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= 0001.3344.p (472 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 866 0.0 gi|300313819|ref|YP_003777911.1| two component sensor histidine ... 209 3e-55 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 186 3e-48 gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase tra... 172 4e-44 gi|300314014|ref|YP_003778106.1| two component sensor histidine ... 172 4e-44 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 866 bits (2237), Expect = 0.0, Method: Compositional matrix adjust. Identities = 418/455 (91%), Positives = 441/455 (96%) Query: 17 ISSARASIRRDLLKWLIAPLLLLNLVGAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQVRH 76 +++ +SIRRDLLKWLIAPLLL+NL+GAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQVRH Sbjct: 1 MTAMHSSIRRDLLKWLIAPLLLVNLIGAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQVRH 60 Query: 77 RQERTSAELTQQAEQILRSNHSDTTFFAVRNTQGEILVGDKGFPQLPESETYDRPFNYDG 136 RQERT+AELTQQAEQILRSNHSDTTFFAVRNT+G+I+VGDKGFPQLP S+ +DRP NYDG Sbjct: 61 RQERTTAELTQQAEQILRSNHSDTTFFAVRNTEGQIVVGDKGFPQLPASDVFDRPINYDG 120 Query: 137 EMRGEPVRISAIQVRVKNGVISVAVAETIRKRDRAHYTILLSFLLLDGALTFGSLSVVMI 196 EMRGEPVRI+A+QVRVKNGVI VAVAETIRKRDRAHYTILLSFL+LDGALTF S+ VV++ Sbjct: 121 EMRGEPVRIAAMQVRVKNGVIWVAVAETIRKRDRAHYTILLSFLVLDGALTFASIFVVLV 180 Query: 197 AVRRGLRPLKSLQRNLEQRDHGKLGAIDGIGAPVELQPLIVAMNELMARINKGEQAQQNF 256 AVRRGLRPLKSLQRNLEQRDHGKLGAIDG GAPVELQPLIVAMNELMARINKGEQAQQNF Sbjct: 181 AVRRGLRPLKSLQRNLEQRDHGKLGAIDGRGAPVELQPLIVAMNELMARINKGEQAQQNF 240 Query: 257 MADVAHQLRTPLTGLKLQLELLHDKHHDQPDTARSLAMMNSSVERMIRQSRQLLALARSE 316 MADVAHQLRTPLTGLKLQLELLHDKH DQPDTARSLAMMNSSVERMIRQSRQLLALARSE Sbjct: 241 MADVAHQLRTPLTGLKLQLELLHDKHQDQPDTARSLAMMNSSVERMIRQSRQLLALARSE 300 Query: 317 PGLFESRKLEELSLDKLVEESVQHFIEEADKKQIDLGFDLQPARLRGDRFLLSDLIDNLI 376 PGLFESRKLEELSLDKLVEESVQHFIEEADKK+IDLGFDL+PARLRGDRFLLSDLIDNLI Sbjct: 301 PGLFESRKLEELSLDKLVEESVQHFIEEADKKRIDLGFDLRPARLRGDRFLLSDLIDNLI 360 Query: 377 DNAVRYSPQQGTVTVRCLEQDGATVLSVEDSGPGIAPEHRELIFDRYYRANDKIAGSGLG 436 DNAVRYSP GTVTVRCLE+ ATVLSVEDSGPGIAPEHRELIFDR+YRANDK+AGSGLG Sbjct: 361 DNAVRYSPPHGTVTVRCLEEQDATVLSVEDSGPGIAPEHRELIFDRFYRANDKVAGSGLG 420 Query: 437 LAIVREIAHDHGGVISVDCKEQGQGTIFTVRFPLA 471 LAIVREIAHDHGGVISVDCKEQGQGTIFTVRFPLA Sbjct: 421 LAIVREIAHDHGGVISVDCKEQGQGTIFTVRFPLA 455 >gi|300313819|ref|YP_003777911.