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= 0028.0363.p (247 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313187|ref|YP_003777279.1| transcription regulator protein... 429 e-121 gi|300313017|ref|YP_003777109.1| LysR family transcription regul... 104 7e-24 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 102 4e-23 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 99 3e-22 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 97 1e-21 >gi|300313187|ref|YP_003777279.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 429 bits (1103), Expect = e-121, Method: Compositional matrix adjust. Identities = 210/222 (94%), Positives = 214/222 (96%) Query: 26 GGQPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFENRSVDLITEGFDAAIAGG 85 GGQPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFENR VDLI+EGFDAAIAGG Sbjct: 87 GGQPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFENRPVDLISEGFDAAIAGG 146 Query: 86 TELSPGVVARELAPAHRVLLASPAYLEAHPALRSPADLAEHAGILIRSPQTGRVRPFSLR 145 TELSPGVVARELAPAHRVLLASPAYL+AHP L SPADLAEHAGILIRSPQTGRVRPFSLR Sbjct: 147 TELSPGVVARELAPAHRVLLASPAYLDAHPPLHSPADLAEHAGILIRSPQTGRVRPFSLR 206 Query: 146 DHGGQQAPVTLQQRMTMSDANAACEVAEAGLGITLVSMPHALLYLDRGTLVRVLPDWYVD 205 D GQQAPVTLQQRMTMSDANAACEVAEAGLGITLV+MPHAL YL+ GTLVRVLPDWYVD Sbjct: 207 DRSGQQAPVTLQQRMTMSDANAACEVAEAGLGITLVAMPHALPYLEGGTLVRVLPDWYVD 266 Query: 206 TGMLSLYFTAARLLPAKTRVFVDFVVEHFRRERLAERFSAHR 247 TGMLSLYFTAARLLPAKTRVFVDFVVEHFRRERLAERFSA R Sbjct: 267 TGMLSLYFTAARLLPAKTRVFVDFVVEHFRRERLAERFSAQR 308 >gi|300313017|ref|YP_003777109.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 104 bits (259), Expect = 7e-24, Method: Compositional matrix adjust. Identities = 73/235 (31%), Positives = 114/235 (48%), Gaps = 9/235 (3%) Query: 4 FCRKWAAACKPSAXKKKKKKPPGGQPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPD 63 F R AA +++ P+GTL+++ F ++I PLL F RYP ++ + Sbjct: 65 FYRHCKAALTQMKEAEQQVNAASAAPSGTLRITSSLSFCMKHISPLLPRFHQRYPEVRLE 124 Query: 64 WHFENRSVDLITEGFDAAIAGGTELSP--GVVARELAPAHRVLLASPAYLEAHPALRSPA 121 NR +DL+ D AI E P + R LA R+L A+P YL A R+ Sbjct: 125 VIAANRYMDLLDSDIDLAIR-TREFEPDANIAVRRLATTRRILAAAPGYLAARGTPRTLD 183 Query: 122 DLAEHAGILIRSPQTGRVRPFSLRDHGGQQAPVTLQQRMTMSDANAACEVAEAGLGITLV 181 DLA+H ++ + S RD G Q + ++ M +D A GLGI + Sbjct: 184 DLAQHDLLVYSHAKEPNRLHLSGRD--GSQRTLEIKSLMQSNDGQIIRAAALEGLGILI- 240 Query: 182 SMPHALLYLD--RGTLVRVLPDWYVDTGMLSLYFTAARLLPAKTRVFVDFVVEHF 234 P+ ++Y D G LV VL +W + +++ + + LPA+ RVF+DF+V+HF Sbjct: 241 -QPNYIIYDDIVAGRLVPVLDEWDLPRLSINIAYQGRKHLPARVRVFIDFLVQHF 294 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 102 bits (253), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 69/211 (32%), Positives = 102/211 (48%), Gaps = 5/211 (2%) Query: 27 GQPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFENRSVDLITEGFDAAIAGGT 86 G+PAG+L+V+ F + + + EF+ YP +Q ++ + DLI EG D A GG Sbjct: 88 GEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPKVQLEFVLNDGRADLIAEGIDLAFRGGV 