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= 0001.1094.p (306 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313657|ref|YP_003777749.1| LysR family transcription regul... 485 e-138 gi|300312482|ref|YP_003776574.1| LysR family transcription regul... 274 8e-75 gi|300313689|ref|YP_003777781.1| LysR family transcription regul... 209 2e-55 gi|300310291|ref|YP_003774383.1| LysR family transcription regul... 124 1e-29 gi|300310792|ref|YP_003774884.1| LysR family transcription regul... 94 2e-20 >gi|300313657|ref|YP_003777749.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 333 Score = 485 bits (1249), Expect = e-138, Method: Compositional matrix adjust. Identities = 238/303 (78%), Positives = 267/303 (88%) Query: 1 MTSSNTRILEETAVRYFLEVVRRGSITEAAITLNVASSAISRQISRLEDALDTPLFERIS 60 M++ +TR+L+ETAVRYFLEVVRRGSITEAA TLNVASSAISRQI+RLE LDTPLFER++ Sbjct: 28 MSTIHTRVLQETAVRYFLEVVRRGSITEAANTLNVASSAISRQIARLEAELDTPLFERVA 87 Query: 61 RGMRPNAAGELLAAHALRMQLEAERVGNELAALKGLRRGEVKLACTEGFALEFVPHAIAQ 120 RGMRPNAAGELLAAHALRMQLEAER+GNELAALKGLRRGEVKLACTEGFALEFVP I Q Sbjct: 88 RGMRPNAAGELLAAHALRMQLEAERIGNELAALKGLRRGEVKLACTEGFALEFVPATIEQ 147 Query: 121 FRERHRGIRFHLSVGNAKSVAQLVREGTVDLGLTFMLAPDPDIKVEFSQKAPIMAVMHPD 180 F +H+GIRF LSVGNA VAQ +REG VDLGLTF +APD DIKVEF+Q+API+AVMHP Sbjct: 148 FCRQHKGIRFQLSVGNAMHVAQQIREGAVDLGLTFTMAPDADIKVEFAQRAPILAVMHPA 207 Query: 181 HVLAGRKRVSLSELAQYPLGMPKKNITMRRLIDACCSRSNVVLEPALSADSISALLSFVM 240 H LA RK+VSLSELA YPL MPKK ITMRRLIDACCSR NV+LEP L+ADSISALL FVM Sbjct: 208 HELAHRKQVSLSELAPYPLAMPKKTITMRRLIDACCSRRNVLLEPTLAADSISALLCFVM 267 Query: 241 SGNGVGFSAQIPIREYLRTRKLVAVPIKDKDMNALYLEIQSLSGRTLPQAARSFLNTLID 300 +G G+GFSA +PIR+ +R KL A+PI+DKDMN L LEIQSL+GRTLP AAR+FLN LI Sbjct: 268 AGQGIGFSAALPIRKLVREGKLAALPIRDKDMNTLQLEIQSLAGRTLPDAARAFLNALIA 327 Query: 301 RAS 303 RA+ Sbjct: 328 RAA 330 >gi|300312482|ref|YP_003776574.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 274 bits (700), Expect = 8e-75, Method: Compositional matrix adjust. Identities = 138/296 (46%), Positives = 202/296 (68%) Query: 9 LEETAVRYFLEVVRRGSITEAAITLNVASSAISRQISRLEDALDTPLFERISRGMRPNAA 68 L++TA+RYFLEVVR GSI+EA+ LNVASSAISRQIS LE LDT LFER RGM +A Sbjct: 6 LQDTALRYFLEVVRCGSISEASQRLNVASSAISRQISSLEQILDTVLFERRPRGMVLSAG 65 Query: 69 GELLAAHALRMQLEAERVGNELAALKGLRRGEVKLACTEGFALEFVPHAIAQFRERHRGI 128 GE+LAAHA +M LEA+RV +L ALKGLR G V+L+ +EGFA++F+P I F++++ G Sbjct: 66 