldnkkienidddeita 1198
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1156 ------------------------------AELRKFLHEIYNEIGGRE--ENLDELGDNEILALAKNLRGGVPMATPVFD 1203
Cdd:PRK14844 1199 svlntpnknalndelnelvenylnscksaySNLRNFLIEVYSCGSNVSicNNIRDISDNNLIEFARKLRDGIPVAAPVFE 1278
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1204 GAKEREIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQ 1283
Cdd:PRK14844 1279 GPKDEQIAKLFELAGLDNSGQAVLYDGCSGEKFDRKVTVGYMYMLKLHHLVDGKIHARSVGPYSLVTQQPLGGKSHFGGQ 1358
|
1370 1380 1390 1400 1410 1420 1430
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489205283 1284 RFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIELE 1355
Cdd:PRK14844 1359 RFGEMECWALQAYGAAYTLQEMLTVKSDDINGRVKIYESIIKGDSNFECGIPESFNVMIKELRSLCLNVDLK 1430
|
|
| rpoB |
CHL00001 |
RNA polymerase beta subunit |
13-1353 |
0e+00 |
|
RNA polymerase beta subunit
Pssm-ID: 214330 [Multi-domain] Cd Length: 1070 Bit Score: 1083.01 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 13 KDFSKLPDvmdvpyLLAIQLDSYREFLQAGATKEQFRdvglhaafksvFPIIsYSGNAALEYV----GYRLGEPAFDVKE 88
Cdd:CHL00001 7 EGMSTIPG------FNQIQFEGFCRFIDQGLTEELSK-----------FPKI-EDTDQEIEFQlfveTYQLVEPLIKERD 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 89 CVLRGVTFAVPLRVKVRLIifdressNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFdhdRGKT 168
Cdd:CHL00001 69 AVYESLTYSSELYVPAGLI-------WKKSRDMQEQTVFIGNIPLMNSLGTFIINGIYRVVINQILRSPGIYY---RSEL 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 169 HSSGKLLYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSTEEILNafyatNVfhikgetlnlelvpq 248
Cdd:CHL00001 139 DHNGISVYTGTIISDWGGRLELEIDRKARIWARVSRKQKISILVLLSAMGLNLREILD-----NV--------------- 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 249 rlrgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakaivhpatgeiiaeCNTELTLDLLA 328
Cdd:CHL00001 199 ---------------------------------------------------------------------CYPEIFLSFLN 209
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 329 KVAKaqvvrietlytndidcgpfisdtLKIDNTSNqleALVEIYRMM--RPGEPPTKEAAETLFGNLFFSAeRYDLSAVG 406
Cdd:CHL00001 210 DKEK-----------------------KKIGSKEN---AILEFYQQFacVGGDPVFSESLCKELQKKFFQQ-RCELGRIG 262
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 407 RMKFNRR----IGRTEIegpgVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKE 482
Cdd:CHL00001 263 RRNMNRKlnldIPENNT----FLLPQDVLAAADYLIGMKFGMGTLDDIDHLKNKRIRSVADLLQDQFGLALNRLENAVRG 338
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 483 RLSMAESEGLM--PQDLINAKPVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHY 560
Cdd:CHL00001 339 TICGAIRRKLIptPQNLVTSTPLTTTYESFFGSHPLSQFLDQTNPLTEIVHGRKLSSLGPGGLTGRTASFRVRDIHPSHY 418
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 561 GRVCPIETPEGPNIGLINSLATYARTNKYGFLESPYRVVKDSLVTDEIVFLSAIEEADHVIA-QASATLNEKGQlVDELV 639
Cdd:CHL00001 419 GRICPIDTSEGINAGLIGSLAIHARIGHWGSLESPFYEISERSKEERMVYLSPSEDEYYMIAaGNSLALNQGIQ-EEQVV 497
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 640 AVRHLNEFTVKAPEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVARDSGV 719
Cdd:CHL00001 498 PARYRQEFLTIAWEQIHLRSIFPFQYFSIGASLIPFLEHNDANRALMGSNMQRQAVPLSRSEKCIVGTGLERQVALDSGV 577
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 720 CVVARRGGVIDSVDASRVVVRVADDEVETgeagvdiyNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGEL 799
Cdd:CHL00001 578 VAIAEHEGKIIYTDTDKIILSGNGDTLSI--------PLVMYQRSNKNTCMHQKPQVRRGKCVKKGQILADGAATVGGEL 649
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 800 ALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVG 879
Cdd:CHL00001 650 ALGKNVLVAYMPWEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTHVTSQGPERITKEIPHLEAHLLRNLDKNGIVMLG 729
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 880 AEVQAGDILVGKVTPK--GETQLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVqvftrdgverdsralsiekmq 957
Cdd:CHL00001 730 SWVETGDILVGKLTPQeaEESSYAPEGRLLRAIFGIQVSTSKETCLKLPIGGRGRVIDV--------------------- 788
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 958 ldqirkdlneefrivegatferlraalvgakaeggpalkkgteitddyldglergQWFklrmaddalneqlekaqayisd 1037
Cdd:CHL00001 789 -------------------------------------------------------RWI---------------------- 791
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1038 rrqllddkfedkkrklqQGDDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNP 1117
Cdd:CHL00001 792 -----------------QKKGGSSYNPETIHVYILQKREIQVGDKVAGRHGNKGIISKILPRQDMPYLQDGTPVDMVLNP 854
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1118 LGVPSRMNVGQILETHLGLAAKGLGEKINRMLEEQRKVAEL-RKF-LHEIYneiggreenldelgdneilalaknlRGGV 1195
Cdd:CHL00001 855 LGVPSRMNVGQIFECLLGLAGDLLNRHYRIAPFDERYEQEAsRKLvFSELY-------------------------EASK 909
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1196 PMATP-VFDgakereikamlkladlPES-GQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQP 1273
Cdd:CHL00001 910 QTANPwVFE----------------PEYpGKSRLFDGRTGDPFEQPVTIGKAYILKLIHQVDDKIHARSSGPYALVTQQP 973
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1274 LGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGD--HRMEaGMPESFNVLIKEIRSLGID 1351
Cdd:CHL00001 974 LRGRSKQGGQRVGEMEVWALEGFGVAYILQEMLTYKSDHIRARQEVLGAIITGGtiPKPE-DAPESFRLLVRELRSLALE 1052
|
..
