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= 0001.2901.p (274 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312232|ref|YP_003776324.1| signal transduction protein [He... 516 e-147 gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626... 238 5e-64 gi|300311595|ref|YP_003775687.1| two component response regulato... 75 8e-15 gi|300310564|ref|YP_003774656.1| regulator of the two-component ... 70 2e-13 >gi|300312232|ref|YP_003776324.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 516 bits (1328), Expect = e-147, Method: Compositional matrix adjust. Identities = 249/274 (90%), Positives = 264/274 (96%) Query: 1 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY 60 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY Sbjct: 1 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY 60 Query: 61 HVSRTVGTVEDAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTAIVAKWLA 120 HVSRT+GTV+DAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTA+VAKWLA Sbjct: 61 HVSRTIGTVDDAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTALVAKWLA 120 Query: 121 KQAKLNSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGYDFAD 180 K+ KLNSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGYDFAD Sbjct: 121 KRGKLNSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGYDFAD 180 Query: 181 VGAELARRWRFPDEFGQVIKAFPQPLEGQFDPFAAIVHLAAWRARAQENQYSEDEMESTF 240 VGAELARRWRFPDEF +VI+AFPQPL+G+FDPFAAIVHLAAWRARA ENQYS++E+ +TF Sbjct: 181 VGAELARRWRFPDEFAKVIEAFPQPLQGEFDPFAAIVHLAAWRARAHENQYSDEELAATF 240 Query: 241 PVDVAAKLGWRLETFTVDMPPLAELSEGMQELIA 274 P +VA +LG RLETFT +MPPL EL EGMQELIA Sbjct: 241 PAEVAERLGVRLETFTQEMPPLEELGEGMQELIA 274 >gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626 [Herbaspirillum seropedicae SmR1] Length = 290 Score = 238 bits (606), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 124/289 (42%), Positives = 178/289 (61%), Gaps = 16/289 (5%) Query: 1 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY 60 M L++L Q LP++PKVVQ+++ SFN E +S EIA+++A D LSAK+LRLANS+++ Sbjct: 1 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF 60 Query: 61 HVSRTVGTVEDAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTAIVAKWLA 120 H SRT+GTV+DA+ +LGF+ VR LV+ GM +FK G+DL FWR++L TA+ A+WLA Sbjct: 61 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 Query: 121 KQAKL----NSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGY 176 A + N D FTVG+MH IGQL +HA +D+ + LD+ R + E++++G+ Sbjct: 121 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF 180 Query: 177 DFADVGAELARRWRFPDEFGQVIKAFPQPL-EGQFDPFAAIVHLAAWRARAQENQYSEDE 235 +ADV AELA W FPD +++ P PL G+FD AA VHL W AR ++ Sbjct: 181 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDEN 240 Query: 236 MESTFPVDVAAKLG----WRLETFTVD-------MPPLAELSEGMQELI 273 ++T+P V KLG W D MP L EL+ G+ ++ Sbjct: 241 AQATYPAAVGKKLGVDPAWMPLLVKHDPDKAERAMPSLGELAAGLDAML 289 >gi|300311595|ref|YP_003775687.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 74.7 bits (182), Expect = 8e-15, Method: Compositional matrix adjust. Identities = 50/197 (25%), Positives = 98/197 (49%), Gaps = 5/197 (2%) Query: 7 FQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYYHVSRTV 66 Q LP+ V ++++ E +++ E+ ++ D VL+ +++++AN + R V Sbjct: 13 MQDSEVLPAPSGVRLKIMQMCQQEDIALPELVAQVQGDPVLAGRLIQIANIPNINKGRMV 72 Query: 67 GTVE-DAVLMLGFMTVRTLVVSTGMAGSFKK--LPGVDLKLFWRYSLDTAIVAKWLAKQA 123 +V + +LM+G VR + ++ + S ++ D FW S A + L Sbjct: 73 ASVNVELLLMVGLHAVRQMALAISLTESARRGDCAEFDYDAFWSRSTAMACAGQALGDLL 132 Query: 124 KLNSDFA-FTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGYDFADVG 182 ++ FT+GL+ IGQL + + P++ ++ +AG DA+ ER+SFG+D + Sbjct: 133 QVAPPAEMFTIGLLAGIGQLGLASARPKRYGEL-LLAGAKDAQLRVQERESFGFDHLALA 191 Query: 183 AELARRWRFPDEFGQVI 199 A + + W FP F + + Sbjct: 192 AAMMQDWHFPRIFCEAV 208 >gi|300310564|ref|YP_003774656.1| regulator of the two-component system protein [Herbaspirillum seropedicae SmR1] Length = 317 Score = 69.7 bits (169), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 53/201 (26%), Positives = 95/201 (47%), Gaps = 9/201 (4%) Query: 12 ALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYYHVSRTVGTVE- 70 ALPS V ++ ++ + E+ + AD LS +I+R+ N R + +V Sbjct: 18 ALPSPGGVRLTIMRLCAQDNPDMAELIHLVQADPALSGRIIRIVNVLNAQRVRPIASVSM 77 Query: 71 DAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKL--FWRYSLDTAIVAKWLAKQAKLNS- 127 D++L++G VR L ++ +A + + L FW +S A A+ + Q ++ Sbjct: 78 DSLLLVGLQAVRQLALALSLAETRAPASCANFSLPAFWAHSFAMACSAQAVTSQLRVAPL 137 Query: 128 DFAFTVGLMHAIGQLVMHAGMPE--QALQVDKVAGPLDARRLDVERKSFGYDFADVGAEL 185 FT GL+ IG+L + + P AL + P ARR +E+ FG++ ++ A L Sbjct: 138 GEMFTTGLLANIGKLTLASAQPTGYSALLTRALDAP--ARR-AMEQSLFGFNHLNIAAAL 194 Query: 186 ARRWRFPDEFGQVIKAFPQPL 206 + W+ PD F + + P+ Sbjct: 195 MQDWKIPDLFCDAVLHYETPV 215 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 0.134 0.386 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: 822,560 Number of extensions: 33274 Number of successful extensions: 121 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 4 Length of query: 274 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 190 Effective length of database: 1,222,130 Effective search space: 232204700 Effective search space used: 232204700 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: 130 (54.7 bits)