|
Name |
Accession |
Description |
Interval |
E-value |
| rpoB |
PRK00405 |
DNA-directed RNA polymerase subunit beta; Reviewed |
1-1266 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta; Reviewed
Pssm-ID: 234749 [Multi-domain] Cd Length: 1112 Bit Score: 2135.57 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1 MQKTKRQRKSFSKIQTIVDLPDLLNIQLESFKEFVQPDVPPEkreNKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKY 80
Cdd:PRK00405 5 YTGKKRIRKSFGKIKEVLELPNLLEIQLDSFDWFLQLDVPPE---DEGLEEVFRSIFPIEDFNGNLSLEFVSYELGEPKY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 81 SVDECQERGNTYAAPLKAKLRLSIRDpesdSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEM 160
Cdd:PRK00405 82 DVEECKERGLTYSAPLRVKLRLINKE----TGEIK---EQEVYMGDIPLMTENGTFIINGTERVIVSQLHRSPGVYFDHD 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 161 KH--PNDTKIYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYsTDREIYELFDMVEEVGVD-DKKIES 237
Cdd:PRK00405 155 KDktSSGKLLYSARIIPYRGSWLEFEFDPKDILYVRIDRRRKLPVTVLLRALGY-SDEEILDLFYEKEEFGKEiEVPVEY 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 238 YFGKTVLMDVIDYETGEILLEKDSTLDQESlanlrahhiekvkfvksESPYspeiINNTIRKDPTKSEKEALEMIYRHLR 317
Cdd:PRK00405 234 LLGKVLAEDIVDEETGEVLAEANDEITEEL-----------------DGPY----IRNTLEKDPTSSREEALVEIYRRLR 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 318 SGDAPDLETARNLVFRFFFNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNR 397
Cdd:PRK00405 293 PGEPPTVEAARSLLENLFFDPKRYDLSKVGRYKLNKKLGLDEDEDVRVLTKEDIIATIKYLINLRNGKGEVDDIDHLGNR 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 398 RIKTVGEQLAAQMSVGLSRLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLS 477
Cdd:PRK00405 373 RVRSVGELLQNQFRIGLSRMERAVRERMSLQDLDTLTPQDLINAKPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLS 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 478 ALGPGGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDE 557
Cdd:PRK00405 453 ALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKVTDEIVYLTADEE 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 558 ENLRVAQANAPIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVP 637
Cdd:PRK00405 533 DNYVIAQANAPLDEDGRFVDELVTARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVP 612
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 638 LLKPEAPIVGTGVEAKVALDSRAMIVCRRSGVVERVDATKIVVRADDLDAdaelnveslldfDSDETDVYPLQKFKRSNQ 717
Cdd:PRK00405 613 LLRPEAPLVGTGMERRVARDSGAVVVAKRDGVVEYVDASRIVVRVEELDP------------GEDGVDIYNLIKFQRSNQ 680
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 718 DTCTNQIPLVREGDRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVR 797
Cdd:PRK00405 681 NTCINQRPIVKVGDRVEKGDVLADGPSTDNGELALGQNVLVAFMPWNGYNFEDAILISERLVKEDVFTSIHIEEYEIEAR 760
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 798 DTKRGEEELTREIPNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAP 877
Cdd:PRK00405 761 DTKLGPEEITRDIPNVSEEALRNLDESGIVRIGAEVKPGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVKDTSLRVP 840
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 878 TGLHGTVIATKLFSRkkrdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvl 957
Cdd:PRK00405 841 HGEEGTVIDVKVFTR----------------------------------------------------------------- 855
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 958 kkdllenldfdaldltrplvddaernelvaeileqyykkldslqedyenqkfkVTVGDELPPGIVQMAKVYVAKKRKLMI 1037
Cdd:PRK00405 856 -----------------------------------------------------IEQGDELPPGVNKLVKVYIAQKRKIQV 882
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1038 GDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGASLEEVQ 1117
Cdd:PRK00405 883 GDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGIKFATPVFDGAKEEEIK 962
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1118 TEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVW 1197
Cdd:PRK00405 963 ELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLHHLVDDKIHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVW 1042
|
1210 1220 1230 1240 1250 1260
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1176173580 1198 ALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVELLNLKDE 1266
Cdd:PRK00405 1043 ALEAYGAAYTLQEMLTVKSDDVVGRTKVYEAIVKGENIPEPGIPESFNVLVKELQSLGLDVELLDEDGN 1111
|
|
| rpoB |
TIGR02013 |
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ... |
4-1260 |
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: 1846.23 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 4 TKRQRKSFSKIQTIVDLPDLLNIQLESFKEFVQPDVPPEKRENKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKYSVD 83
Cdd:TIGR02013 1 KKRIRIDFGKIPEVLEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDYTGNIELEYLSYRLGEPKYSVE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 84 ECQERGNTYAAPLKAKLRLSIRDpESDSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMK-- 161
Cdd:TIGR02013 81 ECKERGLTYSAPLKVKLRLINKE-EDGTKEIK---EQDVYMGDIPLMTDRGTFIINGAERVVVSQLHRSPGVFFSSEKdt 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 162 HPNDTKIYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTDREIYELFDmveevgvddkkiesyfgk 241
Cdd:TIGR02013 157 TKSGKVLFSARIIPYRGSWLEFETDKKDVLYVRIDRKRKLPATVLLRALGYTIDTLILNRLG------------------ 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 242 tvlmdvidyetgeillekdstldqeslanlrahhiekvkfvksespySPEIINNTIRKDPTKSEKEALEMIYRHLRSGDA 321
Cdd:TIGR02013 219 -----------------------------------------------SGEYIRNTLRKDPTNSEEEALVEIYRKLRPGEP 251
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 322 PDLETARNLVFRFFFNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKT 401
Cdd:TIGR02013 252 PTVEAARSLLENLFFDPKRYDLGRVGRYKLNKKLGLDVPESIGVLTKEDIIATIKYLIKLRNGKGEIDDIDHLGNRRIRS 331
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 402 VGEQLAAQMSVGLSRLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGP 481
Cdd:TIGR02013 332 VGELLQNQFRVGLARMERIVRERMSTQDTDTLTPQDLINAKPISAAIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGP 411
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 482 GGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRV--TDEIHYLSADDEEN 559
Cdd:TIGR02013 412 GGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDGKVvvTDEIDYLTADEEDN 491
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 560 LRVAQANAPIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLL 639
Cdd:TIGR02013 492 YVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLL 571
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 640 KPEAPIVGTGVEAKVALDSRAMIVCRRSGVVERVDATKIVVRADDLDADAELNVeslldfdsdetDVYPLQKFKRSNQDT 719
Cdd:TIGR02013 572 RSEAPLVGTGMEAKVARDSGAVIVAKRGGVVEYVDAKRIVIRYDEDEEEPDGGI-----------DIYRLLKYQRSNQDT 640
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 720 CTNQIPLVREGDRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDT 799
Cdd:TIGR02013 641 CINQRPIVSVGDRVEAGDVLADGPSTDLGELALGRNVLVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEYEVEARDT 720
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 800 KRGEEELTREIPNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTG 879
Cdd:TIGR02013 721 KLGPEEITRDIPNVSEEALRNLDENGIVRIGAEVKAGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVRDTSLRVPPG 800
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 880 LHGTVIATKLFSRKKrdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkk 959
Cdd:TIGR02013 801 VEGTVIDVKVFSREQ----------------------------------------------------------------- 815
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 960 dllenldfdaldltrplvddaernelvaeileqyykkldslqedyenqkfkvtvGDELPPGIVQMAKVYVAKKRKLMIGD 1039
Cdd:TIGR02013 816 ------------------------------------------------------GDELPPGVNKLVKVYIAQKRKIQVGD 841
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1040 KMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILD---VMYSTPVFDGASLEEV 1116
Cdd:TIGR02013 842 KMAGRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLGrkgVPIATPVFDGASEEEI 921
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1117 QTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEV 1196
Cdd:TIGR02013 922 KEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEV 1001
|
1210 1220 1230 1240 1250 1260
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1176173580 1197 WALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVEL 1260
Cdd:TIGR02013 1002 WALEAYGAAYTLQEMLTVKSDDVVGRTKAYEAIVKGENVPEPGIPESFNVLIKELQSLGLDIEL 1065
|
|
| RpoB |
COG0085 |
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ... |
8-1262 |
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: 1737.67 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 8 RKSFSKIQTIVDLPDLLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKYSVDECQE 87
Cdd:COG0085 1 RWSFAKIKEPLELPNLLEIQLDSFNWFL----------EEGLQEIFDEISPIEDFTGNLSLEFGDYRLGEPKYTPEECKE 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 88 RGNTYAAPLKAKLRLSirdpESDSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMKHPNDTK 167
Cdd:COG0085 71 RDLTYAAPLYVKVRLV----NKETGEIK---EQEVFMGDFPLMTDSGTFIINGTERVIVSQLVRSPGVYFVEEEDKSGKD 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 168 IYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTDREIYELFDmveevgvddkkiesyfgktvlmDV 247
