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= 0291.0037.p (230 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value BH0263 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 75 6e-14 BS_sigW [K] COG1595 DNA-directed RNA polymerase specialized sigm... 60 4e-09 Cgl1096 [K] COG1595 DNA-directed RNA polymerase specialized sigm... 56 5e-08 Rv0182c [K] COG1595 DNA-directed RNA polymerase specialized sigm... 55 7e-08 MT0191 [K] COG1595 DNA-directed RNA polymerase specialized sigma... 55 7e-08 >BH0263 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 187 Score = 75.5 bits (184), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 50/189 (26%), Positives = 87/189 (46%), Gaps = 24/189 (12%) Query: 28 FRQGEREAFEWLVRKYRQPAVHFAHHLTGDYHLAEDLAQDCFAHLLVYPEKYDFRASFKT 87 R G+ +AF LV Y+ A+ + G+ H A+D+AQ+ F + YD + F T Sbjct: 12 VRAGDEQAFAELVELYKDKVYQVAYRMVGNVHEAQDVAQEAFLRAYTNIDTYDIQRKFST 71 Query: 88 YLYTLLRHKCIDAWRKSRRTLPGE-----AGGRNESGRMSPEDHPDDGQMSGRYISPYAL 142 +L+ + + ID RK + E A G +++ ++ P D Q Sbjct: 72 WLFRIATNVAIDRLRKRKPDFHLEDPVQGADGLTIESQLAADEEPVDDQ----------- 120 Query: 143 DDPARLAIVREEDREW-HRRMRMLKPDYRLAVYLVDIAQLSYEEASSIMQRSTVSFRVLL 201 +++ E R+W + ++ L P YR+AV L + LS +E S I+ + + + Sbjct: 121 -------VIQMETRDWIQQEIQALPPKYRMAVLLKYMEDLSLKEISDILDLPVSTVKTRI 173 Query: 202 HRARKKLRQ 210 HR R+ LR+ Sbjct: 174 HRGREALRK 182 >BS_sigW [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 187 Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust. Identities = 43/184 (23%), Positives = 78/184 (42%), Gaps = 12/184 (6%) Query: 27 RFRQGEREAFEWLVRKYRQPAVHFAHHLTGDYHLAEDLAQDCFAHLLVYPEKYDFRASFK 86 + ++G+++AF +V Y+ + + G+ H AED+AQ+ F V + +D F Sbjct: 11 QVKKGDQDAFADIVDIYKDKIYQLCYRMLGNVHEAEDIAQEAFIRAYVNIDSFDINRKFS 70 Query: 87 TYLYTLLRHKCIDAWRKSRRTLPGEAGGRNESGRMSPEDHPDDGQMSGRYISPYALDDPA 146 T+LY + + ID RK + +A G DG + + L + Sbjct: 71 TWLYRIATNLTIDRIRKKKPDYYLDAEVAGTEGLTMYSQIVADGVLPEDAVVSLELSNTI 130 Query: 147 RLAIVREEDREWHRRMRMLKPDYRLAVYLVDIAQLSYEEASSIMQRSTVSFRVLLHRARK 206 + I++ D+ YR + L I +LS E I+ + + +HR R+ Sbjct: 131 QQKILKLPDK------------YRTVIVLKYIDELSLIEIGEILNIPVGTVKTRIHRGRE 178 Query: 207 KLRQ 210 LR+ Sbjct: 179 ALRK 182 >Cgl1096 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 213 Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust. Identities = 51/204 (25%), Positives = 85/204 (41%), Gaps = 24/204 (11%) Query: 20 EEAAMLLRFRQGEREAFEW--LVRKYRQPAVHFAHHLTGDYHLAEDLAQDCFAHLLVYPE 77 EE F G+ + W LV ++ A+ L+G+ H AEDL Q+ F + + Sbjct: 22 EELTGTAAFDAGQADMPTWGELVAEHADSVYRLAYRLSGNQHDAEDLTQETFMRVFRSLK 81 Query: 78 KYDFRASFKTYLYTLLRHKCIDAWRKSRRTLPGEAGGRNESGRMSPEDHPDDGQ-MSGRY 