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= 0013.0081.p (286 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 86 3e-18 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 81 8e-17 gi|300313063|ref|YP_003777155.1| transcription regulator protein... 69 5e-13 gi|300310974|ref|YP_003775066.1| transcription regulator protein... 68 9e-13 gi|300309916|ref|YP_003774008.1| transcription regulator protein... 58 7e-10 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 86.3 bits (212), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 66/242 (27%), Positives = 118/242 (48%), Gaps = 4/242 (1%) Query: 35 TLERALTVLKAFGGYPGPVTNAELVRRTGFSKASVSRITATLVALGYLDRASDGLRYQIG 94 +L R L V++AF +T A++ ++TG +A+V R TL LGY D SD + + Sbjct: 18 SLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYAD--SDVNNFSLR 75 Query: 95 MQGLVLGHNYRANNPVKLYARPIMQEYADEHDMSVALATGDGMDTLYIEYCKSPRIATLR 154 + L LG++Y ++ P+ + A+P + + S +LA D + LY+ + R+ ++ Sbjct: 76 PKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVA 135 Query: 155 MGVGMRMPMELTSIGRTYLWAQRPQERERLLSD-IRRRGDDKQAANSMLRIEQAFDHLEK 213 + G R+P TS+GR L A P+++ + D ++ R ++ S R+ + Sbjct: 136 LNTGSRLPAYCTSLGRAML-AHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRA 194 Query: 214 FGYCVAMGEFQRDSFGISVPVYLGNPAIPMALNCGGILPAPSDEHIHNVLVPRLVQTAVR 273 GY V E + I+VPV + + ALN G S + ++P L++ A Sbjct: 195 NGYAVIDEELEVGLRSIAVPVRGASGNVLAALNVGAQAARVSVAQMEEEILPVLLRGAQE 254 Query: 274 LA 275 L+ Sbjct: 255 LS 256 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 81.3 bits (199), Expect = 8e-17, Method: Compositional matrix adjust. Identities = 55/202 (27%), Positives = 92/202 (45%) Query: 34 HTLERALTVLKAFGGYPGPVTNAELVRRTGFSKASVSRITATLVALGYLDRASDGLRYQI 93 +LE+ L VL+AF +T ++ TG SK+S R+ TL LGY+ + RYQ+ Sbjct: 15 QSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYICKHPKTRRYQL 74 Query: 94 GMQGLVLGHNYRANNPVKLYARPIMQEYADEHDMSVALATGDGMDTLYIEYCKSPRIATL 153 + + +G+NY A + + A P + E A+ +V L + +Y+ + + + Sbjct: 75 TPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYVARFVASKFIPI 134 Query: 154 RMGVGMRMPMELTSIGRTYLWAQRPQERERLLSDIRRRGDDKQAANSMLRIEQAFDHLEK 213 M +G R+PM T+ GR YL A P+E + +L R + I Q + Sbjct: 135 HMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVEDIMQLLAASRE 194 Query: 214 FGYCVAMGEFQRDSFGISVPVY 235 G+ E I+ PV+ Sbjct: 195 RGFASNREELFLGDMSIASPVF 216 >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 = 60/236 (25%), Positives = 105/236 (44%), Gaps = 2/236 (0%) Query: 36 LERALTVLKAFGGYPGPVTNAELVRRTGFSKASVSRITATLVALGYLDRASDGLRYQIGM 95 LE+ L +L+AF +T+A++ RTG S+ + R TL LGYL S+G + + Sbjct: 33 LEKGLLILEAFDFDNQRMTSAQVAARTGLSRTAARRYLLTLEHLGYLH--SEGKTFALTP 90 Query: 96 QGLVLGHNYRANNPVKLYARPIMQEYADEHDMSVALATGDGMDTLYIEYCKSPRIATLRM 155 + L +G +Y + P+ +P +Q+ + +V + DG D ++I + R+ T Sbjct: 91 