Cdd:COG0085 144 LYSAKVIPSRGAWLEFETDKDGTIYVRIDRKRKIPVTVLLRALGLETDEEILEAFG----------------------DD 201
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 248 IDYEtgeillekdstldqeslanlrahhiekvkfvksespyspeIINNTIRKDPTKSEKEALEMIYRHLRSGDAPDLETA 327
Cdd:COG0085 202 PIQE----------------------------------------YILATLEKDNTKTQEEALLEIYRKLRPGEPPTIERA 241
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 328 RNLVFRFFFNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLA 407
Cdd:COG0085 242 EQLLDNLFFDPKRYDLAHVGRYKINKKLGLDVPPEDRVLTAEDIVATIKYLLELHLGEREPDDIDHLGNRRVRLVGELLQ 321
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 408 AQMSVGLSRLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGPGGLTRE 487
Cdd:COG0085 322 NQFRVGLSRMERVVRERMTTQDVEAITPQSLINIRPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLSRE 401
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 488 RAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDEENLRVAQANA 567
Cdd:COG0085 402 RAGFEVRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVNEYGFIETPYRKVENGKVTDEIEYLTADEEENYYIAQANA 481
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 568 PIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLLKPEAPIvg 647
Cdd:COG0085 482 PLDEDGNFLEERVLVRYRGEEVLVPPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRALMGANMQRQAVPLLRPEAPL-- 559
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 648 tgveakvaldsramivcrrsgvvervdatkivvraddldadaelnveslldfdsdetDVYPLQKFKRSNQDTCTNQIPLV 727
Cdd:COG0085 560 ---------------------------------------------------------LHYPLQKFQRSNQGTCINQRPIV 582
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 728 REGDRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELT 807
Cdd:COG0085 583 RVGDRVEKGDVLADGPATDNGELALGQNLLVAFMPWEGYNYEDAIIISERLVKDDVLTSIHIEEYEIEARDTKLGPEEIT 662
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 808 REIPNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTGLHGTVIAT 887
Cdd:COG0085 663 RDIPNVSEEALRNLDEDGIIRIGAEVKGGDILVGKVTPKGETELTPEERLLRAIFGEKAREVRDTSLRVPHGEKGKVIDV 742
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 888 KLFSRKKrdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldf 967
Cdd:COG0085 743 KVFSREE------------------------------------------------------------------------- 749
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 968 daldltrplvddaernelvaeileqyykkldslqedyenqkfkvtvGDELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGN 1047
Cdd:COG0085 750 ----------------------------------------------GDELPPGVNKLVRVYVAQKRKIEVGDKLAGRHGN 783
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1048 KGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGASLEEVQTEMEEAGLPR 1127
Cdd:COG0085 784 KGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVLETHLGWAAALLGRRVATPVFDGAPEEEIRELLEKAGLPP 863
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1128 DGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHT 1207
Cdd:COG0085 864 DGKEVLYDGRTGEPFDNPVTVGYMYYLKLHHMVDDKIHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAYT 943
|
1210 1220 1230 1240 1250
....*....|....*....|....*....|....*....|....*....|....*
gi 1176173580 1208 LQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVELLN 1262
Cdd:COG0085 944 LQERLTIKSDDVCGRVKVYEAIVKGENIPEPGIPESFKVLLKELQSLGLDVEVLS 998
|
|
| RNA_pol_B_RPB2 |
cd00653 |
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ... |
23-1260 |
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: 906.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 23 LLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIED--SRENFVLDFISYYLEKP---------KYSVDECQERGNT 91
Cdd:cd00653 1 LVKQQIDSFNYFL----------NVGLQEIVKSIPPITDtdDDGRLKLKFGDIYLGKPkveeggvtrKLTPNECRLRDLT 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 92 YAAPLKAKLRLSIRDpesdsgeIIDSMEQTVYLGNIPMMTE------------------------KGTFIINGAERIVVS 147
Cdd:cd00653 71 YSAPLYVDIRLTVND-------KGKIKEQEVFIGEIPIMLRsklcnlngltpeeliklgecpldpGGYFIINGTEKVIIN 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 148 QLHRSPGAFFDEmkHPNDTKIYSARIIP----LRGSWLEFVTDI-NDVMYFYIDRRKKfpvttllraigystdreiyelf 222
Cdd:cd00653 144 QEQRSPNVIIVE--DSKGKRIYTKTSIPsyspYRGSWLEVKSDKkKDRIYVRIDLKRQ---------------------- 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 223 dmveevgvddkkiesyfgktvlmdvidyetgeillekdstldqeslanlrahhiekvkfvksespyspeiinntirkdpt 302
Cdd:cd00653 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 303 kseKEALEMIYRHLrsgdapdletarnlvfrfffnpkrydlgevgryrlnnklglsidpdvtvltkEDIIAIINYLLDLR 382
Cdd:cd00653 200 ---EEALKYIGKRF----------------------------------------------------EDLIYMIRKLILLV 224
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 383 NGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLSRLARTVKERMN--LRDNEELTPQDLVNARTILSVINTFFGTSQ---- 456
Cdd:cd00653 225 LGKGKLDDIDHLGNKRVRLAGELLQNLFRSGLKRLEREVKEKLQkqLSKKKDLTPQLLINSKPITSGIKEFLATGNwgsk 304
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 457 --------LSQFMDQTNPLAEMTHKRRLSAlgpGGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRIN 528
Cdd:cd00653 305 rflmqrsgLSQVLDRLNPLSELSHKRRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS 381
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 529 klGFIETPYRKVVdgrvtdeihylsaddeenlrvaqanapidekgnfindrvqvrfrgdfplvtpKEVDYMDVSPTQMVS 608
Cdd:cd00653 382 --GRIERPYRIVE----------------------------------------------------KEVTHIEISPSQILS 407
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 609 AAASLIPFLEHDDANRALMGSNMQRQSVP----------------LLKPEAPIVGTGVEAKVALdsramivcrrsgvver 672
Cdd:cd00653 408 VAASLIPFPEHNQSPRNLYQSNMQKQAVGtpalnqqyrmdtklylLLYPQKPLVGTGIEEYIAF---------------- 471
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 673 vdatkivvraddldadaelnveslldfdsdetdvyplqkfkrsnqdtctnqiplvregdrvqkgdvladgcategGELAL 752
Cdd:cd00653 472 ---------------------------------------------------------------------------GELPL 476
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 753 GRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELTR-EIPNVSEEATKDLDENGIIRVGA 831
Cdd:cd00653 477 GQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTKNGPEEITRgDIPNVSEEKLKNLDEDGIIRPGA 556
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 832 EVHEGDILVGKVTPKGETDPTPeekllkaIFGEKAGDVKDASLKAPTGLHGTVIATKLFSRkkrdaknkrlekkelekve 911
Cdd:cd00653 557 RVEPGDILVGKITPKGETESTP-------IFGEKARDVRDTSLKYPGGEKGIVDDVKIFSR------------------- 610
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 912 kwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldfdaldltrplvddaernelvaeile 991
Cdd:cd00653 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 992 qyykkldslqedyenqkfkvtvgdELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDI 1071
Cdd:cd00653 611 ------------------------ELNDGGNKLVKVYIRQKRKPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDI 666
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1072 VLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFI 1151
Cdd:cd00653 667 ILNPHGFPSRMTIGQLLESLLGKAGALLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPLEAPIFVGPV 746
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1152 YIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIV- 1230
Cdd:cd00653 747 YYQRLKHMVDDKIHARSTGPYSLLTRQPLKGRSRGGGQRFGEMERDALIAHGAAYLLQERLTIKSDDVVARVCVKCGIIl 826
|
1290 1300 1310
....*....|....*....|....*....|....*....
gi 1176173580 1231 ---------KGESLPDPGVPESFNVLIRELMGLGLDVEL 1260
Cdd:cd00653 827 sanlcrlckKGTNISKVGIPYAFKLLFQELQSMNIDPRL 865
|
|
| RNA_pol_Rpb2_6 |
pfam00562 |
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ... |
663-1185 |
9.18e-163 |
|
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: 489.73 E-value: 9.18e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 663 VCRRSGVVERVDATKIVVRADdldadaelnveslldFDSDETDVYPLQKFKRSNQDT---CTNQIPLVREGdRVQKGDVl 739
Cdd:pfam00562 1 VASLIPFVDHNQSPRNTYQCA---------------MGKQAMGIYTLNKFYRSDQNTyvlCYPQKPLVKTG-AVEAGGF- 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 740 adgcategGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEvlETQVRDTKRGE-EELTREIPNVSEEAT 818
Cdd:pfam00562 64 --------GELPLGQNAIVAVMSYTGYNQEDAIIINKSSVDRGFFTSIHIK--EIEARKTKLGPiEEITRDIPNVSEEAL 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 819 KDLDENGIIRVGAEVHEGDILVGKVtpkGETDPTpeeKLLKAIFGEKAGDVKDASLKAPTGLHGTVIATKLFsrkkrdak 898
Cdd:pfam00562 134 KKLDEDGIVRVGAEVKPGDILVGKV---GPTELT---KLLRAIFGEKARDVKDTSLKVPPGEEGVVDDVIVF-------- 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 899 nkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldfdaldltrplvd 978
Cdd:pfam00562 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 979 daernelvaeileqyykkldslqedyenqkfkvtvgdELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGNKGVVATIVPVE 1058
Cdd:pfam00562 200 -------------------------------------ELPPGGIKMVKVYIRQKRKPEVGDKFASRHGQKGVVSRILPQE 242
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1059 DMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGAS--LEEVQTEMEEAGLPRDGKSILFDG 1136
Cdd:pfam00562 243 DMPFTEDGIPPDIILNPHGVPSRMTIGQLLETHLGKAAALLGVFVDATPFDGASteVEDIGELLEKAGYNYYGKEVLYDG 322
|
490 500 510 520
....*....|....*....|....*....|....*....|....*....
