BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0188.0076.p (1203 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|NP_654050.1| RNA_pol_A, RNA polymerase alpha subunit [Bacill... 1875 0.0 ref|NP_842671.1| DNA-directed RNA polymerase, beta' subunit [Bac... 1862 0.0 ref|NP_830004.1| DNA-directed RNA polymerase beta' chain [Bacill... 1860 0.0 ref|NP_976431.1| DNA-directed RNA polymerase, beta' subunit [Bac... 1860 0.0 ref|NP_240993.1| DNA-directed RNA polymerase beta' subunit [Baci... 1855 0.0 >ref|NP_654050.1| RNA_pol_A, RNA polymerase alpha subunit [Bacillus anthracis A2012] sp|Q81VT7|RPOC_BACAA DNA-directed RNA polymerase beta' chain (RNAP beta' subunit) (Transcriptase beta' chain) (RNA polymerase beta' subunit) Length = 1203 Score = 1875 bits (4857), Expect = 0.0, Method: Compositional matrix adjust. Identities = 891/1183 (75%), Positives = 1018/1183 (86%), Gaps = 1/1183 (0%) Query: 1 LLDINSFEFMKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWEC 60 ++D+N+FE+MKIGLASP+KIRSWS GEVKKPETINYRTLKPEK+GLFCERIFGPQKDWEC Sbjct: 1 MIDVNNFEYMKIGLASPDKIRSWSYGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWEC 60 Query: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDM 120 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGL LDM Sbjct: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDM 120 Query: 121 SPRSLEEIIYFASYVVTDPGETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKKLLQ 180 SPR+LEE+IYFASYVVT+ G+TPL+KKQLLSEKEYR+YR++YG FQA MGAEA+KKLLQ Sbjct: 121 SPRALEEVIYFASYVVTESGDTPLDKKQLLSEKEYRAYRDRYGSTFQAAMGAEAIKKLLQ 180 Query: 181 DIDIDKELEFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDVLPVIPPELRP 240 DID+DKE++FLKEEL+TAQGQRR RAIKRLEV+EAFRNSGN+P WMI+DVLPVIPPELRP Sbjct: 181 DIDLDKEVDFLKEELKTAQGQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRP 240 Query: 241 MVQLDGGRFATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNGR 300 MVQLDGGRFATSDLNDLY DLGAP IIVQNEKRMLQEAVDALIDNGR Sbjct: 241 MVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGR 300 Query: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKK 360 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGP LKMYQCGLPK+ Sbjct: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKE 360 Query: 361 MALELFKPFVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHR 420 MALELFKPFVMKELV KGLAHNIKSAKRK+ERV PEVWDVLE VIKEHPVLLNRAPTLHR Sbjct: 361 MALELFKPFVMKELVEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHR 420 Query: 421 LGIQAFEPILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNIL 480 LGIQAFEP LVEG AIRLHPLVCTAYNADFDGDQMAVHVPLS+EAQAEAR+LMLA+ NIL Sbjct: 421 LGIQAFEPTLVEGRAIRLHPLVCTAYNADFDGDQMAVHVPLSSEAQAEARLLMLAAQNIL 480 Query: 481 NPKDGKPVVTPSQDMVLGTFYLTMDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIP 540 NPKDGKPVVTPSQDMVLG +YLT++ + G GM+ + NEA+ AYQ G LH RVA+ Sbjct: 481 NPKDGKPVVTPSQDMVLGNYYLTLEREGAIGEGMVFKDANEALLAYQNGYVHLHTRVAVA 540 Query: 541 AKALGKTCFTEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKG 600 A A+ FTE Q+N +L+TT+GK+IFNEI P SFPYINE T +NL + TP KYF+ EKG Sbjct: 541 ASAVNNVTFTEEQKNMLLLTTVGKLIFNEILPESFPYINEPTNSNLEKETPAKYFV-EKG 599 Query: 601 ADIRELILSLPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVA 