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= 0012.0027.p (487 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... 999 0.0 gi|300311210|ref|YP_003775302.1| ribonuclease E protein [Herbasp... 267 1e-72 >gi|300312859|ref|YP_003776951.1| cytoplasmic axial filament ribonuclease G protein [Herbaspirillum seropedicae SmR1] Length = 487 Score = 999 bits (2582), Expect = 0.0, Method: Compositional matrix adjust. Identities = 487/487 (100%), Positives = 487/487 (100%) Query: 1 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI 60 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI Sbjct: 1 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI 60 Query: 61 GLERAAFLHVADIWEARSHDGQNTPAIPIEKLLHDGQSITVQVIKDPIGTKGARLSTQIS 120 GLERAAFLHVADIWEARSHDGQNTPAIPIEKLLHDGQSITVQVIKDPIGTKGARLSTQIS Sbjct: 61 GLERAAFLHVADIWEARSHDGQNTPAIPIEKLLHDGQSITVQVIKDPIGTKGARLSTQIS 120 Query: 121 IAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDADL 180 IAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDADL Sbjct: 121 IAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDADL 180 Query: 181 QMDVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSRENFHML 240 QMDVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSRENFHML Sbjct: 181 QMDVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSRENFHML 240 Query: 241 QEFGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTT 300 QEFGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTT Sbjct: 241 QEFGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTT 300 Query: 301 IDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRQAVLA 360 IDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRQAVLA Sbjct: 301 IDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRQAVLA 360 Query: 361 ELGKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCY 420 ELGKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCY Sbjct: 361 ELGKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCY 420 Query: 421 EILREVMREAKQFNPREFRILASQVVVDMFLEEESQHLAMLGDFIGKPISLQVQSDYQQE 480 EILREVMREAKQFNPREFRILASQVVVDMFLEEESQHLAMLGDFIGKPISLQVQSDYQQE Sbjct: 421 EILREVMREAKQFNPREFRILASQVVVDMFLEEESQHLAMLGDFIGKPISLQVQSDYQQE 480 Query: 481 QYDIILM 487 QYDIILM Sbjct: 481 QYDIILM 487 >gi|300311210|ref|YP_003775302.1| ribonuclease E protein [Herbaspirillum seropedicae SmR1] Length = 1062 Score = 267 bits (683), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 158/453 (34%), Positives = 252/453 (55%), Gaps = 6/453 (1%) Query: 5 ILINITPQET-RVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDIGLE 63 +L N T QE RVA++ + ++ IE T NIY G + R+ P +++ F++ G E Sbjct: 4 MLFNATQQEELRVAIVDGQKLIDIDIETTGREQRKSNIYKGVITRIEPSLEACFVNYGEE 63 Query: 64 RAAFLHVADIWEARSHDGQNTPAIPIEKLLHDGQSITVQVIKDPIGTKGARLSTQISIAG 123 R FL ++ + +G + I++ L +GQ I VQV K+ G KGA L++ IS+AG Sbjct: 64 RHGFLPFKEVARSYFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTSFISLAG 123 Query: 124 RMLVYLPQD-KHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDAD-LQ 181 R LV +P + + G+S+R+E E +EL + + LP G +I A + D LQ Sbjct: 124 RYLVLMPNNPRGGGVSRRVEGEDRQELRETMDKLDLP---NGMSVIARTAGIGRNVDELQ 180 Query: 182 MDVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSRENFHMLQ 241 D+ YL + W I G++ L++Q+ SL R +RD+ I +D+ + Q Sbjct: 181 WDLNYLMQLWRAIEGAGQSASGAFLIYQESSLVIRAIRDYFQPDIGEILIDTDDIHDQAQ 240 Query: 242 EFGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTTI 301 +F A P ++ ++ YR + PLF + +E +IE A R V L SGG +++D TEA+ ++ Sbjct: 241 QFMAHVMPDMVHRVKRYRDDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVIDHTEALVSV 300 Query: 302 DVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRQAVLAE 361 DVN+ G + + T F TNLEAA +ARQLRLR+LGG+I++DFIDME++++++ V Sbjct: 301 DVNSARATRGSDIETTAFNTNLEAADEVARQLRLRDLGGLIVIDFIDMENSKNQREVEGR 360 Query: 362 LGKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCYE 421 L AL DR ++ + S GL+E++R+R R SL+ TCP C G G ++ + + Sbjct: 361 LKDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDTESSALQ 420 Query: 422 ILREVMREAKQFNPREFRILASQVVVDMFLEEE 454 +LR + EA + N + A V L E+ Sbjct: 421 VLRIIQEEAMKENSAAIHVQAPVDVAAFLLNEK 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 0.321 0.137 0.385 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: 1,393,934 Number of extensions: 56563 Number of successful extensions: 155 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 153 Number of HSP's successfully gapped: 2 Length of query: 487 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 398 Effective length of database: 1,198,455 Effective search space: 476985090 Effective search space used: 476985090 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)