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= 0002.0348.p (266 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309916|ref|YP_003774008.1| transcription regulator protein... 387 e-109 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 110 2e-25 gi|300310974|ref|YP_003775066.1| transcription regulator protein... 94 1e-20 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 85 8e-18 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 69 5e-13 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 387 bits (994), Expect = e-109, Method: Compositional matrix adjust. Identities = 184/257 (71%), Positives = 218/257 (84%) Query: 9 EDNPKIAGTAAFSKFMVVLQLIADQDEPLSIARLSALSGYPRPTVYRILAALTAEGMVVE 68 +D +IAGTAAFSKFMVVLQLIADQD PL+IA+L+ALSGYPRPTVYRILAAL AEGMVVE Sbjct: 9 DDAARIAGTAAFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVE 68 Query: 69 NPRTRHFELGPRLINLASKSWSRSDVRTAAIDALQQLRDTTRETVHLAVPSDNGMVYIEK 128 NPR + +E+GPRLINLAS++W RSD+RT AI++L+QLRD TRETVHLAVPSD+ MVYIEK Sbjct: 69 NPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEK 128 Query: 129 LESPQAVRMTSRVGTRVTLYSSSVGKAYLAALDEATRNRLLRSVRMQKFTEHTITDLDVL 188 LESPQAVRM SR+GTRVTLYSSSVGKAYLA L+EA R RL+R++ +Q FT +T T+L L Sbjct: 129 LESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAAL 188 Query: 189 RAELAVAQQRGYTEDREENEAQIFCVGAPIFGAEGTPVACISVSIPLFRKPAQLQQALID 248 RA++ + RGY EDREENEAQIFC GA I GA+G PVAC+SVSIPL+R+ QQA + Sbjct: 189 RADVEDTRARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLPDAQQAYVQ 248 Query: 249 PLLSTCKLITQKLSGPG 265 PLL C I++KL+GPG Sbjct: 249 PLLQACATISRKLAGPG 265 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 110 bits (274), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 61/236 (25%), Positives = 123/236 (52%) Query: 19 AFSKFMVVLQLIADQDEPLSIARLSALSGYPRPTVYRILAALTAEGMVVENPRTRHFELG 78 + K + VL+ Q +++ +++ +G + + R++ L G + ++P+TR ++L Sbjct: 16 SLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQLT 75 Query: 79 PRLINLASKSWSRSDVRTAAIDALQQLRDTTRETVHLAVPSDNGMVYIEKLESPQAVRMT 138 P+++ + + + A L +L + T ETV+L P D MVY+ + + + + + Sbjct: 76 PKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPIH 135 Query: 139 SRVGTRVTLYSSSVGKAYLAALDEATRNRLLRSVRMQKFTEHTITDLDVLRAELAVAQQR 198 +G+R+ +Y ++ G+AYL+AL+ +L S T HT TD++ + LA +++R Sbjct: 136 MPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRER 195 Query: 199 GYTEDREENEAQIFCVGAPIFGAEGTPVACISVSIPLFRKPAQLQQALIDPLLSTC 254 G+ +REE + +P+F +E PVA + V P R + + + PL+ C Sbjct: 196 GFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEAEKKLGPLVLEC 251 >gi|300310974|ref|YP_003775066.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 261 Score = 94.4 bits (233), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 76/245 (31%), Positives = 125/245 (51%), Gaps = 10/245 (4%) Query: 20 FSKFMVVLQLIADQDEPLSIARLSALSGYPRPTVYRILAALTAEGMV--VENPRTRHFEL 77 + + +L +A +P+S+ LSA + T +RIL L + V VE P T + L Sbjct: 17 IERMVSLLDALAAYPDPVSLKELSAATDLHPSTAHRILNDLVVKRFVDRVE-PGT--YRL 73 Query: 78 GPRLINLASKSWSRSDVRTAAIDALQQLRDTTRETVHLAVPSDNGMVYIEKLESPQA-VR 136 G RL+ L + SR VR AA+D ++ L