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= 0001.2385.p (245 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310163|ref|YP_003774255.1| response regulator protein [Her... 306 1e-84 gi|300311842|ref|YP_003775934.1| response regulator transcriptio... 99 4e-22 gi|300313680|ref|YP_003777772.1| two component response regulato... 94 9e-21 gi|300313818|ref|YP_003777910.1| two component transcription reg... 87 9e-19 gi|300309361|ref|YP_003773453.1| response regulator for cobalt/z... 85 7e-18 >gi|300310163|ref|YP_003774255.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 306 bits (784), Expect = 1e-84, Method: Compositional matrix adjust. Identities = 150/237 (63%), Positives = 184/237 (77%), Gaps = 4/237 (1%) Query: 1 MKIACYLRNPAVYTQVKEALMRAGLEPVHFTTETDLLRALRRRGFSLIIIDITVAPGSDD 60 M IACY+RN V+ QV+ AL R G P F ET LLR L+R+ F +IID++ A S+D Sbjct: 1 MNIACYIRNSNVFDQVRTALARVGYLPTQFDAETSLLRTLKRKTFDFVIIDLSSAE-SED 59 Query: 61 NIFSWLNYRSGDRTPTLVLSPTRSAELAALTLDSGADDFLVRPFEVIEFTARVNALIRRS 120 +IFSWL+ RSGD PTL+LS ++ A LD+GADDFL RPF+ +E AR+NA++RR Sbjct: 60 SIFSWLSLRSGDPIPTLILSSASGGDVVARVLDNGADDFLQRPFDAVELVARINAVMRRC 119 Query: 121 APTASRRTIEYAGFSLNRESTRFSYQGTPINLTPREFSMAWLFFSSPGVYISRDTIGAVI 180 AP +RR IEYAGF L R++ +FSYQG I+LTPREFSMAWLFFSSPGVYISR+T+G+VI Sbjct: 120 APKNNRRVIEYAGFQLQRDTAKFSYQGMGISLTPREFSMAWLFFSSPGVYISRETLGSVI 179 Query: 181 WSTDSDIAGRTIEQHVYKLRKKLQIDPNRPVVMIRTAYNQGYRLELC--KEASPTSD 235 WSTDS+IAGRTIEQHVYKLRKKLQID NR VV+IRTAY+QGYRL+ + ASP S+ Sbjct: 180 WSTDSEIAGRTIEQHVYKLRKKLQID-NRNVVVIRTAYSQGYRLDPVDNEGASPVSE 235 >gi|300311842|ref|YP_003775934.1| response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 98.6 bits (244), Expect = 4e-22, Method: Compositional matrix adjust. Identities = 61/188 (32%), Positives = 97/188 (51%), Gaps = 6/188 (3%) Query: 45 FSLIIIDITVAPGSDDNIFSWLNYRSGDRTPTLVLSPTRSAELAALTLDSGADDFLVRPF 104 + L+I+D+ + ++ L R G TP L+L+ E LD GADD+LV+PF Sbjct: 44 YDLLILDVMLPQQDGFSLLQQLRTR-GHHTPVLMLTACAEVEERVRALDLGADDYLVKPF 102 Query: 105 EVIEFTARVNALIRRSAPTASRRTIEYAGFSLNRESTRFSYQGTPINLTPREFSMAWLFF 164 + E AR+ L+RRS S + A S++R+S + G PI LT RE ++ + Sbjct: 103 DFRELDARIRVLLRRSGGE-STNLLHCANLSIDRKSRSATLDGQPIELTRREVTLLEIIA 161 Query: 165 SSPGVYISRDTIGAVIWSTDSDIAGRTIEQHVYKLRKKLQIDPNRPVVMIRTAYNQGYRL 224 + PG ++D + +++ D + + ++EQ+V +LRKKL IRT GY+L Sbjct: 162 ARPGRIFNKDELMDRLFTVDDNPSANSVEQYVARLRKKLAA----AAFEIRTLRGLGYQL 217 Query: 225 ELCKEASP 232 L A P Sbjct: 218 VLHAPAEP 225 >gi|300313680|ref|YP_003777772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 218 Score = 94.4 bits (233), Expect = 9e-21, Method: Compositional matrix adjust. Identities = 59/208 (28%), Positives = 105/208 (50%), Gaps = 6/208 (2%) Query: 1 MKIACYLRNPAVYTQVKEALMRAG--LEPVHFTTETDLLRALRRRGFSLIIIDITVAPGS 58 M++ +P V V++ L + G ++ V D+ ALR ++++++D+ + Sbjct: 1 MRVLLVEDDPMVGEAVRKGLRQDGFAIDWVQDGKSADV--ALRTEDYAMLLLDLGLPQKD 58 Query: 59 DDNIFSWLNYRSGDRTPTLVLSPTRSAELAALTLDSGADDFLVRPFEVIEFTARVNALIR 