136 Y +F+ +L+ + + +D R G++ E P+D + + G Sbjct: 82 SYQ-PGTFEGWLHRITTNLFLDMVRHR--------------GKIRMEALPEDYERVPGND 126 Query: 137 ISPYALDDPARLAIVREEDREWHRRMRMLKPDYRLAVYLVDIAQLSYEEASSIMQRSTVS 196 I+P A L D + L PD+R+AV L D+ +SY+E + + + Sbjct: 127 ITPEQAYTEANL------DPALQAALDELSPDFRVAVILCDVVGMSYDEIAETLGVKMGT 180 Query: 197 FRVLLHRARKKLRQIYEGEEWDCE 220 R +HR R +LR E E Sbjct: 181 VRSRIHRGRSQLRASLEAAAMTSE 204 >Rv0182c [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 370 Score = 55.5 bits (132), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 49/179 (27%), Positives = 80/179 (44%), Gaps = 18/179 (10%) Query: 43 YRQPAVHFAHHLTGDYHLAEDLAQDCFAHLLVYPEKYDFRASFKTYLYTLLRHKCIDAWR 102 YR+ + + +TG H AEDL Q+ E + ++S +T+L+ + + C+ A Sbjct: 65 YRRELLAHCYRMTGSLHDAEDLVQETLLRAWKAYEGFAGKSSLRTWLHRIATNTCLTALE 124 Query: 103 -KSRRTLPGEAGGRNESGRMSPEDHPDDGQMSGRYIS-----PYALDDPARLAIV---RE 153 + RR LP +G P P + R +S P DDPA + + RE Sbjct: 125 GRRRRPLP--------TGLGRPSADPSGELVERREVSWLEPLPDVTDDPADPSTIVGNRE 176 Query: 154 EDR-EWHRRMRMLKPDYRLAVYLVDIAQLSYEEASSIMQRSTVSFRVLLHRARKKLRQI 211 R + ++ L P R + L D+ Q E + + STV+ LL RAR +L+ + Sbjct: 177 SVRLAFVAALQHLSPRQRAVLLLRDVLQWKSAEVADAIGTSTVAVNSLLQRARSQLQTV 235 >MT0191 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog Length = 370 Score = 55.5 bits (132), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 49/179 (27%), Positives = 80/179 (44%), Gaps = 18/179 (10%) Query: 43 YRQPAVHFAHHLTGDYHLAEDLAQDCFAHLLVYPEKYDFRASFKTYLYTLLRHKCIDAWR 102 YR+ + + +TG H AEDL Q+ E + ++S +T+L+ + + C+ A Sbjct: 65 YRRELLAHCYRMTGSLHDAEDLVQETLLRAWKAYEGFAGKSSLRTWLHRIATNTCLTALE 124 Query: 103 -KSRRTLPGEAGGRNESGRMSPEDHPDDGQMSGRYIS-----PYALDDPARLAIV---RE 153 + RR LP +G P P + R +S P DDPA + + RE Sbjct: 125 GRRRRPLP--------TGLGRPSADPSGELVERREVSWLEPLPDVTDDPADPSTIVGNRE 176 Query: 154 EDR-EWHRRMRMLKPDYRLAVYLVDIAQLSYEEASSIMQRSTVSFRVLLHRARKKLRQI 211 R + ++ L P R + L D+ Q E + + STV+ LL RAR +L+ + Sbjct: 177 SVRLAFVAALQHLSPRQRAVLLLRDVLQWKSAEVADAIGTSTVAVNSLLQRARSQLQTV 235 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.321 0.135 0.416 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 18,024,504 Number of extensions: 731558 Number of successful extensions: 1026 Number of sequences better than 1.0e-05: 18 Number of HSP's gapped: 1022 Number of HSP's successfully gapped: 18 Length of query: 230 Length of database: 38,378,431 Length adjustment: 103 Effective length of query: 127 Effective length of database: 26,499,029 Effective search space: 3365376683 Effective search space used: 3365376683 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 114 (48.5 bits)