660 A+I+E+I S + + K+ LG IIA F+ + T+TS +LD++K LGF YST++G+TV Sbjct: 600 ANIKEIIASREEVAPFSKKILGNIIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVG 659 Query: 661 VSDVIVPEEKITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKS 720 VSD++V EK IL E++AKVD V Q+RRGLIT +ERYDRVI IWS KD + L+KS Sbjct: 660 VSDILVLGEKDEILHEAQAKVDNVIKQFRRGLITEEERYDRVISIWSNAKDVIQGKLMKS 719 Query: 721 MDRFNSIMLMVDSKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFIS 780 +++ N I +M DS ARGN S TQL GMRGLMA PSGRI ELPIK++FREGLTVLEYFIS Sbjct: 720 LNKRNPIFMMSDSGARGNASNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFIS 779 Query: 781 THGARKGLADTALRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDL 840 THGARKGLADTAL+TADSGYLTRRLVDVAQDVIVREDDCGTD+G + I++G EVIE L Sbjct: 780 THGARKGLADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLLIGAIKEGNEVIESL 839 Query: 841 YDRIEGRYSFETVRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVC 900 YDR+ GR++ +TV+HPET E++V N LI D A + N+GV + IRS +C RHGVC Sbjct: 840 YDRLVGRFARKTVKHPETGEVLVAENQLITEDIAHIVENSGVETVNIRSAFTCNTRHGVC 899 Query: 901 KKCYGRNLATGKHVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEL 960 KKCYGRNLATG V++GEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQE+ Sbjct: 900 KKCYGRNLATGTDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEI 959 Query: 961 FEARNPKGQATISEIDGVIKEIRETKDRREIEVQGEAESKTYSITYGSRLRVSEGQEIEA 1020 FEARNPKGQA ISEIDGVI I + KDR+E+ VQGE E++TY+I YG+RL+V GQ+I Sbjct: 960 FEARNPKGQAVISEIDGVIAAINDVKDRQEVVVQGEVEARTYAIPYGARLKVIPGQKISH 1019 Query: 1021 GDELTDGSIDPKEMLRIKGIRGVQNYILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRI 1080 G ELT+GSIDPKE+L++ I VQ Y+L+EVQ+VYR QGVEI DKH+EVM++QMLRK+R+ Sbjct: 1020 GKELTEGSIDPKELLKVTDITAVQEYLLREVQKVYRMQGVEIGDKHVEVMVRQMLRKVRV 1079 Query: 1081 IEAGDTNLLPGAFSDIHEYEAANKEAILTGKEPAVAKPVLLGITKASLETDSFLSAASFQ 1140 +AG+T++LPG DIH++ AN + +L GK+PA A+PVLLGITKASLETDSFLSAASFQ Sbjct: 1080 SDAGETDVLPGTLLDIHQFTDANAKVLLQGKQPATARPVLLGITKASLETDSFLSAASFQ 1139 Query: 1141 ETTRVLTDAAIKGKVDKLLGLKENVLIGKLIPAGTGMNRYRNV 1183 ETTRVLTDAAIKGK D+LLGLKENV+IGKL+PAGTGMNRYR V Sbjct: 1140 ETTRVLTDAAIKGKRDELLGLKENVIIGKLVPAGTGMNRYRKV 1182 >ref|NP_842671.1| DNA-directed RNA polymerase, beta' subunit [Bacillus anthracis str. Ames] gb|AAP24157.1| DNA-directed RNA polymerase, beta' subunit [Bacillus anthracis str. Ames] Length = 1194 Score = 1862 bits (4824), Expect = 0.0, Method: Compositional matrix adjust. Identities = 887/1174 (75%), Positives = 1009/1174 (85%), Gaps = 1/1174 (0%) Query: 10 MKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWECHCGKYKRVR 69 MKIGLASP+KIRSWS GEVKKPETINYRTLKPEK+GLFCERIFGPQKDWECHCGKYKRVR Sbjct: 1 MKIGLASPDKIRSWSYGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWECHCGKYKRVR 60 Query: 70 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDMSPRSLEEII 129 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGL LDMSPR+LEE+I Sbjct: 61 YKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDMSPRALEEVI 120 Query: 130 YFASYVVTDPGETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKKLLQDIDIDKELE 189 YFASYVVT+ G+TPL+KKQLLSEKEYR+YR++YG FQA MGAEA+KKLLQDID+DKE++ Sbjct: 121 