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= 0100.0015.p (181 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3KDH5.1 B3KDH5_9BACI RNA polymerase sigma factor, sigma-70 family 206 6e-52 A6CPD2.1 A6CPD2_9BACI RNA polymerase sigma factor SigY 197 3e-49 Q2B9X0.1 Q2B9X0_9BACI RNA polymerase sigma factor 188 2e-46 Q5WGJ8.1 Q5WGJ8_BACSK DNA-directed RNA polymerase ECF-type sigma... 159 1e-37 Q65DE2.1 Q65DE2_BACLD RNA polymerase sigma factor 152 2e-35 >B3KDH5.1 B3KDH5_9BACI RNA polymerase sigma factor, sigma-70 family Length = 162 Score = 206 bits (525), Expect = 6e-52, Method: Compositional matrix adjust. Identities = 96/158 (60%), Positives = 121/158 (76%), Gaps = 2/158 (1%) Query: 24 LAVLLQEHYAFLYKYLVKATMNPLLAEELAQDTMVRCMEKIGTYNGASSFSSWLITIATR 83 +A+L ++HY+FLYKYL+K TM+P+LAE+ AQDT+VRCME + YNG SSFSSW+ITIATR Sbjct: 1 MALLFKQHYSFLYKYLLKVTMDPMLAEDTAQDTIVRCMENMNRYNGTSSFSSWMITIATR 60 Query: 84 LYIDRKRRWKLEMKWKRQE--EGVRSIRWRFESRNLEWSEVLDALSRLSSVQRMAVLLKH 141 L+ID RR K E KW QE + R +RW+ E R +W+++LD LSRLS R+A+LLKH Sbjct: 61 LFIDNTRRKKREKKWLEQEAVQSARRMRWQMERRGEDWTDMLDGLSRLSEDHRIAILLKH 120 Query: 142 YYGYGYEEIADILQIPSGTAKSRVAAGLNQLRKELSDD 179 YYGY YEEI +L IP GT KSR A G+ QLRKE+ DD Sbjct: 121 YYGYSYEEIGTMLGIPEGTVKSRTAYGIKQLRKEMGDD 158 >A6CPD2.1 A6CPD2_9BACI RNA polymerase sigma factor SigY Length = 182 Score = 197 bits (501), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 93/170 (54%), Positives = 125/170 (73%) Query: 11 ERIIRAQHGDASALAVLLQEHYAFLYKYLVKATMNPLLAEELAQDTMVRCMEKIGTYNGA 70 E I +A+ GD A AVL +E+Y FL KYLVK TMN LAEELAQDTM +C+EKI YNG Sbjct: 5 ELIKKAKKGDHKAFAVLFKENYPFLVKYLVKVTMNRDLAEELAQDTMAKCVEKIHLYNGK 64 Query: 71 SSFSSWLITIATRLYIDRKRRWKLEMKWKRQEEGVRSIRWRFESRNLEWSEVLDALSRLS 130 S FSSWL+TIAT +ID +R+ K E W+++E +R ++W +S EW+++L+ALS+LS Sbjct: 65 SKFSSWLMTIATNRFIDLQRKRKRERDWQQEEINLRKMKWEMQSNKEEWNDLLEALSKLS 124 Query: 131 SVQRMAVLLKHYYGYGYEEIADILQIPSGTAKSRVAAGLNQLRKELSDDE 180 R+ ++LKHYYG+ YEEIAD++++P GT KSR+ G+ LRKEL DE Sbjct: 125 EEVRLPIVLKHYYGFSYEEIADMVKLPEGTVKSRIHHGIKSLRKELKVDE 174 >Q2B9X0.1 Q2B9X0_9BACI RNA polymerase sigma factor Length = 191 Score = 188 bits (477), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 94/178 (52%), Positives = 127/178 (71%), Gaps = 1/178 (0%) Query: 1 MEEQMSDGTHERIIRA-QHGDASALAVLLQEHYAFLYKYLVKATMNPLLAEELAQDTMVR 59 ME +MS + +++A + GD ALA+L +++Y FL KYLVKA M+ LAEELAQ+TM + Sbjct: 1 MEGKMSKMEDKELVKAAKKGDKRALAMLFKQNYPFLVKYLVKAAMDKDLAEELAQETMAK 60 Query: 60 CMEKIGTYNGASSFSSWLITIATRLYIDRKRRWKLEMKWKRQEEGVRSIRWRFESRNLEW 119 +EKI YNG S FSSWLI+IAT LYID RR