gi 489205283 1352 IE 1353
Cdd:CHL00001 1053 LN 1054
|
|
| rpoB |
CHL00207 |
RNA polymerase beta subunit; Provisional |
24-1354 |
0e+00 |
|
RNA polymerase beta subunit; Provisional
Pssm-ID: 214397 [Multi-domain] Cd Length: 1077 Bit Score: 1070.10 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 24 VPYLLAIQLDSYREFLQAGATKEqfrdvglhaaFKSVFPIISYSGNAALEYVG--YRLGEPAFDVKECVLRGVTFAVPLR 101
Cdd:CHL00207 7 LPDFLEIQRTSFCWFLNEGLNEE----------LNIFSKIFDYTGNLELLLFGknYKLKYPKYNLLSAKSYDSNYSIQIY 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 102 VKVRLIifdressNKAIKDIKEQEVYMGEIPLMTENGTFIINGTERVIVSQLHRSPGVFFDHDRGKTHssgKLLYSARII 181
Cdd:CHL00207 77 LPLKFI-------NLKTNKIKFINYLIGNLPKMTQRGTFIINGLERVIVSQIIRSPGIYFKKEIKKNS---NKIYSATLI 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 182 PYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALGYSTEEILNafYATNVFHIKGETLNLELvpqrlrgevasidikd 261
Cdd:CHL00207 147 PNRGSWIKFELDKNKEIWIRIDKNRKKPLIIFLKALGLTDQDIYS--RLTKSEFLKKLKPILLN---------------- 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 262 gsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakaivhpatgeiiaecnteltldllakvakaqvvrietl 341
Cdd:CHL00207 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 342 ytndidcgpfisdtlkiDNTSNQLEALVEIYRMMRPGEPPTKEAAETLFGNLFFSAERYDLSAVGRMKFNRRIGRTEIEG 421
Cdd:CHL00207 209 -----------------SNSYTNEEILLEIYKNLSPIEPATVNDANQNLFSRFFDPKNYDLGKVGRYKINNKLNLNIPER 271
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 422 PGVLSKEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMAESEGLMPQDLINAK 501
Cdd:CHL00207 272 VRNLTYEDILSIIDKLINLKINKGNFDDIDHLKNRRVRSVGELLQNQFRIGLKRLERILRNRMTICDIDSLSKFNLINPK 351
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 502 PVAAAIKEFFGSSQLSQFMDQNNPLSEITHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLA 581
Cdd:CHL00207 352 PLIALIREFFGSSQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRDIHPSHYGRICPIETPEGPNCGLIGSLA 431
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 582 TYARTNKYGFLESPYRVVKDSLV--TDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVAVRHLNEFTVKAPEDVTLMD 659
Cdd:CHL00207 432 TNARINKFGFIETPFYKVINGKVkkFGNPIYLTADSEDLYRIAPNDINLNKNNYFKKNIIPVRYKQEFKTVNPSKVDFIA 511
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 660 VSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPTLRADKPLVGTGMERNVARDSGVCVVARRGGVIDSVDASRVVV 739
Cdd:CHL00207 512 ISPIQVFSIAESLIPFLEHNDANRALMGSNMQRQAVPLLYPEKPIVGTGYEKQIALDSGMTIISLTEGIVVSVSAYKIII 591
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 740 RvaDDEvetgeaGVDI-YNLTKYTRSNQNTCINQRPLVSKGDVVARGDILADGPSTDMGELALGQNMRVAFMPWNGFNFE 818
Cdd:CHL00207 592 Q--DDN------NRYIhYYLQKYQRSNQNTCINYRPIVWVGEKINIGQILADGSDIDNSELALGQNVLVAYMPWEGYNFE 663
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 819 DSICLSERVVQEDRFTTIHIQELTCVARDTKLGPEEITADIPNVGEAALNKLDEAGIVYVGAEVQAGDILVGKVTPKGET 898
Cdd:CHL00207 664 DAILINKRLVYEDLFTSIHIEKYEIELRQTKLGSEEITRNIPNVSEYSLKNLDENGIISIGSKVLAGDILVGKITPKGES 743
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 899 QLTPEEKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFTRdgverdsralsiekmqldqirkdlneefrivegatfe 978
Cdd:CHL00207 744 DQLPEGKLLRAIFGEKAKDVKDTSLRMPNGGYGRVIKVEIFSR------------------------------------- 786
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 979 rlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkkrklQQGDD 1058
Cdd:CHL00207 787 ---------------------------------------------------------------------------SKGDE 791
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1059 LAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAa 1138
Cdd:CHL00207 792 LKFGYYLKIRVFIAQIRKIQVGDKLAGRHGNKGIISRILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLLGLA- 870