YFASYVVTESGDTPLDKKQLLSEKEYRAYRDRYGSTFQAAMGAEAIKKLLQDIDLDKEVD 180 Query: 190 FLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDVLPVIPPELRPMVQLDGGRF 249 FLKEEL+TAQGQRR RAIKRLEV+EAFRNSGN+P WMI+DVLPVIPPELRPMVQLDGGRF Sbjct: 181 FLKEELKTAQGQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRPMVQLDGGRF 240 Query: 250 ATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNGRRGRPVTGPG 309 ATSDLNDLY DLGAP IIVQNEKRMLQEAVDALIDNGRRGRPVTGPG Sbjct: 241 ATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGRRGRPVTGPG 300 Query: 310 NRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKKMALELFKPF 369 NRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGP LKMYQCGLPK+MALELFKPF Sbjct: 301 NRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKEMALELFKPF 360 Query: 370 VMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHRLGIQAFEPI 429 VMKELV KGLAHNIKSAKRK+ERV PEVWDVLE VIKEHPVLLNRAPTLHRLGIQAFEP Sbjct: 361 VMKELVEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHRLGIQAFEPT 420 Query: 430 LVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNILNPKDGKPVV 489 LVEG AIRLHPLVCTAYNADFDGDQMAVHVPLS+EAQAEAR+LMLA+ NILNPKDGKPVV Sbjct: 421 LVEGRAIRLHPLVCTAYNADFDGDQMAVHVPLSSEAQAEARLLMLAAQNILNPKDGKPVV 480 Query: 490 TPSQDMVLGTFYLTMDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIPAKALGKTCF 549 TPSQDMVLG +YLT++ + G GM+ + NEA+ AYQ G LH RVA+ A A+ F Sbjct: 481 TPSQDMVLGNYYLTLEREGAIGEGMVFKDANEALLAYQNGYVHLHTRVAVAASAVNNVTF 540 Query: 550 TEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKGADIRELILS 609 TE Q+N +L+TT+GK+IFNEI P SFPYINE T +NL + TP KYF+ EKGA+I+E+I S Sbjct: 541 TEEQKNMLLLTTVGKLIFNEILPESFPYINEPTNSNLEKETPAKYFV-EKGANIKEIIAS 599 Query: 610 LPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVAVSDVIVPEE 669 + + K+ LG IIA F+ + T+TS +LD++K LGF YST++G+TV VSD++V E Sbjct: 600 REEVAPFSKKILGNIIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVGVSDILVLGE 659 Query: 670 KITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKSMDRFNSIML 729 K IL E++AKVD V Q+RRGLIT +ERYDRVI IWS KD + L+KS+++ N I + Sbjct: 660 KDEILHEAQAKVDNVIKQFRRGLITEEERYDRVISIWSNAKDVIQGKLMKSLNKRNPIFM 719 Query: 730 MVDSKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFISTHGARKGLA 789 M DS ARGN S TQL GMRGLMA PSGRI ELPIK++FREGLTVLEYFISTHGARKGLA Sbjct: 720 MSDSGARGNASNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFISTHGARKGLA 779 Query: 790 DTALRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDLYDRIEGRYS 849 DTAL+TADSGYLTRRLVDVAQDVIVREDDCGTD+G + I++G EVIE LYDR+ GR++ Sbjct: 780 DTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLLIGAIKEGNEVIESLYDRLVGRFA 839 Query: 850 FETVRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVCKKCYGRNLA 909 +TV+HPET E++V N LI D A + N+GV + IRS +C RHGVCKKCYGRNLA Sbjct: 840 RKTVKHPETGEVLVAENQLITEDIAHIVENSGVETVNIRSAFTCNTRHGVCKKCYGRNLA 899 Query: 910 TGKHVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQELFEARNPKGQ 969 TG V++GEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQE+FEARNPKGQ Sbjct: 900 TGTDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEIFEARNPKGQ 959 Query: 970 ATISEIDGVIKEIRETKDRREIEVQGEAESKTYSITYGSRLRVSEGQEIEAGDELTDGSI 1029 A ISEIDGVI I + KDR+E+ VQGE E++TY+I YG+RL+V GQ+I G ELT+GSI Sbjct: 