gi 1176173580 1137 RTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQ 1185
Cdd:pfam00562 323 RTGEPFEAPIFVGPIYYQKLKHMVDDKIHARSTGPYSLLTRQPLGGRAR 371
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| rpoB |
PRK00405 |
DNA-directed RNA polymerase subunit beta; Reviewed |
1-1266 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta; Reviewed
Pssm-ID: 234749 [Multi-domain] Cd Length: 1112 Bit Score: 2135.57 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1 MQKTKRQRKSFSKIQTIVDLPDLLNIQLESFKEFVQPDVPPEkreNKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKY 80
Cdd:PRK00405 5 YTGKKRIRKSFGKIKEVLELPNLLEIQLDSFDWFLQLDVPPE---DEGLEEVFRSIFPIEDFNGNLSLEFVSYELGEPKY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 81 SVDECQERGNTYAAPLKAKLRLSIRDpesdSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEM 160
Cdd:PRK00405 82 DVEECKERGLTYSAPLRVKLRLINKE----TGEIK---EQEVYMGDIPLMTENGTFIINGTERVIVSQLHRSPGVYFDHD 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 161 KH--PNDTKIYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYsTDREIYELFDMVEEVGVD-DKKIES 237
Cdd:PRK00405 155 KDktSSGKLLYSARIIPYRGSWLEFEFDPKDILYVRIDRRRKLPVTVLLRALGY-SDEEILDLFYEKEEFGKEiEVPVEY 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 238 YFGKTVLMDVIDYETGEILLEKDSTLDQESlanlrahhiekvkfvksESPYspeiINNTIRKDPTKSEKEALEMIYRHLR 317
Cdd:PRK00405 234 LLGKVLAEDIVDEETGEVLAEANDEITEEL-----------------DGPY----IRNTLEKDPTSSREEALVEIYRRLR 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 318 SGDAPDLETARNLVFRFFFNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNR 397
Cdd:PRK00405 293 PGEPPTVEAARSLLENLFFDPKRYDLSKVGRYKLNKKLGLDEDEDVRVLTKEDIIATIKYLINLRNGKGEVDDIDHLGNR 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 398 RIKTVGEQLAAQMSVGLSRLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLS 477
Cdd:PRK00405 373 RVRSVGELLQNQFRIGLSRMERAVRERMSLQDLDTLTPQDLINAKPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLS 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 478 ALGPGGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDE 557
Cdd:PRK00405 453 ALGPGGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLATYARVNEYGFIETPYRKVVDGKVTDEIVYLTADEE 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 558 ENLRVAQANAPIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVP 637
Cdd:PRK00405 533 DNYVIAQANAPLDEDGRFVDELVTARYKGEFVLVPPEEVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVP 612
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 638 LLKPEAPIVGTGVEAKVALDSRAMIVCRRSGVVERVDATKIVVRADDLDAdaelnveslldfDSDETDVYPLQKFKRSNQ 717
Cdd:PRK00405 613 LLRPEAPLVGTGMERRVARDSGAVVVAKRDGVVEYVDASRIVVRVEELDP------------GEDGVDIYNLIKFQRSNQ 680
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 718 DTCTNQIPLVREGDRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVR 797
Cdd:PRK00405 681 NTCINQRPIVKVGDRVEKGDVLADGPSTDNGELALGQNVLVAFMPWNGYNFEDAILISERLVKEDVFTSIHIEEYEIEAR 760
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 798 DTKRGEEELTREIPNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAP 877
Cdd:PRK00405 761 DTKLGPEEITRDIPNVSEEALRNLDESGIVRIGAEVKPGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVKDTSLRVP 840
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 878 TGLHGTVIATKLFSRkkrdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvl 957
Cdd:PRK00405 841 HGEEGTVIDVKVFTR----------------------------------------------------------------- 855
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 958 kkdllenldfdaldltrplvddaernelvaeileqyykkldslqedyenqkfkVTVGDELPPGIVQMAKVYVAKKRKLMI 1037
Cdd:PRK00405 856 -----------------------------------------------------IEQGDELPPGVNKLVKVYIAQKRKIQV 882
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1038 GDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGASLEEVQ 1117
Cdd:PRK00405 883 GDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAAKGLGIKFATPVFDGAKEEEIK 962
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1118 TEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVW 1197
Cdd:PRK00405 963 ELLEEAGLPEDGKTTLYDGRTGEPFDRPVTVGYMYMLKLHHLVDDKIHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVW 1042
|
1210 1220 1230 1240 1250 1260
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1176173580 1198 ALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVELLNLKDE 1266
Cdd:PRK00405 1043 ALEAYGAAYTLQEMLTVKSDDVVGRTKVYEAIVKGENIPEPGIPESFNVLVKELQSLGLDVELLDEDGN 1111
|
|
| rpoB |
TIGR02013 |
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ... |
4-1260 |
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: 1846.23 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 4 TKRQRKSFSKIQTIVDLPDLLNIQLESFKEFVQPDVPPEKRENKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKYSVD 83
Cdd:TIGR02013 1 KKRIRIDFGKIPEVLEVPNLLEIQLDSYDWFLQQDTPPEKRKEEGLEEVFKSIFPIEDYTGNIELEYLSYRLGEPKYSVE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 84 ECQERGNTYAAPLKAKLRLSIRDpESDSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMK-- 161
Cdd:TIGR02013 81 ECKERGLTYSAPLKVKLRLINKE-EDGTKEIK---EQDVYMGDIPLMTDRGTFIINGAERVVVSQLHRSPGVFFSSEKdt 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 162 HPNDTKIYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTDREIYELFDmveevgvddkkiesyfgk 241
Cdd:TIGR02013 157 TKSGKVLFSARIIPYRGSWLEFETDKKDVLYVRIDRKRKLPATVLLRALGYTIDTLILNRLG------------------ 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 242 tvlmdvidyetgeillekdstldqeslanlrahhiekvkfvksespySPEIINNTIRKDPTKSEKEALEMIYRHLRSGDA 321
Cdd:TIGR02013 219 -----------------------------------------------SGEYIRNTLRKDPTNSEEEALVEIYRKLRPGEP 251
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 322 PDLETARNLVFRFFFNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKT 401
Cdd:TIGR02013 252 PTVEAARSLLENLFFDPKRYDLGRVGRYKLNKKLGLDVPESIGVLTKEDIIATIKYLIKLRNGKGEIDDIDHLGNRRIRS 331
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 402 VGEQLAAQMSVGLSRLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGP 481
Cdd:TIGR02013 332 VGELLQNQFRVGLARMERIVRERMSTQDTDTLTPQDLINAKPISAAIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGP 411
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 482 GGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRV--TDEIHYLSADDEEN 559
Cdd:TIGR02013 412 GGLTRERAGFEVRDVHPTHYGRICPIETPEGPNIGLINSLSTYARVNEYGFIETPYRKVKDGKVvvTDEIDYLTADEEDN 491
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 560 LRVAQANAPIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLL 639
Cdd:TIGR02013 492 YVIAQANAPLDENGRFVEDLVVARYRGEITLVSPDQVDYMDVSPKQVVSVAASLIPFLEHDDANRALMGSNMQRQAVPLL 571
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 640 KPEAPIVGTGVEAKVALDSRAMIVCRRSGVVERVDATKIVVRADDLDADAELNVeslldfdsdetDVYPLQKFKRSNQDT 719
Cdd:TIGR02013 572 RSEAPLVGTGMEAKVARDSGAVIVAKRGGVVEYVDAKRIVIRYDEDEEEPDGGI-----------DIYRLLKYQRSNQDT 640
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 720 CTNQIPLVREGDRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDT 799
Cdd:TIGR02013 641 CINQRPIVSVGDRVEAGDVLADGPSTDLGELALGRNVLVAFMPWNGYNYEDAILISERLVKDDVFTSIHIEEYEVEARDT 720
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 800 KRGEEELTREIPNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTG 879
Cdd:TIGR02013 721 KLGPEEITRDIPNVSEEALRNLDENGIVRIGAEVKAGDILVGKVTPKGETELTPEEKLLRAIFGEKARDVRDTSLRVPPG 800
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 880 LHGTVIATKLFSRKKrdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkk 959
Cdd:TIGR02013 801 VEGTVIDVKVFSREQ----------------------------------------------------------------- 815
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 960 dllenldfdaldltrplvddaernelvaeileqyykkldslqedyenqkfkvtvGDELPPGIVQMAKVYVAKKRKLMIGD 1039
Cdd:TIGR02013 816 ------------------------------------------------------GDELPPGVNKLVKVYIAQKRKIQVGD 841
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1040 KMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILD---VMYSTPVFDGASLEEV 1116
Cdd:TIGR02013 842 KMAGRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLGrkgVPIATPVFDGASEEEI 921
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1117 QTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEV 1196
Cdd:TIGR02013 922 KEYLEKAGLPRDGKVRLYDGRTGEQFDRPVTVGYMYMLKLHHLVDDKMHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEV 1001
|
1210 1220 1230 1240 1250 1260
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1176173580 1197 WALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVEL 1260
Cdd:TIGR02013 1002 WALEAYGAAYTLQEMLTVKSDDVVGRTKAYEAIVKGENVPEPGIPESFNVLIKELQSLGLDIEL 1065
|
|
| RpoB |
COG0085 |
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ... |
8-1262 |
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: 1737.67 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 8 RKSFSKIQTIVDLPDLLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKYSVDECQE 87
Cdd:COG0085 1 RWSFAKIKEPLELPNLLEIQLDSFNWFL----------EEGLQEIFDEISPIEDFTGNLSLEFGDYRLGEPKYTPEECKE 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 88 RGNTYAAPLKAKLRLSirdpESDSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMKHPNDTK 167
Cdd:COG0085 71 RDLTYAAPLYVKVRLV----NKETGEIK---EQEVFMGDFPLMTDSGTFIINGTERVIVSQLVRSPGVYFVEEEDKSGKD 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 168 IYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTDREIYELFDmveevgvddkkiesyfgktvlmDV 247
Cdd:COG0085 144 LYSAKVIPSRGAWLEFETDKDGTIYVRIDRKRKIPVTVLLRALGLETDEEILEAFG----------------------DD 201
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 248 IDYEtgeillekdstldqeslanlrahhiekvkfvksespyspeIINNTIRKDPTKSEKEALEMIYRHLRSGDAPDLETA 327
Cdd:COG0085 202 PIQE----------------------------------------YILATLEKDNTKTQEEALLEIYRKLRPGEPPTIERA 241
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 328 RNLVFRFFFNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLA 407
Cdd:COG0085 242 EQLLDNLFFDPKRYDLAHVGRYKINKKLGLDVPPEDRVLTAEDIVATIKYLLELHLGEREPDDIDHLGNRRVRLVGELLQ 321
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 408 AQMSVGLSRLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGPGGLTRE 487
Cdd:COG0085 322 NQFRVGLSRMERVVRERMTTQDVEAITPQSLINIRPVVAAIKEFFGSSQLSQFMDQTNPLSELTHKRRLSALGPGGLSRE 401