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 485 Score = 209 bits (533), Expect = 3e-55, Method: Compositional matrix adjust. Identities = 158/469 (33%), Positives = 234/469 (49%), Gaps = 24/469 (5%) Query: 23 SIRRDLLKWLIAPLLLLNLVGAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQVRHRQERTS 82 S+R L++WL+ PL LL V A Y+ A A A+D++L+ ST L +V + Sbjct: 10 SLRSQLVRWLLIPLTLLVAVDAVSVYYNALEVADLAYDRSLLASTRALAERVSVVDGHVT 69 Query: 83 AELTQQAEQILRSNHSDTTFFAVRNTQGEILVGDKGFPQLP----ESETYDRPFN-YDGE 137 A++ A +++ ++ V GE++ G P +P SE Y Y + Sbjct: 70 ADVPYVALDSFETDNLGRIYYKVTGLNGELVSGYDDLPPVPPDVKRSEVYPALVRFYQAD 129 Query: 138 MRGEPVRISAIQVRVKN----GVISVAVAETIRKRDRAHYTILLSFLLLDGALTFGSLSV 193 +PVRI+A+ V + G+ + V ET+ R+ IL L G L + + Sbjct: 130 YHDQPVRIAALLQPVYDDSIRGIALIQVGETMEGRNGMTRKILFDTLWRQGTLVTVAALL 189 Query: 194 VMIAVRRGLRPLKSLQRNLEQRDHGKLGAIDGIGAPVELQPLIVAMNELMARINKGEQAQ 253 V AVR LRPL L+ +E R L D E++PL+ AMN M R+ AQ Sbjct: 190 VWFAVRFVLRPLMQLKGEVESRAPTDLSGFDTALVHKEMRPLVQAMNGYMGRLQALISAQ 249 Query: 254 QNFMADVAHQLRTPLTGLKLQLEL-LHDKHHDQPDTA--RSLAM-MNSSVERMIRQSRQL 309 + F+AD +HQLRTPLT LK Q EL L + +Q D A R L M + + + + +L Sbjct: 250 RRFIADASHQLRTPLTVLKTQSELTLRELRREQVDAAELRDLVEGMARTTDAAVHLANRL 309 Query: 310 LALARSEPGLFESRKLEELSLDKLVEESVQHFIEEADKKQIDLGFDLQ-PARLRGDRFLL 368 L LAR+E G E + LSL + ++A ++I L F+ + + + LL Sbjct: 310 LTLARAEHGAAEGGTM-PLSLSDAARQVALELSQQAVSREIGLAFEEEGDVSIEANALLL 368 Query: 369 SDLIDNLIDNAVRYSPQQGTVTVRCLEQDG-----ATVLSVEDSGPGIAPEHRELIFDRY 423 +L+ NL+DNA+RY+P G VT+R Q +L VEDSGPGI RE +F+ + Sbjct: 369 HELMVNLLDNAIRYTPAGGHVTLRVRAQSSPGQPTVALLEVEDSGPGIPAAEREKVFEPF 428 Query: 424 YRAND----KIAGSGLGLAIVREIAHDHGGVISVDCKEQGQGTIFTVRF 468 YRA G+GLGL+IVREIA H +++D QG G + + F Sbjct: 429 YRAGATQHVNPGGTGLGLSIVREIAAMHRASVTLDAPAQGSGLVVRIVF 477 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 186 bits (473), Expect = 3e-48, Method: Compositional matrix adjust. Identities = 122/356 (34%), Positives = 190/356 (53%), Gaps = 26/356 (7%) Query: 138 MRGEPVRISAIQVRVKNG-----------VISVAVAETIRKRDRAHYTILLSFLLLDGAL 186 + G VRI+ +QV ++ + +V V ET+ KR + I+ +L + Sbjct: 23 LHGSDVRIATLQVDLRRSAAQRAASREPRLATVQVGETLEKRAQLANEIIKGVILPQFII 82 Query: 187 TFGSLSVVMIAVRRGLRPLKSLQRNLEQRDHGKLGAIDGIGAPVELQPLIVAMNELMARI 246 +L++V A+ RGL PL LQ+ + R L ID P E+ PL+ ++N+++AR+ Sbjct: 83 LPVALALVWFALSRGLSPLSELQQRIRARRPDDLSPIDSGQVPEEISPLVRSLNDMLARL 142 Query: 