960 AVISEIDGVIAAINDVKDRQEVVVQGEVEARTYAIPYGARLKVIPGQKISHGKELTEGSI 1019 Query: 1030 DPKEMLRIKGIRGVQNYILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRIIEAGDTNLL 1089 DPKE+L++ I VQ Y+L+EVQ+VYR QGVEI DKH+EVM++QMLRK+R+ +AG+T++L Sbjct: 1020 DPKELLKVTDITAVQEYLLREVQKVYRMQGVEIGDKHVEVMVRQMLRKVRVSDAGETDVL 1079 Query: 1090 PGAFSDIHEYEAANKEAILTGKEPAVAKPVLLGITKASLETDSFLSAASFQETTRVLTDA 1149 PG DIH++ AN + +L GK+PA A+PVLLGITKASLETDSFLSAASFQETTRVLTDA Sbjct: 1080 PGTLLDIHQFTDANAKVLLQGKQPATARPVLLGITKASLETDSFLSAASFQETTRVLTDA 1139 Query: 1150 AIKGKVDKLLGLKENVLIGKLIPAGTGMNRYRNV 1183 AIKGK D+LLGLKENV+IGKL+PAGTGMNRYR V Sbjct: 1140 AIKGKRDELLGLKENVIIGKLVPAGTGMNRYRKV 1173 >ref|NP_830004.1| DNA-directed RNA polymerase beta' chain [Bacillus cereus ATCC 14579] sp|Q81J47|RPOC_BACCR DNA-directed RNA polymerase beta' chain (RNAP beta' subunit) (Transcriptase beta' chain) (RNA polymerase beta' subunit) gb|AAP07205.1| DNA-directed RNA polymerase beta' chain [Bacillus cereus ATCC 14579] Length = 1203 Score = 1860 bits (4819), Expect = 0.0, Method: Compositional matrix adjust. Identities = 890/1183 (75%), Positives = 1018/1183 (86%), Gaps = 1/1183 (0%) Query: 1 LLDINSFEFMKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWEC 60 ++D+N+FE+MKIGLASP+KIRSWS GEVKKPETINYRTLKPEK+GLFCERIFGPQKDWEC Sbjct: 1 MIDVNNFEYMKIGLASPDKIRSWSYGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWEC 60 Query: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDM 120 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGL LDM Sbjct: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDM 120 Query: 121 SPRSLEEIIYFASYVVTDPGETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKKLLQ 180 SPR+LEE+IYFASYVVT+ G+TPL+KKQLLSEKEYR+YR++YG FQA MGAEA+KKLLQ Sbjct: 121 SPRALEEVIYFASYVVTESGDTPLDKKQLLSEKEYRAYRDRYGSTFQAAMGAEAIKKLLQ 180 Query: 181 DIDIDKELEFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDVLPVIPPELRP 240 DID+DKE++FLKEEL+TAQGQRR RAIKRLEV+EAFRNSGN+P WMI+DVLPVIPPELRP Sbjct: 181 DIDLDKEVDFLKEELKTAQGQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRP 240 Query: 241 MVQLDGGRFATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNGR 300 MVQLDGGRFATSDLNDLY DLGAP IIVQNEKRMLQEAVDALIDNGR Sbjct: 241 MVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGR 300 Query: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKK 360 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGP LKMYQCGLPK+ Sbjct: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKE 360 Query: 361 MALELFKPFVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHR 420 MALELFKPFVMKELV KGLAHNIKSAKRK+ERV PEVWDVLE VIKEHPVLLNRAPTLHR Sbjct: 361 MALELFKPFVMKELVEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHR 420 Query: 421 LGIQAFEPILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNIL 480 LGIQAFEP LVEG AIRLHPLVCTAYNADFDGDQMAVHVPLS+EAQAEAR+LMLA+ NIL Sbjct: 421 LGIQAFEPTLVEGRAIRLHPLVCTAYNADFDGDQMAVHVPLSSEAQAEARLLMLAAQNIL 480 Query: 481 NPKDGKPVVTPSQDMVLGTFYLTMDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIP 540 NPKDGKPVVTPSQDMVLG +YLT++ + G GM+ + NEA+ AYQ G LH RVA+ Sbjct: 481 NPKDGKPVVTPSQDMVLGNYYLTLEREGAIGEGMVFKDANEALLAYQNGYVHLHTRVAVA 540 Query: 541 AKALGKTCFTEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKG 600 A A+ FTE Q++ +L+TT+GK+IFNEI P SFPYINE T +NL + TP KYF+ EKG Sbjct: 541 ASAVNNATFTEEQKSMLLLTTVGKLIFNEILPESFPYINEPTNSNLEKETPAKYFV-EKG 599 Query: 601 ADIRELILSLPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVA 660 A+I+E+I S + + K+ LG IIA F+ + T+TS +LD++K LGF YST++G+TV Sbjct: 600 ANIKEIIASREEVAPFSKKILGNIIAEVFKRFQITETSRMLDRMKNLGFKYSTKAGITVG 659 Query: 661 VSDVIVPEEKITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKS 720 VSD++V EK IL E++AKVD V Q+RRGLIT +ERYDRVI IWS KD + L+KS Sbjct: 660 VSDILVLGEKDEILHEAQAKVDNVIKQFRRGLITEEERYDRVISIWSNAKDVIQGKLMKS 719 Query: 721 MDRFNSIMLMVDSKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFIS 780 +++ N I +M DS ARGN S TQL GMRGLMA PSGRI ELPIK++FREGLTVLEYFIS Sbjct: 720 LNKRNPIFMMSDSGARGNASNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFIS 779 Query: 781 THGARKGLADTALRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDL 840 THGARKGLADTAL+TADSGYLTRRLVDVAQDVIVREDDCGTD+G + I++G EVIE L Sbjct: 780 THGARKGLADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLLIGAIKEGNEVIESL 839 Query: 841 YDRIEGRYSFETVRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVC 900 YDR+ GR++ +TV+HPET E++V N LI D A + N+GV + IRS +C RHGVC Sbjct: 840 YDRLVGRFARKTVKHPETGEVLVAENQLITEDIAHIVENSGVETVNIRSAFTCNTRHGVC 899 Query: 901 KKCYGRNLATGKHVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEL 960 KKCYGRNLATG V++GEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQE+ Sbjct: 900 KKCYGRNLATGTDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEI 959 Query: 961 FEARNPKGQATISEIDGVIKEIRETKDRREIEVQGEAESKTYSITYGSRLRVSEGQEIEA 1020 FEARNPKGQA ISEIDGVI I + KDR+E+ VQGE E++TY+I YG+RL+V+ GQ I Sbjct: 960 FEARNPKGQAVISEIDGVIAAINDVKDRQEVVVQGEVEARTYAIPYGARLKVTPGQPISH 1019 Query: 1021 GDELTDGSIDPKEMLRIKGIRGVQNYILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRI 1080 G ELT+GSIDPKE+L++ I VQ Y+L+EVQ+VYR QGVEI DKH+EVM++QMLRK+R+ Sbjct: 1020 GKELTEGSIDPKELLKVTDITAVQEYLLREVQKVYRMQGVEIGDKHVEVMVRQMLRKVRV 1079 Query: 1081 IEAGDTNLLPGAFSDIHEYEAANKEAILTGKEPAVAKPVLLGITKASLETDSFLSAASFQ 1140 +AG+T++LPG DIH++ AN + +L GK+PA A+PVLLGITKASLETDSFLSAASFQ Sbjct: 1080 SDAGETDVLPGTLLDIHQFTDANAKVLLQGKQPATARPVLLGITKASLETDSFLSAASFQ 1139 Query: 1141 ETTRVLTDAAIKGKVDKLLGLKENVLIGKLIPAGTGMNRYRNV 1183 ETTRVLTDAAIKGK D+LLGLKENV+IGKL+PAGTGMNRYR V Sbjct: 1140 ETTRVLTDAAIKGKRDELLGLKENVIIGKLVPAGTGMNRYRKV 1182 >ref|NP_976431.1| DNA-directed RNA polymerase, beta' subunit [Bacillus cereus ATCC 10987] gb|AAS39039.1| DNA-directed RNA polymerase, beta' subunit [Bacillus cereus ATCC 10987] Length = 1203 Score = 1860 bits (4819), Expect = 0.0, Method: Compositional matrix adjust. Identities = 890/1183 (75%), Positives = 1018/1183 (86%), Gaps = 1/1183 (0%) Query: 1 LLDINSFEFMKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWEC 60 ++D+N+FE+MKIGLASP+KIRSWS GEVKKPETINYRTLKPEK+GLFCERIFGPQKDWEC Sbjct: 1 MIDVNNFEYMKIGLASPDKIRSWSYGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWEC 60 Query: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDM 120 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGL LDM Sbjct: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDM 120 Query: 121 SPRSLEEIIYFASYVVTDPGETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKKLLQ 180 SPR+LEE+IYFASYVVT+ G+TPL+KKQLLSEKEYR+YR++YG FQA MGAEA+KKLLQ Sbjct: 121 SPRALEEVIYFASYVVTESGDTPLDKKQLLSEKEYRAYRDRYGSTFQAAMGAEAIKKLLQ 180 Query: 181 DIDIDKELEFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDVLPVIPPELRP 240 DID+DKE++FLKEEL+TAQGQRR RAIKRLEV+EAFRNSGN+P WMI+DVLPVIPPELRP Sbjct: 181 DIDLDKEVDFLKEELKTAQGQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRP 240 Query: 241 MVQLDGGRFATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNGR 300 MVQLDGGRFATSDLNDLY DLGAP IIVQNEKRMLQEAVDALIDNGR Sbjct: 241 MVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGR 300 Query: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKK 360 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGP LKMYQCGLPK+ Sbjct: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKE 360 Query: 361 MALELFKPFVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHR 420 MALELFKPFVMKELV KGLAHNIKSAKRK+ERV PEVWDVLE VIKEHPVLLNRAPTLHR Sbjct: 361 MALELFKPFVMKELVEKGLAHNIKSAKRKIERVQPEVWDVLESVIKEHPVLLNRAPTLHR 420 Query: 421 LGIQAFEPILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNIL 480 LGIQAFEP LVEG AIRLHPLVCTAYNADFDGDQMAVHVPLS+EAQAEAR+LMLA+ NIL Sbjct: 421 LGIQAFEPTLVEGRAIRLHPLVCTAYNADFDGDQMAVHVPLSSEAQAEARLLMLAAQNIL 480 Query: 481 NPKDGKPVVTPSQDMVLGTFYLTMDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIP 540 NPKDGKPVVTPSQDMVLG +YLT++ + G GM+ + NEA+ AYQ G LH RVA+ Sbjct: 481 NPKDGKPVVTPSQDMVLGNYYLTLEREGAIGEGMVFKDANEALLAYQNGYVHLHTRVAVA 540 Query: 541 AKALGKTCFTEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKG 600 A A+ FTE Q++ +L+TT+GK+IFNEI P SFPYINE T +NL + TP KYF+ EKG Sbjct: 541 ASAVNNATFTEEQKSMLLLTTVGKLIFNEILPESFPYINEPTNSNLEKETPAKYFV-EKG 599 Query: 601 ADIRELILSLPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVA 660 A+I+E+I S + + K+ LG IIA F+ + T+TS +LD++K LGF YST++G+TV Sbjct: 600 ANIKEIIASREEVAPFSKKILGNIIAEVFKRFKITETSRMLDRMKNLGFKYSTKAGITVG 659 Query: 661 VSDVIVPEEKITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKS 720 VSD++V EK IL E++AKVD V Q+RRGLIT +ERYDRVI IWS KD + L+KS Sbjct: 660 VSDILVLGEKDEILHEAQAKVDNVIKQFRRGLITEEERYDRVISIWSNAKDVIQGKLMKS 719 Query: 721 MDRFNSIMLMVDSKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFIS 780 +++ N I +M DS ARGN S TQL GMRGLMA PSGRI ELPIK++FREGLTVLEYFIS Sbjct: 720 LNKRNPIFMMSDSGARGNASNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFIS 779 Query: 781 THGARKGLADTALRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDL 840 THGARKGLADTAL+TADSGYLTRRLVDVAQDVIVREDDCGTD+G + I++G EVIE L Sbjct: 780 THGARKGLADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLLIGAIKEGNEVIESL 839 Query: 841 YDRIEGRYSFETVRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVC 900 YDR+ GR++ +TV+HPET E++V N LI D A + N+GV + IRS +C RHGVC Sbjct: 840 YDRLVGRFARKTVKHPETGEVLVAENQLITEDIAHIVENSGVETVNIRSAFTCNTRHGVC 899 Query: 901 KKCYGRNLATGKHVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEL 960 KKCYGRNLATG V++GEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQE+ Sbjct: 900 KKCYGRNLATGTDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEI 959 Query: 961 FEARNPKGQATISEIDGVIKEIRETKDRREIEVQGEAESKTYSITYGSRLRVSEGQEIEA 