BLASTP 2.2.21 [Jun-14-2009] 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= 0022.0209.p (178 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 128 6e-30 PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 113 2e-25 PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 113 2e-25 fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s... 106 2e-23 PA4896 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 96 3e-20 PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 96 5e-20 PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 96 5e-20 RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 78 1e-14 PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 77 2e-14 PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 65 7e-11 >PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 128 bits (322), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 75/168 (44%), Positives = 105/168 (62%), Gaps = 7/168 (4%) Query: 2 PAMEELHVDPLETLYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEP 61 PA LH D + LY+DHHGWL+ WLRR+LGC E AADLA DTF RLLA+R VL A +EP Sbjct: 3 PADASLH-DAVSHLYQDHHGWLQGWLRRRLGCAENAADLAQDTFARLLASRRVLDA-REP 60 Query: 62 RAYLVTAARHLLIDRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGR 121 RAYL T A+ L+I+ +RQ + +AYLD L PE + AP E L ++ + + Sbjct: 61 RAYLTTVAKGLMINWFQRQSLERAYLDAL----ANLPEDL-APPPEQRLMVLETLHEVDA 115 Query: 122 ALQAVRAEAAEAFILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQC 169 L ++ +AF+L ++G + E +A + VSL +V+ ++ QA QC Sbjct: 116 LLGSLPDRVRQAFLLAQIEGLKYEAIAERLGVSLGSVKRYMQQAFRQC 163 >PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 113 bits (283), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 63/157 (40%), Positives = 94/157 (59%), Gaps = 6/157 (3%) Query: 14 TLYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEPRAYLVTAARHLL 73 TLY DHH WL WLRR+LGC + AADLA DTF+++L +R + + EPRA+L T AR +L Sbjct: 14 TLYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVSRQA-ARIDEPRAFLTTIARRVL 72 Query: 74 IDRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGRALQAVRAEAAEA 133 + RRQ + +AYL+ L + PE PS ET ++ + L R L + A E Sbjct: 73 CNHYRRQDVERAYLEAL----ASLPE-REVPSEETRAIVLETLVELDRLLDGLPPLAKET 127 Query: 134 FILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCH 170 F+L + G E+A+Q +SL +V+ ++ +A +C+ Sbjct: 128 FLLAQLDGLGYAEIATQLGISLSSVKRYMLKAAQRCY 164 >PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 113 bits (282), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 69/170 (40%), Positives = 97/170 (57%), Gaps = 6/170 (3%) Query: 1 MPAMEELHVDPLETLYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKE 60 M A + + + + +LYRDH GWL AWL R LGC ++A DL+ DTF+RLL R L L+E Sbjct: 1 MSAGDVSNSEFVGSLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLG-RPELPGLRE 59 Query: 61 PRAYLVTAARHLLIDRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALG 120 PRA+L AR L+ID RR + QAYL +L PE PSAE ++ + + Sbjct: 60 PRAFLAKVARGLMIDHFRRAALEQAYLAEL----ALVPE-AEQPSAEEQYLILEDLREID 114 Query: 121 RALQAVRAEAAEAFILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCH 170 R L + +A AF+ + G E+A + VS+ V+ +LAQ L QC+ Sbjct: 115 RLLGTLSLKARSAFLYSRLDGMPHAEIAERLGVSVPRVRQYLAQGLRQCY 164 >fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Eco Escherichia coli K12 Length = 173 Score = 106 bits (265), Expect = 2e-23, Method: Compositional matrix adjust. Identities = 56/158 (35%), Positives = 93/158 (58%), Gaps = 6/158 (3%) Query: 12 LETLYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEPRAYLVTAARH 71 E+LY HHGWL++WL RKL A D+A DTFLR++ + + LS +++PR++L T A+ Sbjct: 13 FESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTIRDPRSFLCTIAKR 71 Query: 72 LLIDRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGRALQAVRAEAA 131 +++D RR + +AYL+ L PE APS E ++ ++ L L + + Sbjct: 72 VMVDLFRRNALEKAYLEML----ALMPE-GGAPSPEERESQLETLQLLDSMLDGLNGKTR 126 Query: 132 EAFILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQC 169 EAF+L + G E+A + VS+ +V+ ++A+A+ C Sbjct: 127 EAFLLSQLDGLTYSEIAHKLGVSISSVKKYVAKAVEHC 164 >PA4896 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 178 Score = 96.3 bits (238), Expect = 3e-20, Method: Compositional matrix adjust. Identities = 63/167 (37%), Positives = 97/167 (58%), Gaps = 15/167 (8%) Query: 10 DPLETLYRDHHGWLRAWLRRKLGCTEQ--AADLAHDTFLRLLATRDV--LSALKEPRAYL 