147 Query: 87 ELSPGVVARELAPAHRVLLASPAYLEAHPALRSPADLAEHAGILIRSPQTGRVRPFSLRD 146 +VAR+L +H L+ASP YLE +S DL HA + + Q + + L Sbjct: 148 LPDSSLVARKLVQSHLALIASPRYLERQGTPQSLTDLTAHA--CLATSQAPQHTVWKLEG 205 Query: 147 -HGGQQAPVTLQQRMTMSDANAACEVAEAGLGITLVSMPHALLYLDRGTLVRVLPDWYVD 205 HG + VT R+ ++ A A AGLGI L+ A L GTLV +LPD+ D Sbjct: 206 PHGPESVKVT--PRLCVNTAQGQLRAARAGLGIALLPTMLASEDLRNGTLVNILPDYQRD 263 Query: 206 TGMLSLYFTAARLLPAKTRVFVDFVVEHFRR 236 T + R LP+ ++F + R Sbjct: 264 TMGFYAVYVHRRQLPSAVSALIEFFADKLER 294 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 99.4 bits (246), Expect = 3e-22, Method: Compositional matrix adjust. Identities = 64/206 (31%), Positives = 97/206 (47%), Gaps = 1/206 (0%) Query: 29 PAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFENRSVDLITEGFDAAIAGGTEL 88 P G L++ + GR ++P L +F RYP I+ +R VDL+ E D I G Sbjct: 90 PQGRLRIDVPASVGRLMLLPNLCDFYTRYPDIELMMGMGDRPVDLVQEAVDCVIRIGELQ 149 Query: 89 SPGVVARELAPAHRVLLASPAYLEAHPALRSPADLAEHAGILIRSPQTGRVRPFSLRDHG 148 +VAR + V A+PAYLE H + DL +H + S +TGR + G Sbjct: 150 DSSMVARRIGTFQTVTCAAPAYLERHGVPHTIEDLQQHKAVHYFSSRTGRTIDWDFVVEG 209 Query: 149 GQQAPVTLQQRMTMSDANAACEVAEAGLGITLVSMPHALLYLDRGTLVRVLPDWYVDTGM 208 + V + ++ +++A+A E A G G+ + ++D G LV VL W Sbjct: 210 VTR-EVKMNGKLAVNEADAYVECALQGFGMVQAPLYMVTRHIDEGRLVEVLSQWKPAPMP 268 Query: 209 LSLYFTAARLLPAKTRVFVDFVVEHF 234 +S+ + R L K R FVD+V E F Sbjct: 269 ISVVYLHNRHLSPKVRAFVDWVAELF 294 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 97.1 bits (240), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 66/203 (32%), Positives = 99/203 (48%), Gaps = 3/203 (1%) Query: 28 QPAGTLKVSMGTGFGRQYIVPLLGEFLGRYPGIQPDWHFENRSVDLITEGFDAAIAGGTE 87 + +G L +S GFGRQ++ PLL FL + + + +R D+I EG D AI T Sbjct: 89 RASGQLLISAPAGFGRQHVAPLLPSFLAEHRDVTLTLNLNDRIADVIGEGIDVAIRIATL 148 Query: 88 LSPGVVARELAPAHRVLLASPAYLEAHPALRSPADLAEHAGILIRSPQTGRVRPFSLRDH 147 +V+ +LA HRV++A+PAYL H +SP +L H + + S G R ++LR Sbjct: 149 TDSNLVSVKLAENHRVIVAAPAYLRRHGTPQSPDELMRHNCLAMSSE--GSQRGWTLR-Q 205 Query: 148 GGQQAPVTLQQRMTMSDANAACEVAEAGLGITLVSMPHALLYLDRGTLVRVLPDWYVDTG 207 G+ + + M +D A AG G+ SM ++ G LV VL + Sbjct: 206 SGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAWRSMWEVGAAIEAGELVTVLDKFAAPAP 265 Query: 208 MLSLYFTAARLLPAKTRVFVDFV 230 + F R LP + R FVDF+ Sbjct: 266 SIYAVFAQRRHLPLRIRAFVDFL 288 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 0.322 0.137 0.419 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: 768,827 Number of extensions: 34840 Number of successful extensions: 189 Number of sequences better than 1.0e-08: 26 Number of HSP's gapped: 154 Number of HSP's successfully gapped: 26 Length of query: 247 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 164 Effective length of database: 1,226,865 Effective search space: 201205860 Effective search space used: 201205860 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: 129 (54.3 bits)