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= 0022.0170.p (165 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... 180 1e-45 PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 170 1e-42 PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 170 1e-42 fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma s... 146 2e-35 PA4896 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 135 5e-32 RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 132 4e-31 PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 125 3e-29 PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 121 5e-28 PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 118 5e-27 PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 89 4e-18 >PA1912 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 180 bits (456), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 94/164 (57%), Positives = 115/164 (70%), Gaps = 2/164 (1%) Query: 1 MSPAEA--HQEIGGLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREP 58 M PA+A H + LY++HHGWL WL RRL C ADLAQDTF RLL R D REP Sbjct: 1 MPPADASLHDAVSHLYQDHHGWLQGWLRRRLGCAENAADLAQDTFARLLASRRVLDAREP 60 Query: 59 RAYLTTIAKGLVASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQL 118 RAYLTT+AKGL+ + +R+ LE AYL+ALA LPE P E+RL+VL+TL E+D +L L Sbjct: 61 RAYLTTVAKGLMINWFQRQSLERAYLDALANLPEDLAPPPEQRLMVLETLHEVDALLGSL 120 Query: 119 PARARQVFLLAQLDGLPYASIAGLLGISLSTVKRHMVLALRHCL 162 P R RQ FLLAQ++GL Y +IA LG+SL +VKR+M A R CL Sbjct: 121 PDRVRQAFLLAQIEGLKYEAIAERLGVSLGSVKRYMQQAFRQCL 164 >PA3899 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 170 bits (431), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 88/152 (57%), Positives = 110/152 (72%) Query: 13 LYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGLVAS 72 LY +HH WL WL RRL C ADLAQDTFV++L R + EPRA+LTTIA+ ++ + Sbjct: 15 LYSDHHHWLTGWLRRRLGCPQNAADLAQDTFVKVLVSRQAARIDEPRAFLTTIARRVLCN 74 Query: 73 HLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVFLLAQLD 132 H RR+ +E AYLEALA+LPE PS E R +VL+TL E+DR+LD LP A++ FLLAQLD Sbjct: 75 HYRRQDVERAYLEALASLPEREVPSEETRAIVLETLVELDRLLDGLPPLAKETFLLAQLD 134 Query: 133 GLPYASIAGLLGISLSTVKRHMVLALRHCLAA 164 GL YA IA LGISLS+VKR+M+ A + C A Sbjct: 135 GLGYAEIATQLGISLSSVKRYMLKAAQRCYFA 166 >PA0472 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 170 bits (431), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 84/156 (53%), Positives = 109/156 (69%) Query: 10 IGGLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGL 69 +G LYR+H GWL+AWL+R L CR DL+QDTFVRLLG P LREPRA+L +A+GL Sbjct: 12 VGSLYRDHRGWLLAWLNRNLGCRQRAEDLSQDTFVRLLGRPELPGLREPRAFLAKVARGL 71 Query: 70 VASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVFLLA 129 + H RR LE AYL LA +PE QPSAEE+ L+L+ L EIDR+L L +AR FL + Sbjct: 72 MIDHFRRAALEQAYLAELALVPEAEQPSAEEQYLILEDLREIDRLLGTLSLKARSAFLYS 131 Query: 130 QLDGLPYASIAGLLGISLSTVKRHMVLALRHCLAAL 165 +LDG+P+A IA LG+S+ V++++ LR C AL Sbjct: 132 RLDGMPHAEIAERLGVSVPRVRQYLAQGLRQCYIAL 167 >fecI [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Eco Escherichia coli K12 Length = 173 Score = 146 bits (369), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 72/151 (47%), Positives = 100/151 (66%) Query: 12 GLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGLVA 71 LY HHGWL +WL+R+L D+AQDTF+R++ +R+PR++L TIAK ++ Sbjct: 15 SLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVSETLSTIRDPRSFLCTIAKRVMV 74 Query: 72 SHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVFLLAQL 131 RR LE AYLE LA +PE PS EER L+TL +D +LD L + R+ FLL+QL Sbjct: 75 DLFRRNALEKAYLEMLALMPEGGAPSPEERESQLETLQLLDSMLDGLNGKTREAFLLSQL 134 Query: 132 DGLPYASIAGLLGISLSTVKRHMVLALRHCL 162 DGL Y+ IA LG+S+S+VK+++ A+ HCL Sbjct: 135 DGLTYSEIAHKLGVSISSVKKYVAKAVEHCL 165 >PA4896 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 178 Score = 135 bits (339), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 76/159 (47%), Positives = 103/159 (64%), Gaps = 5/159 (3%) Query: 10 IGGLYREHHGWLVAWLSRRLAC--RHLGADLAQDTFVRLLGHRPPPD---LREPRAYLTT 64 + LYRE+H WL WL+ RL R + DLA DTF+R+L R +R+PRAYLT Sbjct: 15 VATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDTFLRILASRDGGQREAIRQPRAYLTR 74 Query: 65 IAKGLVASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQ 124 IA ++ S RR+ LE A+LEALA LPEP QPS E++ ++++TL EID +LD L R +Q Sbjct: 75 IANCVLVSWRRRQSLELAWLEALATLPEPLQPSPEQQSVIVETLHEIDALLDTLRPRVKQ 134 Query: 125 VFLLAQLDGLPYASIAGLLGISLSTVKRHMVLALRHCLA 163 FL+A LDG+ IA LG++L TVK+ + A CL+ Sbjct: 135 AFLMATLDGMKQKDIAQALGVALPTVKKFIHQAYVTCLS 173 >RSp0849 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Rso Ralstonia solanacearum Length = 169 Score = 132 bits (331), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 72/151 (47%), Positives = 92/151 (60%) Query: 14 YREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGLVASH 73 +R+H+ WL + R+ CR DLA + F +LL REPRA LTTIA+ L+ Sbjct: 16 FRQHYAWLAGRMGRKTGCRFGAEDLASEAFAQLLQMPDWQGTREPRALLTTIAQRLLYDI 75 Query: 74 LRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVFLLAQLDG 133 RRR LE AY AA PE + PS EER LVL+ L IDR+LD LP +AR FL +QLDG Sbjct: 76 WRRRDLELAYQAWAAAQPEATLPSPEERALVLEALATIDRLLDGLPVKARTAFLYSQLDG 135 Query: 134 LPYASIAGLLGISLSTVKRHMVLALRHCLAA 164 L Y IAG L +S+ V+++M A+R C A Sbjct: 136 LTYPEIAGRLNVSVRMVQKYMTQAMRLCYLA 166 >PA2050 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 168 Score = 125 bits (315), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 66/156 (42%), Positives = 97/156 (62%) Query: 10 IGGLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGL 69 +G +++ + WL L R L C H D+A +TF+++L P +REPRA LTTIA+ L Sbjct: 11 VGLMFQNDYSWLSGRLRRYLGCPHSAEDIASETFLKVLALPDPASIREPRALLTTIARRL 70 Query: 70 VASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVFLLA 129 + RR+ LE AYLE+LA LPE PSAEE+ V++TL ++R+L L +AR F+ + Sbjct: 71 MYDGWRRQDLERAYLESLAGLPEALAPSAEEQAQVVETLLRLERMLAGLSPKARAAFIHS 130 Query: 130 QLDGLPYASIAGLLGISLSTVKRHMVLALRHCLAAL 165 Q+ GL Y IA LL +S+S + ++MV + C L Sbjct: 131 QIGGLTYVEIACLLEVSVSRIHQYMVEGFKQCYQVL 166 >PA2468 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 172 Score = 121 bits (304), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 77/155 (49%), Positives = 101/155 (65%) Query: 7 HQEIGGLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIA 66 H+ + LY EHHGWL WL +L C ADLAQDTF+R+L R ++ PRA+L TIA Sbjct: 11 HRAMHALYSEHHGWLQNWLRGKLGCAADAADLAQDTFLRILLKRELREIGMPRAFLRTIA 70 Query: 67 KGLVASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVF 126 +GLV H RR +L+ AYLE++A LPE PS E R LVL+ L EI R+LD L + R F Sbjct: 71 RGLVIDHWRREELQRAYLESIAHLPEAQAPSPEARELVLELLEEISRMLDGLKPKVRTAF 130 Query: 127 LLAQLDGLPYASIAGLLGISLSTVKRHMVLALRHC 161 LLAQ + L + IA +G+S +V+R++ AL HC Sbjct: 131 LLAQCEDLSHRQIAERMGVSQRSVERYVAEALYHC 165 >PA2093 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 169 Score = 118 bits (296), Expect = 5e-27, Method: Compositional matrix adjust. Identities = 63/152 (41%), Positives = 93/152 (61%) Query: 10 IGGLYREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGL 69 I L+++++ WL LS + C H DLA + F+++ P +R PRA+L TIA+ L Sbjct: 12 IAQLFQQNYDWLCKKLSYQTGCSHSAEDLAAEAFLQVWMLPDPASIRSPRAFLATIAQRL 71 Query: 70 VASHLRRRQLETAYLEALAALPEPSQPSAEERLLVLDTLCEIDRILDQLPARARQVFLLA 129 + RR+ LE AYL+ LA PE QPS E+ +++++L IDR+LD L +AR VFL++ Sbjct: 72 MYESWRRKDLERAYLQILAEAPEAVQPSPHEQWMLIESLQAIDRLLDGLSGQARAVFLMS 131 Query: 130 QLDGLPYASIAGLLGISLSTVKRHMVLALRHC 161 QL+GL Y I LG+SL + + M AL C Sbjct: 132 QLEGLTYVQIGERLGLSLGRIHQLMKDALHCC 163 >PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 175 Score = 89.0 bits (219), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 57/153 (37%), Positives = 80/153 (52%), Gaps = 5/153 (3%) Query: 14 YREHHGWLVAWLSRRLACRHLGADLAQDTFVRLLGHRPPPDLREPRAYLTTIAKGLVASH 73 Y+ HG L+ +L + L ADLAQDTF + L + +PRA+L IA+ L+ H Sbjct: 13 YQAFHGELLRFLRKHLGSSADAADLAQDTFAQWLKWPGRQSVEQPRAFLFQIARNLLRDH 72 Query: 74 LRRRQLETAYLEALAALPEPSQPSAE-----ERLLVLDTLCEIDRILDQLPARARQVFLL 128 RR+Q L+ AA EP+ E ER L + L +LP R R+ F+L Sbjct: 73 WRRQQSRGQDLDRPAANDEPAALEGEAAGPGERFEQQQRLSHLAAALAELPPRRREAFVL 132 Query: 129 AQLDGLPYASIAGLLGISLSTVKRHMVLALRHC 161 + DGL +A +GISLS V++H+ AL HC Sbjct: 133 HKFDGLSQVEVAERMGISLSMVEKHIASALLHC 165