65 D + TLYR++H WLR WL +L + A DLAHDTFLR+LA+RD A+++PRAYL Sbjct: 13 DGVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDTFLRILASRDGGQREAIRQPRAYL 72 Query: 66 VTAARHLLIDRSRRQQIRQAYLDQLERQFGACPELMHAPSAE---TILQAVQAIEALGRA 122 A +L+ RRQ + A+L+ L PE + PS E I++ + I+AL Sbjct: 73 TRIANCVLVSWRRRQSLELAWLEAL----ATLPEPLQ-PSPEQQSVIVETLHEIDAL--- 124 Query: 123 LQAVRAEAAEAFILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQC 169 L +R +AF++ + G +Q+++A V+L TV+ ++ QA + C Sbjct: 125 LDTLRPRVKQAFLMATLDGMKQKDIAQALGVALPTVKKFIHQAYVTC 171 >PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 65/169 (38%), Positives = 99/169 (58%), Gaps = 6/169 (3%) Query: 2 PAMEELHVDPLETLYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEP 61 P + H + LY +HHGWL+ WLR KLGC AADLA DTFLR+L R+ L + P Sbjct: 4 PILLSAHHRAMHALYSEHHGWLQNWLRGKLGCAADAADLAQDTFLRILLKRE-LREIGMP 62 Query: 62 RAYLVTAARHLLIDRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGR 121 RA+L T AR L+ID RR+++++AYL+ + PE APS E ++ +E + R Sbjct: 63 RAFLRTIARGLVIDHWRREELQRAYLESI----AHLPE-AQAPSPEARELVLELLEEISR 117 Query: 122 ALQAVRAEAAEAFILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCH 170 L ++ + AF+L + ++A + VS R+V+ ++A+AL C+ Sbjct: 118 MLDGLKPKVRTAFLLAQCEDLSHRQIAERMGVSQRSVERYVAEALYHCY 166 >PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 59/160 (36%), Positives = 90/160 (56%), Gaps = 6/160 (3%) Query: 15 LYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEPRAYLVTAARHLLI 74 ++++ + WL LRR LGC A D+A +TFL++LA D ++++EPRA L T AR L+ Sbjct: 14 MFQNDYSWLSGRLRRYLGCPHSAEDIASETFLKVLALPDP-ASIREPRALLTTIARRLMY 72 Query: 75 DRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGRALQAVRAEAAEAF 134 D RRQ + +AYL+ L PE + APSAE Q V+ + L R L + +A AF Sbjct: 73 DGWRRQDLERAYLESL----AGLPEAL-APSAEEQAQVVETLLRLERMLAGLSPKARAAF 127 Query: 135 ILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCHRHLA 174 I + G E+A VS+ + ++ + QC++ LA Sbjct: 128 IHSQIGGLTYVEIACLLEVSVSRIHQYMVEGFKQCYQVLA 167 >RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Rso Ralstonia solanacearum Length = 169 Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 54/155 (34%), Positives = 79/155 (50%), Gaps = 6/155 (3%) Query: 16 YRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEPRAYLVTAARHLLID 75 +R H+ WL + RK GC A DLA + F +LL D +EPRA L T A+ LL D Sbjct: 16 FRQHYAWLAGRMGRKTGCRFGAEDLASEAFAQLLQMPD-WQGTREPRALLTTIAQRLLYD 74 Query: 76 RSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGRALQAVRAEAAEAFI 135 RR+ + AY + A PE PS E ++A+ + R L + +A AF+ Sbjct: 75 IWRRRDLELAY----QAWAAAQPE-ATLPSPEERALVLEALATIDRLLDGLPVKARTAFL 129 Query: 136 LHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCH 170 + G E+A + NVS+R VQ ++ QA+ C+ Sbjct: 130 YSQLDGLTYPEIAGRLNVSVRMVQKYMTQAMRLCY 164 >PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 175 Score = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 60/174 (34%), Positives = 83/174 (47%), Gaps = 1/174 (0%) Query: 4 MEELHVDPLETLYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEPRA 63 M+E + Y+ HG L +LR+ LG + AADLA DTF + L S +++PRA Sbjct: 1 MDERFRGSVSHAYQAFHGELLRFLRKHLGSSADAADLAQDTFAQWLKWPGRQS-VEQPRA 59 Query: 64 YLVTAARHLLIDRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGRAL 123 +L AR+LL D RRQQ R LD+ A + Q + L AL Sbjct: 60 FLFQIARNLLRDHWRRQQSRGQDLDRPAANDEPAALEGEAAGPGERFEQQQRLSHLAAAL 119 Query: 124 QAVRAEAAEAFILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCHRHLAAPG 177 + EAF+LH G Q E+A + +SL V+ +A AL+ C R L G Sbjct: 120 AELPPRRREAFVLHKFDGLSQVEVAERMGISLSMVEKHIASALLHCKRRLGQGG 173 >PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 65.5 bits (158), Expect = 7e-11, Method: Compositional matrix adjust. Identities = 43/157 (27%), Positives = 81/157 (51%), Gaps = 6/157 (3%) Query: 15 LYRDHHGWLRAWLRRKLGCTEQAADLAHDTFLRLLATRDVLSALKEPRAYLVTAARHLLI 74 L++ ++ WL L + GC+ A DLA + FL++ D S ++ PRA+L T A+ L+ Sbjct: 15 LFQQNYDWLCKKLSYQTGCSHSAEDLAAEAFLQVWMLPDPAS-IRSPRAFLATIAQRLMY 73 Query: 75 DRSRRQQIRQAYLDQLERQFGACPELMHAPSAETILQAVQAIEALGRALQAVRAEAAEAF 134 + RR+ + +AYL L PE + PS +++++A+ R L + +A F Sbjct: 74 ESWRRKDLERAYLQIL----AEAPEAVQ-PSPHEQWMLIESLQAIDRLLDGLSGQARAVF 128 Query: 135 ILHYVQGRRQEELASQFNVSLRTVQGWLAQALIQCHR 171 ++ ++G ++ + +SL + + AL C+R Sbjct: 129 LMSQLEGLTYVQIGERLGLSLGRIHQLMKDALHCCYR 165