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= 0056.0006.p (449 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311887|ref|YP_003775979.1| two component sensor histidine ... 236 4e-63 gi|300311810|ref|YP_003775902.1| two component sensor histidine ... 138 8e-34 gi|300311808|ref|YP_003775900.1| two component sensor histidine ... 96 8e-21 gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kin... 93 5e-20 gi|300313070|ref|YP_003777162.1| two component sensor histidine ... 87 3e-18 >gi|300311887|ref|YP_003775979.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 633 Score = 236 bits (601), Expect = 4e-63, Method: Compositional matrix adjust. Identities = 127/259 (49%), Positives = 167/259 (64%), Gaps = 7/259 (2%) Query: 183 LNRALKLEILARNQLEDANRELTRQLQRNIEKLEASNKELESFSYSVSHDLRAPLRAVDG 242 ++R + +I R + E+ L L+R L + NKELESFSYSVSHDLRAPLRA+ G Sbjct: 351 ISRTVIYDISDRKRAEEEIEALNADLKRQALHLHSVNKELESFSYSVSHDLRAPLRAISG 410 Query: 243 FARMLEEDAADQLDEEGLRKLQVIRNNTRNMGRLIDELLEFSRLGRKELNYGHLDMAAMA 302 +A +LEED AD +DE+G +LQVIR N R M LI++LL+ ++ EL M + Sbjct: 411 YAMILEEDYADAIDEKGREQLQVIRRNVRKMDELINDLLKLAKSTTGELTLERFSMDDLV 470 Query: 303 QACFDDAASAATSPATLRLGDLPAVEGDIT---LIRQVWINLLANALKFSARREQILIDV 359 + A +P L D+P +EG + LI QVW NLL+NA+KFS++ EQ + V Sbjct: 471 RQVI--AGLRRENPNVL--FDVPPLEGAVANRGLITQVWENLLSNAVKFSSKSEQPAVRV 526 Query: 360 SAELADGMLIYTVRDNGAGFDMRYYNKLFGVFQRLHRASEFEGTGVGLAIVHRIVTRHGG 419 S ++ IY V DNG GFDMRY +KLFG FQRLHR E+ GTG+GLA+V RIV RH G Sbjct: 527 SMQVEPEEYIYGVHDNGVGFDMRYAHKLFGTFQRLHRQEEYAGTGIGLALVQRIVIRHTG 586 Query: 420 RVWAEGVVGEGAAFHFTLP 438 RVWA+ GEGA+F+F+LP Sbjct: 587 RVWAQSKPGEGASFYFSLP 605 >gi|300311810|ref|YP_003775902.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 535 Score = 138 bits (348), Expect = 8e-34, Method: Compositional matrix adjust. Identities = 103/281 (36%), Positives = 140/281 (49%), Gaps = 46/281 (16%) Query: 194 RNQLEDANRELTRQLQRNIEKLEASNKELESFSYSVSHDLRAPLRAVDGFARMLEEDAAD 253 R+QLE RELT + N + L+ + ++ E F YSVSHDLR+PL + GF++ + D Sbjct: 260 RSQLERRARELT---ELNADLLQQT-QDNEMFIYSVSHDLRSPLVNLQGFSKEIGHATTD 315 Query: 254 QL-----------DEEGLRK---------LQVIRNNTRNMGRLIDELLEFSRLGRKELNY 293 L D+ LR L+ I+N +ID +L SR GR E Sbjct: 316 LLNAVQALPVPDADKAKLRSVVADDIQPALRFIQNAVTRSAGIIDSMLRLSRAGRVEYQP 375 Query: 294 GHLDM--------AAMAQACFDDAASAATSPATLRLGDLPAVEGDITLIRQVWINLLANA 345 LDM AAM+ + D A +P +LP GD T I QV NL+ NA Sbjct: 376 VMLDMNVIAQRIVAAMSGSIRDKGAVVEVAP------ELPPAFGDPTAIEQVLGNLVGNA 429 Query: 346 LKF--SARREQILID-----VSAELADGMLIYTVRDNGAGFDMRYYNKLFGVFQRLHRAS 398 + + AR +I ID A +Y VRDNG G Y +K+F FQRLH + Sbjct: 430 VNYLDPARPGRITIDHLREEGGAATGPETNVYVVRDNGLGIPPAYMHKMFIAFQRLH-GN 488 Query: 399 EFEGTGVGLAIVHRIVTRHGGRVWAEGVVGEGAAFHFTLPA 439 G G+GLA+V R+V RHGGR+W E G+G++F+ LPA Sbjct: 489 AAPGEGIGLALVKRVVERHGGRIWVESTEGQGSSFYVALPA 529 >gi|300311808|ref|YP_003775900.