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1139 kglGEKINRMLeeqrkvaelrKFLHeiYNEIGGREENLDELgdNEILALAKNLRGgvpmatpvfdgakereikaMLKLAD 1218
Cdd:CHL00207 871 ---GDNLNKRF----------KILP--FDEMYGSEYSRILI--NNKLNQASIKNN-------------------EYWLFN 914
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1219 LPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGA 1298
Cdd:CHL00207 915 SYHPGKMVLRDGRTGYKFKNPVTVGIAYMLKLIHLVDDKIHARTTGPYSLVTQQPLGGKAQHGGQRFGEMEVWALEAFGA 994
|
1290 1300 1310 1320 1330
....*....|....*....|....*....|....*....|....*....|....*.
gi 489205283 1299 AYTLQEMLTVKSDDVNGRTKMYKNIVDGDHRMEAGMPESFNVLIKEIRSLGIDIEL 1354
Cdd:CHL00207 995 AYTLKELLTIKSDDMQGRNETLNAIVKGQPIPKPGTPESFKVLMRELQSLGLDIEA 1050
|
|
| RNA_pol_B_RPB2 |
cd00653 |
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ... |
27-1355 |
0e+00 |
|
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.
Pssm-ID: 238353 [Multi-domain] Cd Length: 866 Bit Score: 874.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 27 LLAIQLDSYREFLQagatkeqfrdVGLHAAFKSVFPIISYS--GNAALEYVGYRLGEP---------AFDVKECVLRGVT 95
Cdd:cd00653 1 LVKQQIDSFNYFLN----------VGLQEIVKSIPPITDTDddGRLKLKFGDIYLGKPkveeggvtrKLTPNECRLRDLT 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 96 FAVPLRVKVRLIIFDREssnkaikDIKEQEVYMGEIPLMTE------------------------NGTFIINGTERVIVS 151
Cdd:cd00653 71 YSAPLYVDIRLTVNDKG-------KIKEQEVFIGEIPIMLRsklcnlngltpeeliklgecpldpGGYFIINGTEKVIIN 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 152 QLHRSPGVFFDHDrgkthSSGKLLYSARIIP----YRGSWLDFEFDPKDCV-FVRIDRRrklpasvllralgysteeiln 226
Cdd:cd00653 144 QEQRSPNVIIVED-----SKGKRIYTKTSIPsyspYRGSWLEVKSDKKKDRiYVRIDLK--------------------- 197
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 227 afyatnvfhikgetlnlelvpqrlrgevasidikdgsgkviveqgrritarhinqlekagvsqlevpfdyligrtiakai 306
Cdd:cd00653 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 307 vhpatgeiiaecnteltldllakvakaqvvrietlytndidcgpfisdtlkidntsNQLEALVEIYRmmrpgepptkeaa 386
Cdd:cd00653 198 --------------------------------------------------------RQEEALKYIGK------------- 208
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 387 etlfgnlffsaerydlsavgrmKFnrrigrteiegpgvlskEDIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRCVGEMAE 466
Cdd:cd00653 209 ----------------------RF-----------------EDLIYMIRKLILLVLGKGKLDDIDHLGNKRVRLAGELLQ 249
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 467 NQFRVGLVRVERAVKERLSMAESEG--LMPQDLINAKPVAAAIKEFFGSSQ------------LSQFMDQNNPLSEITHK 532
Cdd:cd00653 250 NLFRSGLKRLEREVKEKLQKQLSKKkdLTPQLLINSKPITSGIKEFLATGNwgskrflmqrsgLSQVLDRLNPLSELSHK 329
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 533 RRVSAlgpGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLATYARTNkyGFLESPYRVVKdslvtdeivfls 612
Cdd:cd00653 330 RRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--GRIERPYRIVE------------ 392
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 613 aieeadhviaqasatlnekgqlvdelvavrhlneftvkapEDVTLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQR 692
Cdd:cd00653 393 ----------------------------------------KEVTHIEISPSQILSVAASLIPFPEHNQSPRNLYQSNMQK 432
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 693 QAVPT----------------LRADKPLVGTGMERNVARDsgvcvvarrggvidsvdasrvvvrvaddevetgeagvdiy 756
Cdd:cd00653 433 QAVGTpalnqqyrmdtklyllLYPQKPLVGTGIEEYIAFG---------------------------------------- 472
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 757 nltkytrsnqntcinqrplvskgdvvargdiladgpstdmgELALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTI 836
Cdd:cd00653 473 -----------------------------------------ELPLGQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSI 511
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 837 HIQELTCVARDTKLGPEEIT-ADIPNVGEAALNKLDEAGIVYVGAEVQAGDILVGKVTPKGETQLTPeekllraIFGEKA 915