K E W+ QE+ R ++W+ ESRN EW Sbjct: 61 SLEKINLYNGQSKFSSWLISIATNLYIDHLRRKKREKHWQGQEQSWRKLKWQMESRNEEW 120 Query: 120 SEVLDALSRLSSVQRMAVLLKHYYGYGYEEIADILQIPSGTAKSRVAAGLNQLRKELS 177 ++ L AL +L R+A++LKHYYGY Y+EI ++++I GTAKSR+ GL +RKEL Sbjct: 121 NDALAALGKLKDDIRVAIVLKHYYGYSYDEIGNMMKISPGTAKSRIHNGLAAVRKELG 178 >Q5WGJ8.1 Q5WGJ8_BACSK DNA-directed RNA polymerase ECF-type sigma factor sigma-Y Length = 176 Score = 159 bits (401), Expect = 1e-37, Method: Compositional matrix adjust. Identities = 82/169 (48%), Positives = 110/169 (65%), Gaps = 1/169 (0%) Query: 13 IIRAQHGDASALAVLLQEHYAFLYKYLVKATMNPLLAEELAQDTMVRCMEKIGTYNGASS 72 I +AQ GD ALA LL E+Y FL +Y +K T+ P LA++L Q+TM + +EKI Y G S Sbjct: 7 IRKAQKGDQVALATLLHENYLFLRRYALKITLKPSLADDLTQETMTKAIEKIHLYKGRSK 66 Query: 73 FSSWLITIATRLYIDRKRRWKLEMKWKRQEEGVRSIRWRFESRNLEWSEVLDALSRLSSV 132 FS+WLI+IA+ LYID R+ E E + ++W F R L+W +V+D L +LS Sbjct: 67 FSTWLISIASNLYIDMCRKQSKEELMADTETPLHQLKWEFAHRQLDWMDVVDELGKLSEG 126 Query: 133 QRMAVLLKHYYGYGYEEIADILQIPSGTAKSRVAAGLNQLRKELS-DDE 180 R+ ++LKHYY Y YEEI +L IP GT KSRV L+ LRKEL+ +DE Sbjct: 127 YRLPLILKHYYSYRYEEIGKMLGIPEGTVKSRVHHALSLLRKELNVNDE 175 >Q65DE2.1 Q65DE2_BACLD RNA polymerase sigma factor Length = 177 Score = 152 bits (383), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 76/168 (45%), Positives = 111/168 (66%), Gaps = 4/168 (2%) Query: 11 ERIIRAQHGDASALAVLLQEHYAFLYKYLVKATMNPLLAEELAQDTMVRCMEKIGTYNGA 70 E IIRA+ G+ +A L Q HY F+Y+Y++K T+NP L E+L Q+TM++ + + G Sbjct: 8 ELIIRAKDGEDAAFTKLFQLHYPFVYQYVLKLTLNPDLTEDLVQETMLKAYVSLHQFQGN 67 Query: 71 SSFSSWLITIATRLYIDRKRRWKLEMKWKRQ---EEGVRSIRWRFESRNLEWSEVLDALS 127 + FS+WLI+IA+RL+ID +RR K E + K Q EE +R ++W EWSE L+ + Sbjct: 68 AKFSTWLISIASRLFIDHQRRKKRENR-KTQAAGEEALRKMKWNSALHGHEWSEYLEMFA 126 Query: 128 RLSSVQRMAVLLKHYYGYGYEEIADILQIPSGTAKSRVAAGLNQLRKE 175 L RM +LL+HYYG+ Y E+A++L+I GT KSRV GL ++RKE Sbjct: 127 ALEPEFRMPILLRHYYGFTYPEVANMLKIKEGTVKSRVHHGLKKIRKE 174 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 0.319 0.131 0.384 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: 1,047,483,179 Number of extensions: 37180164 Number of successful extensions: 107046 Number of sequences better than 1.0e-05: 2156 Number of HSP's gapped: 107190 Number of HSP's successfully gapped: 2156 Length of query: 181 Length of database: 3,060,696,203 Length adjustment: 127 Effective length of query: 54 Effective length of database: 1,864,227,298 Effective search space: 100668274092 Effective search space used: 100668274092 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: 127 (53.5 bits)