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= 0001.2006.p (453 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311468|ref|YP_003775560.1| oxidative stress resistance two... 838 0.0 gi|300310848|ref|YP_003774940.1| two component sensor histidine ... 149 7e-37 gi|300313829|ref|YP_003777921.1| sensor histidine kinase [Herbas... 127 1e-30 gi|300313666|ref|YP_003777758.1| two component sensor histidine ... 127 2e-30 gi|300311514|ref|YP_003775606.1| two component sensor histidine ... 107 2e-24 >gi|300311468|ref|YP_003775560.1| oxidative stress resistance two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 455 Score = 838 bits (2165), Expect = 0.0, Method: Compositional matrix adjust. Identities = 419/453 (92%), Positives = 438/453 (96%) Query: 1 MKVRTQSGWFSNGLFWRTFFLLTFLITASMVAWVASFRMVERGPRAEQLAAQIVSVVTIT 60 MKVRTQSGWFSNGLFWRTFFLLTFLITASMVAWVASFRMVERGPRAEQLAAQIVSVVTIT Sbjct: 3 MKVRTQSGWFSNGLFWRTFFLLTFLITASMVAWVASFRMVERGPRAEQLAAQIVSVVTIT 62 Query: 61 RAALTHSAPEMRRELLFDLASNEGIRIYPLEKTDRIVPPEDSPIVPELEYYVRQSLDENT 120 RAALTHSAPEMRRELLFDLASNEGIRIYPLEK+DRIVPPEDSPIVPELEYYVRQSLDENT Sbjct: 63 RAALTHSAPEMRRELLFDLASNEGIRIYPLEKSDRIVPPEDSPIVPELEYYVRQSLDENT 122 Query: 121 IFASSVNEVEGFWISFNIDDDQYWLMLDRGRLDRTSSLQWLGWGSIALFLSLIGAVFIST 180 +FASSVN+VEGFWISFNIDDD+YWLMLDRGRLDRTSSLQWLGWGSIALFLSLIGAVFIST Sbjct: 123 LFASSVNDVEGFWISFNIDDDKYWLMLDRGRLDRTSSLQWLGWGSIALFLSLIGAVFIST 182 Query: 181 LINQPLARLTAAARAIAKGRQPEPLPESGPTEIEEANRSFNQMVADLNRIESDRALILAG 240 LINQPLARLTAAARAIAKGRQPEPLPESGPTEIEEANRSFNQMVADLNRIESDRALILAG Sbjct: 183 LINQPLARLTAAARAIAKGRQPEPLPESGPTEIEEANRSFNQMVADLNRIESDRALILAG 242 Query: 241 ISHDLRTPLARMQLEVEMANLSDESRDGMHSDLAQMDSIIGQFLDYAKPFDTNNLETIDL 300 ISHDLRTPLARMQLEVEMANLSDE+RDGMHSDLAQMDSIIGQFLDYAKPFDT++LETIDL Sbjct: 243 ISHDLRTPLARMQLEVEMANLSDEARDGMHSDLAQMDSIIGQFLDYAKPFDTSSLETIDL 302 Query: 301 AGLLEDVAAKSSRLADVKITTQITPATEVAGNGTELARVFSNLVENARRYGKTADSDCAE 360 A +L+DVA +SRL+D+++ TQITP T+VAGNGTELARVFSNLVENARRYGKT +DCAE Sbjct: 303 ADVLQDVAGNASRLSDIRVHTQITPDTQVAGNGTELARVFSNLVENARRYGKTEGTDCAE 362 Query: 361 IHIRSRIEGQQVVVEVFDHGSGVPENECERLLRPFTRLDTARGQANGSGLGLAIVNRIVL 420 I IRSRIEG QVVVEV DHG GVP NECERLLRPFTRLDTARGQANGSGLGLAIVNRIVL Sbjct: 363 IDIRSRIEGHQVVVEVADHGPGVPVNECERLLRPFTRLDTARGQANGSGLGLAIVNRIVL 422 Query: 421 KHNGKLVLKGHEEHYGGLLVQISLPLKGHRRHA 453 KHNGKL+LKGHEE GLLVQI+LPL+GHRRHA Sbjct: 423 KHNGKLLLKGHEETRSGLLVQITLPLQGHRRHA 455 >gi|300310848|ref|YP_003774940.