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 488 RAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDEENLRVAQANA 567
Cdd:COG0085 402 RAGFEVRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVNEYGFIETPYRKVENGKVTDEIEYLTADEEENYYIAQANA 481
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 568 PIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLLKPEAPIvg 647
Cdd:COG0085 482 PLDEDGNFLEERVLVRYRGEEVLVPPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRALMGANMQRQAVPLLRPEAPL-- 559
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 648 tgveakvaldsramivcrrsgvvervdatkivvraddldadaelnveslldfdsdetDVYPLQKFKRSNQDTCTNQIPLV 727
Cdd:COG0085 560 ---------------------------------------------------------LHYPLQKFQRSNQGTCINQRPIV 582
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 728 REGDRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELT 807
Cdd:COG0085 583 RVGDRVEKGDVLADGPATDNGELALGQNLLVAFMPWEGYNYEDAIIISERLVKDDVLTSIHIEEYEIEARDTKLGPEEIT 662
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 808 REIPNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTGLHGTVIAT 887
Cdd:COG0085 663 RDIPNVSEEALRNLDEDGIIRIGAEVKGGDILVGKVTPKGETELTPEERLLRAIFGEKAREVRDTSLRVPHGEKGKVIDV 742
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 888 KLFSRKKrdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldf 967
Cdd:COG0085 743 KVFSREE------------------------------------------------------------------------- 749
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 968 daldltrplvddaernelvaeileqyykkldslqedyenqkfkvtvGDELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGN 1047
Cdd:COG0085 750 ----------------------------------------------GDELPPGVNKLVRVYVAQKRKIEVGDKLAGRHGN 783
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1048 KGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGASLEEVQTEMEEAGLPR 1127
Cdd:COG0085 784 KGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVLETHLGWAAALLGRRVATPVFDGAPEEEIRELLEKAGLPP 863
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1128 DGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHT 1207
Cdd:COG0085 864 DGKEVLYDGRTGEPFDNPVTVGYMYYLKLHHMVDDKIHARSTGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAYT 943
|
1210 1220 1230 1240 1250
....*....|....*....|....*....|....*....|....*....|....*
gi 1176173580 1208 LQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVELLN 1262
Cdd:COG0085 944 LQERLTIKSDDVCGRVKVYEAIVKGENIPEPGIPESFKVLLKELQSLGLDVEVLS 998
|
|
| PRK09603 |
PRK09603 |
DNA-directed RNA polymerase subunit beta/beta'; |
6-1269 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta/beta';
Pssm-ID: 181983 [Multi-domain] Cd Length: 2890 Bit Score: 1218.62 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 6 RQRKSFSKIQTIVDLPDLLNIQLESFKEFVQPDvppEKRENkGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKYSVDEC 85
Cdd:PRK09603 10 RLRADFTKTPTDLEVPNLLLLQRDSYDSFLYSK---DGKES-GIEKVFKSIFPIQDEHNRITLEYAGCEFGKSKYTVREA 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 86 QERGNTYAAPLKAKLRLSIRDPESDSGE---IIDSMEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMKH 162
Cdd:PRK09603 86 MERGITYSIPLKIKVRLILWEKDTKSGEkngIKDIKEQSIFIREIPLMTERTSFIINGVERVVVNQLHRSPGVIFKEEES 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 163 PNDTK--IYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTdREIYELFDMVEEVGVDDKKI----- 235
Cdd:PRK09603 166 STSLNklIYTGQIIPDRGSWLYFEYDSKDVLYARINKRRKVPVTILFRAMDYQK-QDIIKMFYPLVKVRYENDKYlipfa 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 236 ESYFGKTVLMDVIDYEtGEILLEKDSTLDQESLANLRAHHIEKV---------KFVKSESPYSPEIINNTIRK-DPTKSE 305
Cdd:PRK09603 245 SLDANQRMEFDLKDPQ-GKIILLAGKKLTSRKIKELKENHLEWVeypmdillnRHLAEPVMVGKEVLLDMLTQlDKNKLE 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 306 K-------------------------------EALEM-----------------IYRHLRSGDAPDLETARNLVFRFFFN 337
Cdd:PRK09603 324 KihdlgvqefviindlalghdasiihsfsadsESLKLlkqtekiddenalaairIHKVMKPGDPVTTEVAKQFVKKLFFD 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 338 PKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLSRL 417
Cdd:PRK09603 404 PERYDLTMVGRMKMNHKLGLHVPDYITTLTHEDIITTVKYLMKIKNNQGKIDDRDHLGNRRIRAVGELLANELHSGLVKM 483
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 418 ARTVKERMNLRDN--EELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGPGGLTRERAGFEVRD 495
Cdd:PRK09603 484 QKTIKDKLTTMSGafDSLMPHDLVNSKMITSTIMEFFMGGQLSQFMDQTNPLSEVTHKRRLSALGEGGLVKDRVGFEARD 563
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 496 VHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDEENLRVAQANAPIDEKGNF 575
Cdd:PRK09603 564 VHPTHYGRICPIETPEGQNIGLINTLSTFTRVNDLGFIEAPYKKVVDGKVVGETIYLTAIQEDSHIIAPASTPIDEEGNI 643
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 576 INDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLLKPEAPIVGTGVEAKVA 655
Cdd:PRK09603 644 LGDLIETRVEGEIVLNEKSKVTLMDLSSSMLVGVAASLIPFLEHDDANRALMGTNMQRQAVPLLRSDAPIVGTGIEKIIA 723
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 656 LDSRAMIVCRRSGVVERVDATKIVVRADDlDADAELnveslldfdsdetDVYPLQKFKRSNQDTCTNQIPLVREGDRVQK 735
Cdd:PRK09603 724 RDSWGAIKANRAGVVEKIDSKNIYILGEG-KEEAYI-------------DAYSLQKNLRTNQNTSFNQVPIVKVGDKVEA 789
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 736 GDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELTREIPNVSE 815
Cdd:PRK09603 790 GQIIADGPSMDRGELALGKNVRVAFMPWNGYNFEDAIVVSERITKDDIFTSTHIYEKEVDARELKHGVEEFTADIPDVKE 869
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 816 EATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTGLHGTVIATKLFSRKKR 895
Cdd:PRK09603 870 EALAHLDESGIVKVGTYVSAGMILVGKTSPKGEIKSTPEERLLRAIFGDKAGHVVNKSLYCPPSLEGTVIDVKVFTKKGY 949
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 896 DaKNKRLEKKelekvekwYTAEKQRI-----KRL----RDKKLRRVLLDQKSAGISELD-GGKVVVRAKTVLKKDL--LE 963
Cdd:PRK09603 950 E-KDARVLSA--------YEEEKAKLdmehfDRLtmlnREELLRVSSLLSQAILEEPFShNGKDYKEGDQIPKEEIasIN 1020
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 964 NLDFDALDLTRPLVDDAERNELVAEILEQyyKKldSLQEDYENQKFKVTVGDELPPGIVQMAKVYVAKKRKLMIGDKMAG 1043
Cdd:PRK09603 1021 RFTLASLVKKYSKEVQNHYEITKNNFLEQ--KK--VLGEEHEEKLSILEKDDILPNGVIKKVKLYIATKRKLKVGDKMAG 1096
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1044 RHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKIL------------------------ 1099
Cdd:PRK09603 1097 RHGNKGIVSNIVPVADMPYTADGEPVDIVLNPLGVPSRMNIGQILEMHLGLVGKEFgkqiasmledktkdfakelrakml 1176
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1100 ----------------------------------DVMYSTPVFDGASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNP 1145
Cdd:PRK09603 1177 eianainekdpltihalencsdeelleyakdwskGVKMAIPVFEGISQEKFYKLFELAKIAMDGKMDLYDGRTGEKMRER 1256
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1146 VTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEILTVKSDDVRGRSKA 1225
Cdd:PRK09603 1257 VNVGYMYMIKLHHLVDEKVHARSTGPYSLVTHQPVGGKALFGGQRFGEMEVWALEAYGAAHTLKEMLTIKSDDIRGRENA 1336
|
1370 1380 1390 1400
....*....|....*....|....*....|....*....|....*
gi 1176173580 1226 YEAIVKGESLPDPGVPESFNVLIRELMGLGLDVELL-NLKDEGGI 1269
Cdd:PRK09603 1337 YRAIAKGEQVGESEIPETFYVLTKELQSLALDINIFgDDVDEDGA 1381
|
|
| rpoB |
CHL00207 |
RNA polymerase beta subunit; Provisional |
20-1265 |
0e+00 |
|
RNA polymerase beta subunit; Provisional
Pssm-ID: 214397 [Multi-domain] Cd Length: 1077 Bit Score: 1153.30 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 20 LPDLLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIEDSRENFVLDFIS--YYLEKPKYSVDECQERGNTYAA--P 95
Cdd:CHL00207 7 LPDFLEIQRTSFCWFL----------NEGLNEELNIFSKIFDYTGNLELLLFGknYKLKYPKYNLLSAKSYDSNYSIqiY 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 96 LKAKLRlsirdpESDSGEIIdsmEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMKHPNDTKIYSARIIP 175
Cdd:CHL00207 77 LPLKFI------NLKTNKIK---FINYLIGNLPKMTQRGTFIINGLERVIVSQIIRSPGIYFKKEIKKNSNKIYSATLIP 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 176 LRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYStdreiyelfdmveevgvddkkiesyfgktvlmdvidyetgei 255
Cdd:CHL00207 148 NRGSWIKFELDKNKEIWIRIDKNRKKPLIIFLKALGLT------------------------------------------ 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 256 llekdstlDQESLANLRAHhiekvkfvksespYSPEIINNTIRKDPTKSEKEALEMIYRHLRSGDAPDLETARNLVFRFF 335
Cdd:CHL00207 186 --------DQDIYSRLTKS-------------EFLKKLKPILLNSNSYTNEEILLEIYKNLSPIEPATVNDANQNLFSRF 244
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 336 FNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLS 415
Cdd:CHL00207 245 FDPKNYDLGKVGRYKINNKLNLNIPERVRNLTYEDILSIIDKLINLKINKGNFDDIDHLKNRRVRSVGELLQNQFRIGLK 324
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 416 RLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGPGGLTRERAGFEVRD 495
Cdd:CHL00207 325 RLERILRNRMTICDIDSLSKFNLINPKPLIALIREFFGSSQLSQYMDQTNPLSELTHKRRISILGPGGLDKDRISFAVRD 404
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 496 VHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRV--TDEIHYLSADDEENLRVAQANAPIDEKG 573
Cdd:CHL00207 405 IHPSHYGRICPIETPEGPNCGLIGSLATNARINKFGFIETPFYKVINGKVkkFGNPIYLTADSEDLYRIAPNDINLNKNN 484
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 574 NFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLLKPEAPIVGTGVEAK 653
Cdd:CHL00207 485 YFKKNIIPVRYKQEFKTVNPSKVDFIAISPIQVFSIAESLIPFLEHNDANRALMGSNMQRQAVPLLYPEKPIVGTGYEKQ 564
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 654 VALDSRAMIVCRRSGVVERVDATKIVVRAddldadaelnveslldfDSDETDVYPLQKFKRSNQDTCTNQIPLVREGDRV 733
Cdd:CHL00207 565 IALDSGMTIISLTEGIVVSVSAYKIIIQD-----------------DNNRYIHYYLQKYQRSNQNTCINYRPIVWVGEKI 627
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 734 QKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELTREIPNV 813
Cdd:CHL00207 628 NIGQILADGSDIDNSELALGQNVLVAYMPWEGYNFEDAILINKRLVYEDLFTSIHIEKYEIELRQTKLGSEEITRNIPNV 707
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 814 SEEATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTGLHGTVIATKLFSRK 893
Cdd:CHL00207 708 SEYSLKNLDENGIISIGSKVLAGDILVGKITPKGESDQLPEGKLLRAIFGEKAKDVKDTSLRMPNGGYGRVIKVEIFSRS 787
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 894 Krdaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldfdaldlt 973