247 NKGEQAQQNFMADVAHQLRTPLTGLKLQLELLHDKHHDQPDTARSLAMMNSSVERMIRQS 306 ++ Q+ F+AD AHQ++TPL G+++Q EL + DQ D RSL + S E R Sbjct: 143 SQTIAIQKRFIADAAHQMKTPLAGMRMQSELAL-RQDDQVDVRRSLEQLAKSSETATRLV 201 Query: 307 RQLLALARSEPGLFESRKLEELSLDKLVEESVQHFIEEADKKQIDLGFDL--QPARLRGD 364 QLL+LAR+E +S + + L++L VQ ++ + ++IDLGF+ P + G+ Sbjct: 202 NQLLSLARAENQQSQSGGMIPVELNELARSVVQDWVPMSFTQRIDLGFEQPDHPILITGN 261 Query: 365 RFLLSDLIDNLIDNAVRYSPQQG----TVTVRCLEQDGATVLSVEDSGPGIAPEHRELIF 420 +L +L+ NL+DNA+ Y+P G TV R E G +L VED+GPGI R +F Sbjct: 262 PVMLRELLSNLLDNALHYTPHDGNGRVTVRARTDEGGGLAILEVEDNGPGIPVAERANVF 321 Query: 421 DRYYR---ANDKIAGSGLGLAIVREIAHDHGGVISVDCKEQGQ-----GTIFTVRF 468 +R+YR +G GLGLAIVREIA H + + + G +F V F Sbjct: 322 ERFYRILGTPSTGSGLGLGLAIVREIAQQHEAALEITSNPRSTDPKYPGCVFRVSF 377 >gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 459 Score = 172 bits (437), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 132/425 (31%), Positives = 212/425 (49%), Gaps = 25/425 (5%) Query: 60 DQNLMDSTWGLYAQVRHRQERTSAELTQQAEQILRSNHSDTTFFAVRNTQGEILVGDKGF 119 D+ L+ S + QV + A ++ S D ++ V +L G F Sbjct: 41 DRALLASARMIAGQVGWNDGAPVVSVPPAALELFASPAQDAVYYQVLMDDDTLLAGRPDF 100 Query: 120 PQLPESETYDRPFNYDGEMRGEPVRI-SAIQVRVKNG---VISVAVAETIRKR-----DR 170 P P+ P G+P+R+ S I+ G +++V+V +T++ R D+ Sbjct: 101 PAAPDFAAL-YPVYSTTSFNGKPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQ 159 Query: 171 AHYTILLSFLLLDGALTFGSLSVVMIAVRRGLRPLKSLQRNLEQRDHGKLGAIDGIGAPV 230 H ++ +LL ++S+V++ + LRPL +L+ L R L + G Sbjct: 160 WHASLRRQIVLL-----LLAISLVVLGLTMELRPLLALKDELATRRPDSLTPLRAGGLQQ 214 Query: 231 ELQPLIVAMNELMARINKGEQAQQNFMADVAHQLRTPLTGLKLQLELLHDKHHDQPDTAR 290 EL+P++ A+N+ + R+N Q+ F+AD AHQLRTPL + Q++ + D A+ Sbjct: 215 ELRPIVEAINQYIFRLNAQVTVQKRFVADAAHQLRTPLAVIDSQIQFAR-QLDDPARVAQ 273 Query: 291 SLAMMNSSVERMIRQSRQLLALARSEPG---LFESRKLEELSLDKLVEESVQHFIEEADK 347 LA + M + +LL L+++E F ++ L++ +V E + A K Sbjct: 274 VLASLQEGSRSMTDLTNKLLLLSQAEASDSSAFPRAPVDLLAVSAMVLEELSGL---ALK 330 Query: 348 KQIDLGFD--LQPARLRGDRFLLSDLIDNLIDNAVRYSPQQGTVTVRCLEQDGATVLSVE 405 K IDLG + L+ A + G+ L ++ NLIDNA+RY+P+ G VTV ++ +++V Sbjct: 331 KGIDLGLETTLESAMVNGNEAQLMGMLMNLIDNALRYTPEGGKVTVGLEKKRSQMIITVS 390 Query: 406 DSGPGIAPEHRELIFDRYYR-ANDKIAGSGLGLAIVREIAHDHGGVISVDCKEQGQGTIF 464 D+GPGI E RE +F+R+YR A GSGLGLAIVREI G I +D QG G + Sbjct: 391 DNGPGIPAEVRERVFERFYRNAAPDQPGSGLGLAIVREIVQASQGSIRLDAPAQGSGLVA 450 Query: 465 TVRFP 469 TV P Sbjct: 451 TVSLP 455 >gi|300314014|ref|YP_003778106.