Cdd:cd00653 512 HYKKYEIELRKTKNGPEEITrGDIPNVSEEKLKNLDEDGIIRPGARVEPGDILVGKITPKGETESTP-------IFGEKA 584
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 916 SDVKDTSLRVPTGTKGTVIDVQVFTRDgverdsralsiekmqldqirkdlneefrivegatferlraalvgakaeggpal 995
Cdd:cd00653 585 RDVRDTSLKYPGGEKGIVDDVKIFSRE----------------------------------------------------- 611
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 996 kkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkkrklqqgddLAPGVLKIVKVYLAIKR 1075
Cdd:cd00653 612 ---------------------------------------------------------------LNDGGNKLVKVYIRQKR 628
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1076 RIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAAKGLGEKINrmleeqrkv 1155
Cdd:cd00653 629 KPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLESLLGKAGALLGKFGD--------- 699
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1156 aelrkflheiyneiggreenldelgdneilalaknlrggvpmATPvFDGAKEREIKAMLKLADLPESGQMRLFDGRTGNQ 1235
Cdd:cd00653 700 ------------------------------------------ATP-FDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEP 736
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1236 FERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNG 1315
Cdd:cd00653 737 LEAPIFVGPVYYQRLKHMVDDKIHARSTGPYSLLTRQPLKGRSRGGGQRFGEMERDALIAHGAAYLLQERLTIKSDDVVA 816
|
1370 1380 1390 1400 1410
....*....|....*....|....*....|....*....|....*....|
gi 489205283 1316 RTKMYKNIV----------DGDHRMEAGMPESFNVLIKEIRSLGIDIELE 1355
Cdd:cd00653 817 RVCVKCGIIlsanlcrlckKGTNISKVGIPYAFKLLFQELQSMNIDPRLK 866
|
|
| RNA_pol_Rpb2_6 |
pfam00562 |
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ... |
722-1279 |
1.24e-165 |
|
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain represents the hybrid binding domain and the wall domain. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion. This domain is also involved in binding to Rpb1 and Rpb3. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).
Pssm-ID: 459854 [Multi-domain] Cd Length: 371 Bit Score: 499.36 E-value: 1.24e-165
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 722 VARRGGVIDSVDASRVVVRVADdevetGEAGVDIYNLTKYTRSNQNT---CINQRPLVSKGDVVArgdiladgpsTDMGE 798
Cdd:pfam00562 1 VASLIPFVDHNQSPRNTYQCAM-----GKQAMGIYTLNKFYRSDQNTyvlCYPQKPLVKTGAVEA----------GGFGE 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 799 LALGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHIQEltCVARDTKLGP-EEITADIPNVGEAALNKLDEAGIVY 877
Cdd:pfam00562 66 LPLGQNAIVAVMSYTGYNQEDAIIINKSSVDRGFFTSIHIKE--IEARKTKLGPiEEITRDIPNVSEEALKKLDEDGIVR 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 878 VGAEVQAGDILVGKVtpkGETQLTpeeKLLRAIFGEKASDVKDTSLRVPTGTKGTVIDVQVFtrdgverdsralsiekmq 957
Cdd:pfam00562 144 VGAEVKPGDILVGKV---GPTELT---KLLRAIFGEKARDVKDTSLKVPPGEEGVVDDVIVF------------------ 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 958 ldqirkdlneefrivegatferlraalvgakaeggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisd 1037
Cdd:pfam00562 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1038 rrqllddkfedkkrklqqgdDLAPGVLKIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNP 1117
Cdd:pfam00562 200 --------------------ELPPGGIKMVKVYIRQKRKPEVGDKFASRHGQKGVVSRILPQEDMPFTEDGIPPDIILNP 259
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1118 LGVPSRMNVGQILETHLGLAAKGLgekinrmleeqrkvaelrkflheiyneiggreenldelgdneilalaknlrgGVPM 1197
Cdd:pfam00562 260 HGVPSRMTIGQLLETHLGKAAALL----------------------------------------------------GVFV 287
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1198 ATPVFDGAKER--EIKAMLKLADLPESGQMRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLG 1275
Cdd:pfam00562 288 DATPFDGASTEveDIGELLEKAGYNYYGKEVLYDGRTGEPFEAPIFVGPIYYQKLKHMVDDKIHARSTGPYSLLTRQPLG 367
|
....