Cdd:CHL00207 788 K------------------------------------------------------------------------------- 788
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 974 rplvddaernelvaeileqyykkldslqedyenqkfkvtvGDELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGNKGVVAT 1053
Cdd:CHL00207 789 ----------------------------------------GDELKFGYYLKIRVFIAQIRKIQVGDKLAGRHGNKGIISR 828
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1054 IVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGAS------------LEEVQTEME 1121
Cdd:CHL00207 829 ILPRQDMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLLGLAGDNLNKRFKILPFDEMYgseysrilinnkLNQASIKNN 908
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1122 EAGLPRD---GKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWA 1198
Cdd:CHL00207 909 EYWLFNSyhpGKMVLRDGRTGYKFKNPVTVGIAYMLKLIHLVDDKIHARTTGPYSLVTQQPLGGKAQHGGQRFGEMEVWA 988
|
1210 1220 1230 1240 1250 1260
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1176173580 1199 LEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDPGVPESFNVLIRELMGLGLDVELLNLKD 1265
Cdd:CHL00207 989 LEAFGAAYTLKELLTIKSDDMQGRNETLNAIVKGQPIPKPGTPESFKVLMRELQSLGLDIEAYKIEN 1055
|
|
| rpoB |
CHL00001 |
RNA polymerase beta subunit |
20-1259 |
0e+00 |
|
RNA polymerase beta subunit
Pssm-ID: 214330 [Multi-domain] Cd Length: 1070 Bit Score: 1143.87 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 20 LPDLLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIEDSRENFVLDFIS--YYLEKPKYSVDECQERGNTYAAPLK 97
Cdd:CHL00001 12 IPGFNQIQFEGFCRFI----------DQGLTEELSKFPKIEDTDQEIEFQLFVetYQLVEPLIKERDAVYESLTYSSELY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 98 AKLRLSIRdpesdsgEIIDSMEQTVYLGNIPMMTEKGTFIINGAERIVVSQLHRSPGAFFDEMKHPNDTKIYSARIIPLR 177
Cdd:CHL00001 82 VPAGLIWK-------KSRDMQEQTVFIGNIPLMNSLGTFIINGIYRVVINQILRSPGIYYRSELDHNGISVYTGTIISDW 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 178 GSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGySTDREIyelfdmveevgvddkkiesyfgktvlmdvidyetgeill 257
Cdd:CHL00001 155 GGRLELEIDRKARIWARVSRKQKISILVLLSAMG-LNLREI--------------------------------------- 194
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 258 ekdstldqesLANLRahhiekvkfvksespySPEIINNTIR---KDPTKSEKEALEMIYRHL--RSGDAPDLETARNLVF 332
Cdd:CHL00001 195 ----------LDNVC----------------YPEIFLSFLNdkeKKKIGSKENAILEFYQQFacVGGDPVFSESLCKELQ 248
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 333 RFFFNpKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLAAQMSV 412
Cdd:CHL00001 249 KKFFQ-QRCELGRIGRRNMNRKLNLDIPENNTFLLPQDVLAAADYLIGMKFGMGTLDDIDHLKNKRIRSVADLLQDQFGL 327
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 413 GLSRLARTVKERMN--LRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGPGGLTRERAG 490
Cdd:CHL00001 328 ALNRLENAVRGTICgaIRRKLIPTPQNLVTSTPLTTTYESFFGSHPLSQFLDQTNPLTEIVHGRKLSSLGPGGLTGRTAS 407
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 491 FEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDEENLRVAQANAPID 570
Cdd:CHL00001 408 FRVRDIHPSHYGRICPIDTSEGINAGLIGSLAIHARIGHWGSLESPFYEISERSKEERMVYLSPSEDEYYMIAAGNSLAL 487
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 571 EKGNFINDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLLKPEAPIVGTGV 650
Cdd:CHL00001 488 NQGIQEEQVVPARYRQEFLTIAWEQIHLRSIFPFQYFSIGASLIPFLEHNDANRALMGSNMQRQAVPLSRSEKCIVGTGL 567
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 651 EAKVALDSRAMIVCRRSGVVERVDATKIVVraddldadaelnveslldFDSDETDVYPLQKFKRSNQDTCTNQIPLVREG 730
Cdd:CHL00001 568 ERQVALDSGVVAIAEHEGKIIYTDTDKIIL------------------SGNGDTLSIPLVMYQRSNKNTCMHQKPQVRRG 629
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 731 DRVQKGDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELTREI 810
Cdd:CHL00001 630 KCVKKGQILADGAATVGGELALGKNVLVAYMPWEGYNFEDAVLISERLVYEDIYTSFHIRKYEIQTHVTSQGPERITKEI 709
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 811 PNVSEEATKDLDENGIIRVGAEVHEGDILVGKVTPK--GETDPTPEEKLLKAIFGEKAGDVKDASLKAPTGLHGTVIatk 888
Cdd:CHL00001 710 PHLEAHLLRNLDKNGIVMLGSWVETGDILVGKLTPQeaEESSYAPEGRLLRAIFGIQVSTSKETCLKLPIGGRGRVI--- 786
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 889 lfsrkkrDaknkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvVRakTVLKKDLLENldfd 968
Cdd:CHL00001 787 -------D------------------------------------------------------VR--WIQKKGGSSY---- 799
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 969 aldltrplvddaernelvaeileqyykkldslqedyenqkfkvtvgdelppgIVQMAKVYVAKKRKLMIGDKMAGRHGNK 1048
Cdd:CHL00001 800 ----------------------------------------------------NPETIHVYILQKREIQVGDKVAGRHGNK 827
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1049 GVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFD-----GASLEEVQTEMEEA 1123
Cdd:CHL00001 828 GIISKILPRQDMPYLQDGTPVDMVLNPLGVPSRMNVGQIFECLLGLAGDLLNRHYRIAPFDeryeqEASRKLVFSELYEA 907
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1124 GL------------PrdGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRF 1191
Cdd:CHL00001 908 SKqtanpwvfepeyP--GKSRLFDGRTGDPFEQPVTIGKAYILKLIHQVDDKIHARSSGPYALVTQQPLRGRSKQGGQRV 985
|
1210 1220 1230 1240 1250 1260
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1176173580 1192 GEMEVWALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDP-GVPESFNVLIRELMGLGLDVE 1259
Cdd:CHL00001 986 GEMEVWALEGFGVAYILQEMLTYKSDHIRARQEVLGAIITGGTIPKPeDAPESFRLLVRELRSLALELN 1054
|
|
| PRK14844 |
PRK14844 |
DNA-directed RNA polymerase subunit beta/beta'; |
8-1260 |
0e+00 |
|
DNA-directed RNA polymerase subunit beta/beta';
Pssm-ID: 173305 [Multi-domain] Cd Length: 2836 Bit Score: 1128.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 8 RKSFSKIQTIVD-LPDLLNIQLESFKEFVqpdvpPEKRENKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKYSVDECQ 86
Cdd:PRK14844 16 RVSYSRSIDLKDsLLDLVKVQKESYDSFT-----PKNKGNERLEVIFHTIFPINDPLHRATIEFISCRVDDPKYDESECI 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 87 ERGNTYAAPLKAKLRLSI---------------RDPESDSGEIIDSM-EQTVYLGNIPMMTEKGTFIINGAERIVVSQLH 150
Cdd:PRK14844 91 KRGITFSAQVIASIRLVImqdgisldeyksikeSGDHSKLATVIKSIeEQEVHFCELPMMTDKGTFIINGVEKVIVSQMH 170
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 151 RSPGAFFD--EMKHPNDTK-IYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTD---REIYEL--- 221
Cdd:PRK14844 171 RSPGVFFDsdKGKTYNSGKlIYSARVIPYRGSWLDIEFDVKDHLYFRIDRKRKLPISVLLKALGLSNNdilDRFYEKiky 250
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 222 ----------------------FDMVEEVG-----------------VDDKKIESYF-------GKTVLMDVIDYETGEI 255
Cdd:PRK14844 251 ikhkdgwkvpfvpdkfkgvrlpFDLMDVEGnvllkanvritsrlakkLYDNELKEYLvpfdsicGLFLAEDLIDSASSTK 330
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 256 LLEKDSTLDQESLANLRAHHIEKVKFVKSESPYSPEIINNTIRKDPTKSEKEALEMIYRHLRSGDAPDLETARNLVFRFF 335
Cdd:PRK14844 331 ILSAGESIKLEDIKKLELLSIDEISVLNIDNLSVGPYILNTLFLDENMSYQDALYEIYKVLRPGEVPVLEIVEEFFRNLF 410
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 336 FNPKRYDLGEVGRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLS 415
Cdd:PRK14844 411 FSPEYYDLSNIGRLKLNSYLGLNYDEDLTVLTHEDIIEIVRKIVLLRDGQGSVDDIDHLGNRRVRSVGEFIENQFRTGLL 490
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 416 RLARTVKERMNLRDNEELTPQDLVNARTILSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLSALGPGGLTRERAGFEVRD 495
Cdd:PRK14844 491 KLERAVVDSMSTSSLDKVSPSDFINPKVLTNVLRDFFNSSQLSQFMDQTNPLSEITHKRRLSALGPGGLTRERAGFEVRD 570
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 496 VHYTHYGRLCPIETPEGPNIGLISSLTTFGRINKLGFIETPYRKVVDGRVTDEIHYLSADDEENLRVAQANAPIDEKGNF 575
Cdd:PRK14844 571 VHPTHYGRICPIETPEGQNIGLINSLAIYARINKYGFIESPYRKVVNRVVTDQIEYLSAIDEGLYYIADTSAKLDENNCF 650
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 576 INDRVQVRFRGDFPLVTPKEVDYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLLKPEAPIVGTGVEAKVA 655
Cdd:PRK14844 651 VDDMLYCRYAGSFVMVSSDQVSYIDVSPKQVISVAASLIPFLENDDANRALMGSNMQRQAVPLLKPTAPLVATGMESFVA 730
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 656 LDSRAMIVCRRSGVVERVDATKIVVRADDLDADAELNVeslldfdsdetDVYPLQKFKRSNQDTCTNQIPLVREGDRVQK 735
Cdd:PRK14844 731 SGSGAVVLAKRDGIVDSSDSNSIVIRAFDKERVNYLDV-----------DIYHLRKFQRSNHNTCINQKPLVCVGDYVKE 799
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 736 GDVLADGCATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELTREIPNVSE 815
Cdd:PRK14844 800 GDVIADGPAINSGELALGQNLLVAFMSWQGYNFEDSIIISSEVVKKDLFTSIHIEEFECVVHDTPLGSEKITRAIPGVNE 879
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 816 EATKDLDENGIIRVGAEVHEGDILVGKVTPKGETDPTPEEKLLKAIFGEKAGDVKDASLKAPTGLHGTVIATKLFSRKKR 895
Cdd:PRK14844 880 ENLYHLDDSGIVKIGTRVGPGYILVGKVTPKPSLSLPPETKLLMTIFGEKSFDCADSSLYTSPDVEGTVIDVQVFTRRGV 959
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 896 DaKNKRLEKKELEKVEKWytaEKQR------IKRLRDKKLRRVLLDQKSAGISELDGGK------VVVRAKTVLKKdlLE 963
Cdd:PRK14844 960 E-ENERALLIKQKEINDF---EKERdyiinvTSEYFYDELKKLLINSGSQDREKFDSIEreqwwgIGLKNQSISEQ--VK 1033
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 964 NL--DFDaldltrplvddaernELVAEILEQYYKKLDSLQEDYenqkfkvtvgdELPPGIVQMAKVYVAKKRKLMIGDKM 1041
Cdd:PRK14844 1034 SLkkDFD---------------EKVSHAIAQFKRKVEKLHEGY-----------DLPQGVSMSVKVFIAVKHSLQPGDKM 1087
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1042 AGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWA--------GKILD------------- 1100
Cdd:PRK14844 1088 AGRHGNKGVISRVVPVEDMPYLEDGTPVDIILNPLGVPSRMNVGQILETHVGWAckklgekvGNILDeinkiksafckgi 1167
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1101 ------------VMY----------------------------------------------------------------- 1103
Cdd:PRK14844 1168 rslnddnftkfaAAYldnkkienidddeitasvlntpnknalndelnelvenylnscksaysnlrnflievyscgsnvsi 1247
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1104 -------------------------STPVFDGASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSH 1158
Cdd:PRK14844 1248 cnnirdisdnnliefarklrdgipvAAPVFEGPKDEQIAKLFELAGLDNSGQAVLYDGCSGEKFDRKVTVGYMYMLKLHH 1327
|
1370 1380 1390 1400 1410 1420 1430 1440
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1159 LVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIVKGESLPDP 1238
Cdd:PRK14844 1328 LVDGKIHARSVGPYSLVTQQPLGGKSHFGGQRFGEMECWALQAYGAAYTLQEMLTVKSDDINGRVKIYESIIKGDSNFEC 1407
|
1450 1460
....*....|....*....|..
