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= 0001.1040.p (322 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310564|ref|YP_003774656.1| regulator of the two-component ... 477 e-136 gi|300311595|ref|YP_003775687.1| two component response regulato... 230 1e-61 gi|300312232|ref|YP_003776324.1| signal transduction protein [He... 73 3e-14 gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626... 62 5e-11 >gi|300310564|ref|YP_003774656.1| regulator of the two-component system protein [Herbaspirillum seropedicae SmR1] Length = 317 Score = 477 bits (1227), Expect = e-136, Method: Compositional matrix adjust. Identities = 242/307 (78%), Positives = 261/307 (85%) Query: 2 MLTFIEPTLFEKLRSAQALPSPGGVRLTIMRMCAQDDPDMAELIHLVQADPALSGRIIRI 61 MLTFIEPTLF+KLRSAQALPSPGGVRLTIMR+CAQD+PDMAELIHLVQADPALSGRIIRI Sbjct: 1 MLTFIEPTLFDKLRSAQALPSPGGVRLTIMRLCAQDNPDMAELIHLVQADPALSGRIIRI 60 Query: 62 VNVLNAERVRPIASVSMDSMLLVGLQAVRQLALALSLAETTAPASCTNFKLPAFWAHSFA 121 VNVLNA+RVRPIASVSMDS+LLVGLQAVRQLALALSLAET APASC NF LPAFWAHSFA Sbjct: 61 VNVLNAQRVRPIASVSMDSLLLVGLQAVRQLALALSLAETRAPASCANFSLPAFWAHSFA 120 Query: 122 MACGAQAISGHTRVAPLGEMFTTGLLANIGKLTLASAHPSAYSSLLTRPLDASTQLTMEQ 181 MAC AQA++ RVAPLGEMFTTGLLANIGKLTLASA P+ YS+LLTR LDA + MEQ Sbjct: 121 MACSAQAVTSQLRVAPLGEMFTTGLLANIGKLTLASAQPTGYSALLTRALDAPARRAMEQ 180 Query: 182 SLFGFNHLNIAAALMQDWKIPELFCDAVLHYEAPVPSEELPAPRSVEITWTLYLATAMAE 241 SLFGFNHLNIAAALMQDWKIP+LFCDAVLHYE PV E+ A R EI WTL+LA AMAE Sbjct: 181 SLFGFNHLNIAAALMQDWKIPDLFCDAVLHYETPVVIGEIAATRQDEIVWTLHLAQAMAE 240 Query: 242 LGCAAPPVAEAALHKVARALPQLQLAPHDFPELYQQAGEDWQDWTQTMHITGKTLWQGLP 301 LGC A+AAL + AL QLQLAPHD LYQQAG+DWQ+WTQTM I G + WQ L Sbjct: 241 LGCGPAQQAQAALARAGTALAQLQLAPHDLLVLYQQAGQDWQEWTQTMRIAGTSPWQALD 300 Query: 302 AQVHEKL 308 A+ E L Sbjct: 301 ARSLETL 307 >gi|300311595|ref|YP_003775687.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 310 Score = 230 bits (586), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 126/302 (41%), Positives = 176/302 (58%), Gaps = 14/302 (4%) Query: 2 MLTFIEPTLFEKLRSAQALPSPGGVRLTIMRMCAQDDPDMAELIHLVQADPALSGRIIRI 61 M T+++P F +++ ++ LP+P GVRL IM+MC Q+D + EL+ VQ DP L+GR+I+I Sbjct: 1 MSTYVDPQTFREMQDSEVLPAPSGVRLKIMQMCQQEDIALPELVAQVQGDPVLAGRLIQI 60 Query: 62 VNVLNAERVRPIASVSMDSMLLVGLQAVRQLALALSLAETTAPASCTNFKLPAFWAHSFA 121 N+ N + R +ASV+++ +L+VGL AVRQ+ALA+SL E+ C F AFW+ S A Sbjct: 61 ANIPNINKGRMVASVNVELLLMVGLHAVRQMALAISLTESARRGDCAEFDYDAFWSRSTA 120 Query: 122 MACGAQAISGHTRVAPLGEMFTTGLLANIGKLTLASAHPSAYSSLLTRPLDASTQLTMEQ 181 MAC QA+ +VAP EMFT GLLA IG+L LASA P Y LL + E+ Sbjct: 121 MACAGQALGDLLQVAPPAEMFTIGLLAGIGQLGLASARPKRYGELLLAGAKDAQLRVQER 180 Query: 182 SLFGFNHLNIAAALMQDWKIPELFCDAVLHYEAPVPSEELPAPRSVEITWTLYLATAMAE 