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 467 Score = 172 bits (437), Expect = 4e-44, Method: Compositional matrix adjust. Identities = 140/459 (30%), Positives = 218/459 (47%), Gaps = 17/459 (3%) Query: 15 ASISSARASIRRDLLKWLIAPLLLLNLVGAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQV 74 A + S R S+R LL W+I+P+ L ++ + Y A+D+ L+ S + + Sbjct: 2 AHLFSRRRSVRAYLLAWIISPIALFIIIDSFSLYRNTLESVNTAYDRMLIASVHSIGDLL 61 Query: 75 RHRQERTSAELTQQAEQILRSNHSDTTFFAVRNTQGEILVGDKGFPQLPESETYDRPFN- 133 R A L A +I +++S + + G+ GD P + + Sbjct: 62 RIENGELKASLPYAALEIYEADYSSRMIYRINGLDGKFFDGDADLPSYKGKADKEAIYPA 121 Query: 134 ----YDGEMRGEPVRISAI-QVRVKN---GVISVAVAETIRKRDRAHYTILLSFLLLDGA 185 Y+ G PVR++A+ Q V N G V VAET+ R I L+ A Sbjct: 122 LAHIYEDTYNGVPVRVAALFQPVVTNDPRGAALVQVAETMENRSALARKIFWETLIRQAA 181 Query: 186 LTFGSLSVVMIAVRRGLRPLKSLQRNLEQRDHGKLGAIDGIGAPVELQPLIVAMNELMAR 245 L +SV + VRR L+P+ +L+R L++R L + AP ELQP I A+N+LMAR Sbjct: 182 LLVVIVSVTLYVVRRALQPVDALRRQLDERPADDLSPVAPPMAPRELQPFIDALNQLMAR 241 Query: 246 INKGEQAQQNFMADVAHQLRTPLTGLKLQLELLHDKHHDQPDTARSLAMMNSSVERMIRQ 305 + + QQ F+A+ +HQLRTPL LK QL+ D P M+ +VER Sbjct: 242 LRRLLDHQQRFVANASHQLRTPLAVLKTQLQ--SGLRGDAPAPV-IWQEMSGTVERATTL 298 Query: 306 SRQLLALARSEPGLFESRKLEELS-LDKLVEESVQHFIEEADKKQIDLGFDLQPARLRGD 364 + QLL+LA+ E R +E+ L L E+ +K +D + + + G Sbjct: 299 ANQLLSLAKVEQ--IRGRGAQEVCDLGMLARETAVDLSPLIAEKDLDFELEAEKILVMGH 356 Query: 365 RFLLSDLIDNLIDNAVRYSPQQGTVTVRCLEQDGATVLSVEDSGPGIAPEHRELIFDRYY 424 +++ +LI NL+ NA+R++P QG + +R ++ L + DSG GI + E +F + + Sbjct: 357 PWMIGELISNLLHNAIRHTPAQGRLGIRITAREDVAELLIWDSGEGIDDQAMENVF-KAF 415 Query: 425 RANDKIAGSGLGLAIVREIAHDHGGVISVDCKEQGQGTI 463 +N AG GLGL I EI IS+ + GTI Sbjct: 416 SSNVSSAG-GLGLTICGEIVDSMQATISLRNRVGEDGTI 453 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 0.385 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: 1,287,820 Number of extensions: 51324 Number of successful extensions: 300 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 225 Number of HSP's successfully gapped: 45 Length of query: 472 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 383 Effective length of database: 1,198,455 Effective search space: 459008265 Effective search space used: 459008265 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)