gi 1176173580 1239 GVPESFNVLIRELMGLGLDVEL 1260
Cdd:PRK14844 1408 GIPESFNVMIKELRSLCLNVDL 1429
|
|
| RNA_pol_B_RPB2 |
cd00653 |
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ... |
23-1260 |
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: 906.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 23 LLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIED--SRENFVLDFISYYLEKP---------KYSVDECQERGNT 91
Cdd:cd00653 1 LVKQQIDSFNYFL----------NVGLQEIVKSIPPITDtdDDGRLKLKFGDIYLGKPkveeggvtrKLTPNECRLRDLT 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 92 YAAPLKAKLRLSIRDpesdsgeIIDSMEQTVYLGNIPMMTE------------------------KGTFIINGAERIVVS 147
Cdd:cd00653 71 YSAPLYVDIRLTVND-------KGKIKEQEVFIGEIPIMLRsklcnlngltpeeliklgecpldpGGYFIINGTEKVIIN 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 148 QLHRSPGAFFDEmkHPNDTKIYSARIIP----LRGSWLEFVTDI-NDVMYFYIDRRKKfpvttllraigystdreiyelf 222
Cdd:cd00653 144 QEQRSPNVIIVE--DSKGKRIYTKTSIPsyspYRGSWLEVKSDKkKDRIYVRIDLKRQ---------------------- 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 223 dmveevgvddkkiesyfgktvlmdvidyetgeillekdstldqeslanlrahhiekvkfvksespyspeiinntirkdpt 302
Cdd:cd00653 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 303 kseKEALEMIYRHLrsgdapdletarnlvfrfffnpkrydlgevgryrlnnklglsidpdvtvltkEDIIAIINYLLDLR 382
Cdd:cd00653 200 ---EEALKYIGKRF----------------------------------------------------EDLIYMIRKLILLV 224
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 383 NGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLSRLARTVKERMN--LRDNEELTPQDLVNARTILSVINTFFGTSQ---- 456
Cdd:cd00653 225 LGKGKLDDIDHLGNKRVRLAGELLQNLFRSGLKRLEREVKEKLQkqLSKKKDLTPQLLINSKPITSGIKEFLATGNwgsk 304
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 457 --------LSQFMDQTNPLAEMTHKRRLSAlgpGGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTFGRIN 528
Cdd:cd00653 305 rflmqrsgLSQVLDRLNPLSELSHKRRISS---LGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS 381
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 529 klGFIETPYRKVVdgrvtdeihylsaddeenlrvaqanapidekgnfindrvqvrfrgdfplvtpKEVDYMDVSPTQMVS 608
Cdd:cd00653 382 --GRIERPYRIVE----------------------------------------------------KEVTHIEISPSQILS 407
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 609 AAASLIPFLEHDDANRALMGSNMQRQSVP----------------LLKPEAPIVGTGVEAKVALdsramivcrrsgvver 672
Cdd:cd00653 408 VAASLIPFPEHNQSPRNLYQSNMQKQAVGtpalnqqyrmdtklylLLYPQKPLVGTGIEEYIAF---------------- 471
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 673 vdatkivvraddldadaelnveslldfdsdetdvyplqkfkrsnqdtctnqiplvregdrvqkgdvladgcategGELAL 752
Cdd:cd00653 472 ---------------------------------------------------------------------------GELPL 476
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 753 GRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRGEEELTR-EIPNVSEEATKDLDENGIIRVGA 831
Cdd:cd00653 477 GQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTKNGPEEITRgDIPNVSEEKLKNLDEDGIIRPGA 556
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 832 EVHEGDILVGKVTPKGETDPTPeekllkaIFGEKAGDVKDASLKAPTGLHGTVIATKLFSRkkrdaknkrlekkelekve 911
Cdd:cd00653 557 RVEPGDILVGKITPKGETESTP-------IFGEKARDVRDTSLKYPGGEKGIVDDVKIFSR------------------- 610
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 912 kwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldfdaldltrplvddaernelvaeile 991
Cdd:cd00653 --------------------------------------------------------------------------------
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 992 qyykkldslqedyenqkfkvtvgdELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDI 1071
Cdd:cd00653 611 ------------------------ELNDGGNKLVKVYIRQKRKPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDI 666
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1072 VLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFI 1151
Cdd:cd00653 667 ILNPHGFPSRMTIGQLLESLLGKAGALLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPLEAPIFVGPV 746
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1152 YIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEILTVKSDDVRGRSKAYEAIV- 1230
Cdd:cd00653 747 YYQRLKHMVDDKIHARSTGPYSLLTRQPLKGRSRGGGQRFGEMERDALIAHGAAYLLQERLTIKSDDVVARVCVKCGIIl 826
|
1290 1300 1310
....*....|....*....|....*....|....*....
gi 1176173580 1231 ---------KGESLPDPGVPESFNVLIRELMGLGLDVEL 1260
Cdd:cd00653 827 sanlcrlckKGTNISKVGIPYAFKLLFQELQSMNIDPRL 865
|
|
| RNA_pol_Rpb2_6 |
pfam00562 |
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ... |
663-1185 |
9.18e-163 |
|
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: 489.73 E-value: 9.18e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 663 VCRRSGVVERVDATKIVVRADdldadaelnveslldFDSDETDVYPLQKFKRSNQDT---CTNQIPLVREGdRVQKGDVl 739
Cdd:pfam00562 1 VASLIPFVDHNQSPRNTYQCA---------------MGKQAMGIYTLNKFYRSDQNTyvlCYPQKPLVKTG-AVEAGGF- 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 740 adgcategGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEvlETQVRDTKRGE-EELTREIPNVSEEAT 818
Cdd:pfam00562 64 --------GELPLGQNAIVAVMSYTGYNQEDAIIINKSSVDRGFFTSIHIK--EIEARKTKLGPiEEITRDIPNVSEEAL 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 819 KDLDENGIIRVGAEVHEGDILVGKVtpkGETDPTpeeKLLKAIFGEKAGDVKDASLKAPTGLHGTVIATKLFsrkkrdak 898
Cdd:pfam00562 134 KKLDEDGIVRVGAEVKPGDILVGKV---GPTELT---KLLRAIFGEKARDVKDTSLKVPPGEEGVVDDVIVF-------- 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 899 nkrlekkelekvekwytaekqrikrlrdkklrrvlldqksagiseldggkvvvraktvlkkdllenldfdaldltrplvd 978
Cdd:pfam00562 --------------------------------------------------------------------------------
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 979 daernelvaeileqyykkldslqedyenqkfkvtvgdELPPGIVQMAKVYVAKKRKLMIGDKMAGRHGNKGVVATIVPVE 1058
Cdd:pfam00562 200 -------------------------------------ELPPGGIKMVKVYIRQKRKPEVGDKFASRHGQKGVVSRILPQE 242
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1059 DMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWAGKILDVMYSTPVFDGAS--LEEVQTEMEEAGLPRDGKSILFDG 1136
Cdd:pfam00562 243 DMPFTEDGIPPDIILNPHGVPSRMTIGQLLETHLGKAAALLGVFVDATPFDGASteVEDIGELLEKAGYNYYGKEVLYDG 322
|
490 500 510 520
....*....|....*....|....*....|....*....|....*....