GEMLAAHARKMALEADRVVADLQALKGLRSGRVRLSASEGFAIDFLPRLINAFQKKYPGF 125 Query: 129 RFHLSVGNAKSVAQLVREGTVDLGLTFMLAPDPDIKVEFSQKAPIMAVMHPDHVLAGRKR 188 F L VG V++ VREG D+GLTF P+P+IKV Q PI +M DH LA ++ Sbjct: 126 VFQLFVGAPALVSRQVREGNADIGLTFARLPEPEIKVVHRQPGPIALIMRKDHPLARFRQ 185 Query: 189 VSLSELAQYPLGMPKKNITMRRLIDACCSRSNVVLEPALSADSISALLSFVMSGNGVGFS 248 +S+ +L YP+ +P T+R+L D CSR VV+EP ++++ I +L ++V+ + + + Sbjct: 186 ISVGQLKPYPMALPDPTTTLRQLFDIACSRQQVVIEPVMTSNYIQSLHNYVLDNDALSIT 245 Query: 249 AQIPIREYLRTRKLVAVPIKDKDMNALYLEIQSLSGRTLPQAARSFLNTLIDRASE 304 ++ +R + T +L PI+D + ++E+Q+L+GRTLP++ FL+ L+ S+ Sbjct: 246 GEVTVRYRIATGELTMRPIRDCPADGRFVEVQTLAGRTLPRSVEIFLDYLVAELSK 301 >gi|300313689|ref|YP_003777781.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 209 bits (532), Expect = 2e-55, Method: Compositional matrix adjust. Identities = 108/292 (36%), Positives = 179/292 (61%), Gaps = 1/292 (0%) Query: 9 LEETAVRYFLEVVRRGSITEAAITLNVASSAISRQISRLEDALDTPLFERISRGMRPNAA 68 ++ T++RYF +V R GS+T AA L+VA SA+SRQI+++E+ PLFER +RGM A Sbjct: 1 MQSTSLRYFYQVGRTGSLTAAAERLDVAVSAVSRQIAKMEEETGVPLFERRARGMVLTPA 60 Query: 69 GELLAAHALRMQLEAERVGNELAALKGLRRGEVKLACTEGFALEFVPHAIAQFRERHRGI 128 GE+L A+A R LE E+V E+ L + +G + LAC+EGFA + +P+ AQFRE++ G+ Sbjct: 61 GEVLMAYARRNLLEMEQVLAEVRGLHAVGQGVITLACSEGFAWDLLPNVTAQFREQYPGL 120 Query: 129 RFHLSVGNAKSVAQLVREGTVDLGLTFMLAPDPDIKVEFSQKAPIMAVMHPDHVLAGRKR 188 +F L V A +Q+V +G D+ +T+ LAP + V + + P+ A+M DH LA R Sbjct: 121 QFKLHVVGAARASQMVIDGEADISVTYSLAPAEGLAVAYRESGPVFALMKRDHPLASRTL 180 Query: 189 VSLSELAQYPLGMPKKNITMRRLIDACCSRSNVVLEPALSADSISALLSFVM-SGNGVGF 247 ++LS+L+ YPL +P+ T+R+L D CS ++ P ++ S+ A+ F S + V Sbjct: 181 LALSDLSPYPLALPEVGTTVRQLFDIACSMRGLLFSPVFTSHSLGAVYRFTTRSPDTVAL 240 Query: 248 SAQIPIREYLRTRKLVAVPIKDKDMNALYLEIQSLSGRTLPQAARSFLNTLI 299 + + E ++ V + + +++ +++Q+++GR LP A +F + LI Sbjct: 241 GGFLTVHERAEEDGMILVAMAESELHQRTVQVQTMAGRKLPPAVAAFSDFLI 292 >gi|300310291|ref|YP_003774383.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 90/302 (29%), Positives = 143/302 (47%), Gaps = 9/302 (2%) Query: 9 LEETAVRYFLEVVRRGSITEAAITLNVASSAISRQISRLEDALDTPLFERISRGMRPNAA 68 L + + Y E VR GS+ AA L++A SA+SRQIS LE L PL ER RG+ P A Sbjct: 5 LNDHRIAYLYEAVRTGSVRAAADALDIAPSAVSRQISLLEQELAVPLIERHKRGVSPTEA 64 Query: 69 GELLAAHALRMQLEAERVGNELAALKGLRRGEVKLACTEGFALEFVPHAIAQFRERHRGI 128 G LL + + V +L ++GL+RG + + EGF + V I QF +++ I Sbjct: 65 GALLLEYYREQRSHQSDVLAKLQEIRGLKRGSINIIMGEGFISDMVSGPIKQFCKKYPEI 