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= 0001.2637.p (445 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311910|ref|YP_003776002.1| transmembrane sensor histidine ... 587 e-169 gi|300311774|ref|YP_003775866.1| two component sensor histidine ... 152 4e-38 gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine... 58 1e-09 gi|300313027|ref|YP_003777119.1| two component transmembrane sen... 58 2e-09 >gi|300311910|ref|YP_003776002.1| transmembrane sensor histidine kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 443 Score = 587 bits (1512), Expect = e-169, Method: Compositional matrix adjust. Identities = 342/428 (79%), Positives = 371/428 (86%), Gaps = 9/428 (2%) Query: 17 PPQHLLLSRLFWLRWAMVAGELLVLAGAHFWLGIALPLAELGALIALQGLINGLTWLRLR 76 P QH+LLSRLFWLRWAMVAGELLVLAGAH WL IALP+ +L ALI LQ L+NG TWLRLR Sbjct: 15 PTQHVLLSRLFWLRWAMVAGELLVLAGAHGWLHIALPVPQLLALIGLQALLNGATWLRLR 74 Query: 77 WVRPAEQGELFAQLLIDVTVLTGLLYLSGGSTNPFVSFYLPALAAGAASLTWPYALLLAL 136 W RPAEQ ELF QLL+D+ VLT LLY SGGSTNPFVSFYLPALAAGAASL WPYALLLAL Sbjct: 75 WTRPAEQRELFLQLLLDLAVLTALLYFSGGSTNPFVSFYLPALAAGAASLAWPYALLLAL 134 Query: 137 CALGAYSGLVYFYQPLHIHDHGQAMAYHLAGMWINFSISALLITWFVSRIAAAVRSRDGQ 196 CALGAYSGLVY Y+PLHIHD GQAMAYHLAGMWINFSISALLITWFVSRIAAAVRSR+ + Sbjct: 135 CALGAYSGLVYVYEPLHIHDQGQAMAYHLAGMWINFSISALLITWFVSRIAAAVRSRETE 194 Query: 197 LAQARERQLQSHRIVALGTQAAGAAHALNTPLSTVAVIAGELRREMAANPALRPYEEDVR 256 LA+ARERQLQS RI+ALGTQAAGAAHALNTPLSTVAVIAGELRR+MA PAL Y+E++R Sbjct: 195 LARARERQLQSQRILALGTQAAGAAHALNTPLSTVAVIAGELRRDMATQPALAAYDEELR 254 Query: 257 IVEEQIAVCKAALENMRLDADAQLRNEDSAAITPWLTSLLEGWRLRHPAVLLVAEVHQPG 316 +VEEQIAVCKAALE+MR DADAQ RNEDSA ITPWLT+LLEGWRLRHPAVLL AEVHQPG Sbjct: 255 VVEEQIAVCKAALESMRQDADAQTRNEDSAPITPWLTTLLEGWRLRHPAVLLSAEVHQPG 314 Query: 317 WVASQLQDLSQILLTLLDNAAHAVRSLGHQGEIRIRLLPAEALDVAQGGKALALKPGKKT 376 WVA++L+DLSQILLTLLDNAAHAVR G +G + IR+ A D G +P +K Sbjct: 315 WVAARLEDLSQILLTLLDNAAHAVRERGSEGRVSIRM---RAADEPAG------RPAQKA 365 Query: 377 AIIEVADNGSGIAPELLQRLGHGPVTSGSGGSGIGLMLAFAAATHLGGKLRLRSTVGQGT 436 AIIE+ADNGSGIAPELLQRLG PV S SGGSGIGLMLAFA+A HLGGKLRL ST GQGT Sbjct: 366 AIIEIADNGSGIAPELLQRLGRAPVASSSGGSGIGLMLAFASAAHLGGKLRLYSTPGQGT 425 Query: 437 VAQLRFPL 444 A+LR PL Sbjct: 426 CAELRLPL 433 >gi|300311774|ref|YP_003775866.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 460 Score = 152 bits (385), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 139/440 (31%), Positives = 209/440 (47%), Gaps = 40/440 (9%) Query: 16 NPPQHLLLSRLFWLRWAMVAGELLVLAGAHFWLGIALPLAELGALIALQGLINGLTWLRL 75 NP H + L LRW V G++ +A + LPL + +++ N + LR Sbjct: 26 NPAGHQNMLLLIQLRWLAVLGQVSTIAFVVLVFDLHLPLPHMLEVLSCLVAFNIASHLRW 85 Query: 76 RWVRPAEQGELFAQLLIDVTVLTGLLYLSGGSTNPFVSFYLPALAAGAASL----TWPYA 131 R A ELF LL+DV VLT LYLSGG TNPF YL + A L +W Sbjct: 86 HERRIATNAELFLALLVDVAVLTFQLYLSGGITNPFAFLYLMQIILSAVLLKPWSSWAIV 145 Query: 132 LLLALCALGAYSGLVYFYQPLHI-HDHGQA-MAYHLAGMWINFSISALLITWFVSRIAAA 189 + LC +GL F +PL + DH ++ ++ G I F ++A L+ +F++RI++ Sbjct: 146 GVTMLC----LAGLALFSEPLALPPDHNAGLLSLYVEGTLICFLLNAGLMVFFITRISSN 201 Query: 190 VRSRDGQLAQARERQLQSHRIVALGTQAAGAAHALNTPLSTVAVIAGELRREMAANPALR 249 +R+ D LA R+R + IV +G A+GAAH L TPL+TV+VI G+ +R M + Sbjct: 202 LRAGDALLADLRQRAAEEDHIVRMGLLASGAAHELGTPLATVSVILGDWKR-MPEISQRQ 260 Query: 250 PYEEDVRIVEEQIAVCKAALENMRLDADAQLRNEDSAAIT--PWLTSLLEGWRLRHPAVL 307 +D+ +E Q+ CK+ + + L A Q R E S T +L S+ E WR P + Sbjct: 261 DMLDDIAEMEAQLQRCKSIVSGVLLSA-GQARGESSIKTTLNTFLDSVAEDWRKSRPVAV 