gi 489205283 1276 GKAQ 1279
Cdd:pfam00562 368 GRAR 371
|
|
| PRK08565 |
PRK08565 |
DNA-directed RNA polymerase subunit B; Provisional |
31-1355 |
4.15e-82 |
|
DNA-directed RNA polymerase subunit B; Provisional
Pssm-ID: 236291 [Multi-domain] Cd Length: 1103 Bit Score: 293.40 E-value: 4.15e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 31 QLDSYREFLQAGATKeqfrdvgLHAAFKSVFPIIsysGNAALEYVGYRLGEPAFDVK----------ECVLRGVTFAVPL 100
Cdd:PRK08565 18 HLDSYNDFIERGLQE-------IVDEFGEIKTEI---PGLKIVLGKIRVGEPEIKEAdgserpitpmEARLRNLTYAAPL 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 101 RVKVRLIIFDREssnkaikdIKEQEVYMGEIPLMTEN------------------------GTFIINGTERVIVSQLHRS 156
Cdd:PRK08565 88 YLTMIPVENGIE--------YEPEEVKIGDLPIMVKSkicplsglspdelieigedpkdpgGYFIINGSERVIVSQEDLA 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 157 PG---VffdhDRGKTHSSGKllYSARIIPYRG---SWLDFEFDpKDCVF-VRIDR-RRKLPASVLLRALGYST-EEILNA 227
Cdd:PRK08565 160 PNrvlV----DKGEAGSSIT--HTAKVISSRAgyrAQVTVERR-KDGTIyVSFPAvPGKIPFVILMRALGLETdRDIVYA 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 228 fyatnvfhikgetlnLELVPQRLRGEVASIdikdgsgkvivEQGRRItarhINQLEKAgvsqlevpFDYlIGRTIAkaiv 307
Cdd:PRK08565 233 ---------------VSLDPEIQQELLPSL-----------EQASSI----AATVEDA--------LDY-IGKRVA---- 269
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 308 hpatgeiiaecnteltldllakVAKAQVVRIEtlytndidcgpfisdtlkidntsnQLEALVEIYRMMRPGEPPTKEAAE 387
Cdd:PRK08565 270 ----------------------IGQPREYRIE------------------------RAEQILDKYLLPHLGTSPEDRIKK 303
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 388 TLFgnlffsaerydlsaVGRMkfnrrigrteiegpgvlskediidVLKtLVDIRNGKGIVDDIDHLGNRRVRCVGEMAEN 467
Cdd:PRK08565 304 AYF--------------LGQM------------------------ASK-LLELYLGRREPDDKDHYANKRLRLAGDLLAE 344
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 468 QFRVGLVRVERAVKERL--SMAESEGLMPQDLINAKPVAAAIKEFF-------GSSQLSQFMDQNNPLSEITHKRRVsaL 538
Cdd:PRK08565 345 LFRVAFKQLVKDLKYQLekSYARGRKLDLRAIVRPDIITERIRHALatgnwvgGRTGVSQLLDRTNYLSTLSHLRRV--V 422
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 539 GPggLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLATYARTNkYGFLESP-----YRV----VKDSLVTDEI- 608
Cdd:PRK08565 423 SP--LSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLALMAQIS-VGVDEEEveeilYELgvvpVEEAREEEYIs 499
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 609 ---VFLS----AIEEADHVIAQASATLNEKGQLVDElVAVRHLNEFTVKA------------------------------ 651
Cdd:PRK08565 500 wsrVYLNgrliGYHPDGEELAEKIRELRRSGKISDE-VNVAYIETGEINEvyvncdsgrvrrplivvengkpkltrehve 578
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 652 ----------------------------------PEDV----TLMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQ 693
Cdd:PRK08565 579 klkkgeltfddlvkmgvieyldaeeeenayvaldPEDLtpehTHLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQ 658
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 694 A--VPT----LRAD----------KPLVGT-GMErnvardsgvcvvarrggvidsvdasrvvvrvaddevetgeagvdiy 756
Cdd:PRK08565 659 SlgLYAanfrIRTDtrghllhypqRPLVQTrALE---------------------------------------------- 692
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 757 nLTKYtrsnqntciNQRPLvskgdvvargdiladgpstdmgelalGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTI 836
Cdd:PRK08565 693 -IIGY---------NDRPA--------------------------GQNAVVAVLSYTGYNIEDAIIMNKASIERGLARST 736
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 837 HIQELTCVARDTKLGPE-EITADIPNV----GEAALNKLDEAGIVYVGAEVQAGDILVGKVTPKgetQLTPEEKLLRAIF 911
Cdd:PRK08565 737 FFRTYETEERKYPGGQEdKIEIPEPNVrgyrGEEYYRKLDEDGIVSPEVEVKGGDVLIGKTSPP---RFLEELEELSLGL 813
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 912 GEKasdvKDTSLRVPTGTKGTVIDVqvftrdgverdsralsiekmqldqirkdlneefrivegatferlraaLVGAKAEG 991
Cdd:PRK08565 814 QER----RDTSVTVRHGEKGIVDTV-----------------------------------------------LITESPEG 842
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 992 GpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkkrklqqgddlapgvlKIVKVYL 1071
Cdd:PRK08565 843 N------------------------------------------------------------------------KLVKVRV 850
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1072 AIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGlaakglgekinrmlee 1151
Cdd:PRK08565 851 RDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLESIAG---------------- 914
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1152 qrKVAELRkflheiyneigGReeNLDelgdneilalaknlrggvpmATPvFDGAKEREIKAMLKLADLPESGQMRLFDGR 1231
Cdd:PRK08565 915 --KVAALE-----------GR--FVD--------------------ATP-FYGEPEEELRKELLKLGYKPDGTEVMYDGR 958
|
1370 1380 1390 1400 1410 1420 1430 1440
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1232 TGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSD 1311
Cdd:PRK08565 959 TGEKIKAPIFIGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGHGAAMLLKERLLDSSD 1038
|
1450 1460 1470 1480 1490 1500
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489205283 1312 dvngRTKMY--------------KNI----VDGD----HRMEagMPESFNVLIKEIRSLGIDIELE 1355
Cdd:PRK08565 1039 ----KTTIYvcelcghiawydrrKNKyvcpIHGDkgniSPVE--VSYAFKLLLQELMSMGISPRLK 1098
|
|
| RNA_pol_Rpb2_1 |
pfam04563 |
RNA polymerase beta subunit; RNA polymerases catalyze the DNA dependent polymerization of RNA. ... |
26-505 |
2.55e-75 |
|
RNA polymerase beta subunit; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the protrusion domain. The other lobe (pfam04561) is nested within this domain.