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 289 Score = 95.5 bits (236), Expect = 8e-21, Method: Compositional matrix adjust. Identities = 79/253 (31%), Positives = 125/253 (49%), Gaps = 22/253 (8%) Query: 204 LTRQLQRNIEKLEASNKELES-------FSYSVSHDLRAPLRAVDGFARMLEEDAADQLD 256 L + R +E A+ ++ +S F ++SH+LR PL A+ G+ + L D +D Sbjct: 25 LPEAVARVLETQRAARRQADSVTRLKDEFLATLSHELRTPLNAIVGWTQYLLNDHSDA-- 82 Query: 257 EEGLRKLQVIRNNTRNMGRLIDELLEFSRL--GRKELNYGHLDMAAMAQ---ACFDDAAS 311 + ++ LQVI N R +++++LL+ SR+ G+ L +D+A++A+ A AA Sbjct: 83 DRLVKGLQVIERNARLQAQMVEDLLDMSRMLAGKLRLETRPMDLASVAEEAIAAVRPAAE 142 Query: 312 AATSPATLRLGDLPAVEGDITLIRQVWINLLANALKFSARREQILIDVSAELADGMLIYT 371 A LG + GD ++QV NLL NA+KF+ R+ + + +S D + Sbjct: 143 ARQIELHPALGQGGVILGDPARLQQVVWNLLMNAIKFTPRQGR--VSLSLRQHDDTVALE 200 Query: 372 VRDNGAGFDMRYYNKLFGVFQRL-----HRASEFEGTGVGLAIVHRIVTRHGGRVWAEGV 426 V DNG G + +F F + S G G+GLAI +V HGG++ A Sbjct: 201 VSDNGRGIKGEFLGSVFDRFTQEDVSTGSTGSTASGLGLGLAIARHLVELHGGQIRAASA 260 Query: 427 -VGEGAAFHFTLP 438 G GAAF TLP Sbjct: 261 GPGMGAAFTVTLP 273 >gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 723 Score = 92.8 bits (229), Expect = 5e-20, Method: Compositional matrix adjust. Identities = 84/294 (28%), Positives = 146/294 (49%), Gaps = 33/294 (11%) Query: 166 VPAPSGDVIAGFRHLHALNRALKLEILARNQLEDANRELTRQLQRNIEKLEASNKEL--- 222 +PA V+A +HAL L +L RE R ++ ++ EA++ + Sbjct: 40 LPAWQKLVLAAIWGIHALT---LLRLL---------RENARTAEKLVQAKEAADHAMLTR 87 Query: 223 ESFSYSVSHDLRAPLRAVDGFARMLEEDAADQLDEEGLRKLQVIRNNTRNMGRLIDELLE 282 +F ++SH++R P+ AV G A +L + +LD + + I ++ + +++++L+ Sbjct: 88 GAFLSTMSHEIRTPMNAVLGMAGLLR---STRLDTQQAEFAKAIEDSAHALLGIVNDVLD 144 Query: 283 FSRL--GRKELNYGHLDMAAMAQACFDDAASAATSPATLRLGDL-----PAVEGDITLIR 335 FS++ G+ ++ D+A + +A + + A L L P + GD IR Sbjct: 145 FSKIDVGKMDIAVVEFDLAKVVEASAEALSFKAREKRVRLLAHLDSRLPPRLVGDPGRIR 204 Query: 336 QVWINLLANALKFSARREQILIDVSA--ELADGMLI-YTVRDNGAGFDMRYYNKLFGVFQ 392 Q+ +NLL NALKF+ E +L+ V A +D + + VRD+G G D +LF F Sbjct: 205 QILLNLLGNALKFTHAGE-VLLRVQALQVTSDHCRVRFEVRDSGIGMDEDTLRRLFSPFA 263 Query: 393 RLHRA--SEFEGTGVGLAIVHRIVTRHGGRVWAEGVVGEGAAFHFTL--PAATG 442 + + ++ GTG+GL+I R+V GG + E +G G+ F F L P TG Sbjct: 264 QADSSVTRQYGGTGLGLSICKRLVELMGGSIGVESALGTGSCFWFELGIPVTTG 317 >gi|300313070|ref|YP_003777162.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 939 Score = 86.7 bits (213), Expect = 3e-18, Method: Compositional matrix adjust. Identities = 73/225 (32%), Positives = 104/225 (46%), Gaps = 9/225 (4%) Query: 224 SFSYSVSHDLRAPLRAVDGFARMLEEDAADQLDEEGLRKLQVIRNNTRNMGRLIDELLEF 283 S ++SHDLR PL ++ G A +L +A +LD++ + I ++ M L++ LL+ Sbjct: 710 SLLSAISHDLRTPLTSLVGSADVLAANA--RLDDDARAMARTISEQSQKMVGLMNNLLDM 767 Query: 284 SRL--GRKELNYGHLDMAAMAQACFDDAASA--ATSPATLRLGDLPAVEGDITLIRQVWI 339 +RL G LN + +A + A A T +LP + D L+ +V Sbjct: 768 ARLQAGVVTLNRQWNALEELAGSALRLLAKALEGRQVDTRIAPELPLLRVDAVLLERVLA 827 Query: 340 NLLANALKFSARREQILIDVSAELADG--MLIYTVRDNGAGFDMRYYNKLFGVFQRLHRA 397 NL+ NA+K+S I I E DG + V D G GF F F R Sbjct: 828 NLVENAIKYSPPGTPIGISAHVEHGDGAPQVKVCVMDQGRGFPPTMTQHAFEKFTRGDNE 887 Query: 398 SEFEGTGVGLAIVHRIVTRHGGRVW-AEGVVGEGAAFHFTLPAAT 441 S G G+GLAI I+ H GR+W A G+GA FTLP T Sbjct: 888 SATPGVGLGLAICRAIIEAHQGRIWIAPQEAGQGATVCFTLPVET 932 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 0.136 0.392 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: 1,332,540 Number of extensions: 53933 Number of successful extensions: 335 Number of sequences better than 1.0e-08: 29 Number of HSP's gapped: 297 Number of HSP's successfully gapped: 29 Length of query: 449 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 361 Effective length of database: 1,203,190 Effective search space: 434351590 Effective search space used: 434351590 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)