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= 0028.0006.p (474 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... 378 e-106 gi|300312232|ref|YP_003776324.1| signal transduction protein [He... 267 2e-72 gi|300310564|ref|YP_003774656.1| regulator of the two-component ... 68 2e-12 gi|300311595|ref|YP_003775687.1| two component response regulato... 64 2e-11 >gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626 [Herbaspirillum seropedicae SmR1] Length = 290 Score = 378 bits (970), Expect = e-106, Method: Compositional matrix adjust. Identities = 185/259 (71%), Positives = 209/259 (80%), Gaps = 4/259 (1%) Query: 1 MELKSLVDQPNKLPTVPKVVQQLIESFNSEDISATEIAHLIASDPALSAKLLRLANSAYF 60 MELKSLVDQP KLPTVPKVVQQL+ SFN+EDISA EIA IA+DPALSAK+LRLANSA+F Sbjct: 1 MELKSLVDQPGKLPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFF 60 Query: 61 HVSRTVGTVDDALRMLGFVMVRNLVLGNGMVAAFKNTKGMELQQFWRYSLYTACTARWLA 120 H SRT+GTVDDALR+LGF+MVRNLVLGNGMVAAFKNT+GM+L QFWR++LYTA ARWLA Sbjct: 61 HASRTIGTVDDALRILGFIMVRNLVLGNGMVAAFKNTRGMDLHQFWRHTLYTAVAARWLA 120 Query: 121 HQGG----DNGDAAFTLGMMHGIGQLQLHAVAAAEVALLDKQLNVLDAGRAELENEKLGF 176 G DNGDA FT+GMMHGIGQLQLHAVAA VA LD+ NVLD+ RAE E E GF Sbjct: 121 MHAGMVGEDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLDSDRAEREKEAWGF 180 Query: 177 HFADVSAELAKIWNFPEALSGVLKDIPAPLAATPFDRMAGWVHLGAWRARAEVWDQSDED 236 H+ADVSAELA IW+FP+AL L+ +P PL A FDR A WVHLG W AR + Q DE+ Sbjct: 181 HYADVSAELAAIWHFPDALVTALRSVPDPLGAGRFDRAAAWVHLGGWAARVAILSQDDEN 240 Query: 237 QTASYPAAVAKRLGVDAGW 255 A+YPAAV K+LGVD W Sbjct: 241 AQATYPAAVGKKLGVDPAW 259 >gi|300312232|ref|YP_003776324.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 267 bits (682), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 133/251 (52%), Positives = 174/251 (69%), Gaps = 1/251 (0%) Query: 1 MELKSLVDQPNKLPTVPKVVQQLIESFNSEDISATEIAHLIASDPALSAKLLRLANSAYF 60 M L++L Q LP++PKVVQ++IESFN+E +S EIA +A+D LSAK+LRLANS+Y+ Sbjct: 1 MNLEALFQQQTALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYY 60 Query: 61 HVSRTVGTVDDALRMLGFVMVRNLVLGNGMVAAFKNTKGMELQQFWRYSLYTACTARWLA 120 HVSRT+GTVDDA+ MLGF+ VR LV+ GM +FK G++L+ FWRYSL TA A+WLA Sbjct: 61 HVSRTIGTVDDAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKLFWRYSLDTALVAKWLA 120 Query: 121 HQGGDNGDAAFTLGMMHGIGQLQLHAVAAAEVALLDKQLNVLDAGRAELENEKLGFHFAD 180 +G N D AFT+G+MH IGQL +HA + +DK LDA R ++E + G+ FAD Sbjct: 121 KRGKLNSDFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDARRLDVERKSFGYDFAD 180 Query: 181 VSAELAKIWNFPEALSGVLKDIPAPLAATPFDRMAGWVHLGAWRARAEVWDQSDEDQTAS 240 V AELA+ W FP+ + V++ P PL FD A VHL AWRARA SDE+ A+ Sbjct: 181 VGAELARRWRFPDEFAKVIEAFPQPLQGE-FDPFAAIVHLAAWRARAHENQYSDEELAAT 239 Query: 241 YPAAVAKRLGV 251 +PA VA+RLGV Sbjct: 240 FPAEVAERLGV 250 >gi|300310564|ref|YP_003774656.1| regulator of the two-component system protein [Herbaspirillum seropedicae SmR1] Length = 317 Score = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 59/205 (28%), Positives = 96/205 (46%), Gaps = 16/205 (7%) Query: 36 EIAHLIASDPALSAKLLRLANSAYFHVSRTVGTVD-DALRMLGFVMVRNLVLGNGMVA-- 92 E+ HL+ +DPALS +++R+ N R + +V D+L ++G VR L L + Sbjct: 42 ELIHLVQADPALSGRIIRIVNVLNAQRVRPIASVSMDSLLLVGLQAVRQLALALSLAETR 101 Query: 93 AFKNTKGMELQQFWRYSLYTACTARWLAHQ--GGDNGDAAFTLGMMHGIGQLQL-HAVAA 149 A + L FW +S AC+A+ + Q G+ FT G++ IG+L L A Sbjct: 102 APASCANFSLPAFWAHSFAMACSAQAVTSQLRVAPLGE-MFTTGLLANIGKLTLASAQPT 160 Query: 150 AEVALLDKQLNVLDAGRAELENEKLGFHFADVSAELAKIWNFPEALSGVLKDIPAP---- 205 ALL + L+ R +E GF+ +++A L + W P+ + P Sbjct: 161 GYSALLTRALDA--PARRAMEQSLFGFNHLNIAAALMQDWKIPDLFCDAVLHYETPVVIG 218 Query: 206 -LAATPFDRMAGWVHLGAWRARAEV 229 +AAT D + +HL +A AE+ Sbjct: 219 EIAATRQDEIVWTLHLA--QAMAEL 241 >gi|300311595|ref|YP_003775687.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 54/194 (27%), Positives = 85/194 (43%), Gaps = 25/194 (12%) Query: 13 LPTVPKVVQQLIESFNSEDISATEIAHLIASDPALSAKLLRLANSAYFHVSRTVGTVD-D 71 LP V ++++ EDI+ E+ + DP L+ +L+++AN + R V +V+ + Sbjct: 19 LPAPSGVRLKIMQMCQQEDIALPELVAQVQGDPVLAGRLIQIANIPNINKGRMVASVNVE 78 Query: 72 ALRMLGFVMVRNLVLGNGMVAAFKNTKGMEL--QQFWRYSLYTACTARWLAHQGGDNGDA 129 L M+G VR + L + + + E FW S AC + L GD Sbjct: 79 LLLMVGLHAVRQMALAISLTESARRGDCAEFDYDAFWSRSTAMACAGQAL----GDLLQV 134 Query: 130 A-----FTLGMMHGIGQLQLHAVAAAEVALL------DKQLNVLDAGRAELENEKLGFHF 178 A FT+G++ GIGQL L + L D QL V E E GF Sbjct: 135 APPAEMFTIGLLAGIGQLGLASARPKRYGELLLAGAKDAQLRV-------QERESFGFDH 187 Query: 179 ADVSAELAKIWNFP 192 ++A + + W+FP Sbjct: 188 LALAAAMMQDWHFP 201 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 0.319 0.133 0.409 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: 1,487,430 Number of extensions: 62518 Number of successful extensions: 208 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 202 Number of HSP's successfully gapped: 4 Length of query: 474 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 385 Effective length of database: 1,198,455 Effective search space: 461405175 Effective search space used: 461405175 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: 132 (55.5 bits)