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= 0001.2561.p (240 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311842|ref|YP_003775934.1| response regulator transcriptio... 404 e-114 gi|300309981|ref|YP_003774073.1| two component response regulato... 170 1e-43 gi|300313818|ref|YP_003777910.1| two component transcription reg... 166 1e-42 gi|300312688|ref|YP_003776780.1| response regulator consisting o... 165 3e-42 gi|300313680|ref|YP_003777772.1| two component response regulato... 164 6e-42 >gi|300311842|ref|YP_003775934.1| response regulator transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 404 bits (1037), Expect = e-114, Method: Compositional matrix adjust. Identities = 198/223 (88%), Positives = 207/223 (92%) Query: 1 MRILLVEDTADVAEAIVSHLTRIGHTVEWESHGAHASGRLGEAFDLLILDVMLPHTDGFG 60 MRILLVEDTADVAEAIV+HL RIGHTVEWES+GAHAS RL E++DLLILDVMLP DGF Sbjct: 1 MRILLVEDTADVAEAIVTHLNRIGHTVEWESNGAHASRRLSESYDLLILDVMLPQQDGFS 60 Query: 61 LLQQLRARGQHTPVLMLTACGEIEERVRALDLGADDYLVKPFDFRELEARIRVLLRRSGG 120 LLQQLR RG HTPVLMLTAC E+EERVRALDLGADDYLVKPFDFREL+ARIRVLLRRSGG Sbjct: 61 LLQQLRTRGHHTPVLMLTACAEVEERVRALDLGADDYLVKPFDFRELDARIRVLLRRSGG 120 Query: 121 ESTNLLHCANLCIDRKSRTATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFTV 180 ESTNLLHCANL IDRKSR+ATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFTV Sbjct: 121 ESTNLLHCANLSIDRKSRSATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFTV 180 Query: 181 DDTPNANTVEQYVARLRKKLAGAGFEIRTLRGLGYQLVLQQAA 223 DD P+AN+VEQYVARLRKKLA A FEIRTLRGLGYQLVL A Sbjct: 181 DDNPSANSVEQYVARLRKKLAAAAFEIRTLRGLGYQLVLHAPA 223 >gi|300309981|ref|YP_003774073.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 237 Score = 170 bits (430), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 95/218 (43%), Positives = 132/218 (60%), Gaps = 1/218 (0%) Query: 1 MRILLVEDTADVAEAIVSHLTRIGHTVEWESHGAHASGRLG-EAFDLLILDVMLPHTDGF 59 MRILL ED + +A+ + L G+ + +G A L + FDLLILD+ LP G Sbjct: 1 MRILLAEDDSVLADGLTRSLRHSGYAADCVKNGVEADSALSTQDFDLLILDLGLPKMSGL 60 Query: 60 GLLQQLRARGQHTPVLMLTACGEIEERVRALDLGADDYLVKPFDFRELEARIRVLLRRSG 119 +L++LRAR PVL+LTA +E+RV+ LDLGADDY+ KPF ELEAR+R L RR Sbjct: 61 EVLRRLRARNSRLPVLILTAADSVEQRVQGLDLGADDYMAKPFALSELEARVRALTRRGA 120 Query: 120 GESTNLLHCANLCIDRKSRTATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFT 179 G ++ L D+ R A + Q +EL+ RE+ LLE++ R GR+ +K++L+D L Sbjct: 121 GGGPTVIRHGPLSYDQVGRIAYIGEQMLELSARELGLLEVLLQRTGRLVSKEQLVDHLCE 180 Query: 180 VDDTPNANTVEQYVARLRKKLAGAGFEIRTLRGLGYQL 217 + + N +E YV RLRKK+ G I T+RGLGY L Sbjct: 181 WGEEVSNNAIEVYVHRLRKKIEVGGVRIATVRGLGYCL 218 >gi|300313818|ref|YP_003777910.