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= 0001.3090.p (299 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312894|ref|YP_003776986.1| LysR family transcription regul... 528 e-151 gi|300309577|ref|YP_003773669.1| transcription regulator protein... 139 4e-34 gi|300312645|ref|YP_003776737.1| LysR family transcription regul... 130 2e-31 gi|300310906|ref|YP_003774998.1| LysR family transcription regul... 129 4e-31 gi|300314051|ref|YP_003778143.1| transcription regulator protein... 122 4e-29 >gi|300312894|ref|YP_003776986.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 528 bits (1361), Expect = e-151, Method: Compositional matrix adjust. Identities = 263/298 (88%), Positives = 276/298 (92%) Query: 1 MRRRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQIGRLEGFLGVTLFERIGNRV 60 MRRRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQI RLEGFLGVTLFERIGNRV Sbjct: 1 MRRRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQISRLEGFLGVTLFERIGNRV 60 Query: 61 RLLPHGQRYAGHVRETLERLDRDSQHLMSLPTHGASLDIAVSPTFAMRWLIPRLPRLAAL 120 RLLPHGQRYA HVRETLERLDRDSQHLMS P +GASLDIAVSPTFAMRWLIPRLPR AAL Sbjct: 61 RLLPHGQRYASHVRETLERLDRDSQHLMSQPPNGASLDIAVSPTFAMRWLIPRLPRFAAL 120 Query: 121 HPHITVHLAQRMEPFLLAGSGLDAAIHFVHPAWAGMHTYRLLDEVLIPVCHPALLPEATR 180 HPHITVHL++RMEPFLL GSGLDAAIHF+HPAW GM TY LLDEVL+PVCHPAL+ + Sbjct: 121 HPHITVHLSERMEPFLLPGSGLDAAIHFLHPAWTGMQTYSLLDEVLVPVCHPALVAGTSG 180 Query: 181 VPALDTLPRLHRRQNHDAWQRYAAQTGISLTHAAQGPRYDLHGMLIEAALAGLGVALVPR 240 VPALD LPRLHRRQNHDAWQRYAAQTGISL+H+AQGPRYDLHGMLIEAALAGLGVALVPR Sbjct: 181 VPALDALPRLHRRQNHDAWQRYAAQTGISLSHSAQGPRYDLHGMLIEAALAGLGVALVPR 240 Query: 241 LYVEGELAQGRLVAPWPQDAGISKTFCLVLPEPLQHAGEPLQAFAQWLLEEAKRPAGL 298 LYVE ELAQGRLVAPWPQD+ ISKTFCLVLPEPLQ EPL+AFAQW+LEE+ AGL Sbjct: 241 LYVETELAQGRLVAPWPQDSRISKTFCLVLPEPLQLGSEPLKAFAQWILEESSPLAGL 298 >gi|300309577|ref|YP_003773669.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 139 bits (349), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 106/297 (35%), Positives = 146/297 (49%), Gaps = 13/297 (4%) Query: 5 IPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQIGRLEGFLGVTLFERIGNRVRLLP 64 +P SL+AFEAA RHGSF RAA EL LT+ AISRQI +LE FLG LF R +RL Sbjct: 6 LPPLPSLIAFEAAMRHGSFTRAAAELHLTQSAISRQIAQLERFLGKKLFLREPRALRLTV 65 Query: 65 HGQRYAGHVRETLERLDRDSQHLMSLPTHGASLDIAVSPTFAMRWLIPRLPRLAALHPHI 