gi 1176173580 1137 RTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQ 1185
Cdd:pfam00562 323 RTGEPFEAPIFVGPIYYQKLKHMVDDKIHARSTGPYSLLTRQPLGGRAR 371
|
|
| PRK08565 |
PRK08565 |
DNA-directed RNA polymerase subunit B; Provisional |
23-1266 |
4.17e-103 |
|
DNA-directed RNA polymerase subunit B; Provisional
Pssm-ID: 236291 [Multi-domain] Cd Length: 1103 Bit Score: 353.11 E-value: 4.17e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 23 LLNIQLESFKEFVqpdvppekreNKGLQAVFNSIFPIEDSRENFVLDFISYYLEKPKY-SVD---------ECQERGNTY 92
Cdd:PRK08565 14 LVRQHLDSYNDFI----------ERGLQEIVDEFGEIKTEIPGLKIVLGKIRVGEPEIkEADgserpitpmEARLRNLTY 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 93 AAPLKAKLRLSIRDPESDsgeiidsmEQTVYLGNIPMM----------------TEKGT--------FIINGAERIVVSQ 148
Cdd:PRK08565 84 AAPLYLTMIPVENGIEYE--------PEEVKIGDLPIMvkskicplsglspdelIEIGEdpkdpggyFIINGSERVIVSQ 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 149 LHRSPGAFFDEMKHPNDTKIYSARIIPLRGSWLEFVTdindvmyfyIDRRK-------------KFPVTTLLRAIGYSTD 215
Cdd:PRK08565 156 EDLAPNRVLVDKGEAGSSITHTAKVISSRAGYRAQVT---------VERRKdgtiyvsfpavpgKIPFVILMRALGLETD 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 216 REIyelfdmVEEVGVDDKkiesyfgktvlmdvidyetgeillekdstLDQESLANLrahhiEKVKfvksespyspeiinn 295
Cdd:PRK08565 227 RDI------VYAVSLDPE-----------------------------IQQELLPSL-----EQAS--------------- 251
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 296 tirkDPTKSEKEALEMIYRHLRSGDAPD--LETARNLVFRFFFnPKrydlgevgryrlnnkLGLSidpdvtvltKEDIIA 373
Cdd:PRK08565 252 ----SIAATVEDALDYIGKRVAIGQPREyrIERAEQILDKYLL-PH---------------LGTS---------PEDRIK 302
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 374 -------IINYLLDLRNGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLSRLARTVK----------ERMNLRDneeLTPQ 436
Cdd:PRK08565 303 kayflgqMASKLLELYLGRREPDDKDHYANKRLRLAGDLLAELFRVAFKQLVKDLKyqleksyargRKLDLRA---IVRP 379
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 437 DLVNARTI--LSVINTFFGTSQLSQFMDQTNPLAEMTHKRRLsaLGPggLTRERAGFEVRDVHYTHYGRLCPIETPEGPN 514
Cdd:PRK08565 380 DIITERIRhaLATGNWVGGRTGVSQLLDRTNYLSTLSHLRRV--VSP--LSRGQPHFEARDLHGTQWGRICPFETPEGPN 455
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 515 IGLISSLTTF----------------------------------------------------------------GRIN-- 528
Cdd:PRK08565 456 CGLVKNLALMaqisvgvdeeeveeilyelgvvpveeareeeyiswsrvylngrligyhpdgeelaekirelrrsGKISde 535
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 529 -KLGFIETPYRKVV-----DGRV--------------TDE--------------------IHYLSADDEENLRVAQAnaP 568
Cdd:PRK08565 536 vNVAYIETGEINEVyvncdSGRVrrplivvengkpklTREhveklkkgeltfddlvkmgvIEYLDAEEEENAYVALD--P 613
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 569 IDekgnfindrvqvrfrgdfplVTPKEVdYMDVSPTQMVSAAASLIPFLEHDDANRALMGSNMQRQSVPLlkPEApivgt 648
Cdd:PRK08565 614 ED--------------------LTPEHT-HLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGL--YAA----- 665
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 649 gvEAKVALDSRAMIVcrrsgvvervdatkivvraddldadaelnveslldfdsdetdVYPlqkfkrsnqdtctnQIPLVR 728
Cdd:PRK08565 666 --NFRIRTDTRGHLL------------------------------------------HYP--------------QRPLVQ 687
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 729 egdrvqkgdvladgcaTEGGEL------ALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIHIEVLETQVRDTKRG 802
Cdd:PRK08565 688 ----------------TRALEIigyndrPAGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERKYPGG 751
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 803 EEElTREIP--NVS----EEATKDLDENGIIRVGAEVHEGDILVGKVTPkgetdP--TPEEKLLKAIFGEKagdvKDASL 874
Cdd:PRK08565 752 QED-KIEIPepNVRgyrgEEYYRKLDEDGIVSPEVEVKGGDVLIGKTSP-----PrfLEELEELSLGLQER----RDTSV 821
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 875 KAPTGLHGTViatklfsrkkrdaknkrlekkelekvekwytaekqrikrlrdkklRRVLLDQKSagiselDGGKVVvrak 954
Cdd:PRK08565 822 TVRHGEKGIV---------------------------------------------DTVLITESP------EGNKLV---- 846
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 955 tvlkkdllenldfdaldltrplvddaernelvaeileqyykkldslqedyenqkfKVTVGDELPPgivqmakvyvakkrk 1034
Cdd:PRK08565 847 -------------------------------------------------------KVRVRDLRIP--------------- 856
|
1210 1220 1230 1240 1250 1260 1270 1280
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1035 lMIGDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWA----GKILDvmySTPvFDG 1110
Cdd:PRK08565 857 -ELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLESIAGKVaaleGRFVD---ATP-FYG 931
|
1290 1300 1310 1320 1330 1340 1350 1360
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1111 ASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQPLGGKAQFGGQR 1190
Cdd:PRK08565 932 EPEEELRKELLKLGYKPDGTEVMYDGRTGEKIKAPIFIGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLR 1011
|
1370 1380 1390 1400 1410 1420 1430 1440
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1191 FGEMEVWALEAYGAAHTLQEILTVKSD----------------DVrgRSKAYEAIVKGES--LPDPGVPESFNVLIRELM 1252
Cdd:PRK08565 1012 FGEMERDCLIGHGAAMLLKERLLDSSDkttiyvcelcghiawyDR--RKNKYVCPIHGDKgnISPVEVSYAFKLLLQELM 1089
|
1450
....*....|....
gi 1176173580 1253 GLGLDVELLnLKDE 1266
Cdd:PRK08565 1090 SMGISPRLK-LGDK 1102
|
|
| rpoB_arch |
TIGR03670 |
DNA-directed RNA polymerase subunit B; This model represents the archaeal version of ... |
549-1265 |
1.57e-65 |
|
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: 233.77 E-value: 1.57e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 549 IHYLSADDEENLRVAQanapiDEKGnfindrvqvrfrgdfplVTPKEVdYMDVSPTQMVSAAASLIPFLEHDDANRALMG 628
Cdd:TIGR03670 92 IEYLDAEEEENAYIAL-----DPEE-----------------LTPEHT-HLEIDPSAILGIIASTIPYPEHNQSPRNTMG 148
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 629 SNMQRQSVPLlkPEAPIvgtgveaKVALDSRAmivcrrsgvvervdatkivvraddldadaelnveSLLDfdsdetdvYP 708
Cdd:TIGR03670 149 AAMAKQSLGL--YAANY-------RIRLDTRG----------------------------------HLLH--------YP 177
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 709 lqkfkrsnqdtctnQIPLVREgdRVQKgdvladgcATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIH 788
Cdd:TIGR03670 178 --------------QKPLVKT--RVLE--------LIGYDDRPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLARSTF 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 789 IEVLETQVRDTKRGEEELTrEIPNV------SEEATKDLDENGIIRVGAEVHEGDILVGKVTPkgetdPTPEEKLlkAIF 862
Cdd:TIGR03670 234 FRTYEAEERRYPGGQEDRF-EIPEPdvrgyrGEEAYKHLDEDGIVYPEVEVKGGDVLIGKTSP-----PRFLEEL--REF 305
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 863 GEKAGDVKDASLKAPTGLHGTViatklfsrkkrdaknkrlekkelekvekwytaekqrikrlrDKklrrvlldqksagis 942
Cdd:TIGR03670 306 GLVTERRRDTSVTVRHGEKGIV-----------------------------------------DK--------------- 329
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 943 eldggkvVVRAKTVlkkdllenldfdaldltrplvddaERNELVaeileqyykkldslqedyenqkfKVTVGDELPPgiv 1022
Cdd:TIGR03670 330 -------VIITETE------------------------EGNKLV-----------------------KVRVRDLRIP--- 352
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1023 qmakvyvakkrklMIGDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWA----GKI 1098
Cdd:TIGR03670 353 -------------ELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLEMIAGKVaaleGRR 419
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1099 LDvmySTPvFDGASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLITQQ 1178
Cdd:TIGR03670 420 VD---GTP-FEGEPEEELRKELLKLGFKPDGKEVMYDGITGEKLEAEIFIGVIYYQKLHHMVADKIHARSRGPVQVLTRQ 495
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1179 PLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEILTVKSDDV---------------RGRSKAYEAIVKGESLPDP-GVPE 1242
Cdd:TIGR03670 496 PTEGRAREGGLRFGEMERDVLIGHGAAMLLKERLLDESDKYvvyvcencghiawedKRKGTAYCPVCGETGDISPvEMSY 575
|
730 740
....*....|....*....|...
gi 1176173580 1243 SFNVLIRELMGLGLDVElLNLKD 1265
Cdd:TIGR03670 576 AFKLLLDELKSLGISPR-LELGD 597
|
|
| PRK07225 |
PRK07225 |
DNA-directed RNA polymerase subunit B'; Validated |
549-1265 |
1.52e-57 |
|
DNA-directed RNA polymerase subunit B'; Validated
Pssm-ID: 235972 [Multi-domain] Cd Length: 605 Bit Score: 210.59 E-value: 1.52e-57
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 549 IHYLSADDEENLRVAQANAPIDEKGnfindrvqvrfrgdfplvTPKEVDymdvsPTQMVSAAASLIPFLEHDDANRALMG 628
Cdd:PRK07225 98 IEYLDAEEEENAYIAVYEEDLTEEH------------------THLEID-----PSLILGIGAGMIPYPEHNASPRITMG 154
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 629 SNMQRQSVPLlkPEAPIvgtgveaKVALDSRAmivcrrsgvvervdatkivvraddldadaelnveSLLDfdsdetdvYP 708
Cdd:PRK07225 155 AGMIKQSLGL--PAANY-------KLRPDTRG----------------------------------HLLH--------YP 183
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 709 lqkfkrsnqdtctnQIPLVREgdRVQKgdvladgcATEGGELALGRNVLVAFMPWRGYNFEDAIVISERVVQEDVYTSIH 788
Cdd:PRK07225 184 --------------QVPLVKT--QTQE--------IIGFDERPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLGRSHF 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 789 IEVLETQVRDTKRGEEElTREIPNV------SEEATKDLDENGIIRVGAEVHEGDILVGKVTPkgetdptP---EEKllk 859
Cdd:PRK07225 240 FRTYEGEERRYPGGQED-RFEIPDKdvrgyrGEEAYRHLDEDGLVNPETEVKEGDVLIGKTSP-------PrflEEP--- 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 860 AIFGEKAGDVKDASLKAPTGLHGTViatklfsrkkrDAknkrlekkelekvekwytaekqrikrlrdkklrrVLLDQKSa 939
Cdd:PRK07225 309 DDFGISPEKRRETSVTMRSGEEGIV-----------DT----------------------------------VILTETE- 342
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 940 giselDGGKVVvraktvlkkdllenldfdaldltrplvddaernelvaeileqyykkldslqedyenqkfKVTVGDELPP 1019
Cdd:PRK07225 343 -----EGSRLV-----------------------------------------------------------KVRVRDLRIP 358
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1020 givqmakvyvakkrklMIGDKMAGRHGNKGVVATIVPVEDMPFLPDGTPVDIVLNPLGVPSRMNLGQIMETSLGWA---- 1095
Cdd:PRK07225 359 ----------------ELGDKFASRHGQKGVIGLIVPQEDMPFTESGVVPDLIINPHAIPSRMTVGHVLEMIGGKVgsle 422
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1096 GKILDvmySTPvFDGASLEEVQTEMEEAGLPRDGKSILFDGRTGEQFDNPVTIGFIYIMKLSHLVEDKIHARSIGPYSLI 1175
Cdd:PRK07225 423 GRRVD---GTA-FSGEDEEDLREALEKLGFEHTGKEVMYDGITGEKIEAEIFVGVIYYQKLHHMVANKLHARSRGPVQVL 498
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1176 TQQPLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEILTVKSDDV---------------RGRSKAYEAIVKGES-LPDPG 1239
Cdd:PRK07225 499 TRQPTEGRAREGGLRFGEMERDVLIGHGAAMLLKERLLDESDKVeiyvcakcgmiaiydKKRNRKYCPICGEETdIYPVE 578
|
730 740
....*....|....*....|....*.
