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= 0290.0072.p (187 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K3U2.1 B3K3U2_9BACI RNA polymerase sigma factor, sigma-70 family 169 7e-41 B1HMQ6.1 B1HMQ6_LYSSC Putative uncharacterized protein 136 7e-31 A3I721.1 A3I721_9BACI RNA polymerase sigma-70 factor 133 9e-30 B1HMH6.1 B1HMH6_LYSSC Putative uncharacterized protein 96 1e-18 A6TSA9.1 A6TSA9_ALKMQ RNA polymerase sigma factor 94 5e-18 >B3K3U2.1 B3K3U2_9BACI RNA polymerase sigma factor, sigma-70 family Length = 177 Score = 169 bits (429), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 80/158 (50%), Positives = 119/158 (75%), Gaps = 3/158 (1%) Query: 5 RELFETYNKDVYRTCYYMVHDAADAEDLCQEIFITVFRSNWQSVEYLKSWMMKITVNTCL 64 RELF++YNKDVYRTCYYM+ +A DAEDLC ++F+TVFR +W+SVE+ ++W+M+I +N CL Sbjct: 4 RELFDSYNKDVYRTCYYMLRNAQDAEDLCHDVFVTVFRQDWRSVEHTRAWIMRIAMNHCL 63 Query: 65 NHLKRRRSLQQKVA--ANLHFFQGKSVVNTVEGLIEQKETSREWMIHLSRLPVKIRAVLT 122 N L+R ++ ++K + A LH Q + V +V+ ++ +K + EW L +LP K+ AV+T Sbjct: 64 NLLRRNQTQREKQSQVAWLH-EQTAASVKSVDTIVLEKAAAAEWESLLQQLPDKLMAVVT 122 Query: 123 LRYMHDFSLAEVSEALSIPLGTAKSRLHKGLKLMKNVL 160 LRY+ + S+AE++E L IP+GT KSRLHK LK+M+ L Sbjct: 123 LRYIGELSMAEIAETLKIPVGTVKSRLHKALKIMRKKL 160 >B1HMQ6.1 B1HMQ6_LYSSC Putative uncharacterized protein Length = 157 Score = 136 bits (343), Expect = 7e-31, Method: Compositional matrix adjust. Identities = 63/140 (45%), Positives = 101/140 (72%), Gaps = 1/140 (0%) Query: 22 MVHDAADAEDLCQEIFITVFRSNWQSVEYLKSWMMKITVNTCLNHLKRRRS-LQQKVAAN 80 M+ +A DAEDLC ++F+TVFR +W+S+E+ ++W+M+I +N CLN LKR+++ L+++ Sbjct: 1 MLRNAQDAEDLCHDVFVTVFRQDWKSIEHTRAWIMRIAMNQCLNLLKRKQAQLKKQGQVQ 60 Query: 81 LHFFQGKSVVNTVEGLIEQKETSREWMIHLSRLPVKIRAVLTLRYMHDFSLAEVSEALSI 140 L Q ++V +V+ ++ +K EW L +LP K+ AV+TLR++ + SL E++EAL I Sbjct: 61 LLHEQNTALVKSVDTIVMEKVAGEEWEELLKQLPEKLMAVVTLRFIGELSLVEIAEALKI 120 Query: 141 PLGTAKSRLHKGLKLMKNVL 160 P+GT KSRLHK LK+M+ L Sbjct: 121 PVGTVKSRLHKALKIMRKKL 140 >A3I721.1 A3I721_9BACI RNA polymerase sigma-70 factor Length = 157 Score = 133 bits (334), Expect = 9e-30, Method: Compositional matrix adjust. Identities = 61/140 (43%), Positives = 100/140 (71%), Gaps = 1/140 (0%) Query: 22 MVHDAADAEDLCQEIFITVFRSNWQSVEYLKSWMMKITVNTCLNHLKRRRS-LQQKVAAN 80 M+ +A DAEDLC ++F+TVFR +W+S+E+ ++W+M+I +N CLN LKR+++ L+++ Sbjct: 1 MLRNAQDAEDLCHDVFVTVFRQDWKSIEHTRAWIMRIAMNQCLNLLKRKQAQLKKQGQVQ 