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= 0007.0052.p (384 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311808|ref|YP_003775900.1| two component sensor histidine ... 150 2e-37 gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729... 140 2e-34 gi|300313029|ref|YP_003777121.1| two component hybrid sensor his... 125 5e-30 gi|300311948|ref|YP_003776040.1| sensor histidine kinase/respons... 119 5e-28 gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kin... 112 7e-26 >gi|300311808|ref|YP_003775900.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 289 Score = 150 bits (378), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 91/220 (41%), Positives = 124/220 (56%), Gaps = 10/220 (4%) Query: 2 LGHELRNPLTPIL--TAVHLMRLRGGGGMEKECSVIERQARHLVRLVDDLLDVSRVAQGK 59 L HELR PL I+ T L + K VIER AR ++V+DLLD+SR+ GK Sbjct: 57 LSHELRTPLNAIVGWTQYLLNDHSDADRLVKGLQVIERNARLQAQMVEDLLDMSRMLAGK 116 Query: 60 INLQKKKLEIADIISKAIETASPLLEERQHRLTVNVPA--QGLQVHADPERLTQVLANLL 117 + L+ + +++A + +AI P E RQ L PA QG + DP RL QV+ NLL Sbjct: 117 LRLETRPMDLASVAEEAIAAVRPAAEARQIELH---PALGQGGVILGDPARLQQVVWNLL 173 Query: 118 TNACKYTENRGHIRVDAMLDNNQIVVEIRDNGIGIRADMLPHVFEMFAQE---TQAIDRA 174 NA K+T +G + + ++ + +E+ DNG GI+ + L VF+ F QE T + Sbjct: 174 MNAIKFTPRQGRVSLSLRQHDDTVALEVSDNGRGIKGEFLGSVFDRFTQEDVSTGSTGST 233 Query: 175 GGGLGLGLAIVRSLTELHGGTVHVFSAGPGTGSVFTIKLP 214 GLGLGLAI R L ELHGG + SAGPG G+ FT+ LP Sbjct: 234 ASGLGLGLAIARHLVELHGGQIRAASAGPGMGAAFTVTLP 273 >gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729 [Herbaspirillum seropedicae SmR1] Length = 765 Score = 140 bits (352), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 118/398 (29%), Positives = 181/398 (45%), Gaps = 54/398 (13%) Query: 1 MLGHELRNPLTPILTAVHLMRLRGGGGMEKECS-VIERQARHLVRLVDDLLDVSRVAQGK 59 M+ HE+R P+ IL L+ G +++ + I LVR+++D+LD S++ GK Sbjct: 354 MVSHEIRTPMNGILGLSELLMESGLSSKQRDYADSIHGATGGLVRIINDILDFSKIESGK 413 Query: 60 INLQKKKLEIADIISKAIETASPLLEER--QHRLTVNVPAQGLQVHADPERLTQVLANLL 117 ++L+ ++ + + P L+ + Q L ++ P + L V DP RL QVL NLL Sbjct: 414 LDLEMVAFHPVRLVQELSDLYRPSLQRKDVQFDLHLDCP-ENLSVVGDPARLKQVLGNLL 472 Query: 118 TNACKYTENRGHIRVDAMLDNNQ-------IVVEIRDNGIGIRADMLPHVFEMFAQETQA 170 +NA K+T+ GH+++ ++ + I D GIGI + L +F FAQ + Sbjct: 473 SNAIKFTQA-GHVQLSMSARQDESGPSRWRLFFAITDTGIGISPEALQQLFRPFAQADSS 531 Query: 171 IDRAGGGLGLGLAIVRSLTELHGGTVHVFS-AGPGTGSVFTIKLPAVLSDAT-------- 221 I R GG GLGLAI ++L EL GGT+ S G T F I P + A Sbjct: 532 ISRRFGGTGLGLAISKNLVELMGGTIACQSIPGESTRFSFEILCPEASTPAPEPVSEAAA 591 