gi 1176173580 1240 VPESFNVLIRELMGLGLDVElLNLKD 1265
Cdd:PRK07225 579 MSYAFKLLLDELKSLGIAPR-LELED 603
|
|
| RNA_pol_Rpb2_1 |
pfam04563 |
RNA polymerase beta subunit; RNA polymerases catalyze the DNA dependent polymerization of RNA. ... |
23-444 |
2.75e-57 |
|
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: 203.77 E-value: 2.75e-57
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 23 LLNIQLESFKEFVQPDVPPEKRENKGLQAVFNSIFPIEDSrENFVLDFISYYLEKPKYSVD----------ECQERGNTY 92
Cdd:pfam04563 2 LVRQQLDSFNEFVDNDLQKIIDENALIESEFEIQHPGENG-DKLSLKFGQIRLGKPMFDETdgstreiypqECRLRNLTY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 93 AAPLKAKLRLSIRDPEsdsgeiiDSMEQTVYLGNIPMMTEK------------------------GTFIINGAERIVVSQ 148
Cdd:pfam04563 81 SAPLYVDLELSVYNGE-------DIKPIEVFIGRLPIMLRSnacilsgateselvklgecpldpgGYFIINGSEKVIVAQ 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 149 LHRS---PGAFFDemKHPNDT----KIYSARII---PLRGSWLEFV-TDINDVMYFYIDRRKK-FPVTTLLRAIGYSTDR 216
Cdd:pfam04563 154 EHRSrnhPIVFKK--ADPKKRgsvaSVRSSAEIsvrPDSTSWVNVLeYLSNGTIYFKFPYIKKeIPIVIILRALGFTSDR 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 217 EIYELfdmveevgvddkkiesyfgktVLMDVIDYETGEILLEkdsTLDQEslANLRAHHIEKVKfvksespyspEIINNT 296
Cdd:pfam04563 232 EIFEL---------------------ICYDVNDQQLQEELLP---SLEEG--FKIRIQTQEQAL----------DYIGGR 275
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 297 IRKdptksekealemIYRHLRSGDAPDLETARNLVFRFFFNPKRYDLGEVGRYRLnnklglsidpdvtvltkedIIAIIN 376
Cdd:pfam04563 276 GRA------------IFRMGRPREPRIKYAEEILQKEVLPHLGTYELDETKKAYF-------------------IGYMIR 324
|
410 420 430 440 450 460 470
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 377 YLLDLRNGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLSRLARTVKERMN--LRDNEELTPQDLVNARTI 444
Cdd:pfam04563 325 RLLLLALGRREVDDRDHLGNKRLRLAGPLLASLFRVLFKKLVRDVRERLQkvLGSPDDLMLQLLVNAKPI 394
|
|
| RNA_pol_Rpb2_45 |
pfam10385 |
RNA polymerase beta subunit external 1 domain; RNA polymerases catalyze the DNA-dependent ... |
537-602 |
3.58e-37 |
|
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: 133.64 E-value: 3.58e-37
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1176173580 537 YRKVVDGRVTDEIHYLSADDEENLRVAQANAPIDEKGNFINDRVQVRFRGDFPLVTPKEVDYMDVS 602
Cdd:pfam10385 1 YRKVEDGKVTDEIVYLTADEEDGYVIAQANAPLDEDGRFVDERVSARYRGEFPLVPPEEVDYMDVS 66
|
|
| RNA_pol_Rpb2_3 |
pfam04565 |
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ... |
459-524 |
2.93e-34 |
|
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: 125.72 E-value: 2.93e-34
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1176173580 459 QFMDQTNPLAEMTHKRRLSAlGPGGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLTTF 524
Cdd:pfam04565 1 QVLDRTNYLSTLSHLRRVNS-PRGGLFREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALY 65
|
|
| RNA_pol_Rpb2_7 |
pfam04560 |
RNA polymerase Rpb2, domain 7; RNA polymerases catalyze the DNA dependent polymerization of ... |
1187-1261 |
1.37e-33 |
|
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: 124.24 E-value: 1.37e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 1187 GGQRFGEMEVWALEAYGAAHTLQEILTVKSD----DVRGRSKAYEA-----IVKGESLPDPG-VPESFNVLIRELMGLGL 1256
Cdd:pfam04560 1 GGLRFGEMERWALIAYGAAHTLQERLTIKSDayevDVCGRCGLYAAynkcpICKGETDISPGyIPESFKLLFQELQSLGI 80
|
....*
gi 1176173580 1257 DVELL 1261
Cdd:pfam04560 81 DPRLL 85
|
|
| PRK09606 |
PRK09606 |
DNA-directed RNA polymerase subunit B''; Validated |
27-522 |
3.06e-31 |
|
DNA-directed RNA polymerase subunit B''; Validated
Pssm-ID: 236587 [Multi-domain] Cd Length: 494 Bit Score: 129.68 E-value: 3.06e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 27 QLESFKEFVqpdvppekreNKGLQAVFNSIFPIE-DSRENFVLDFISYYLEKP----------KYSVDECQERGNTYAAP 95
Cdd:PRK09606 22 HIDSYNDFV----------DNGLQKIIDEQGPIEtEIEDGVYVELGKIRVGKPvvkeadgserEIYPMEARLRNLTYSAP 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 96 LKAKLRLSIRDPESDSGEiidsmeqtVYLGNIPMM-----------TEK-------------GTFIINGAERIVVSQLHR 151
Cdd:PRK09606 92 LYLEMSPVEGGEEEEPEE--------VYIGELPVMvgskicnlyglSEEelievgedpldpgGYFIVNGSERVLMTLEDL 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 152 SPGAFFDEMKHPNDTKIYSARIIPLRGSWLEFVT-DINDVMYFYID---RRKKFPVTTLLRAIGYSTDREIyelfdmVEE 227
Cdd:PRK09606 164 APNKILVEKDERYGDRIEVAKVFSQRRGYRALVTvERNRDGLLEVSfpsVPGSIPFVILMRALGLETDEEI------VEA 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 228 VGVDDkkiesyfgktvlmdvidyETGEILLEkdstldqeslaNLRAHHIEkvkfvksespyspeiinntirkdptkSEKE 307
Cdd:PRK09606 238 VSDDP------------------EIVKFMLE-----------NLEEAEVD--------------------------TQEE 262
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 308 ALEMIYRHLRSGDAPDLETARnlvfrfffnpkrydlgevGRYRLNNKLGLSIDPDvtvltKEDIIAIINYL-------LD 380
Cdd:PRK09606 263 ALEYIGKRVAPGQTKEYRIKR------------------AEYVIDRYLLPHLGVE-----PEVRRAKAHYLgrmaeacFE 319
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 381 LRNGKIQADDIDHLGNRRIKTVGEQLAAQMSVGLSRLARTVK---ERMNLRdNEELTPQDLVNA-------RTILSVINT 450
Cdd:PRK09606 320 LALGRREEDDKDHYANKRLKLAGDLMEDLFRVAFNRLARDVKyqlERANMR-NRELSIKTAVRSdvlterlEHAMATGNW 398
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1176173580 451 FFGTSQLSQFMDQTNPLAEMTHKRRLSAlgpgGLTRERAGFEVRDVHYTHYGRLCPIETPEGPNIGLISSLT 522
Cdd:PRK09606 399 VGGRTGVSQLLDRTDYMATLSHLRRVVS----PLSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFA 466
|
|
| RNA_pol_Rpb2_2 |
pfam04561 |
RNA polymerase Rpb2, domain 2; RNA polymerases catalyze the DNA dependent polymerization of ... |
151-400 |
2.16e-22 |
|
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: 95.88 E-value: 2.16e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 151 RSPGAFFDEMKHPND-TKIYSARIIPLRGSWLEFVTDINDVMYFYIDRRKKFPVTTLLRAIGYSTDREIYELfdmVEEVG 229
Cdd:pfam04561 1 RSNGIYVEKELDKNGiIATYTSSLISNRGSWLKLEIDGKTLIWSRPSKKRKIPIVIFLKALGLVSDREILDR---LCYDF 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 230 VDDKKIESYFGKTvlmdvidyetgeillekdstldqeslanLRAHHIEkvkfvksespyspeiinntirkdptkSEKEAL 309
Cdd:pfam04561 78 NDPQMLELLKPEL----------------------------EEAENIY--------------------------TQEEAL 103
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1176173580 310 EMIYRH--LRSGDAPDLETARNlVFRFFFNpkrydlgevgRYRLNNKLGLSIDPDVTVLTKEDIIAIINYLLDLRNGKIQ 387
Cdd:pfam04561 104 DYIGKGfaLRRGEEPRLQRARE-ILYSRDP----------KYNLNKHLGLNEPFENERLKAQDILYMIDRLLNLKLGRRK 172
|
250
....*....|...
gi 1176173580 388 ADDIDHLGNRRIK 400
Cdd:pfam04561 173 PDDIDHLGNKRVR 185
|
|
| |
