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= 0010.0088.p (298 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311046|ref|YP_003775138.1| LysR family transcription regul... 166 1e-42 gi|300312397|ref|YP_003776489.1| cys regulon transcription regul... 67 1e-12 gi|300312111|ref|YP_003776203.1| LysR family transcription regul... 64 2e-11 gi|300310443|ref|YP_003774535.1| LysR family transcription regul... 62 6e-11 gi|300310484|ref|YP_003774576.1| LysR family transcription regul... 59 5e-10 >gi|300311046|ref|YP_003775138.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 297 Score = 166 bits (421), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 95/276 (34%), Positives = 150/276 (54%), Gaps = 1/276 (0%) Query: 5 IDFKLLRIFAAVVRHQGFARAQQELNLTTSAISTYMAQLESDVGFTVCRRGRGGFALTDK 64 +D +L+R+F AVV G + AQ LN+ S IST + LE+ +G+ +C RGR GF LT K Sbjct: 8 LDLRLIRVFLAVVDSHGVSAAQARLNVGQSTISTQLNSLETRLGYRLCERGRAGFRLTAK 67 Query: 65 GELLLSETLRVLGEVDSFERYTQSLKGELGGTLKIGVLDTTVTDPSLPMAEAIGMFSSKF 124 GE R++ +D F ++L L GTL IG++ T + +AE I F + Sbjct: 68 GEKFADAARRMMDALDEFGMQARNLDKRLVGTLAIGLMGHTPAQHNHRLAEVIRRFRQRD 127 Query: 125 PGMHLNLLIRSPYELQKGVLDNDLDIAVGFFPAKANGLIYQPLYREQQWLYCSDRHPCFQ 184 + L LL+R+P EL++ +L+ + +A+G+F + L Y PL E+Q YC+ HP F Sbjct: 128 EAVRLELLVRTPGELEEMLLNGAIQVALGYFWRRVTALHYTPLMLERQLAYCAPPHPLFD 187 Query: 185 QR-NLRASAVSEMSVVSRSYWSQTELSRHGFKRSVATVESMEAQLILILSGRYIGYLPEH 243 Q + ++ + R Y E + +A +MEA ILILSG+++GYLPE Sbjct: 188 QPGEIEPEQAADYAWAWRDYPVPPEHLPLQQRNIMAVTGNMEAMSILILSGQHLGYLPEE 247 Query: 244 YAQSWVEQGRLKVLLPSEFGYQSQFSLVLRRGRSRE 279 + + +G+++ L ++ Y S+V R R+RE Sbjct: 248 MGRQYEARGQMRALNRAKLAYDVGISVVTHRSRARE 283 >gi|300312397|ref|YP_003776489.1| cys regulon transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 53/220 (24%), Positives = 100/220 (45%), Gaps = 19/220 (8%) Query: 26 QQELNLTTSAISTYMAQ---------LESDVGFTV-CRRGRGGFALTDKGELLLSETLRV 75 +Q NLT +A + Y +Q LE ++G + R G+ LT+ G +L + Sbjct: 14 RQNFNLTEAAKALYTSQPGVSKAIIELEEELGVDIFTRHGKRIRGLTEPGRAVLRSVELI 73 Query: 76 LGEVDSFERYTQSLKGELGGTLKIGVLDTTVTDPSLPMAEAIGMFSSKFPGMHLNLLIRS 135 + EVD +R + G+ I TT T + + + F+ K+P +HL+LL + Sbjct: 74 MQEVDGLKRIGKEFAAHDSGSFTIA---TTHTQARYALPKVVQAFTQKYPKVHLSLLQGN 130 Query: 136 PYELQKGVLDNDLDIAVGFFP-AKANGLIYQPLYREQQWLYCSDRHPCFQQRNLRASAVS 194 P ++ + V ++ DIA+ A GL+ P Y+ + + HP Q ++L ++ Sbjct: 131 PKQITEMVRNDQADIAIATEALASGEGLVSLPCYQWEHVVVVPPDHPLLQSKSLTLEEIA 190 Query: 195 EMSVVS-RSYWSQTELSRHGFK----RSVATVESMEAQLI 229 +++ S +S H F + +E+++A +I Sbjct: 191 ANPLITYDSAFSGRSKIDHAFSLRQLKPDVVLEAIDADVI 230 >gi|300312111|ref|YP_003776203.