60 Query: 81 LHFFQGKSVVNTVEGLIEQKETSREWMIHLSRLPVKIRAVLTLRYMHDFSLAEVSEALSI 140 L Q ++V +V+ ++ +K EW L +LP K+ AV+TLR++ + SL E++E L I Sbjct: 61 LLHEQNTALVKSVDTIVMEKVAGEEWEELLKQLPEKLMAVVTLRFIGELSLVEIAETLKI 120 Query: 141 PLGTAKSRLHKGLKLMKNVL 160 P+GT KSRLHK LK+++ L Sbjct: 121 PVGTVKSRLHKALKIIRKKL 140 >B1HMH6.1 B1HMH6_LYSSC Putative uncharacterized protein Length = 154 Score = 96.3 bits (238), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 55/138 (39%), Positives = 83/138 (60%), Gaps = 4/138 (2%) Query: 22 MVHDAADAEDLCQEIFITVFRSNWQSVEYLKSWMMKITVNTCLNHLKRRRSLQQKVAANL 81 M+ + DAEDLCQ++F ++QS++ KSW++ I++N N+LK+ + + NL Sbjct: 1 MLQNKYDAEDLCQDVFAKALSEDFQSIQNQKSWLLSISMNMSRNYLKK--KNRLLLKENL 58 Query: 82 HFFQGKSVVNT--VEGLIEQKETSREWMIHLSRLPVKIRAVLTLRYMHDFSLAEVSEALS 139 F V NT +E I+ E E + +++LPV+IR V+ L+Y+HD E++E L Sbjct: 59 DFLSLIRVDNTQNIERTIQLNENKSELVDLMNKLPVRIRKVMVLKYVHDCKDREIAEILK 118 Query: 140 IPLGTAKSRLHKGLKLMK 157 IP GT KSRL KG KL K Sbjct: 119 IPEGTVKSRLFKGKKLTK 136 >A6TSA9.1 A6TSA9_ALKMQ RNA polymerase sigma factor Length = 187 Score = 94.0 bits (232), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 51/161 (31%), Positives = 87/161 (54%), Gaps = 6/161 (3%) Query: 7 LFETYNKDVYRTCYYMVHDAADAEDLCQEIFITVFRS--NWQSVEYLKSWMMKITVNTCL 64 L+ Y +YR CY H D+ DL QE++I +++S ++ L W+ KIT+NTC Sbjct: 28 LYTKYQSYIYRLCYNYTHSKEDSLDLLQEVYIKIYQSIPRFEKGHPLSPWIKKITINTCH 87 Query: 65 NHLKRRRSLQQKVAANLHFFQGKSVVNTVEGLIEQKETSREWMIHLSRLPVKIRAVLTLR 124 N + ++ + L + VE + K T + +S+LP +I++V+ LR Sbjct: 88 NFARAKKPTPLPLDPTLSI----PSADNVELALSYKSTEKLLKTSISQLPHEIKSVILLR 143 Query: 125 YMHDFSLAEVSEALSIPLGTAKSRLHKGLKLMKNVLLETGI 165 ++ S E+S+ LSIP+GT K+ L +G K +K+ L + G+ Sbjct: 144 HVEAMSYQEISQCLSIPIGTVKTHLFRGRKHLKDQLKKEGV 184 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 0.132 0.392 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: 1,035,399,819 Number of extensions: 35252114 Number of successful extensions: 93972 Number of sequences better than 1.0e-05: 2219 Number of HSP's gapped: 94080 Number of HSP's successfully gapped: 2219 Length of query: 187 Length of database: 3,060,696,203 Length adjustment: 128 Effective length of query: 59 Effective length of database: 1,854,806,283 Effective search space: 109433570697 Effective search space used: 109433570697 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: 127 (53.5 bits)