Query: 222 --------------------------PILLPLTPDNLLG----LQPLEEGCPILIVDDNL 251 P P P N+ L L G IL+ +D Sbjct: 592 PAPATALATTAPALPPAAEAPGTLMPPDNAPQPPSNVDASATVLPSLLAGARILMAEDTE 651 Query: 252 DAAQILGELLTMQGHEIRIAYDGPSALDIVKDFTPRIALLDIGLPIMDGYEVAGHLRAMP 311 Q+L LL +G ++ +G A++ ++ + L+D +PIMDGY+ +RA Sbjct: 652 INRQLLRILLARKGCILQEVENGLQAVEAIRTGHYDLVLMDCMMPIMDGYQATAEIRAHE 711 Query: 312 HLEGI---SLIALTGYGQASDKLRSLRAGFDHHLVKPV 346 G+ +IALT D+ R L AG D +L KP Sbjct: 712 AARGLPRTPIIALTASAIEGDRQRCLDAGMDDYLSKPF 749 >gi|300313029|ref|YP_003777121.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1524 Score = 125 bits (315), Expect = 5e-30, Method: Compositional matrix adjust. Identities = 96/277 (34%), Positives = 134/277 (48%), Gaps = 38/277 (13%) Query: 105 DPERLTQVLANLLTNACKYTENRGHI-----RVDAMLDNN-QIVVEIRDNGIGIRADMLP 158 D RL QVL NL NA K+T ++GHI R+D + + VE+ D GIGI AD L Sbjct: 1009 DAHRLQQVLVNLTGNALKFT-HQGHIDVHFTRLDPLPGRTVALRVEVSDTGIGIAADRLD 1067 Query: 159 HVFEMFAQETQAIDRAGGGLGLGLAIVRSLTELHGGTVHVFSAGPGTGSVFTIKLPAVLS 218 +F+ F Q + R GG GLGLAI + L L GG + V S+ PG GS F L + Sbjct: 1068 DIFDAFTQAEASTTRRYGGTGLGLAISKHLVGLMGGQLQV-SSEPGRGSRFWFDLQLAVD 1126 Query: 219 DATPILLPLTPDNLLGLQPLE-----------------------EGCPILIVDDNLDAAQ 255 D + +L P D+ QPL+ +G IL+V+DN Q Sbjct: 1127 DDS-VLGPAAADDAARPQPLQAASHTAGSRAPETARSAPDAQCLQGVQILLVEDNPVNRQ 1185 Query: 256 ILGELLTMQGHEIRIAYDGP----SALDIVKDFTPRIALLDIGLPIMDGYEVAGHLRAMP 311 + ELL + G ++ A G A D + F + L+D+ +P MDG E +R Sbjct: 1186 VASELLALSGAQVTCADSGSMGVAMACDPARHFD--LVLMDLQMPGMDGIEATRRIRGQY 1243 Query: 312 HLEGISLIALTGYGQASDKLRSLRAGFDHHLVKPVDI 348 L G+ ++A+T DK R + AG H+ KP+DI Sbjct: 1244 ELRGLPILAMTANASPEDKQRCIEAGMAGHIAKPIDI 1280 >gi|300311948|ref|YP_003776040.1| sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 119 bits (297), Expect = 5e-28, Method: Compositional matrix adjust. Identities = 98/313 (31%), Positives = 150/313 (47%), Gaps = 12/313 (3%) Query: 2 LGHELRNPLTPILTAVHLMRLRGG--GGMEKECSVIERQARHLVRLVDDLLDVSRVAQGK 59 + HELR PL IL ++ + + VI R HL+ L+D LLD++++ GK Sbjct: 695 MSHELRTPLNSILGYAQILHVDATIPPARKDAIGVIRRSGEHLLSLIDGLLDIAKIEAGK 754 Query: 60 INLQKKKLEIADIISKAIETASPLLEERQHRLTVNVPAQGLQ-VHADPERLTQVLANLLT 118 + L +L + + + + +P E++ + + Q VHAD +RL Q+L NLL Sbjct: 755 MRLASDELALEAFLEQIVGMFAPQAEQKGLHFRFDKSGRLPQIVHADQKRLRQILINLLG 814 Query: 119 NACKYTENRGHIRVDAMLDNNQIVVEIRDNGIGIRADMLPHVFEMFAQETQAIDRAGGGL 178 NA K+T++ G + + ++ D GIGI D +F F + + A R G Sbjct: 815 NAVKFTDH-GGVTLRLRYAREIAYFDVIDTGIGIADDDRERIFLPFERSSAANLREDIGT 873 Query: 