RVLKVGWSYFDSAPLPRILQPFLQQITGQTGEAVYASVLDGWDLVFIARNGATRVMTTGF 150 Query: 156 GVGMRMPMELTSIGRTYLWAQRPQERERLLSDIRRRGDDKQAANSMLRIEQAFDHLEKFG 215 +G R+P +L S G L A Q+ L+ ++ + G Sbjct: 151 VLGARVPAQLASPGIVMLSALPEQQVRDWLATCAMTPFTPHTITDPDQLYALIAQARQLG 210 Query: 216 YCVAMGEFQRDSFGISVPVYLGNPAIPMALNCGGILPAPSDEHIHNVLVPRLVQTA 271 Y V + Q GI+VP+ + + AL+ + A + E ++P L Q A Sbjct: 211 YAVVEQQLQTGVRGIAVPLKNRHAKVIGALSLSLPMAAEAREQTLARILPALQQAA 266 >gi|300310974|ref|YP_003775066.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 261 Score = 67.8 bits (164), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 63/257 (24%), Positives = 115/257 (44%), Gaps = 15/257 (5%) Query: 26 KAEKAGGTHTLERALTVLKAFGGYPGPVTNAELVRRTGFSKASVSRITATLVALGYLDRA 85 + E+ +ER +++L A YP PV+ EL T ++ RI LV ++DR Sbjct: 7 ETEQHISIQVIERMVSLLDALAAYPDPVSLKELSAATDLHPSTAHRILNDLVVKRFVDRV 66 Query: 86 SDGLRYQIGMQGLVLGHNYRANNPVKLYARPIMQEYADEHDMSVALATGDGMDTLYIEYC 145 G Y++GM+ L LG+ ++ V+ A M+ + ++ L+ + +YI+ Sbjct: 67 EPGT-YRLGMRLLELGNIVKSRLSVREAALDFMRALHRKTHQTINLSVRQADEIVYIDRS 125 Query: 146 KSPR--IATLRMGVGMRMPMELTSIGRTYLWAQRPQERERLLSDIRRRGDDKQAANSMLR 203 S R + +R +G R P+ LTS G+ +L P+ + G +K + + + Sbjct: 126 FSERSGMQVVR-AIGGRAPLHLTSTGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAK 184 Query: 204 IEQAFDHLEKFGYCVAMGEFQRDSFGISVPVYLGNPAI---PMALNCGGILPAPSDEHIH 260 +E+ + GY RD+ + + V I L G + AP+D + Sbjct: 185 LERELSMVRALGYA-------RDNEELELGVRCMAAGICDDSGKLVAGLSISAPAD-RLQ 236 Query: 261 NVLVPRLVQTAVRLAAA 277 + V LV TA ++++A Sbjct: 237 DEWVEDLVSTASQISSA 253 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 58.2 bits (139), Expect = 7e-10, Method: Compositional matrix adjust. Identities = 39/161 (24%), Positives = 75/161 (46%) Query: 25 EKAEKAGGTHTLERALTVLKAFGGYPGPVTNAELVRRTGFSKASVSRITATLVALGYLDR 84 + A + GT + + VL+ P+ A+L +G+ + +V RI A L+A G + Sbjct: 9 DDAARIAGTAAFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVE 68 Query: 85 ASDGLRYQIGMQGLVLGHNYRANNPVKLYARPIMQEYADEHDMSVALATGDGMDTLYIEY 144 +Y++G + + L + ++ A +++ D +V LA +YIE Sbjct: 69 NPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEK 128 Query: 145 CKSPRIATLRMGVGMRMPMELTSIGRTYLWAQRPQERERLL 185 +SP+ + +G R+ + +S+G+ YL RERL+ Sbjct: 129 LESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLM 169 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 0.134 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: 860,248 Number of extensions: 35971 Number of successful extensions: 122 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 119 Number of HSP's successfully gapped: 6 Length of query: 286 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 202 Effective length of database: 1,222,130 Effective search space: 246870260 Effective search space used: 246870260 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)