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 63.5 bits (153), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 62/262 (23%), Positives = 106/262 (40%), Gaps = 16/262 (6%) Query: 6 DFKLLRIFAAVVRHQGFARAQQELNLTTSAISTYMAQLESDVGFTVCRRGRGGFALTDKG 65 D LR+F + H R+ + +NL+ A S + +LE+ G + R G LT G Sbjct: 4 DLTDLRLFILIAEHNSLTRSAERMNLSLGATSNRIKELETRFGTRLLYRESKGVQLTPAG 63 Query: 66 ELLLSETLRVLGEVDSFERYTQSLKGELGGTLKIGVLDTTVTDPSLPMAEAIGMFSSKFP 125 LL + + +V+ + Q + G ++I T VT+ M E +G F ++ P Sbjct: 64 HTLLHHAQQFMQQVEHLKSDMQQYNNGIKGYIRIFANTTAVTE---FMPEILGKFLARHP 120 Query: 126 GMHLNLLIRSPYELQKGVLDNDLDIAVGFFPAKANGLIYQPLYREQQWLYCSDRHPCFQQ 185 +++ L R +++ +G+ + DI + P + GL ++ L + HP Sbjct: 121 QVNVALEERLNHDILRGIQEGTADIGIVAGPVQGEGLQILNFSTDRLVLATALEHPLADA 180 Query: 186 RNLRASAVSEMSVVSRSYWSQTELSRHGFKRSVAT----------VESMEAQLILILSGR 235 +L E + S H + VA V S EA +I + Sbjct: 181 PSLPFIQTLEYEHIGLHEGSTLH---HFLSKIVAENGQRLKLRIQVRSFEAMCRMIETNV 237 Query: 236 YIGYLPEHYAQSWVEQGRLKVL 257 IG LP AQ + +L V+ Sbjct: 238 GIGILPRSAAQRHQQTMQLSVV 259 >gi|300310443|ref|YP_003774535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 62.0 bits (149), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 47/163 (28%), Positives = 80/163 (49%), Gaps = 11/163 (6%) Query: 10 LRIFAAVVRHQGFARAQQELNLTTSAISTYMAQLESDVGFTVCRRGRGGFALTDKGELLL 69 L+ F AV R + FA A EL+LT SA+S +A+LES +G + R G +T GE L Sbjct: 10 LQAFEAVARRKSFALAAAELHLTASAVSHQVARLESYLGIRLFERSAHGVRITTAGEAYL 69 Query: 70 SETLRVLGEVDSFERYTQSLKGELGGTLKIGVLDTTVTDPSLPMAEAIGMFSSKFPGMHL 129 + R+ G + + + ++ + TL I + + SL + + F+ +P + Sbjct: 70 A---RIQGAISAITAASMDVRQGVSNTLYI---HSAPSIASLWLMARLNDFARSYPEITF 123 Query: 130 NL-LIRSPYELQKGVLDNDLDIAVGFFPAKANGLIYQPLYREQ 171 NL S + G +D D+ + +P GL+ +PL+ E+ Sbjct: 124 NLSAAHSQSNFELGEVDIDIRYGIPNWP----GLVVEPLFEER 162 >gi|300310484|ref|YP_003774576.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 58.9 bits (141), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 58/251 (23%), Positives = 107/251 (42%), Gaps = 25/251 (9%) Query: 6 DFKLLRIFAAVVRHQGFARAQQELNLTTSAISTYMAQLESDVGFTVCRRGRGGFALTDKG 65 + + L +F A+V RA LNLT A+S + +LE VG + R G LT G Sbjct: 4 NLQQLEMFNAIVSAGSLGRAAALLNLTQPALSRAIKRLEESVGGALFERHTKGMHLTVLG 63 Query: 66 ELLLSETLRVLGEVDSFERYTQSLKGELGGTLKIGVLDTTVTDPSLPMAEAIGMFSSKFP 125 + LL + + E +++G G +K+G + + SL + A+ K+P Sbjct: 64 QALLPHAMSLQREAQQAREELDAIRGLAKGVIKVGAVGSIA---SLVLPLAVRGVLDKWP 120 Query: 126 GMHLNLLIRSPYELQKGVLDNDLDIAVGFFPAKANGL--IYQPLYREQQWLYCSDRHPCF 183 + + ++ L +G+L +++D+A+ + G+ I + + ++ + HP Sbjct: 121 NLRVEIIEGVWDRLVEGLLTHEIDLALSTSGGQTEGVAAIADCCWTDLSYVVAAPDHPLR 180 Query: 184 QQRNLRASAVSEMSVVSRSYWS------------QTELSRHGFKRSVATVESMEAQLILI 231 QQ + E ++ R W+ Q +RHG VES ++ Sbjct: 181 QQGRI----ALEQTLGQR--WALTPKGTGPYLHVQETFARHGLPMPEIAVESRSVTVLKS 234 Query: 232 LSGR--YIGYL 240 L R +IG++ Sbjct: 235 LVARCGFIGWM 245 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 0.321 0.136 0.396 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: 905,161 Number of extensions: 36184 Number of successful extensions: 191 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 19 Length of query: 298 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 213 Effective length of database: 1,217,395 Effective search space: 259305135 Effective search space used: 259305135 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)