124 GQRYA V+ L ++ +M H L +A S A+ WL PRL R A HP Sbjct: 66 SGQRYAALVQRLLVDCAEATEDIMKRKGH-QELTVACSQGVAVLWLTPRLARFRARHPDC 124 Query: 125 TVHLAQRMEPFLLAGSGLDAAIHFVHPA-WAGMHTYRLLDEVLIPVCHPALL------PE 177 + L L+ + D I+F+ AG+ RL DE + PVC P L PE Sbjct: 125 HLRLVVNDSLAQLSETDFDMGIYFLRDGPPAGLAARRLYDEEVFPVCSPGYLDGRLLAPE 184 Query: 178 ATRVPALDTLPRLHRRQNHDAWQRYAAQTGISLTHAAQGPRYDLHGMLIEAALAGLGVAL 237 R L TL R+ +WQ + A G+ + + +L++ A+ G GV L Sbjct: 185 DLRHQTLLTLEDGQRQWM--SWQNWMAHNGMPDVRIEHQILSNQYPVLLQLAMEGQGVVL 242 Query: 238 VPRLYVEGELAQGRLVAPWPQDAGISKTFCLVLP-EPLQHAGEPLQAFAQWLLEEAK 293 R ++ + QG LV A + + V P + ++HA +AF WL+ E++ Sbjct: 243 AWRHMIDACMEQGLLVRACQASASLGGGYYAVWPRDRIEHAAA--RAFRSWLVAESE 297 >gi|300312645|ref|YP_003776737.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 287 Score = 130 bits (326), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 104/287 (36%), Positives = 139/287 (48%), Gaps = 19/287 (6%) Query: 9 SSLMAFEAAARHGSFARAAEELALTEGAISRQIGRLEGFLGVTLFERI-------GNRVR 61 ++L AFE +ARH SF RAAEEL++T+ A+S Q+ LE LGV LF R+ + Sbjct: 6 NALRAFEVSARHLSFTRAAEELSVTQTAVSMQVKNLEQRLGVALFRRLPRGLALTDEGLA 65 Query: 62 LLPHGQRYAGHVRETLERLDRDSQHLMSLPTHGASLDIAVSPTFAMRWLIPRLPRLAALH 121 LLP + G + + L + + + + L + V TFA+ WL+PRL + H Sbjct: 66 LLPVVAQSFGRIADVLAQFEDGRRREV--------LTVGVVGTFAVGWLMPRLRQFQQQH 117 Query: 122 PHITVHLAQRMEPFLLAGSGLDAAIHFVHPAWAGMHTYRLLDEVLIPVCHPALLPEATRV 181 P + + L LAG GLD AI F AW G RL + L P+C PA+ R Sbjct: 118 PFVDLRLLTNNNRVDLAGEGLDYAIRFGDGAWHGTQAERLFEAPLAPMCAPAIAAR-LRS 176 Query: 182 PALDTLPRLHRRQNHDAWQRYAAQTGISLTHAAQGPRYDLHGMLIEAALAGLGVALVPRL 241 PA L R D W R+ A G + +G +D L EAA GVAL+P L Sbjct: 177 PADLGAETLLRSYRSDEWGRWFAAAGAA-CPPLRGFVFDSSLALAEAAAQEAGVALLPVL 235 Query: 242 YVEGELAQGRLVAPWPQDAGISKTFCLVLPEPLQHAGEPLQAFAQWL 288 E EL QGRLV P+ Q + + L Q A + AF QWL Sbjct: 236 MFERELQQGRLVCPFGQRIVLGAYWLTSLKSRPQTAA--MAAFRQWL 280 >gi|300310906|ref|YP_003774998.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 129 bits (323), Expect = 4e-31, Method: Compositional matrix adjust. Identities = 97/287 (33%), Positives = 142/287 (49%), Gaps = 11/287 (3%) Query: 9 SSLMAFEAAARHGSFARAAEELALTEGAISRQIGRLEGFLGVTLFERIGNRVRLLPHGQR 68 +++ AF AAARH SF AA EL +T GAISRQI LEG+LG+ LFER +V L G++ Sbjct: 9 NAIRAFLAAARHQSFTLAAHELNVTHGAISRQIKNLEGYLGMPLFERRTRQVLLTERGRQ 