118 + L R G+ P L+ + + LD+GADD+L++PF++ E +AR+ AL R Sbjct: 59 GLAVLRTLRER-GNAIPVLITTARDAVADRVAGLDAGADDYLIKPFDLEELSARMRALSR 117 Query: 119 RSAPTASRRTIEYAGFSLNRESTRFSYQGTPINLTPREFSMAWLFFSSPGVYISRDTIGA 178 R A A ++ LN + + G P+NL+ REF++ F PGV +SR + Sbjct: 118 RQAGRAES-LVQVREVILNPATHEVTVSGKPVNLSAREFTLLQAFMDRPGVVLSRAQLEE 176 Query: 179 VIWSTDSDIAGRTIEQHVYKLRKKLQID 206 ++ D I +E H++ LRKK+ D Sbjct: 177 KLYGWDDSIESNAVEVHIHALRKKVGSD 204 >gi|300313818|ref|YP_003777910.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 224 Score = 87.4 bits (215), Expect = 9e-19, Method: Compositional matrix adjust. Identities = 61/202 (30%), Positives = 104/202 (51%), Gaps = 7/202 (3%) Query: 25 LEPVHFTTETDLLRALRRRGFSLIIIDITVAPGSDDNIFSWLNYRSGDRTPTLVLSPTRS 84 +E H + D L L + ++L+I+D+T+ + + R G+RTP L+L+ Sbjct: 27 VECAHNGADADSL--LLTQDYALVILDLTLPRMDGMEVLKRMRAR-GNRTPVLILTARGG 83 Query: 85 AELAALTLDSGADDFLVRPFEVIEFTARVNALIRRSAPTASRRTIEYAGFSLNRESTRFS 144 L+ GADD+L +PFE+ E ARV AL+RRS + T+ S + S F+ Sbjct: 84 LADRVSGLNMGADDYLAKPFELEELEARVKALLRRSQNNEA-VTVSCGALSFDTVSRTFT 142 Query: 145 YQGTPINLTPREFSMAWLFFSSPGVYISRDTIGAVIWSTDSDIAGRTIEQHVYKLRKKLQ 204 Y G + LTPRE ++ G + ++ + +++ + + + IE ++++LRKKL+ Sbjct: 143 YGGELLALTPREHAVLEALIVRHGHTVPKEKLFQQVFTLEDNASMDAIEIYIHRLRKKLE 202 Query: 205 ID-PNRPVVMIRTAYNQGYRLE 225 + P R V I T GY L+ Sbjct: 203 HEGPGR--VGITTLRGLGYLLQ 222 >gi|300309361|ref|YP_003773453.1| response regulator for cobalt/zinc/cadmium resistance transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 235 Score = 84.7 bits (208), Expect = 7e-18, Method: Compositional matrix adjust. Identities = 65/222 (29%), Positives = 99/222 (44%), Gaps = 5/222 (2%) Query: 1 MKIACYLRNPAVYTQVKEALMRAGLEPVHFTTETDLLRALRRRGFSLIIIDITVAPGSDD 60 M I P ++ L +G T D L R + LII+D+ + + Sbjct: 1 MHILLVEDEPKSGDYLRRGLTESGFVVDWVQTGVDGLHNARTLDYKLIILDVMLPGMNGW 60 Query: 61 NIFSWLNYRSGDRTPTLVLSPTRSAELAALTLDSGADDFLVRPFEVIEFTARVNALIRRS 120 +I L R+ D TP L L+ E L+ GADD+LV+PF E ARV L+RR Sbjct: 61 DILRELR-RTHD-TPVLFLTARDEVEDRVKGLELGADDYLVKPFAYTELLARVRTLLRR- 117 Query: 121 APTASRRTIEYAGFSLNRESTRFSYQGTPINLTPREFSMAWLFFSSPGVYISRDTIGAVI 180 P+ IEY L+ + + G I+LT +EF++ + PG +SR I + + Sbjct: 118 GPSREVDLIEYDDVVLDVLRRKVTRAGQRIDLTAKEFALLHMLIRRPGEVLSRPQIASQV 177 Query: 181 WSTDSDIAGRTIEQHVYKLRKKLQIDPNRPVVMIRTAYNQGY 222 W + D ++ V +LR KL D ++ T + GY Sbjct: 178 WDMNFDSDTNVVDVAVRRLRAKL--DEGFEKKLLHTVWGMGY 217 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 0.135 0.399 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: 772,897 Number of extensions: 30052 Number of successful extensions: 154 Number of sequences better than 1.0e-08: 24 Number of HSP's gapped: 133 Number of HSP's successfully gapped: 24 Length of query: 245 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 162 Effective length of database: 1,226,865 Effective search space: 198752130 Effective search space used: 198752130 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)