T +T++L+V + +VYI++ S ++ ++ Sbjct: 74 GMRLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEIVYIDRSFSERSGMQ 133 Query: 137 MTSRVGTRVTLYSSSVGKAYLAALDEATRNRLLRSVRMQKFTEHTITDLDVLRAELAVAQ 196 + +G R L+ +S GK +L+ D + +++ITDL L EL++ + Sbjct: 134 VVRAIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAKLERELSMVR 193 Query: 197 QRGYTEDREENEAQIFCVGAPIFGAEGTPVACISVSIPLFRKPAQLQQALIDPLLSTCKL 256 GY D EE E + C+ A I G VA +S+S P R LQ ++ L+ST Sbjct: 194 ALGYARDNEELELGVRCMAAGICDDSGKLVAGLSISAPADR----LQDEWVEDLVSTASQ 249 Query: 257 ITQKL 261 I+ L Sbjct: 250 ISSAL 254 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 84.7 bits (208), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 62/234 (26%), Positives = 113/234 (48%), Gaps = 3/234 (1%) Query: 19 AFSKFMVVLQLIADQDEPLSIARLSALSGYPRPTVYRILAALTAEGMVVENPRTRHFELG 78 + ++ + V++ +D L+IA++S +G PR V R L L G + +F L Sbjct: 18 SLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYA--DSDVNNFSLR 75 Query: 79 PRLINLASKSWSRSDVRTAAIDALQQLRDTTRETVHLAVPSDNGMVYIEKLESPQAVRMT 138 P+++ L S + + +A L + T E+ LAV D+ ++Y+ + + + + + Sbjct: 76 PKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVA 135 Query: 139 SRVGTRVTLYSSSVGKAYLAALDEATRNRLLRSVRMQKFTEHTITDLDVLRAELAVAQQR 198 G+R+ Y +S+G+A LA L E V+++ TE T+ LR LA + Sbjct: 136 LNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRAN 195 Query: 199 GYTEDREENEAQIFCVGAPIFGAEGTPVACISVSIPLFR-KPAQLQQALIDPLL 251 GY EE E + + P+ GA G +A ++V R AQ+++ ++ LL Sbjct: 196 GYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVLL 249 >gi|300313063|ref|YP_003777155.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 68.6 bits (166), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 55/218 (25%), Positives = 102/218 (46%), Gaps = 2/218 (0%) Query: 18 AAFSKFMVVLQLIADQDEPLSIARLSALSGYPRPTVYRILAALTAEGMVVENPRTRHFEL 77 A K +++L+ ++ ++ A+++A +G R R L LT E + + + F L Sbjct: 31 AGLEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYL--LTLEHLGYLHSEGKTFAL 88 Query: 78 GPRLINLASKSWSRSDVRTAAIDALQQLRDTTRETVHLAVPSDNGMVYIEKLESPQAVRM 137 PR++ + + + + LQQ+ T E V+ +V +V+I + + + + Sbjct: 89 TPRVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIARNGATRVMTT 148 Query: 138 TSRVGTRVTLYSSSVGKAYLAALDEATRNRLLRSVRMQKFTEHTITDLDVLRAELAVAQQ 197 +G RV +S G L+AL E L + M FT HTITD D L A +A A+Q Sbjct: 149 GFVLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQLYALIAQARQ 208 Query: 198 RGYTEDREENEAQIFCVGAPIFGAEGTPVACISVSIPL 235 GY ++ + + + P+ + +S+S+P+ Sbjct: 209 LGYAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLPM 246 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 0.318 0.131 0.365 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: 758,348 Number of extensions: 28993 Number of successful extensions: 99 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 97 Number of HSP's successfully gapped: 9 Length of query: 266 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 182 Effective length of database: 1,222,130 Effective search space: 222427660 Effective search space used: 222427660 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)