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= 0001.0088.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... 583 e-168 gi|300312232|ref|YP_003776324.1| signal transduction protein [He... 242 2e-65 gi|300311595|ref|YP_003775687.1| two component response regulato... 72 6e-14 gi|300310564|ref|YP_003774656.1| regulator of the two-component ... 61 1e-10 >gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626 [Herbaspirillum seropedicae SmR1] Length = 290 Score = 583 bits (1503), Expect = e-168, Method: Compositional matrix adjust. Identities = 289/290 (99%), Positives = 290/290 (100%) Query: 1 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF 60 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF Sbjct: 1 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF 60 Query: 61 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA Sbjct: 61 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 Query: 121 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF 180 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF Sbjct: 121 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF 180 Query: 181 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDES 240 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDE+ Sbjct: 181 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDEN 240 Query: 241 AQATYPAAVGKKLGVDPAWMPLLVKHDPDKAERAMPSLGELAAGLDAMLE 290 AQATYPAAVGKKLGVDPAWMPLLVKHDPDKAERAMPSLGELAAGLDAMLE Sbjct: 241 AQATYPAAVGKKLGVDPAWMPLLVKHDPDKAERAMPSLGELAAGLDAMLE 290 >gi|300312232|ref|YP_003776324.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 242 bits (618), Expect = 2e-65, Method: Compositional matrix adjust. Identities = 128/289 (44%), Positives = 177/289 (61%), Gaps = 16/289 (5%) Query: 1 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF 60 M L++L Q LP++PKVVQ+++ SFN E +S EIA+++A D LSAK+LRLANS+++ Sbjct: 1 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY 60 Query: 61 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 H SRTIGTVDDA+ +LGF+ VR LV+ GM +FK G+DL FWR++L TA+ A+WLA Sbjct: 61 HVSRTIGTVDDAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTALVAKWLA 120 Query: 121 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF 180 G+ N D FTVG+MH IGQL +HA +D+ + LD+ R + E++++G+ Sbjct: 121 KR----GKLNSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGY 176 Query: 181 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDES 240 +ADV AELA W FPD + + P PL G FD AA VHL W AR DE Sbjct: 177 DFADVGAELARRWRFPDEFAKVIEAFPQPL-QGEFDPFAAIVHLAAWRARAHENQYSDEE 235 Query: 241 AQATYPAAVGKKLGVDPAWMPLLVKHDPDKAERAMPSLGELAAGLDAML 289 AT+PA V ++LGV + + MP L EL G+ ++ Sbjct: 236 LAATFPAEVAERLGV-----------RLETFTQEMPPLEELGEGMQELI 273 >gi|300311595|ref|YP_003775687.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 72.0 bits (175), Expect = 6e-14, Method: Compositional matrix adjust. Identities = 61/242 (25%), Positives = 108/242 (44%), Gaps = 22/242 (9%) Query: 13 LPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFFHASRTIGTVD-D 71 LP V ++M EDI+ E+ Q+ DP L+ +++++AN + R + +V+ + Sbjct: 19 LPAPSGVRLKIMQMCQQEDIALPELVAQVQGDPVLAGRLIQIANIPNINKGRMVASVNVE 78 Query: 72 ALRILGFIMVRNLVLGNGMVAAFK--NTRGMDLHQFWRHTLYTAVAARWLAMHAGMVGED 129 L ++G VR + L + + + + D FW + A A + L ++ Sbjct: 79 LLLMVGLHAVRQMALAISLTESARRGDCAEFDYDAFWSRSTAMACAGQAL---GDLLQVA 135 Query: 130 NGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVL-----DSDRAEREKEAWGFHYAD 184 +FT+G++ GIGQL L A A R+ +L D+ +E+E++GF + Sbjct: 136 PPAEMFTIGLLAGIGQLGL------ASARPKRYGELLLAGAKDAQLRVQERESFGFDHLA 189 Query: 185 VSAELAAIWHFPDALVTALRSVPDPLGAG-----RFDRAAAWVHLGGWAARVAILSQDDE 239 ++A + WHFP A+ DP +G R + + L G A V S Sbjct: 190 LAAAMMQDWHFPRIFCEAVLHHRDPAASGLEEDDRQQKVTRLLELAGCVADVCTASDAQR 249 Query: 240 SA 241 +A Sbjct: 250 AA 251 >gi|300310564|ref|YP_003774656.1| regulator of the two-component system protein [Herbaspirillum seropedicae SmR1] Length = 317 Score = 60.8 bits (146), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 49/186 (26%), Positives = 84/186 (45%), Gaps = 13/186 (6%) Query: 36 EIAQQIATDPALSAKVLRLANSAFFHASRTIGTVD-DALRILGFIMVRNLVLGNGM--VA 92 E+ + DPALS +++R+ N R I +V D+L ++G VR L L + Sbjct: 42 ELIHLVQADPALSGRIIRIVNVLNAQRVRPIASVSMDSLLLVGLQAVRQLALALSLAETR 101 Query: 93 AFKNTRGMDLHQFWRHTLYTAVAARWLA--MHAGMVGEDNGDAVFTVGMMHGIGQLQLHA 150 A + L FW H+ A +A+ + + +GE +FT G++ IG+L L + Sbjct: 102 APASCANFSLPAFWAHSFAMACSAQAVTSQLRVAPLGE-----MFTTGLLANIGKLTLAS 156 Query: 151 VAANAVAPLDRHSNVLDSD-RAEREKEAWGFHYADVSAELAAIWHFPDALVTALRSVPDP 209 + L + LD+ R E+ +GF++ +++A L W PD A+ P Sbjct: 157 AQPTGYSAL--LTRALDAPARRAMEQSLFGFNHLNIAAALMQDWKIPDLFCDAVLHYETP 214 Query: 210 LGAGRF 215 + G Sbjct: 215 VVIGEI 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 0.133 0.402 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: 982,812 Number of extensions: 42717 Number of successful extensions: 142 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 138 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)