241 FGF+HL +AAA+MQDW P +FC+AVLH+ P S R ++T L LA +A+ Sbjct: 181 ESFGFDHLALAAAMMQDWHFPRIFCEAVLHHRDPAASGLEEDDRQQKVTRLLELAGCVAD 240 Query: 242 LGCAAPPVAEAALHKVARALPQ-LQLAPH------DFPELYQQAGEDWQDWTQTMHITGK 294 + C A AAL LP+ LQL H + + DW DW + + + Sbjct: 241 V-CTASDAQRAAL------LPRLLQLGQHFALPVSSLEYVCGRVSWDWSDWGALLKVPTR 293 Query: 295 TL 296 L Sbjct: 294 VL 295 >gi|300312232|ref|YP_003776324.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 54/206 (26%), Positives = 98/206 (47%), Gaps = 7/206 (3%) Query: 19 ALPSPGGVRLTIMRMCAQDDPDMAELIHLVQADPALSGRIIRIVNVLNAERVRPIASVSM 78 ALPS V ++ + + E+ + AD LS +I+R+ N R I +V Sbjct: 12 ALPSIPKVVQEVIESFNNESVSIEEIAKKLAADQVLSAKILRLANSSYYHVSRTIGTVD- 70 Query: 79 DSMLLVGLQAVRQLALALSLAETTAPASCTNFKLPAFWAHSFAMACGAQAISGHTRVAPL 138 D++L++G VR L ++ +A + + KL FW +S A A+ ++ ++ Sbjct: 71 DAVLMLGFMTVRTLVVSTGMAGSFKKLPGVDLKL--FWRYSLDTALVAKWLAKRGKLNS- 127 Query: 139 GEMFTTGLLANIGKLTLASAHPSAYSSL--LTRPLDASTQLTMEQSLFGFNHLNIAAALM 196 FT GL+ IG+L + + P + + PLDA +L +E+ FG++ ++ A L Sbjct: 128 DFAFTVGLMHAIGQLVMHAGMPEQALQVDKVAGPLDAR-RLDVERKSFGYDFADVGAELA 186 Query: 197 QDWKIPELFCDAVLHYEAPVPSEELP 222 + W+ P+ F + + P+ E P Sbjct: 187 RRWRFPDEFAKVIEAFPQPLQGEFDP 212 >gi|300311938|ref|YP_003776030.1| hypothetical protein Hsero_2626 [Herbaspirillum seropedicae SmR1] Length = 290 Score = 62.4 bits (150), Expect = 5e-11, Method: Compositional matrix adjust. Identities = 52/197 (26%), Positives = 92/197 (46%), Gaps = 13/197 (6%) Query: 20 LPSPGGVRLTIMRMCAQDDPDMAELIHLVQADPALSGRIIRIVNVLNAERVRPIASVSMD 79 LP+ V +M +D E+ + DPALS +++R+ N R I +V D Sbjct: 13 LPTVPKVVQQLMASFNAEDISAHEIAQQIATDPALSAKVLRLANSAFFHASRTIGTVD-D 71 Query: 80 SMLLVGLQAVRQLALALSLAETTAPASCTNFKLPAFWAHSFAMACGAQAISGHTRVAPLG 139 ++ ++G VR L L + A + L FW H+ A A+ ++ H + +G Sbjct: 72 ALRILGFIMVRNLVLGNGM--VAAFKNTRGMDLHQFWRHTLYTAVAARWLAMHAGM--VG 127 Query: 140 E-----MFTTGLLANIGKLTLASAHPSAYSSL--LTRPLDASTQLTMEQSLFGFNHLNIA 192 E +FT G++ IG+L L + +A + L + LD S + E+ +GF++ +++ Sbjct: 128 EDNGDAVFTVGMMHGIGQLQLHAVAANAVAPLDRHSNVLD-SDRAEREKEAWGFHYADVS 186 Query: 193 AALMQDWKIPELFCDAV 209 A L W P+ A+ Sbjct: 187 AELAAIWHFPDALVTAL 203 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 0.131 0.394 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: 978,449 Number of extensions: 38916 Number of successful extensions: 118 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 117 Number of HSP's successfully gapped: 4 Length of query: 322 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 237 Effective length of database: 1,217,395 Effective search space: 288522615 Effective search space used: 288522615 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)