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= 0001.2669.p (290 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626... 514 e-147 gi|300312232|ref|YP_003776324.1| signal transduction protein [He... 240 8e-65 gi|300311595|ref|YP_003775687.1| two component response regulato... 70 2e-13 gi|300310564|ref|YP_003774656.1| regulator of the two-component ... 65 7e-12 >gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626 [Herbaspirillum seropedicae SmR1] Length = 290 Score = 514 bits (1323), Expect = e-147, Method: Compositional matrix adjust. Identities = 248/290 (85%), Positives = 266/290 (91%) Query: 1 MELKSLVDQPGKLPTVPKVVQQLIASFNAEDVSSHDIAQQIAADPALTAKVLRLANSAFF 60 MELKSLVDQPGKLPTVPKVVQQL+ASFNAED+S+H+IAQQIA DPAL+AKVLRLANSAFF Sbjct: 1 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF 60 Query: 61 HASRTIGTVDDALRMLGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 HASRTIGTVDDALR+LGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA Sbjct: 61 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 Query: 121 MHAGTSGEDNGDAVFTVGMMHGIGQLQLHAVAATAVAPLDKQCNVLDADRAQREKEAWGF 180 MHAG GEDNGDAVFTVGMMHGIGQLQLHAVAA AVAPLD+ NVLD+DRA+REKEAWGF Sbjct: 121 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF 180 Query: 181 HYADVSAELATIWHFPDAMANALRSIPDPLAAGRLERSAGWVHLGAWAARVEVLQLDDAA 240 HYADVSAELA IWHFPDA+ ALRS+PDPL AGR +R+A WVHLG WAARV +L DD Sbjct: 181 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDEN 240 Query: 241 AQASYPLALAKKLGVDPAWRPLLVKHAADKAERAMPAFGELSAGLDAMLE 290 AQA+YP A+ KKLGVDPAW PLLVKH DKAERAMP+ GEL+AGLDAMLE Sbjct: 241 AQATYPAAVGKKLGVDPAWMPLLVKHDPDKAERAMPSLGELAAGLDAMLE 290 >gi|300312232|ref|YP_003776324.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 240 bits (613), Expect = 8e-65, Method: Compositional matrix adjust. Identities = 128/289 (44%), Positives = 175/289 (60%), Gaps = 16/289 (5%) Query: 1 MELKSLVDQPGKLPTVPKVVQQLIASFNAEDVSSHDIAQQIAADPALTAKVLRLANSAFF 60 M L++L Q LP++PKVVQ++I SFN E VS +IA+++AAD L+AK+LRLANS+++ Sbjct: 1 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY 60 Query: 61 HASRTIGTVDDALRMLGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 H SRTIGTVDDA+ MLGF+ VR LV+ GM +FK G+DL FWR++L TA+ A+WLA Sbjct: 61 HVSRTIGTVDDAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTALVAKWLA 120 Query: 121 MHAGTSGEDNGDAVFTVGMMHGIGQLQLHAVAATAVAPLDKQCNVLDADRAQREKEAWGF 180 G+ N D FTVG+MH IGQL +HA +DK LDA R E++++G+ Sbjct: 121 ----KRGKLNSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGY 176 Query: 181 HYADVSAELATIWHFPDAMANALRSIPDPLAAGRLERSAGWVHLGAWAARVEVLQLDDAA 240 +ADV AELA W FPD A + + P PL G + A VHL AW AR Q D Sbjct: 177 DFADVGAELARRWRFPDEFAKVIEAFPQPL-QGEFDPFAAIVHLAAWRARAHENQYSDEE 235 Query: 241 AQASYPLALAKKLGVDPAWRPLLVKHAADKAERAMPAFGELSAGLDAML 289 A++P +A++LGV + + MP EL G+ ++ Sbjct: 236 LAATFPAEVAERLGVR-----------LETFTQEMPPLEELGEGMQELI 273 >gi|300311595|ref|YP_003775687.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 70.1 bits (170), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 52/206 (25%), Positives = 94/206 (45%), Gaps = 11/206 (5%) Query: 13 LPTVPKVVQQLIASFNAEDVSSHDIAQQIAADPALTAKVLRLANSAFFHASRTIGTVD-D 71 LP V +++ ED++ ++ Q+ DP L +++++AN + R + +V+ + Sbjct: 19 LPAPSGVRLKIMQMCQQEDIALPELVAQVQGDPVLAGRLIQIANIPNINKGRMVASVNVE 78 Query: 72 ALRMLGFIMVRNLVLGNGMVAAFK--NTRGMDLHQFWRHTLYTAVAARWLA--MHAGTSG 127 L M+G VR + L + + + + D FW + A A + L + Sbjct: 79 LLLMVGLHAVRQMALAISLTESARRGDCAEFDYDAFWSRSTAMACAGQALGDLLQVAPPA 138 Query: 128 EDNGDAVFTVGMMHGIGQLQLHAVAATAVAPLDKQCNVLDADRAQREKEAWGFHYADVSA 187 E +FT+G++ GIGQL L + L DA +E+E++GF + ++A Sbjct: 139 E-----MFTIGLLAGIGQLGLASARPKRYGEL-LLAGAKDAQLRVQERESFGFDHLALAA 192 Query: 188 ELATIWHFPDAMANALRSIPDPLAAG 213 + WHFP A+ DP A+G Sbjct: 193 AMMQDWHFPRIFCEAVLHHRDPAASG 218 >gi|300310564|ref|YP_003774656.1| regulator of the two-component system protein [Herbaspirillum seropedicae SmR1] Length = 317 Score = 65.1 bits (157), Expect = 7e-12, Method: Compositional matrix adjust. Identities = 60/212 (28%), Positives = 100/212 (47%), Gaps = 19/212 (8%) Query: 13 LPTVPKVVQQLIASFNAEDVSSHDIAQQI---AADPALTAKVLRLANSAFFHASRTIGTV 69 LP+ P V+ I A+D + D+A+ I ADPAL+ +++R+ N R I +V Sbjct: 19 LPS-PGGVRLTIMRLCAQD--NPDMAELIHLVQADPALSGRIIRIVNVLNAQRVRPIASV 75 Query: 70 D-DALRMLGFIMVRNLVLGNGM--VAAFKNTRGMDLHQFWRHTLYTAVAARWLA--MHAG 124 D+L ++G VR L L + A + L FW H+ A +A+ + + Sbjct: 76 SMDSLLLVGLQAVRQLALALSLAETRAPASCANFSLPAFWAHSFAMACSAQAVTSQLRVA 135 Query: 125 TSGEDNGDAVFTVGMMHGIGQLQLHAVAATAVAPLDKQCNVLDAD-RAQREKEAWGFHYA 183 GE +FT G++ IG+L L + T + L + LDA R E+ +GF++ Sbjct: 136 PLGE-----MFTTGLLANIGKLTLASAQPTGYSALLTR--ALDAPARRAMEQSLFGFNHL 188 Query: 184 DVSAELATIWHFPDAMANALRSIPDPLAAGRL 215 +++A L W PD +A+ P+ G + Sbjct: 189 NIAAALMQDWKIPDLFCDAVLHYETPVVIGEI 220 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 0.132 0.398 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: 905,423 Number of extensions: 35621 Number of successful extensions: 132 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 128 Number of HSP's successfully gapped: 4 Length of query: 290 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 206 Effective length of database: 1,222,130 Effective search space: 251758780 Effective search space used: 251758780 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: 130 (54.7 bits)