1020 FEARNPKGQA ISEIDGVI I + KDR+E+ VQGE E++TY+I YG+RL+V GQ+I Sbjct: 960 FEARNPKGQAVISEIDGVIAAINDVKDRQEVVVQGEVETRTYAIPYGARLKVIPGQQISH 1019 Query: 1021 GDELTDGSIDPKEMLRIKGIRGVQNYILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRI 1080 G ELT+GSIDPKE+L++ I VQ Y+L+EVQ+VYR QGVEI DKH+EVM++QMLRK+R+ Sbjct: 1020 GKELTEGSIDPKELLKVTDITAVQEYLLREVQKVYRMQGVEIGDKHVEVMVRQMLRKVRV 1079 Query: 1081 IEAGDTNLLPGAFSDIHEYEAANKEAILTGKEPAVAKPVLLGITKASLETDSFLSAASFQ 1140 +AG+T++LPG DIH++ AN + +L GK+PA A+PVLLGITKASLETDSFLSAASFQ Sbjct: 1080 SDAGETDVLPGTLLDIHQFTDANAKVLLQGKQPATARPVLLGITKASLETDSFLSAASFQ 1139 Query: 1141 ETTRVLTDAAIKGKVDKLLGLKENVLIGKLIPAGTGMNRYRNV 1183 ETTRVLTDAAIKGK D+LLGLKENV+IGKL+PAGTGMNRYR V Sbjct: 1140 ETTRVLTDAAIKGKRDELLGLKENVIIGKLVPAGTGMNRYRKV 1182 >ref|NP_240993.1| DNA-directed RNA polymerase beta' subunit [Bacillus halodurans] sp|Q9Z9M1|RPOC_BACHD DNA-directed RNA polymerase beta' chain (RNAP beta' subunit) (Transcriptase beta' chain) (RNA polymerase beta' subunit) pir||T44376 DNA-directed RNA polymerase beta' subunit rpoC [imported] - Bacillus halodurans (strain C-125) dbj|BAA75264.1| rpoC homologue (identity of 85% to B. subtilis ) [Bacillus halodurans] dbj|BAB03846.1| DNA-directed RNA polymerase beta' subunit [Bacillus halodurans] Length = 1206 Score = 1855 bits (4804), Expect = 0.0, Method: Compositional matrix adjust. Identities = 887/1183 (74%), Positives = 1012/1183 (85%), Gaps = 2/1183 (0%) Query: 1 LLDINSFEFMKIGLASPEKIRSWSRGEVKKPETINYRTLKPEKEGLFCERIFGPQKDWEC 60 ++D+N+FE+MKIGLASP KIRSWSRGEVKKPETINYRTLKPEK+GLFCERIFGPQKDWEC Sbjct: 1 MIDVNNFEYMKIGLASPNKIRSWSRGEVKKPETINYRTLKPEKDGLFCERIFGPQKDWEC 60 Query: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLALDM 120 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGL LDM Sbjct: 61 HCGKYKRVRYKGVVCDRCGVEVTRAKVRRERMGHIELAAPVSHIWYFKGIPSRMGLVLDM 120 Query: 121 SPRSLEEIIYFASYVVTDPGETPLEKKQLLSEKEYRSYREKYGYGFQAGMGAEAVKKLLQ 180 SPRSLEE+IYFASYVVTDPG+TPLEKKQLLSEKE+R+Y +KYG F A MGAEA++KLL Sbjct: 121 SPRSLEEVIYFASYVVTDPGDTPLEKKQLLSEKEFRAYLDKYGRSFTAQMGAEAIRKLLM 180 Query: 181 DIDIDKELEFLKEELRTAQGQRRNRAIKRLEVIEAFRNSGNKPDWMIMDVLPVIPPELRP 240 DID+DKE++ LKEEL+TAQGQRR RAIKRLEV+EAFRNSGN+P WMI+DVLPVIPPELRP Sbjct: 181 DIDLDKEVDGLKEELQTAQGQRRTRAIKRLEVLEAFRNSGNEPSWMILDVLPVIPPELRP 240 Query: 241 MVQLDGGRFATSDLNDLYXXXXXXXXXXXXXXDLGAPDIIVQNEKRMLQEAVDALIDNGR 300 MVQLDGGRFATSDLNDLY DLGAP IIVQNEKRMLQEAVDALIDNGR Sbjct: 241 MVQLDGGRFATSDLNDLYRRVINRNNRLKRLLDLGAPSIIVQNEKRMLQEAVDALIDNGR 300 Query: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPYLKMYQCGLPKK 360 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGP LKMYQCGLPK+ Sbjct: 301 RGRPVTGPGNRPLKSLSHMLKGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKMYQCGLPKE 360 Query: 361 MALELFKPFVMKELVNKGLAHNIKSAKRKVERVSPEVWDVLEDVIKEHPVLLNRAPTLHR 420 MALELFKPFVMKELV+KGLAHNIKSAKRKVERV PEVWDVLE+VIKEHPVLLNRAPTLHR Sbjct: 361 MALELFKPFVMKELVSKGLAHNIKSAKRKVERVQPEVWDVLEEVIKEHPVLLNRAPTLHR 420 Query: 421 LGIQAFEPILVEGHAIRLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLASGNIL 480 LGIQAFEP LVEG AI+LHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLA+ NIL Sbjct: 421 LGIQAFEPTLVEGRAIKLHPLVCTAYNADFDGDQMAVHVPLSAEAQAEARILMLAAQNIL 