68 Query: 69 YAGHVRETLERLDRDSQHLM-SLPTHGASLDIAVSPTFAMRWLIPRLPRLAALHPHITVH 127 + LE L ++ +M PT ++ I V P+FA+RWLIP L +P I Sbjct: 69 FFEEASPALEILANAARRVMRDAPTR--TVVINVRPSFAVRWLIPHLSDFVERYPGIAPQ 126 Query: 128 LAQRMEPFLLAGSGLDAAIHFVHPAW-AGMHTYRLLDEVLIPVCHPALLPEATRVPALDT 186 + AGS D A+ W + R +++ L+ V PALL +A + + Sbjct: 127 VVTSTATVGKAGSSFDIAVRRGETNWPETLKVQRFMEDELVLVASPALL-QAMPLEDVSG 185 Query: 187 LPR---LHRRQNHDAWQRYAAQTGISLTHAAQGPRYDLHGMLIEAALAGLGVALVPRLYV 243 L R L R + W+ + G+ + + +D +++A + GLGVAL P Sbjct: 186 LARHTVLLSRSRRNDWEDWRKLAGLKRSRSQAMLHFDHVHFVLQAVVDGLGVALSPVSLA 245 Query: 244 EGELAQGRLVAPWPQDAGISKTFCLVLPEPLQHAGEPLQAFAQWLLE 290 + +L GRLV P+P + L + AG Q FA+WL E Sbjct: 246 DNDLRSGRLVCPFPDLRLTLAPYYLGIN---AQAGSEAQLFARWLAE 289 >gi|300314051|ref|YP_003778143.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 122 bits (305), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 96/295 (32%), Positives = 150/295 (50%), Gaps = 7/295 (2%) Query: 3 RRIPSNSSLMAFEAAARHGSFARAAEELALTEGAISRQIGRLEGFLGVTLFERIGNRVRL 62 R++P+ ++L AF+AAAR+ F+RAAEE+ +T GAIS Q+ LE LG+ LF R G R+ + Sbjct: 5 RKLPNLAALRAFDAAARYECFSRAAEEVHVTPGAISHQVRALEEDLGLQLFLRHGKRISI 64 Query: 63 LPHGQRYAGHVRETLERLDRDSQHLMSLPTHGASLDIAVSPTFAMRWLIPRLPRLAALHP 122 GQR+A +R++L + ++HL S L I+ +P+FA RWL PRL R HP Sbjct: 65 TETGQRFAATIRKSLSEIALAAEHLRS-QNRQQRLVISTTPSFASRWLAPRLWRFIDAHP 123 Query: 123 HITVHLAQRMEPFLLAGSGLDAAIHFVHPAWAGMHTYRLLDEVLIPVCHPALLPEATRV- 181 + V L L G+D + F ++G+ + +L D+ PV P + ++ Sbjct: 124 ELEVVLQSAAHLNDLRLDGIDVGLRFGRGNYSGLVSEKLSDDYYYPVAAPGYRGKRSKKL 183 Query: 182 --PALDTLPRLHRRQNHDAWQRYAAQTGISLTHAAQGPRYDLHGMLIEAALAGLGVALVP 239 PA L R + ++WQ + A+ G+ L G + + + A G GVAL Sbjct: 184 ARPADLAHCSLLRVDSRESWQPWLAEAGLELPEPTGGLLVEDSSLTLRQAAEGKGVALAR 243 Query: 240 RLYVEGELAQGRLVAPWPQDAGISKTFCLV-LPEPLQHAGEPLQAFAQWLLEEAK 293 + E++ G LV + V LPE L+ G + AF +W+ EE + Sbjct: 244 HVIASQEISTGELVRLFDVVVPSEDAHYFVHLPEALEKPG--VAAFKEWIFEEMR 296 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 0.324 0.138 0.427 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: 990,345 Number of extensions: 43688 Number of successful extensions: 279 Number of sequences better than 1.0e-08: 28 Number of HSP's gapped: 261 Number of HSP's successfully gapped: 28 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)