Pssm-ID: 367994 [Multi-domain] Cd Length: 396 Bit Score: 255.77 E-value: 2.55e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 26 YLLAIQLDSYREFLQAGATKEqfrdVGLHAAFKSVFPIISYSGNAA---LEYVGYRLGEPAFDVK----------ECVLR 92
Cdd:pfam04563 1 GLVRQQLDSFNEFVDNDLQKI----IDENALIESEFEIQHPGENGDklsLKFGQIRLGKPMFDETdgstreiypqECRLR 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 93 GVTFAVPLRVKVRLIIFDREssnkaikDIKEQEVYMGEIPLMTEN------------------------GTFIINGTERV 148
Cdd:pfam04563 77 NLTYSAPLYVDLELSVYNGE-------DIKPIEVFIGRLPIMLRSnacilsgateselvklgecpldpgGYFIINGSEKV 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 149 IVSQLHRS---PGVFFDHDRGKTHSSGKLLYSARI--IPYRGSWLDF-EFDPKDCVFVRIDRRRK-LPASVLLRALGYST 221
Cdd:pfam04563 150 IVAQEHRSrnhPIVFKKADPKKRGSVASVRSSAEIsvRPDSTSWVNVlEYLSNGTIYFKFPYIKKeIPIVIILRALGFTS 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 222 E-EILNAFyatnVFHIKGETLNLELVPQrlrgevasidikdgsgkviVEQGRRITARHInqlekagvsqlEVPFDYLIGR 300
Cdd:pfam04563 230 DrEIFELI----CYDVNDQQLQEELLPS-------------------LEEGFKIRIQTQ-----------EQALDYIGGR 275
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 301 tiakaivhpatgeiiaecnteltldllakvakaqvvrietlytndidcgpfisdtlkidntsnqleaLVEIYRMMRPGEP 380
Cdd:pfam04563 276 -------------------------------------------------------------------GRAIFRMGRPREP 288
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 381 PTKEAAETLFGNLFFSAERYDLSAVGRMKFnrrigrteiegpgvlskedIIDVLKTLVDIRNGKGIVDDIDHLGNRRVRC 460
Cdd:pfam04563 289 RIKYAEEILQKEVLPHLGTYELDETKKAYF-------------------IGYMIRRLLLLALGRREVDDRDHLGNKRLRL 349
|
490 500 510 520
....*....|....*....|....*....|....*....|....*..
gi 489205283 461 VGEMAENQFRVGLVRVERAVKERL--SMAESEGLMPQDLINAKPVAA 505
Cdd:pfam04563 350 AGPLLASLFRVLFKKLVRDVRERLqkVLGSPDDLMLQLLVNAKPITS 396
|
|
| rpoB_arch |
TIGR03670 |
DNA-directed RNA polymerase subunit B; This model represents the archaeal version of ... |
601-1357 |
2.49e-53 |
|
DNA-directed RNA polymerase subunit B; This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.
