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= 0098.0041.p (368 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312266|ref|YP_003776358.1| stationary-phase survival prote... 365 e-102 gi|300312265|ref|YP_003776357.1| protein-L-isoaspartate carboxyl... 163 2e-41 gi|300312267|ref|YP_003776359.1| hypothetical protein Hsero_2963... 86 4e-18 >gi|300312266|ref|YP_003776358.1| stationary-phase survival protein [Herbaspirillum seropedicae SmR1] Length = 262 Score = 365 bits (938), Expect = e-102, Method: Compositional matrix adjust. Identities = 171/206 (83%), Positives = 189/206 (91%) Query: 69 LKILISNDDGYLAPGIIALADALSAIAEITVVAPDSNRSGSSNSLTLDRPLWVERAGNGF 128 +KILISNDDGYLAPGI ALA+ L+ IA+ITVVAPDSNRSGSSNSLTLDRPLWVE+A NGF Sbjct: 18 MKILISNDDGYLAPGINALAEVLAPIADITVVAPDSNRSGSSNSLTLDRPLWVEQAANGF 77 Query: 129 YYLNGTPSDCVHVALTGLLPDRPDLIVSGINQGQNMGDDTLYSGTVAAATEGFLFGIPAI 188 YYLNGTPSDCVHVALTGLL +RPDLIVSGINQGQNMGDDTLYSGTVAAATEGFLFGIP+I Sbjct: 78 YYLNGTPSDCVHVALTGLLKERPDLIVSGINQGQNMGDDTLYSGTVAAATEGFLFGIPSI 137 Query: 189 AFSQLHKGWEHLDSAARIAREVVERQFDAIAKPYLLNVNIPNLPYAELKSCVATRLGKRH 248 AFSQLHKGW L SAARIARE+VER+FDA+ +PYLLNVNIPNLPY E+K ATRLGKRH Sbjct: 138 AFSQLHKGWAELKSAARIAREIVERRFDALPQPYLLNVNIPNLPYEEIKGTQATRLGKRH 197 Query: 249 MSEPVYKMRDPHGKDIYWIGPPGGVK 274 +SEPV+K+ DPHG+D+YWIGP G + Sbjct: 198 VSEPVHKLTDPHGRDLYWIGPAGAAR 223 >gi|300312265|ref|YP_003776357.1| protein-L-isoaspartate carboxylmethyltransferase [Herbaspirillum seropedicae SmR1] Length = 321 Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 79/95 (83%), Positives = 84/95 (88%) Query: 267 IGPPGGVKXLIEIMRDNKKGGVLERVLEIGTGCGYQAAVLSLVAKEVYSIERIKPLHELA 326 I P V +IEIMR N+ GG L+RVLEIGTGCGYQAAVLS VA EVYSIERIKPLHELA Sbjct: 167 ISQPYIVARMIEIMRQNRHGGRLDRVLEIGTGCGYQAAVLSRVAGEVYSIERIKPLHELA 226 Query: 327 KTNLRPLRIANIRLHYGDGMLGLPQVAPFDGIILS 361 KTNLRPLR+ANIRLHYGDGMLGLPQVAPFDGIIL+ Sbjct: 227 KTNLRPLRVANIRLHYGDGMLGLPQVAPFDGIILA 261 >gi|300312267|ref|YP_003776359.1| hypothetical protein Hsero_2963 [Herbaspirillum seropedicae SmR1] Length = 315 Score = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust. Identities = 37/67 (55%), Positives = 53/67 (79%) Query: 1 MDEVRWKIADAVTLQIKEASELRYSISLIGSMAGKSVLVSAPMKDGKYIHLRDGQVVVVR 60 M+EVRW+I D + LQ+ E + RY+++L+G + G+S+LV+AP KDGK + +RDGQ VVR Sbjct: 103 MEEVRWQIGDTLWLQLAEDAAQRYAVNLVGCLPGRSILVTAPQKDGKQLFMRDGQAFVVR 162 Query: 61 ALSGRRA 67 AL+GRRA Sbjct: 163 ALTGRRA 169 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 0.138 0.406 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: 1,177,573 Number of extensions: 50029 Number of successful extensions: 135 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 3 Length of query: 368 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 281 Effective length of database: 1,207,925 Effective search space: 339426925 Effective search space used: 339426925 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: 131 (55.1 bits)