124 Query: 129 RFHLSVGNAKSVAQLVREGTVDLGLTFMLAPDPDIKVEFSQKA----PIMAVMHPDHVLA 184 L + V V ++GL F +P ++ + +A P+ A++ L Sbjct: 125 ALVLDLAGTNEVVSAVAADEAEIGLVF----NPPVEAKIVSRAVARQPMYAIVGRQFPLL 180 Query: 185 GR-KRVSLSELAQYPLGMPKKNITMRRLIDACCSRSNVVLEPALSADSISALLSFVMSGN 243 G+ + V+L ELA YP+ + R+L++A L P ++ +SI+ L FV S Sbjct: 181 GKVESVTLRELAGYPMALTHLAYGTRQLVEAATLIEKTRLTPTITTNSIAILKHFVKSEL 240 Query: 244 GVGFSAQIPIREYLRTRKLVAVPIKDKDMNALYLEIQSLSGRTLPQAARSFLNTLIDRAS 303 G + L R+L A+P+++ + + + +GR L AA L L R Sbjct: 241 GFTLLPLFAVTTELAARELYAIPVRNALLARSEAHLITRTGRQLSTAANRLLQHLSTRMK 300 Query: 304 EY 305 + Sbjct: 301 AF 302 >gi|300310792|ref|YP_003774884.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 93.6 bits (231), Expect = 2e-20, Method: Compositional matrix adjust. Identities = 86/297 (28%), Positives = 135/297 (45%), Gaps = 7/297 (2%) Query: 7 RILEETA-VRYFLEVVRRGSITEAAITLNVASSAISRQISRLEDALDTPLFERISRGMRP 65 RI ETA ++ F+ V R+ S AA L + A+SR+I LE AL LF+R +R + Sbjct: 2 RINIETAELQAFIAVARQSSFRAAAEGLFITQPALSRRIENLEQALQERLFDRTTRRVSL 61 Query: 66 NAAGELLAAHALRMQLEAERVGNELAALKGLRRGEVKLACTEGFALEFVPHAIAQFRERH 125 AGEL HA + E E + RR V +AC A +P + ++ H Sbjct: 62 TPAGELFLVHAQAVMEELELAVKSVEQRMAQRREHVTVACVPSVANNLLPQVLKRYARSH 121 Query: 126 RGIRFHLSVGNAKSVAQLVREGTVDLGLTFMLAPDPDIKVEFSQKAPIMAVMHPDHVLAG 185 +R + +A V + VR+G D G+ F+ A + +I + +AVM H LA Sbjct: 122 ANVRVRIIDESAADVLESVRKGEADFGVNFIGAQEAEIDFAELTRERYLAVMPTHHPLAA 181 Query: 186 RKRVSLSELAQYPLGMPKKNITMRRLIDACCSRSNVVLEPALSADS--ISALLSFVMSGN 243 ++ LA L + R LID SR V P + ++ ++ +S V +G Sbjct: 182 HASLNWKSLAGEKLVSVSSSSGNRSLIDNAFSR--VPQRPVIQYETNHVAGAISLVAAGL 239 Query: 244 GVGFSAQIPIREYLRTRKLVAVPIKDKDMNALYLEIQSLSGRTLPQAARSFLNTLID 300 GV ++ IR + +VA P+ ++ + + +L GR L AA + L D Sbjct: 240 GVALLPELAIRNA-PYKGIVARPVTSPVLSR-AMGLITLKGRVLKPAAATLAQALRD 294 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 0.134 0.369 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: 808,090 Number of extensions: 30547 Number of successful extensions: 224 Number of sequences better than 1.0e-08: 51 Number of HSP's gapped: 209 Number of HSP's successfully gapped: 51 Length of query: 306 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 221 Effective length of database: 1,217,395 Effective search space: 269044295 Effective search space used: 269044295 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)