Pssm-ID: 274713 [Multi-domain] Cd Length: 599 Bit Score: 197.94 E-value: 2.49e-53
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 601 DSLVTDEIV-FLSAIEEADHVIAQASATLNEKgqlvdelvavrHlneftvkapedvTLMDVSPKQVVSVAASLIPFLEHD 679
Cdd:TIGR03670 84 DDLVKQGVIeYLDAEEEENAYIALDPEELTPE-----------H------------THLEIDPSAILGIIASTIPYPEHN 140
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 680 DANRALMGSNMQRQAVPTLRADKPLvgtgmernvardsgvcvvarrggvidsvdasRVVVRVaddevetgeagvdiyNLT 759
Cdd:TIGR03670 141 QSPRNTMGAAMAKQSLGLYAANYRI-------------------------------RLDTRG---------------HLL 174
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 760 KYTrsnqntcinQRPLV-SKGDVVARGDilaDGPStdmgelalGQNMRVAFMPWNGFNFEDSICLSERVVQEDRFTTIHI 838
Cdd:TIGR03670 175 HYP---------QKPLVkTRVLELIGYD---DRPA--------GQNFVVAVMSYEGYNIEDALIMNKASIERGLARSTFF 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 839 QELTCVARDTKLGPE-EITADIPNV----GEAALNKLDEAGIVYVGAEVQAGDILVGKVTPkgetqltP---EEkllRAI 910
Cdd:TIGR03670 235 RTYEAEERRYPGGQEdRFEIPEPDVrgyrGEEAYKHLDEDGIVYPEVEVKGGDVLIGKTSP-------PrflEE---LRE 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 911 FGEKASDVKDTSLRVPTGTKGtVIDvQVFTRDGVERDsralsiekmqldqirkdlneefrivegatferlraalvgakae 990
Cdd:TIGR03670 305 FGLVTERRRDTSVTVRHGEKG-IVD-KVIITETEEGN------------------------------------------- 339
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 991 ggpalkkgteitddyldglergqwfklrmaddalneqlekaqayisdrrqllddkfedkkrklqqgddlapgvlKIVKVY 1070
Cdd:TIGR03670 340 --------------------------------------------------------------------------KLVKVR 345
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1071 LAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGLAAKGLGEKINrmle 1150
Cdd:TIGR03670 346 VRDLRIPELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLEMIAGKVAALEGRRVD---- 421
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1151 eqrkvaelrkflheiyneiggreenldelgdneilalaknlrggvpmATPvFDGAKEREIKAMLKLADLPESGQMRLFDG 1230
Cdd:TIGR03670 422 -----------------------------------------------GTP-FEGEPEEELRKELLKLGFKPDGKEVMYDG 453
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1231 RTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKS 1310
Cdd:TIGR03670 454 ITGEKLEAEIFIGVIYYQKLHHMVADKIHARSRGPVQVLTRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKERLLDES 533
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 489205283 1311 DDV--------------NGRTKMYKNIVDGD----HRMEagMPESFNVLIKEIRSLGIDIELETE 1357
Cdd:TIGR03670 534 DKYvvyvcencghiaweDKRKGTAYCPVCGEtgdiSPVE--MSYAFKLLLDELKSLGISPRLELG 596
|
|
| PRK07225 |
PRK07225 |
DNA-directed RNA polymerase subunit B'; Validated |
1065-1357 |
6.18e-44 |
|
DNA-directed RNA polymerase subunit B'; Validated
Pssm-ID: 235972 [Multi-domain] Cd Length: 605 Bit Score: 170.14 E-value: 6.18e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1065 KIVKVYLAIKRRIQPGDKMAGRHGNKGVVSVIMPVEDMPHDANGTPVDIVLNPLGVPSRMNVGQILETHLGlaakglgek 1144
Cdd:PRK07225 346 RLVKVRVRDLRIPELGDKFASRHGQKGVIGLIVPQEDMPFTESGVVPDLIINPHAIPSRMTVGHVLEMIGG--------- 416
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1145 inrmleeqrKVAELRkflheiyneigGREENldelgdneilalaknlrggvpmATPvFDGAKEREIKAMLKLADLPESGQ 1224
Cdd:PRK07225 417 ---------KVGSLE-----------GRRVD----------------------GTA-FSGEDEEDLREALEKLGFEHTGK 453
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1225 MRLFDGRTGNQFERPTTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQE 1304
Cdd:PRK07225 454 EVMYDGITGEKIEAEIFVGVIYYQKLHHMVANKLHARSRGPVQVLTRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKE 533
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489205283 1305 MLTVKSDDVN-------GRTKMY---KNIV--------DGDHRMEagMPESFNVLIKEIRSLGIDIELETE 1357
Cdd:PRK07225 534 RLLDESDKVEiyvcakcGMIAIYdkkRNRKycpicgeeTDIYPVE--MSYAFKLLLDELKSLGIAPRLELE 602
|
|
| RNA_pol_Rpb2_3 |
pfam04565 |
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ... |
518-585 |
4.76e-37 |
|
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 3, s also known as the fork domain and is proximal to catalytic site.
Pssm-ID: 428011 [Multi-domain] Cd Length: 67 Bit Score: 133.42 E-value: 4.76e-37
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489205283 518 QFMDQNNPLSEITHKRRVSAlGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLATYAR 585
Cdd:pfam04565 1 QVLDRTNYLSTLSHLRRVNS-PRGGLFREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALYAR 67
|
|
| RNA_pol_Rpb2_7 |
pfam04560 |
RNA polymerase Rpb2, domain 7; RNA polymerases catalyze the DNA dependent polymerization of ... |
1281-1357 |
7.44e-34 |
|
RNA polymerase Rpb2, domain 7; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain comprised of the structural domains anchor and clamp. The clamp region (C-terminal) contains a zinc-binding motif. The clamp region is named due to its interaction with the clamp domain found in Rpb1. The domain also contains a region termed "switch 4". The switches within the polymerase are thought to signal different stages of transcription.
