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= 0002.0019.p (195 letters) Database: COGmodified 192,987 sequences; 59,019,183 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value PA2896 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 73 3e-13 slr1545 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 69 4e-12 PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 69 8e-12 alr3280 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 67 2e-11 Rv3223c [K] COG1595 DNA-directed RNA polymerase specialized sigm... 61 1e-09 MT3320 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 61 1e-09 Rv1221 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 60 3e-09 MT1259 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 60 3e-09 PA3410 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 60 4e-09 Cgl1096 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 59 6e-09 >PA2896 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 194 Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust. Identities = 57/170 (33%), Positives = 86/170 (50%), Gaps = 16/170 (9%) Query: 21 VMRERSRLGGFIRRPQADAGEAE---DILQEVFYEFVQAYRLPEPIEQVSAWLFRVARNR 77 V+ +R R G R AG+ E +I QE + +++ P+ WL+++ARNR Sbjct: 31 VLYQRHR-QGLYRFLCGLAGQTELADEIYQETWLSLIRSESQPQGRASFRTWLYQIARNR 89 Query: 78 IIDRFRKKKE-EPLPEAHDIEQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEAL 136 +ID +RK + +PL +++D EQ+ A P GPE + + + LQ AL Sbjct: 90 LIDHWRKHGQRQPLQDSYD-EQLH----------AQPDQGAGPEQQLSLSRDGERLQSAL 138 Query: 137 GELPEAQREVFIAHELDGLSFKEMAAASGTSLNTLLARKRYAVLHLRERL 186 LPE QREVF+ L E+A + + L T+ +R RYAV LR L Sbjct: 139 ETLPEEQREVFLMRAHGELELAEIATLTQSPLETVKSRFRYAVQKLRRLL 188 >slr1545 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Syn Synechocystis Length = 223 Score = 69.3 bits (168), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 50/167 (29%), Positives = 84/167 (50%), Gaps = 7/167 (4%) Query: 23 RERSRLGGFIRRPQADAGEAEDILQEVFYE-FVQAYRLPEPIEQVSAWLFRVARNRIIDR 81 R +S + + D + D+ QEV+ + +RL EP+ + WL R+A N D Sbjct: 57 RYQSHVDKILYHLAPDWQDRADLAQEVWIRVYRNIHRLNEPV-KFKGWLSRIATNLFYDE 115 Query: 82 FRKKKEEPLPEAHDI-EQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEALGELP 140 RK+K P + D ++D + W ++ P+ P+ + A + L+ A+ +LP Sbjct: 116 LRKRKRVSHPISLDAPRRMDDGEIDWDIESDYPS----PDETLSTAEFYECLRSAIKDLP 171 Query: 141 EAQREVFIAHELDGLSFKEMAAASGTSLNTLLARKRYAVLHLRERLQ 187 EA R I E+DGL+++E+A +G SL T+ +R A L+ LQ Sbjct: 172 EAFRTTIILREIDGLAYEEIAEITGVSLGTVKSRIARARAKLQTFLQ 218 >PA1300 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 175 Score = 68.6 bits (166), Expect = 8e-12, Method: Compositional matrix adjust. Identities = 47/156 (30%), Positives = 83/156 (53%), Gaps = 9/156 (5%) Query: 31 FIRRPQADAGEAEDILQEVFYEFVQAYRLPEPIEQVSAWLFRVARNRIIDRFRKKKEEPL 90 F+R+ + +A D+ Q+ F ++++ + + +EQ A+LF++ARN + D +R+++ Sbjct: 23 FLRKHLGSSADAADLAQDTFAQWLK-WPGRQSVEQPRAFLFQIARNLLRDHWRRQQSR-- 79 Query: 91 PEAHDIEQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEALGELPEAQREVFIAH 150 D+++ D+ AL A GP + + + L AL ELP +RE F+ H Sbjct: 80 --GQDLDRPAANDEP----AALEGEAAGPGERFEQQQRLSHLAAALAELPPRRREAFVLH 133 Query: 151 ELDGLSFKEMAAASGTSLNTLLARKRYAVLHLRERL 186 + DGLS E+A G SL+ + A+LH + RL Sbjct: 134 KFDGLSQVEVAERMGISLSMVEKHIASALLHCKRRL 169 >alr3280 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Nos Nostoc sp. PCC 7120 Length = 218 Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 47/155 (30%), Positives = 75/155 (48%), Gaps = 5/155 (3%) Query: 38 DAGEAEDILQEVFYE-FVQAYRLPEPIEQVSAWLFRVARNRIIDRFRKKKEEPLPEAHDI 96 D + D+ QEV+ + RL EP + WL R+A N D RK+K P + D Sbjct: 67 DWSDRADLAQEVWIRVYRNINRLQEP-SKFRGWLSRIATNLFYDELRKRKRVVSPLSLDA 125 Query: 97 EQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEALGELPEAQREVFIAHELDGLS 156 + DD +D + GPE + L+EA+ +LPE R + E++G++ Sbjct: 126 PR--SVDDG-EMDWEIAGDTPGPEEELTTREFYEQLREAIADLPEVFRTTIVLREIEGMA 182 Query: 157 FKEMAAASGTSLNTLLARKRYAVLHLRERLQAVYD 191 ++E+A +G SL T+ +R A L+ +LQ D Sbjct: 183 YEEIAEITGVSLGTVKSRIARARSRLQTQLQTYLD 217 >Rv3223c [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mtu Mycobacterium tuberculosis H37Rv Length = 216 Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 57/190 (30%), Positives = 89/190 (46%), Gaps = 15/190 (7%) Query: 8 SPMSDQDREITATVMRERSRL-----GGFIRRPQADAGEAEDILQEVFYEFVQAYRLPEP 62 P + D E+TA R+ L GG +R + A +AED+LQE + +R Sbjct: 16 GPSEETDEELTARFERDAIPLLDQLYGGALRMTRNPA-DAEDLLQETMVKAYAGFRSFRH 74 Query: 63 IEQVSAWLFRVARNRIIDRFRKKKEEPLPEAHDIEQVDGADDAWRLDLALPASADGPEAA 122 + AWL+R+ N I+ +RKK+ +P + EQ+ W+L S+ G +A Sbjct: 75 GTNLKAWLYRILTNTYINSYRKKQRQPA--EYPTEQITD----WQLASNAEHSSTGLRSA 128 Query: 123 YARA--ALIDA-LQEALGELPEAQREVFIAHELDGLSFKEMAAASGTSLNTLLARKRYAV 179 A AL D ++EAL LPE R +++G +KE+A T + T+++R Sbjct: 129 EVEALEALPDTEIKEALQALPEEFRMAVYYADVEGFPYKEIAEIMDTPIGTVMSRLHRGR 188 Query: 180 LHLRERLQAV 189 LR L V Sbjct: 189 RQLRGLLADV 198 >MT3320 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog MtC Mycobacterium tuberculosis CDC1551 Length = 284 Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 57/190 (30%), Positives = 89/190 (46%), Gaps = 15/190 (7%) Query: 8 SPMSDQDREITATVMRERSRL-----GGFIRRPQADAGEAEDILQEVFYEFVQAYRLPEP 62 P + D E+TA R+ L GG +R + A +AED+LQE + +R Sbjct: 84 GPSEETDEELTARFERDAIPLLDQLYGGALRMTRNPA-DAEDLLQETMVKAYAGFRSFRH 142 Query: 63 IEQVSAWLFRVARNRIIDRFRKKKEEPLPEAHDIEQVDGADDAWRLDLALPASADGPEAA 122 + AWL+R+ N I+ +RKK+ + P + EQ+ W+L S+ G +A Sbjct: 143 GTNLKAWLYRILTNTYINSYRKKQRQ--PAEYPTEQITD----WQLASNAEHSSTGLRSA 196 Query: 123 YARA--ALIDA-LQEALGELPEAQREVFIAHELDGLSFKEMAAASGTSLNTLLARKRYAV 179 A AL D ++EAL LPE R +++G +KE+A T + T+++R Sbjct: 197 EVEALEALPDTEIKEALQALPEEFRMAVYYADVEGFPYKEIAEIMDTPIGTVMSRLHRGR 256 Query: 180 LHLRERLQAV 189 LR L V Sbjct: 257 RQLRGLLADV 266 >Rv1221 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Mtu Mycobacterium tuberculosis H37Rv Length = 257 Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 50/161 (31%), Positives = 72/161 (44%), Gaps = 25/161 (15%) Query: 34 RPQADAGEAEDILQEVF---YEFVQAYRLPEPIEQVSAWLFRVARNRIIDRFRKK---KE 87 R + +AED+ QE F + VQ Y+ P E WL R+ N +D R++ + Sbjct: 101 RLSGNQHDAEDLTQETFIRVFRSVQNYQ-PGTFE---GWLHRITTNLFLDMVRRRARIRM 156 Query: 88 EPLPEAHDIEQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEALGELPEAQREVF 147 E LPE +D +PA PE Y A L LQ AL LP R Sbjct: 157 EALPEDYD---------------RVPADEPNPEQIYHDARLGPDLQAALASLPPEFRAAV 201 Query: 148 IAHELDGLSFKEMAAASGTSLNTLLARKRYAVLHLRERLQA 188 + +++GLS++E+ A G L T+ +R LR+ L A Sbjct: 202 VLCDIEGLSYEEIGATLGVKLGTVRSRIHRGRQALRDYLAA 242 >MT1259 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog MtC Mycobacterium tuberculosis CDC1551 Length = 257 Score = 60.1 bits (144), Expect = 3e-09, Method: Compositional matrix adjust. Identities = 50/161 (31%), Positives = 72/161 (44%), Gaps = 25/161 (15%) Query: 34 RPQADAGEAEDILQEVF---YEFVQAYRLPEPIEQVSAWLFRVARNRIIDRFRKK---KE 87 R + +AED+ QE F + VQ Y+ P E WL R+ N +D R++ + Sbjct: 101 RLSGNQHDAEDLTQETFIRVFRSVQNYQ-PGTFE---GWLHRITTNLFLDMVRRRARIRM 156 Query: 88 EPLPEAHDIEQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEALGELPEAQREVF 147 E LPE +D +PA PE Y A L LQ AL LP R Sbjct: 157 EALPEDYD---------------RVPADEPNPEQIYHDARLGPDLQAALASLPPEFRAAV 201 Query: 148 IAHELDGLSFKEMAAASGTSLNTLLARKRYAVLHLRERLQA 188 + +++GLS++E+ A G L T+ +R LR+ L A Sbjct: 202 VLCDIEGLSYEEIGATLGVKLGTVRSRIHRGRQALRDYLAA 242 >PA3410 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Pae Pseudomonas aeruginosa Length = 171 Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 54/173 (31%), Positives = 84/173 (48%), Gaps = 19/173 (10%) Query: 6 LSSPMSDQDREITATVMRERSRLGGFIRRPQADAGEAEDILQEVFYEFVQAYRLPEPIEQ 65 + +P+++QD + A +R +L ++ R D A D+ QE F + R EPIE Sbjct: 1 MDAPLAEQD--LKALFLRHARQLQSYLLRKTRDPHLAADLAQESFLRLAEQ-RHKEPIEH 57 Query: 66 VSAWLFRVARNRIIDRFRKKKEEPLPEAHDIEQVDGADDAWRLDLA-LPASADGPEAAYA 124 V A+L+R A N ID +R+++ +D DLA A GPE + Sbjct: 58 VDAYLYRTAHNLTIDHYRQERRR--------RTETQPND----DLAGFVADQPGPEESAV 105 Query: 125 RAALIDALQEALGELPEAQREVFIAHELDGLSFKEMA---AASGTSLNTLLAR 174 A + L+E + ELP RE+F + L+GL+ E+A S +S+ LAR Sbjct: 106 DADALARLREIVAELPPRTREIFRLNRLEGLTHAEVARRLEISDSSVQKHLAR 158 >Cgl1096 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Cgl Corynebacterium glutamicum Length = 213 Score = 58.9 bits (141), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 50/158 (31%), Positives = 70/158 (44%), Gaps = 19/158 (12%) Query: 34 RPQADAGEAEDILQEVFYEFVQAYRLPEPIEQVSAWLFRVARNRIIDRFR---KKKEEPL 90 R + +AED+ QE F ++ + +P WL R+ N +D R K + E L Sbjct: 57 RLSGNQHDAEDLTQETFMRVFRSLKSYQP-GTFEGWLHRITTNLFLDMVRHRGKIRMEAL 115 Query: 91 PEAHDIEQVDGADDAWRLDLALPASADGPEAAYARAALIDALQEALGELPEAQREVFIAH 150 PE D E+V G D PE AY A L ALQ AL EL R I Sbjct: 116 PE--DYERVPGNDIT-------------PEQAYTEANLDPALQAALDELSPDFRVAVILC 160 Query: 151 ELDGLSFKEMAAASGTSLNTLLARKRYAVLHLRERLQA 188 ++ G+S+ E+A G + T+ +R LR L+A Sbjct: 161 DVVGMSYDEIAETLGVKMGTVRSRIHRGRSQLRASLEA 198