179 GLGLAIVRSLTELHGGTVHVFS-AGPGTGSVFTIKLPAVLSDATPILLPLTPDNLLGLQ- 236 GLGLAI R L + GG + V S G G+ I LP V I L D + G Sbjct: 874 GLGLAISRMLVHIMGGELSVQSQVGQGSSFHLKIYLPEVHVPRPRIKLE---DQMSGYAG 930 Query: 237 PLEEGCPILIVDDNLDAAQILGELLTMQGHEIRIAYDGPSALDIVKDFTPRIALLDIGLP 296 P IL+VDD ++L ++L G + A G + ++ + P + LLDI +P Sbjct: 931 PSRH---ILVVDDQASQRRLLKDMLMPLGFTVSEADSGLACMETLGHALPDLVLLDIAMP 987 Query: 297 IMDGYEVAGHLRA 309 MDG+ VA +RA Sbjct: 988 QMDGWSVARAIRA 1000 >gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 723 Score = 112 bits (279), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 76/219 (34%), Positives = 125/219 (57%), Gaps = 9/219 (4%) Query: 2 LGHELRNPLTPILTAVHLMRLRGGGGMEKE-CSVIERQARHLVRLVDDLLDVSRVAQGKI 60 + HE+R P+ +L L+R + E IE A L+ +V+D+LD S++ GK+ Sbjct: 94 MSHEIRTPMNAVLGMAGLLRSTRLDTQQAEFAKAIEDSAHALLGIVNDVLDFSKIDVGKM 153 Query: 61 NLQKKKLEIADIISKAIETASPLLEERQHRLTVNVPAQ-GLQVHADPERLTQVLANLLTN 119 ++ + ++A ++ + E S E++ RL ++ ++ ++ DP R+ Q+L NLL N Sbjct: 154 DIAVVEFDLAKVVEASAEALSFKAREKRVRLLAHLDSRLPPRLVGDPGRIRQILLNLLGN 213 Query: 120 ACKYTENRGHI--RVDAML---DNNQIVVEIRDNGIGIRADMLPHVFEMFAQETQAIDRA 174 A K+T + G + RV A+ D+ ++ E+RD+GIG+ D L +F FAQ ++ R Sbjct: 214 ALKFT-HAGEVLLRVQALQVTSDHCRVRFEVRDSGIGMDEDTLRRLFSPFAQADSSVTRQ 272 Query: 175 GGGLGLGLAIVRSLTELHGGTVHVFSAGPGTGSVFTIKL 213 GG GLGL+I + L EL GG++ V SA GTGS F +L Sbjct: 273 YGGTGLGLSICKRLVELMGGSIGVESA-LGTGSCFWFEL 310 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 39/119 (32%), Positives = 62/119 (52%), Gaps = 9/119 (7%) Query: 244 ILIVDDNLDAAQILGELLTMQGHEIRIAYDGPSALDIVKDFTPRIALLDIGLPIMDGYEV 303 IL+V+DN+ ++ L G+ IA +G AL+ + + L+D +P++DGYE Sbjct: 478 ILLVEDNVMNQKVAVYQLNAMGYAADIAANGLEALERLARHRYALVLMDCQMPLLDGYET 537 Query: 304 AGHLRAMP-HLEGISLIALTGYGQASDKLRSLRAGFDHHLVKPVDIDVVEELIRSTLAA 361 +R M L +++A+T A D+ R L AG D +L KP L+RS L+A Sbjct: 538 TRRIRRMQGELAHTTIVAMTANAMAGDRERCLEAGMDDYLTKP--------LLRSQLSA 588 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 0.320 0.139 0.397 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: 1,133,298 Number of extensions: 44134 Number of successful extensions: 349 Number of sequences better than 1.0e-08: 53 Number of HSP's gapped: 312 Number of HSP's successfully gapped: 55 Length of query: 384 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 297 Effective length of database: 1,207,925 Effective search space: 358753725 Effective search space used: 358753725 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 (21.8 bits) S2: 131 (55.1 bits)