Pssm-ID: 461355 [Multi-domain] Cd Length: 87 Bit Score: 125.39 E-value: 7.44e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 1281 GGQRFGEMEVWALEAYGAAYTLQEMLTVKSD----DVNGRTKMYKN-----IVDGDHRMEAG-MPESFNVLIKEIRSLGI 1350
Cdd:pfam04560 1 GGLRFGEMERWALIAYGAAHTLQERLTIKSDayevDVCGRCGLYAAynkcpICKGETDISPGyIPESFKLLFQELQSLGI 80
|
....*..
gi 489205283 1351 DIELETE 1357
Cdd:pfam04560 81 DPRLLLE 87
|
|
| RNA_pol_Rpb2_45 |
pfam10385 |
RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent ... |
596-661 |
1.42e-27 |
|
RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared with three in eukaryotes (not including mitochondrial or chloroplast polymerases). This domain in prokaryotes spans the gap between domains 4 and 5 of the yeast protein. It is also known as the external 1 region of the polymerase and is bound in association with the external 2 region.
Pssm-ID: 463067 [Multi-domain] Cd Length: 66 Bit Score: 106.68 E-value: 1.42e-27
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489205283 596 YRVVKDSLVTDEIVFLSAIEEADHVIAQASATLNEKGQLVDELVAVRHLNEFTVKAPEDVTLMDVS 661
Cdd:pfam10385 1 YRKVEDGKVTDEIVYLTADEEDGYVIAQANAPLDEDGRFVDERVSARYRGEFPLVPPEEVDYMDVS 66
|
|
| PRK09606 |
PRK09606 |
DNA-directed RNA polymerase subunit B''; Validated |
443-584 |
3.82e-21 |
|
DNA-directed RNA polymerase subunit B''; Validated
Pssm-ID: 236587 [Multi-domain] Cd Length: 494 Bit Score: 98.87 E-value: 3.82e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489205283 443 GKGIVDDIDHLGNRRVRCVGEMAENQFRVGLVRVERAVKERLSMAESEGLMP--QDLINAKPVAAAIKEFF-------GS 513
Cdd:PRK09606 323 GRREEDDKDHYANKRLKLAGDLMEDLFRVAFNRLARDVKYQLERANMRNRELsiKTAVRSDVLTERLEHAMatgnwvgGR 402
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489205283 514 SQLSQFMDQNNPLSEITHKRRVSAlgpgGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLINSLATYA 584
Cdd:PRK09606 403 TGVSQLLDRTDYMATLSHLRRVVS----PLSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFAQMV 469
|
|
| RNA_pol_Rpb2_2 |
pfam04561 |
RNA polymerase Rpb2, domain 2; RNA polymerases catalyze the DNA dependent polymerization of ... |
155-227 |
2.12e-09 |
|
RNA polymerase Rpb2, domain 2; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 1 (DRI).
Pssm-ID: 398318 [Multi-domain] Cd Length: 185 Bit Score: 58.51 E-value: 2.12e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489205283 155 RSPGVFF--DHDRGKTHSSgkllYSARIIPYRGSWLDFEFDPKDCVFVRIDRRRKLPASVLLRALG-YSTEEILNA 227
Cdd:pfam04561 1 RSNGIYVekELDKNGIIAT----YTSSLISNRGSWLKLEIDGKTLIWSRPSKKRKIPIVIFLKALGlVSDREILDR 72
|
|
| rpoC2 |
PRK02597 |
DNA-directed RNA polymerase subunit beta'; Provisional |
261-335 |
1.81e-04 |
|
DNA-directed RNA polymerase subunit beta'; Provisional
Pssm-ID: 235052 [Multi-domain] Cd Length: 1331 Bit Score: 46.14 E-value: 1.81e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489205283 261 DGSGKVIVEQGRRITARHINQLEKAGVSQLEVPF-DYLIGRTIAKAIVHPAtGEIIAECNTELTLDLLAKVAKAQV 335
Cdd:PRK02597 202 DVSQDVIVREEDCGTTRGIVVEAMDDGDRVLIPLgDRLLGRVLAEDVVDPE-GEVIAERNTAIDPDLAKKIEKAGV 276
|
|
| PRK00566 |
PRK00566 |
DNA-directed RNA polymerase subunit beta'; Provisional |
295-339 |
2.65e-04 |
|
DNA-directed RNA polymerase subunit beta'; Provisional
Pssm-ID: 234794 [Multi-domain] Cd Length: 1156 Bit Score: 45.44 E-value: 2.65e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 489205283 295 DYLIGRTIAKAIVHPATGEIIAECNTELTLDLLAKVAKAQVVRIE 339
Cdd:PRK00566 804 ERILGRVLAEDVVDPETGEVIVPAGTLIDEEIADKIEEAGIEEVK 848
|
|
| |
