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= 0382.0014.p (169 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K4I8.1 B3K4I8_9BACI RNA polymerase sigma factor, sigma-70 family 199 9e-50 C0ZBE3.1 C0ZBE3_BREBN RNA polymerase ECF-type sigma factor 146 7e-34 B1DKW3.1 B1DKW3_9BACL RNA polymerase, sigma-24 subunit, ECF subf... 143 5e-33 B1D9J1.1 B1D9J1_9BACL RNA polymerase, sigma-24 subunit, ECF subf... 135 1e-30 Q2BC17.1 Q2BC17_9BACI Possible RNA polymerase sigma factor, ECF ... 114 2e-24 >B3K4I8.1 B3K4I8_9BACI RNA polymerase sigma factor, sigma-70 family Length = 176 Score = 199 bits (505), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 93/151 (61%), Positives = 119/151 (78%), Gaps = 1/151 (0%) Query: 18 DEEVFFQRLAGEHRKLYAIAYSYLRSEADALEAVQEASCRAWMKRKKLKNEQAFTPWLIR 77 DEE F+ + R+LY IAYSYL +E+DALEA+QE CRAWMK +KLK+ +AF PWLIR Sbjct: 15 DEEAFYALVTEHRRRLYGIAYSYLHNESDALEALQETVCRAWMKCRKLKHPEAFVPWLIR 74 Query: 78 ITINCCMDELRRKKRVFPAEKLEEKET-QEMRSSDRLDLERAMNRMKPKYRHVVMLKYYQ 136 I INCC+DE +RKKR+ P E++ +ET EM S +LDLERA++RMKPKYRHV++LKYYQ Sbjct: 75 ILINCCVDEQKRKKRMLPVEEVRSRETAAEMVSDSKLDLERALSRMKPKYRHVLILKYYQ 134 Query: 137 DMTSAEIAKVLNKPEGTIKTWLREGLKQLRN 167 DMT ++IA +L+ PEGT+KT L +GLK LR Sbjct: 135 DMTISDIAHILDVPEGTVKTRLHQGLKLLRQ 165 >C0ZBE3.1 C0ZBE3_BREBN RNA polymerase ECF-type sigma factor Length = 181 Score = 146 bits (368), Expect = 7e-34, Method: Compositional matrix adjust. Identities = 69/157 (43%), Positives = 109/157 (69%), Gaps = 5/157 (3%) Query: 18 DEEVFFQRLAGEHRKLYAIAYSYLRSEADALEAVQEASCRAWMKRKKLKNEQAFTPWLIR 77 D++ FFQ ++ +LY IAY++LR+E DALEA+QEA+CR+++K +LK F WL R Sbjct: 21 DDDAFFQLVSLHKDQLYKIAYAFLRNETDALEAIQEATCRSYLKLARLKQTAYFRTWLTR 80 Query: 78 ITINCCMDELRRKKRVFPA---EKLEEKETQEM--RSSDRLDLERAMNRMKPKYRHVVML 132 I I+ C+DE +R+KR+ + + +E + + M ++ +R+ +E A+ R++P YRH+++L Sbjct: 81 ILIHICLDEQKRRKRIILSAMEDDIESRASIPMDDQNVERIQIEEALARLRPNYRHIIIL 140 Query: 133 KYYQDMTSAEIAKVLNKPEGTIKTWLREGLKQLRNYL 169 KY++D T +IA+VL PEGTIKTWL + L LR L Sbjct: 141 KYFEDRTIRDIAEVLGHPEGTIKTWLHKALGALRKDL 177 >B1DKW3.1 B1DKW3_9BACL RNA polymerase, sigma-24 subunit, ECF subfamily Length = 180 Score = 143 bits (361), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 69/153 (45%), Positives = 102/153 (66%), Gaps = 3/153 (1%) Query: 18 DEEVFFQRLAGEHRKLYAIAYSYLRSEADALEAVQEASCRAWMKRKKLKNEQAFTPWLIR 77 D++ R+ + +LY IAYSY+R+E DALEA+QE + R W KR+ L++ + FT W+ R Sbjct: 14 DDDALIARIQMDQNRLYGIAYSYMRNETDALEAIQETTVRVWNKRRSLRDPKVFTTWVTR 73 Query: 78 