319 Query: 308 LVAE--VHQPGWVASQLQDLSQILLTLLDNAAHAVRSLGHQGEIRIRLLPAEALDVAQGG 365 + + Q VA + Q+L +LDNA E+ L +L+V + G Sbjct: 320 FDYQNLIGQDLPVAFD-SAIKQMLGNVLDNAF----------EVSPHWL---SLEVRREG 365 Query: 366 KALALKPGKKTAIIEVADNGSGIAPELLQRLGHG-PVTSGSGGSGIGLMLAFAAATHLGG 424 L ++EV+D G G ++ ++G T G G G+GL A LGG Sbjct: 366 GLL---------LMEVSDQGPGFPEWMINQIGKPYQSTKGKPGRGLGLFFVVNVARKLGG 416 Query: 425 KLRLRSTVGQGTVAQLRFPL 444 ++ + G G L PL Sbjct: 417 RVWASNLPGAGARVTLELPL 436 >gi|300311768|ref|YP_003775860.1| PAS/PAC sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 552 Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 78/277 (28%), Positives = 123/277 (44%), Gaps = 29/277 (10%) Query: 179 ITWFVSRIAAAVRSRDGQLAQARERQLQSHRIVALGTQAAGAAHALNTPLSTVAVIAGEL 238 + +F S R RD + A + R+++ ALG G AH N L VI G L Sbjct: 147 LKYFFSSQLDISRRRDAEQALGQARKME-----ALGQLTGGIAHDFNNLLQ---VITGYL 198 Query: 239 RREMAANPALRPYEEDVRIVEE-----QIAVCKAALENMRLDADAQLRNEDSAAITPWLT 293 N ALR + D+ V + A KAA+ +L A A+ + + I L Sbjct: 199 D---MINLALRSDKPDLARVARSADSIRKASGKAAMLTQQLLAFARKQRLEGRTIN--LN 253 Query: 294 SLLEGW-----RLRHPAVLLVAEVHQPGWVASQLQDLSQILLTLLDNAAHAVRSLGHQGE 348 SL EG+ R + + E+ + W D +Q+ + LL+ +A ++ +G Sbjct: 254 SLTEGFTDLVSRTLGGDITVQTELARGLWNCRL--DPTQMEVALLNVLINARDAMNGRGR 311 Query: 349 IRIRLLPAEALDVAQGGKALALKPGKKTAIIEVADNGSGIAPELLQRLGHGPVTSGS--G 406 +RIR + D + + L LK G +I V D+G GIAP++L R+ T+ Sbjct: 312 VRIRTANEDLADPDRAVQ-LGLKEGLYVSIA-VTDDGPGIAPDILPRVMDPFFTTKDEGK 369 Query: 407 GSGIGLMLAFAAATHLGGKLRLRSTVGQGTVAQLRFP 443 G+G+GL + + GG +R+ S GT + FP Sbjct: 370 GTGLGLSMVYGFVKQSGGSVRITSGAEGGTTVTIYFP 406 >gi|300313027|ref|YP_003777119.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 454 Score = 57.8 bits (138), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 75/302 (24%), Positives = 119/302 (39%), Gaps = 67/302 (22%) Query: 185 RIAAAVRSRDGQLAQARERQLQSHRIVALGTQAAGAAHALNTPLSTV------------- 231 R A R QL A+ + +QS ++ ++G AAG AH +N P+ V Sbjct: 159 RQAEEQRKLIEQLKMAQAQLMQSEKLASIGQLAAGVAHEINNPIGFVSANLNTLGNYVAT 218 Query: 232 -----------------AVIAGELRREMAANPALRPYEEDVRIVEEQIAVCKAALENMRL 274 A +A E R A L EDV E +A L+ +R Sbjct: 219 LLEGIQLHQCLQGGALPAAMAQEQLRSFEARADLAFLSEDVT---ELLAESNEGLQRVR- 274 Query: 275 DADAQLRNEDSAAITPW-LTSLLEGW---------RLRHPAVLLVAEVHQPGWVASQLQD 324 + L++ + W +T L G L++ V +V + + V + Sbjct: 275 NIVQSLKDFSRIGESNWQMTDLHRGLDSTLNIANNELKY-KVSIVKQYGELPLVKCLASE 333 Query: 325 LSQILLTLLDNAAHAVRSLGHQGEIRIRLLPAEALDVAQGGKALALKPGKKTAIIEVADN 384 L+Q+ + LL NAA A+ G + + A A G K + + ++D Sbjct: 334 LNQVFMNLLVNAAQAISERG-----TVTICTARA--------------GDKVS-VSISDT 373 Query: 385 GSGIAPELLQRLGHGPVTSG--SGGSGIGLMLAFAAATHLGGKLRLRSTVGQGTVAQLRF 442 G GIAPE L R+ T+ G+G+GL L++ GG +R+ S G GT + Sbjct: 374 GHGIAPENLNRIFEPFFTTKPVGSGTGLGLSLSYGIVKKHGGDIRVSSAPGCGTTFTIEL 433 Query: 443 PL 444 P+ Sbjct: 434 PI 435 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 0.323 0.136 0.411 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: 1,170,673 Number of extensions: 40451 Number of successful extensions: 259 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 267 Number of HSP's successfully gapped: 7 Length of query: 445 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 357 Effective length of database: 1,203,190 Effective search space: 429538830 Effective search space used: 429538830 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 (22.0 bits) S2: 132 (55.5 bits)