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 465 Score = 149 bits (375), Expect = 7e-37, Method: Compositional matrix adjust. Identities = 141/474 (29%), Positives = 218/474 (45%), Gaps = 58/474 (12%) Query: 10 FSNGLFWRTFFLLTFLITASMVA--WVAS--FRMVERGPRAEQLAAQIVSVVTITRAALT 65 F + R FFLL I ++ A W+A R R R + LA ++ +V Sbjct: 4 FLGSIGNRIFFLLLGGIVVAVFATNWLAGNERRNTLRELRFQHLADRVEQIVQAV----- 58 Query: 66 HSAPEMRRELLFDLASNEGIRIYPLEK-TDRIVP-----PEDSPIVPELEYYV------- 112 + P +R ++ ASN G +E D I P P SP+ L+ + Sbjct: 59 DNIPPAQRPIVLQAASNFGFEARMVEDMNDAIGPDASPSPSTSPLTEMLQARLGEDRKIA 118 Query: 113 --RQS----LDENTIFASSVNEVEGFWISFNIDDDQYWLMLD----------RGRLDRTS 156 R+S L + A + +IS + DQ + L R R Sbjct: 119 VQRESECPPLRTDDARAPRRDTCRVIYISLH---DQALMRLRLHQPGEPPALRARAGPGG 175 Query: 157 SLQWLGWGSIALFLSLIG--AVFISTLINQPLARLTAAARAIAKGRQPEPLPESGPTEIE 214 G I LFL LI A ++ + +P+ +L AA + PL E+GPTEI Sbjct: 176 PASLFGLQYILLFLVLIAMLAWLVARMATRPIRQLAQAASRLGSDIDHAPLAETGPTEIR 235 Query: 215 EANRSFNQMVADLNRIESDRALILAGISHDLRTPLARMQLEVEMANLSDES-RDGMHSDL 273 +A +FN M A + R R +LA I+HDL+TPL RM+L +E +SD + + DL Sbjct: 236 QAAHAFNAMQARIRRQIQHRTHMLAAITHDLQTPLTRMRLRLE--KVSDPGLQQKLIDDL 293 Query: 274 AQMDSIIGQFLDYAKPFDTN-NLETIDLAGLLEDVAAKSSRLADVKITTQITPATEVAGN 332 M ++ + LD A+ D++ ++ +D+ LL+ V A ++ A + Q + V Sbjct: 294 GVMHGMVREGLDLARSMDSSEKIQALDIDSLLDSVCADAAD-AGQDVALQGSTRAFVMAQ 352 Query: 333 GTELARVFSNLVENARRYGKTADSDCAEIHIRSRIEGQQVVVEVFDHGSGVPENECERLL 392 L R +NL++NA +YGK+A A +E Q++ + + D G G+PE+E E + Sbjct: 353 PGALRRCLTNLIDNACKYGKSARVSIA-------LEQQKIAIRIRDQGPGIPESELEAVF 405 Query: 393 RPFTRLDTARGQ-ANGSGLGLAIVNRIVLKHNGKLVLKGHEEHYGGLLVQISLP 445 PF RL+ +R + G+GLGL I I H+G+L L+ E GGL V + LP Sbjct: 406 EPFYRLEASRSRDTGGTGLGLTIALNIAENHHGQLRLRNLAE--GGLEVLLELP 457 >gi|300313829|ref|YP_003777921.1| sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 478 Score = 127 bits (320), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 92/257 (35%), Positives = 129/257 (50%), Gaps = 16/257 (6%) Query: 196 IAKGRQPEPLPESGPTEIEEANRSFNQMVADLNRIESDRALILAGISHDLRTPLARMQLE 255 KG LPE+G E + R+F+ M + R DR + ISHDLRTP+ R++L Sbjct: 233 FGKGETVPSLPETGSREYVKTARAFSGMRERIKRYLEDRERLFVSISHDLRTPITRLKLR 292 Query: 256 VEMANLSDESRDGMHSDLAQMDSIIGQFLDYAKPFDTN-NLETIDLAGLLEDVAAKSSRL 314 E+ + D R H DL ++D ++ L K D + N + L L+ + + +RL Sbjct: 293 TELMD-DDAMRTDFHDDLDELDMMVKGALQSVKDSDIHENRTEVRLDALVLRM-IRDARL 350 Query: 315 ADVKITTQITPA-TEVAGNGTELARVFSNLVENARRYGKTADSDCAEIHIRSR--IEGQQ 371 A +I TP+ V L R NL +NA YG+ EI IR EG Sbjct: 351 AGHEIA--FTPSGINVIAKPLALKRAIGNLFDNALYYGQK-----VEISIRPSPGAEGDL 403 Query: 372 VVVEVFDHGSGVPENECERLLRPFTRLDTARGQ-ANGSGLGLAIVNRIVLKHNGKLVLKG 430 V +E+ DHG GVPE+ L +P+ RL+ R Q + G GLGL I IV H G+L+L+ Sbjct: 404 VEIEIRDHGPGVPEDAMGTLFQPYVRLEHGRAQNSGGMGLGLGISRNIVQAHGGELLLRN 463 Query: 431 HEEHYGGLLVQISLPLK 447 H E GGL+ I LP + Sbjct: 464 HPE--GGLMATIILPAR 478 >gi|300313666|ref|YP_003777758.