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= 0002.0341.p (493 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312859|ref|YP_003776951.1| cytoplasmic axial filament ribo... 918 0.0 gi|300311210|ref|YP_003775302.1| ribonuclease E protein [Herbasp... 269 3e-73 >gi|300312859|ref|YP_003776951.1| cytoplasmic axial filament ribonuclease G protein [Herbaspirillum seropedicae SmR1] Length = 487 Score = 918 bits (2373), Expect = 0.0, Method: Compositional matrix adjust. Identities = 448/493 (90%), Positives = 464/493 (94%), Gaps = 6/493 (1%) Query: 1 MNEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNVYLGKVVRVLPGMQSAFIDI 60 M+EDILINITPQETRVALILQGAVQELHIERTLSRGLAGN+YLGKVVRVLPGMQSAFIDI Sbjct: 1 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI 60 Query: 61 GLERAAFLHVADIWEAKPHDGQHGQHGQNVPQIPIEKLLFDGQTITVQVIKDPIGTKGAR 120 GLERAAFLHVADIWEA+ HDGQ N P IPIEKLL DGQ+ITVQVIKDPIGTKGAR Sbjct: 61 GLERAAFLHVADIWEARSHDGQ------NTPAIPIEKLLHDGQSITVQVIKDPIGTKGAR 114 Query: 121 LSTQISIAGRMLVYLPQDKHIGISQRIENEAEREQLRSKVQGLLPPEEKGGFIIRTMAED 180 LSTQISIAGRMLVYLPQDKHIGISQRIENEAERE LRSKVQ LLPPEEKGGFIIRTMAED Sbjct: 115 LSTQISIAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAED 174 Query: 181 ASDADLQMDVEYLRKTWASIIAQTKTKPAPTLMYQDLSLAQRVLRDFVSDDTSNIQVDSR 240 ASDADLQMDVEYLRKTWA+I+ Q KT PAPTL++QDLSLAQRVLRDFV D T+ IQVDSR Sbjct: 175 ASDADLQMDVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSR 234 Query: 241 ENFQMLQEFGTLYTPSVLPKLMHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQ 300 ENF MLQEFG +YTPSVL KL HYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQ Sbjct: 235 ENFHMLQEFGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQ 294 Query: 301 TEAMTTIDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMENLEH 360 TEAMTTIDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDME+ EH Sbjct: 295 TEAMTTIDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEH 354 Query: 361 RTAVLSELNKALHRDRTKISVSGFSALGLVEMTRKRTRESLAHILCETCPACKGKGQVKT 420 R AVL+EL KAL RDRTKISVSGFS LGLVEMTRKRTRESLAHILCETCPACKG+GQVKT Sbjct: 355 RQAVLAELGKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKT 414 Query: 421 SRTVCYEILREVLREAKQFNPREFRILAAQVVVDMFLEEESQHLAMLGDFIKKPISLQVQ 480 RTVCYEILREV+REAKQFNPREFRILA+QVVVDMFLEEESQHLAMLGDFI KPISLQVQ Sbjct: 415 PRTVCYEILREVMREAKQFNPREFRILASQVVVDMFLEEESQHLAMLGDFIGKPISLQVQ 474 Query: 481 TDYQQEQYDIILM 493 +DYQQEQYDIILM Sbjct: 475 SDYQQEQYDIILM 487 >gi|300311210|ref|YP_003775302.1| ribonuclease E protein [Herbaspirillum seropedicae SmR1] Length = 1062 Score = 269 bits (688), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 161/459 (35%), Positives = 256/459 (55%), Gaps = 12/459 (2%) Query: 5 ILINITPQET-RVALILQGAVQELHIERTLSRGLAGNVYLGKVVRVLPGMQSAFIDIGLE 63 +L N T QE RVA++ + ++ IE T N+Y G + R+ P +++ F++ G E Sbjct: 4 MLFNATQQEELRVAIVDGQKLIDIDIETTGREQRKSNIYKGVITRIEPSLEACFVNYGEE 63 Query: 64 RAAFLHVADIWEAKPHDGQHGQHGQNVPQIPIEKLLFDGQTITVQVIKDPIGTKGARLST 123 R FL ++ + + + G +V I++ L +GQ I VQV K+ G KGA L++ Sbjct: 64 RHGFLPFKEVARS------YFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTS 117 Query: 124 QISIAGRMLVYLPQD-KHIGISQRIENEAEREQLRSKVQGLLPPEEKGGFIIRTMAEDAS 182 IS+AGR LV +P + + G+S+R+E E +R++LR + L P G +I A Sbjct: 118 FISLAGRYLVLMPNNPRGGGVSRRVEGE-DRQELRETMDKLDLP--NGMSVIARTAGIGR 174 Query: 183 DAD-LQMDVEYLRKTWASIIAQTKTKPAPTLMYQDLSLAQRVLRDFVSDDTSNIQVDSRE 241 + D LQ D+ YL + W +I ++ L+YQ+ SL R +RD+ D I +D+ + Sbjct: 175 NVDELQWDLNYLMQLWRAIEGAGQSASGAFLIYQESSLVIRAIRDYFQPDIGEILIDTDD 234 Query: 242 NFQMLQEFGTLYTPSVLPKLMHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQT 301 Q+F P ++ ++ YR + PLF + +E +IE A R V L SGG +++D T Sbjct: 235 IHDQAQQFMAHVMPDMVHRVKRYRDDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVIDHT 294 Query: 302 EAMTTIDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMENLEHR 361 EA+ ++DVN+ G + + T F TNLEAA +ARQLRLR+LGG+I++DFIDMEN +++ Sbjct: 295 EALVSVDVNSARATRGSDIETTAFNTNLEAADEVARQLRLRDLGGLIVIDFIDMENSKNQ 354 Query: 362 TAVLSELNKALHRDRTKISVSGFSALGLVEMTRKRTRESLAHILCETCPACKGKGQVKTS 421 V L ALH DR ++ + S GL+E++R+R R SL+ TCP C G G ++ + Sbjct: 355 REVEGRLKDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDT 414 Query: 422 RTVCYEILREVLREAKQFNPREFRILAAQVVVDMFLEEE 460 + ++LR + EA + N + A V L E+ Sbjct: 415 ESSALQVLRIIQEEAMKENSAAIHVQAPVDVAAFLLNEK 453 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.320 0.137 0.386 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,401,490 Number of extensions: 56381 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 152 Number of HSP's successfully gapped: 2 Length of query: 493 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 404 Effective length of database: 1,198,455 Effective search space: 484175820 Effective search space used: 484175820 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: 132 (55.5 bits)