480 Query: 481 NPKDGKPVVTPSQDMVLGTFYLTMDNKEEKGTGMILRTVNEAVSAYQRGTAGLHARVAIP 540 NPKDGKPVVTPSQDMVLG +YLTM+ + KG G + + NEA+ AYQ G LH R+AIP Sbjct: 481 NPKDGKPVVTPSQDMVLGNYYLTMEREGAKGEGSVFKDTNEALIAYQNGYVHLHTRIAIP 540 Query: 541 AKALGKTCFTEAQQNAMLVTTIGKIIFNEIYPSSFPYINEATKTNLLQGTPEKYFIYEKG 600 +LGKT F E Q + +L+TT+GK+IFNEI P SFPY+NE T NL TP KY + Sbjct: 541 VASLGKTTFKEEQNSQLLLTTVGKLIFNEILPESFPYVNEPTAHNLEVETPSKYMV-PTS 599 Query: 601 ADIRELILSLPDASAVGKEYLGLIIARCFEIYHTTQTSMILDKIKQLGFTYSTRSGVTVA 660 +++EL + K +LG IIA F+ + T+TS +LD++K LGF YST++G+TV Sbjct: 600 TNVKELFQERDVVAPFKKGFLGNIIAEVFKKFKITETSKMLDRMKDLGFKYSTKAGITVG 659 Query: 661 VSDVIVPEEKITILKESEAKVDVVANQYRRGLITNDERYDRVIEIWSKTKDDLTNILLKS 720 V+D++V EK IL E+E KVD V Q+RRGLIT +ERYDRVI IWS+ KD + + L+ S Sbjct: 660 VADIVVLPEKKEILAEAEKKVDRVLKQFRRGLITEEERYDRVISIWSEAKDVIQDKLMGS 719 Query: 721 MDRFNSIMLMVDSKARGNKSQITQLGGMRGLMATPSGRIFELPIKANFREGLTVLEYFIS 780 +D+ N I +M DS ARGN S TQL GMRGLMA PSGRI ELPIK++FREGLTVLEYFIS Sbjct: 720 LDKRNPIFMMSDSGARGNASNFTQLAGMRGLMANPSGRIIELPIKSSFREGLTVLEYFIS 779 Query: 781 THGARKGLADTALRTADSGYLTRRLVDVAQDVIVREDDCGTDKGFTVSRIQDGKEVIEDL 840 THGARKGLADTAL+TADSGYLTRRLVDVAQDVIVREDDCGTD+G V I++G E+IE L Sbjct: 780 THGARKGLADTALKTADSGYLTRRLVDVAQDVIVREDDCGTDRGLEVEAIKEGNEIIEGL 839 Query: 841 YDRIEGRYSFETVRHPETKEIIVNRNDLIDSDKAEEIVNAGVTKLQIRSVLSCRARHGVC 900 YDR+ GR +F+TVRHPET E IV +N+LI D A++IV AGV ++ IRSV +C RHGVC Sbjct: 840 YDRLVGRVAFKTVRHPETGEPIVKKNELIHEDLAKQIVEAGVEQVTIRSVFTCDTRHGVC 899 Query: 901 KKCYGRNLATGKHVDIGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEL 960 KKCYGRNLATG V++GEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEL Sbjct: 900 KKCYGRNLATGSDVEVGEAVGIIAAQSIGEPGTQLTMRTFHTGGVAGDDITQGLPRIQEL 959 Query: 961 FEARNPKGQATISEIDGVIKEIRETKDRREIEVQGEAESKTYSITYGSRLRVSEGQEIEA 1020 FEARNPKGQA I+EI+G + I E D+REI V+GE E+KTYSI YG+R++V G+++ Sbjct: 960 FEARNPKGQAVITEIEGEVTNINEA-DKREITVKGEMETKTYSIPYGARIKVELGEQVVP 1018 Query: 1021 GDELTDGSIDPKEMLRIKGIRGVQNYILQEVQRVYRNQGVEINDKHIEVMIKQMLRKIRI 1080 G LT+GSIDPKE+L+++G+ GVQ Y+L+EVQ+VYR QGVEI DKH+EVM++QMLRKIR+ Sbjct: 1019 GQSLTEGSIDPKELLKVQGMTGVQEYLLREVQKVYRMQGVEIGDKHVEVMVRQMLRKIRV 1078 Query: 1081 IEAGDTNLLPGAFSDIHEYEAANKEAILTGKEPAVAKPVLLGITKASLETDSFLSAASFQ 1140 I+AGDT +LPG+ +I + NK+ +L+GK PA +PVLLGITKASLETDSFLSAASFQ Sbjct: 1079 IDAGDTEVLPGSLIEIQHFNDENKKVLLSGKRPATGRPVLLGITKASLETDSFLSAASFQ 1138 Query: 1141 ETTRVLTDAAIKGKVDKLLGLKENVLIGKLIPAGTGMNRYRNV 1183 ETTRVLTDAAIKGK D+L+GLKENV+IGKL+PAGTGMNRYRN+ Sbjct: 1139 ETTRVLTDAAIKGKRDELVGLKENVIIGKLVPAGTGMNRYRNL 1181 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.318 0.136 0.389 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 1,711,792,149 Number of extensions: 72830999 Number of successful extensions: 199219 Number of sequences better than 1.0e-05: 3005 Number of HSP's gapped: 195069 Number of HSP's successfully gapped: 3850 Length of query: 1203 Length of database: 757,237,578 Length adjustment: 137 Effective length of query: 1066 Effective length of database: 385,269,015 Effective search space: 410696769990 Effective search space used: 410696769990 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 132 (55.5 bits)