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 479 Score = 127 bits (318), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 93/285 (32%), Positives = 142/285 (49%), Gaps = 18/285 (6%) Query: 165 SIALFLSLIGAVFISTLINQPLARLTAAARAIAKGRQPEPLPESGPTEIEEANRSFNQMV 224 ++ +F ++ A L +PL + AA + + PL GP E+ A ++FN M Sbjct: 208 ALRIFAVVLIAWMAVRLAMKPLQVMAEAAEKLGGNIRSAPLATDGPLEVSTAAQAFNAMQ 267 Query: 225 ADLNRIESDRALILAGISHDLRTPLARMQLEVEMANLSDE-SRDGMHSDLAQMDSIIGQF 283 + ++R LA +SHDLR+P+ RM+L EM L DE ++ DL +MD++I Sbjct: 268 RRIIDNIAERTRFLAAVSHDLRSPITRMKLRTEM--LPDERGKEKFRKDLDEMDALISAT 325 Query: 284 LDYAKPFDTNNL-ETIDLAGLLEDVAAKSSRL-ADVKITTQITPATEVAGNGTELARVFS 341 L+ + D + IDL LLE + + + +V ++ P + G L R Sbjct: 326 LNVVQDIDVQERPQLIDLDSLLESLRTDQAEVGGEVTLSGHAAP---LQGYPRSLRRCLQ 382 Query: 342 NLVENARRYGKTADSDCAEIHIRSRIEGQQVVVEVFDHGSGVPENECERLLRPFTRLDTA 401 NLVENA RYG+ A ++ + + QV + V D G G+PE ER+ PF RL+ + Sbjct: 383 NLVENAVRYGQRA-------RVQLQDDADQVCIRVDDDGPGIPEALLERVQEPFYRLERS 435 Query: 402 RGQANGS-GLGLAIVNRIVLKHNGKLVLKGHEEHYGGLLVQISLP 445 R G GLGL+I +V H G V+K GGL V+I +P Sbjct: 436 RNAGTGGFGLGLSIAATVVQAHRG--VMKLVNRPGGGLRVEILIP 478 >gi|300311514|ref|YP_003775606.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 473 Score = 107 bits (267), Expect = 2e-24, Method: Compositional matrix adjust. Identities = 80/296 (27%), Positives = 143/296 (48%), Gaps = 20/296 (6%) Query: 166 IALFLSLIGAVFISTLINQPLARLTAAARAIAKGR---QPEPLPESGPTEIEEANRSFNQ 222 +AL SL+ A+ ++ + P+ L A A G + EP+ + E+ + R F+ Sbjct: 170 VALLASLVFALLLAWYFSHPIGHLKNAFNQAANGNLDLELEPVMSARNDELADLGRDFDV 229 Query: 223 MVADLNRIESDRALILAGISHDLRTPLARMQLEVEMANLSDESR-----DGMHSDLAQMD 277 M A L + + +L +SH+LR+P+AR+Q+ + +A + D+ + + + + +MD Sbjct: 230 MTAKLRTLMESQRRLLHDVSHELRSPIARLQVAIGLARVQDKDKLDLTLERIERESVRMD 289 Query: 278 SIIGQFLDYAKPFDTN----NLETIDLAGLLEDVAAKSSRLADV---KITTQITPATEVA 330 ++G+ L ++ + N E I + +L D+ +S A+ + Q+ +V Sbjct: 290 KLVGELLTLSR-LEANVPGSMEEPIAIEAMLGDMINDASFEAEAIGKHVDDQLDCRVQVK 348 Query: 331 GNGTELARVFSNLVENARRYGKTADSDCAEIHIRSRIEGQQVVVEVFDHGSGVPENECER 390 GN L R N++ NA ++ TA +IH + + + + + D G GVPE E Sbjct: 349 GNPELLYRAIENVLRNAIKH--TAPGTTVQIHTQLDEINKLLHLSILDRGPGVPEEEMNS 406 Query: 391 LLRPFTRLDTARGQANGSGLGLAIVNRIVLKHNGKLVLKGHEEHYGGLLVQISLPL 446 + F R + ++G GLGL+I RIV H G ++ GGL V I+LP Sbjct: 407 IFELFFRSSRTKSNSSGHGLGLSIARRIVEAHQG--FIQAANRSNGGLRVDITLPF 460 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 0.135 0.391 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: 1,326,698 Number of extensions: 52901 Number of successful extensions: 336 Number of sequences better than 1.0e-08: 29 Number of HSP's gapped: 300 Number of HSP's successfully gapped: 29 Length of query: 453 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 365 Effective length of database: 1,203,190 Effective search space: 439164350 Effective search space used: 439164350 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: 132 (55.5 bits)