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 224 Score = 166 bits (421), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 98/221 (44%), Positives = 135/221 (61%), Gaps = 4/221 (1%) Query: 1 MRILLVEDTADVAEAIVSHLTRIGHTVEWESHGAHA-SGRLGEAFDLLILDVMLPHTDGF 59 MRILLVED +++ + + TVE +GA A S L + + L+ILD+ LP DG Sbjct: 1 MRILLVEDHIELSRWLAKAMRDAHLTVECAHNGADADSLLLTQDYALVILDLTLPRMDGM 60 Query: 60 GLLQQLRARGQHTPVLMLTACGEIEERVRALDLGADDYLVKPFDFRELEARIRVLLRRSG 119 +L+++RARG TPVL+LTA G + +RV L++GADDYL KPF+ ELEAR++ LLRRS Sbjct: 61 EVLKRMRARGNRTPVLILTARGGLADRVSGLNMGADDYLAKPFELEELEARVKALLRRSQ 120 Query: 120 GESTNLLHCANLCIDRKSRTATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFT 179 + C L D SRT T G+ + LT RE +LE + R G K++L ++FT Sbjct: 121 NNEAVTVSCGALSFDTVSRTFTYGGELLALTPREHAVLEALIVRHGHTVPKEKLFQQVFT 180 Query: 180 VDDTPNANTVEQYVARLRKKLAGAG---FEIRTLRGLGYQL 217 ++D + + +E Y+ RLRKKL G I TLRGLGY L Sbjct: 181 LEDNASMDAIEIYIHRLRKKLEHEGPGRVGITTLRGLGYLL 221 >gi|300312688|ref|YP_003776780.1| response regulator consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 222 Score = 165 bits (417), Expect = 3e-42, Method: Compositional matrix adjust. Identities = 91/218 (41%), Positives = 133/218 (61%), Gaps = 1/218 (0%) Query: 1 MRILLVEDTADVAEAIVSHLTRIGHTVEWESHGAHASGRL-GEAFDLLILDVMLPHTDGF 59 M++LL+ED +A + L V+ + G A L E +D+++LD+MLP G Sbjct: 1 MKLLLIEDNPQLAHWLEQILKEHKFKVDIAADGEIADQVLRDENYDVVLLDLMLPKLHGK 60 Query: 60 GLLQQLRARGQHTPVLMLTACGEIEERVRALDLGADDYLVKPFDFRELEARIRVLLRRSG 119 +L++LR R PV++LTA G I+E+V L GADDYLVKPF+ REL ARI+VL+RR Sbjct: 61 NVLRRLRERHNGVPVMILTASGSIDEKVECLGAGADDYLVKPFEIRELVARIKVLVRRQT 120 Query: 120 GESTNLLHCANLCIDRKSRTATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFT 179 + +HC NL D +R + G + L RE +LE++ R G+ +K LM +F+ Sbjct: 121 PDKAAEIHCGNLVYDSNTRQFAVGGVTLALPAREHDVLEVLILRQGKTVSKTALMKGVFS 180 Query: 180 VDDTPNANTVEQYVARLRKKLAGAGFEIRTLRGLGYQL 217 + + P+A+ +E Y++RLRKKL +G I TLRGLGY L Sbjct: 181 LSEEPSADAIEVYISRLRKKLDRSGAAIMTLRGLGYLL 218 >gi|300313680|ref|YP_003777772.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 218 Score = 164 bits (415), Expect = 6e-42, Method: Compositional matrix adjust. Identities = 88/216 (40%), Positives = 132/216 (61%), Gaps = 3/216 (1%) Query: 1 MRILLVEDTADVAEAIVSHLTRIGHTVEWESHGAHASGRL-GEAFDLLILDVMLPHTDGF 59 MR+LLVED V EA+ L + G ++W G A L E + +L+LD+ LP DG Sbjct: 1 MRVLLVEDDPMVGEAVRKGLRQDGFAIDWVQDGKSADVALRTEDYAMLLLDLGLPQKDGL 60 Query: 60 GLLQQLRARGQHTPVLMLTACGEIEERVRALDLGADDYLVKPFDFRELEARIRVLLRRSG 119 +L+ LR RG PVL+ TA + +RV LD GADDYL+KPFD EL AR+R L RR Sbjct: 61 AVLRTLRERGNAIPVLITTARDAVADRVAGLDAGADDYLIKPFDLEELSARMRALSRRQA 120 Query: 120 GESTNLLHCANLCIDRKSRTATLDGQPIELTRREVTLLEIIAARPGRIFNKDELMDRLFT 179 G + +L+ + ++ + T+ G+P+ L+ RE TLL+ RPG + ++ +L ++L+ Sbjct: 121 GRAESLVQVREVILNPATHEVTVSGKPVNLSAREFTLLQAFMDRPGVVLSRAQLEEKLYG 180 Query: 180 VDDTPNANTVEQYVARLRKKLAGAGFEIRTLRGLGY 215 DD+ +N VE ++ LRKK+ G+ F I+ +RG+GY Sbjct: 181 WDDSIESNAVEVHIHALRKKV-GSDF-IKNVRGVGY 214 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 0.138 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: 700,245 Number of extensions: 29228 Number of successful extensions: 247 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 211 Number of HSP's successfully gapped: 41 Length of query: 240 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 157 Effective length of database: 1,226,865 Effective search space: 192617805 Effective search space used: 192617805 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)