ITINCCMDELRRKKRVFP--AEKLE-EKETQEMRSSDRLDLERAMNRMKPKYRHVVMLKY 134 I I C+DE +++ R P E LE + +T DR+D+ + ++ KYR V++LKY Sbjct: 74 ILIRVCLDERKKQLRERPLRNELLERDAQTANEHGIDRMDMAVQLKKLPSKYRMVIVLKY 133 Query: 135 YQDMTSAEIAKVLNKPEGTIKTWLREGLKQLRN 167 Y+DMT EIA++L KP+GTI+TWL + LKQLR Sbjct: 134 YRDMTITEIAELLEKPDGTIRTWLHQALKQLRT 166 >B1D9J1.1 B1D9J1_9BACL RNA polymerase, sigma-24 subunit, ECF subfamily Length = 179 Score = 135 bits (340), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 71/158 (44%), Positives = 97/158 (61%), Gaps = 6/158 (3%) Query: 18 DEEVFFQRLAGEHRKLYAIAYSYLRSEADALEAVQEASCRAWMKRKKLKNEQAFTPWLIR 77 D+ F+ + + K+Y IAYSYL++E DALEAVQEA+CRA+M+ KLK + F WLIR Sbjct: 14 DDAAFYSLITQQKEKMYRIAYSYLKNETDALEAVQEATCRAYMQIHKLKEPEFFGSWLIR 73 Query: 78 ITINCCMDELRRKKRVFPAEKLEEKETQEMRSS------DRLDLERAMNRMKPKYRHVVM 131 I +N C DE +RK R ++ +S +R+ LE A+ ++ Y+ V+ Sbjct: 74 ILMNYCADEAKRKARRTDGQQAAAAALDLHATSGESALLERVMLESAVEQLDANYQKVIQ 133 Query: 132 LKYYQDMTSAEIAKVLNKPEGTIKTWLREGLKQLRNYL 169 LKYY D+T EIA+ L KPEGTIKTWL + L LR L Sbjct: 134 LKYYHDLTITEIARTLQKPEGTIKTWLHKALGGLRQRL 171 >Q2BC17.1 Q2BC17_9BACI Possible RNA polymerase sigma factor, ECF subfamily protein Length = 173 Score = 114 bits (286), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 69/152 (45%), Positives = 95/152 (62%), Gaps = 1/152 (0%) Query: 18 DEEVFFQRLAGEHRKLYAIAYSYLRSEADALEAVQEASCRAWMKRKKLKNEQAFTPWLIR 77 D+E F++ + +L IAYSYLR+E +ALEA+QE + RA+ + LK F+ WLIR Sbjct: 14 DDEAFYELMQAHKVQLLKIAYSYLRNEEEALEALQEVTFRAYRSIRSLKKADYFSTWLIR 73 Query: 78 ITINCCMDELRRKKRVFPAEKLEEKETQEMRSSDRLDLERAMNRMKPKYRHVVMLKYYQD 137 I +N C D+ R+KKR P + L E + S L++E A+ ++ K R V++LKYY D Sbjct: 74 IMLNYCHDQSRKKKRAAPLD-LTESLAETYNYSQALEIEEALEKIDSKCREVIILKYYHD 132 Query: 138 MTSAEIAKVLNKPEGTIKTWLREGLKQLRNYL 169 M EIA +L PE TIKTWL +GLK LR L Sbjct: 133 MKIKEIANLLESPESTIKTWLYKGLKALREQL 164 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.320 0.131 0.378 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 883,015,603 Number of extensions: 30835007 Number of successful extensions: 111659 Number of sequences better than 1.0e-05: 2054 Number of HSP's gapped: 112090 Number of HSP's successfully gapped: 2054 Length of query: 169 Length of database: 3,060,696,203 Length adjustment: 125 Effective length of query: 44 Effective length of database: 1,883,069,328 Effective search space: 82855050432 Effective search space used: 82855050432 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 (21.9 bits) S2: 126 (53.1 bits)