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= 0008.0026.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... 971 0.0 gi|300311210|ref|YP_003775302.1| ribonuclease E protein [Herbasp... 267 2e-72 >gi|300312859|ref|YP_003776951.1| cytoplasmic axial filament ribonuclease G protein [Herbaspirillum seropedicae SmR1] Length = 487 Score = 971 bits (2509), Expect = 0.0, Method: Compositional matrix adjust. Identities = 472/487 (96%), Positives = 476/487 (97%) Query: 1 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI 60 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI Sbjct: 1 MSEDILINITPQETRVALILQGAVQELHIERTLSRGLAGNIYLGKVVRVLPGMQSAFIDI 60 Query: 61 GLERAAFLHVADIWEARPHDGQNAPAIPIEKLLHDGQTITVQVIKDPIGTKGARLSTQIS 120 GLERAAFLHVADIWEAR HDGQN PAIPIEKLLHDGQ+ITVQVIKDPIGTKGARLSTQIS Sbjct: 61 GLERAAFLHVADIWEARSHDGQNTPAIPIEKLLHDGQSITVQVIKDPIGTKGARLSTQIS 120 Query: 121 IAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDSDL 180 IAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASD+DL Sbjct: 121 IAGRMLVYLPQDKHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDADL 180 Query: 181 QMDVEYLRTTWATIIKQAKTKPAPTLLHQDLSLAQRVLRDFVSDQTATIQVDSRENFHML 240 QMDVEYLR TWATI+KQ KT PAPTLLHQDLSLAQRVLRDFV D TATIQVDSRENFHML Sbjct: 181 QMDVEYLRKTWATIVKQGKTNPAPTLLHQDLSLAQRVLRDFVGDHTATIQVDSRENFHML 240 Query: 241 QEFGAIYTPSVLPKLMHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTT 300 QEFGAIYTPSVL KL HYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTT Sbjct: 241 QEFGAIYTPSVLTKLTHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTT 300 Query: 301 IDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRHAVLA 360 IDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHR AVLA Sbjct: 301 IDVNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRQAVLA 360 Query: 361 ELGKALHRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCY 420 ELGKAL RDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCY Sbjct: 361 ELGKALQRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCY 420 Query: 421 EILREVMREAKQFNPREFRILASQVVVDMFLEEESQHLAMLGDFIGKPVSLQVQSDYQQE 480 EILREVMREAKQFNPREFRILASQVVVDMFLEEESQHLAMLGDFIGKP+SLQVQSDYQQE 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 (682), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 157/452 (34%), Positives = 249/452 (55%), Gaps = 4/452 (0%) 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 RAAFLHVADIWEARPHDGQNAPAIPIEKLLHDGQTITVQVIKDPIGTKGARLSTQISIAG 123 R FL ++ + +G + I++ L +GQ I VQV K+ G KGA L++ IS+AG Sbjct: 64 RHGFLPFKEVARSYFKEGIDVRNASIKEALREGQEIIVQVEKEERGNKGAALTSFISLAG 123 Query: 124 RMLVYLPQD-KHIGISQRIENEAERELLRSKVQALLPPEEKGGFIIRTMAEDASDSDLQM 182 R LV +P + + G+S+R+E E +EL + + LP I RT + +LQ Sbjct: 124 RYLVLMPNNPRGGGVSRRVEGEDRQELRETMDKLDLP--NGMSVIARTAGIGRNVDELQW 181 Query: 183 DVEYLRTTWATIIKQAKTKPAPTLLHQDLSLAQRVLRDFVSDQTATIQVDSRENFHMLQE 242 D+ YL W I ++ L++Q+ SL R +RD+ I +D+ + Q+ Sbjct: 182 DLNYLMQLWRAIEGAGQSASGAFLIYQESSLVIRAIRDYFQPDIGEILIDTDDIHDQAQQ 241 Query: 243 FGAIYTPSVLPKLMHYRGERPLFDLYGVEEEIERALGRRVDLKSGGYLIVDQTEAMTTID 302 F A P ++ ++ YR + PLF + +E +IE A R V L SGG +++D TEA+ ++D Sbjct: 242 FMAHVMPDMVHRVKRYRDDVPLFSRFQIEHQIETAYSRTVPLPSGGAIVIDHTEALVSVD 301 Query: 303 VNTGSFVNGRNFDDTIFKTNLEAAHAIARQLRLRNLGGIIILDFIDMESTEHRHAVLAEL 362 VN+ G + + T F TNLEAA +ARQLRLR+LGG+I++DFIDME+++++ V L Sbjct: 302 VNSARATRGSDIETTAFNTNLEAADEVARQLRLRDLGGLIVIDFIDMENSKNQREVEGRL 361 Query: 363 GKALHRDRTKISVSGFSTLGLVEMTRKRTRESLAHILCETCPACKGRGQVKTPRTVCYEI 422 ALH DR ++ + S GL+E++R+R R SL+ TCP C G G ++ + ++ Sbjct: 362 KDALHHDRARVQMGKISRFGLMELSRQRLRPSLSEGSHVTCPRCNGTGHIRDTESSALQV 421 Query: 423 LREVMREAKQFNPREFRILASQVVVDMFLEEE 454 LR + EA + N + A V L E+ Sbjct: 422 LRIIQEEAMKENSAAIHVQAPVDVAAFLLNEK 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 0.387 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: 1,403,425 Number of extensions: 56976 Number of successful extensions: 164 Number of sequences better than 1.0e-08: 2 Number of HSP's gapped: 162 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 (21.9 bits) S2: 132 (55.5 bits)