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= 0028.0009.p (260 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 ... 379 e-107 gi|300311810|ref|YP_003775902.1| two component sensor histidine ... 132 3e-32 gi|300311948|ref|YP_003776040.1| sensor histidine kinase/respons... 87 1e-18 gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kin... 83 2e-17 gi|300311808|ref|YP_003775900.1| two component sensor histidine ... 82 5e-17 >gi|300311887|ref|YP_003775979.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 633 Score = 379 bits (974), Expect = e-107, Method: Compositional matrix adjust. Identities = 186/256 (72%), Positives = 209/256 (81%) Query: 5 DNGRVISRNVIHDISGRKQTEREIEELNASLKRQAQHLSNINKELESFSYSVSHDLRAPL 64 D ++ISR VI+DIS RK+ E EIE LNA LKRQA HL ++NKELESFSYSVSHDLRAPL Sbjct: 346 DRSKLISRTVIYDISDRKRAEEEIEALNADLKRQALHLHSVNKELESFSYSVSHDLRAPL 405 Query: 65 RAISGYAMMVEEDYAAALDAKGQELLQVIRRNVSKMDALISDLLKLSKSATGELTLGHFS 124 RAISGYAM++EEDYA A+D KG+E LQVIRRNV KMD LI+DLLKL+KS TGELTL FS Sbjct: 406 RAISGYAMILEEDYADAIDEKGREQLQVIRRNVRKMDELINDLLKLAKSTTGELTLERFS 465 Query: 125 MREQVEQSIAGLRRENAGVEFIVDPLEDVIANQVLLGQVWDNLLGNAVKFSKKAEHAVVR 184 M + V Q IAGLRREN V F V PLE +AN+ L+ QVW+NLL NAVKFS K+E VR Sbjct: 466 MDDLVRQVIAGLRRENPNVLFDVPPLEGAVANRGLITQVWENLLSNAVKFSSKSEQPAVR 525 Query: 185 VSSTSTPEEVIYQVQDNGIGFDMRYVHKLFGTFQRLHRQEDYAGAGIGLALVQRIVVRHG 244 VS PEE IY V DNG+GFDMRY HKLFGTFQRLHRQE+YAG GIGLALVQRIV+RH Sbjct: 526 VSMQVEPEEYIYGVHDNGVGFDMRYAHKLFGTFQRLHRQEEYAGTGIGLALVQRIVIRHT 585 Query: 245 GRVWAESRSGEGASFY 260 GRVWA+S+ GEGASFY Sbjct: 586 GRVWAQSKPGEGASFY 601 >gi|300311810|ref|YP_003775902.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 535 Score = 132 bits (331), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 91/286 (31%), Positives = 144/286 (50%), Gaps = 39/286 (13%) Query: 13 NVIHDISGRKQ-TEREIEELNASLKRQAQHLSNINKEL-------ESFSYSVSHDLRAPL 64 + +H S R Q ++ E+ + L+R+A+ L+ +N +L E F YSVSHDLR+PL Sbjct: 240 DALHRSSERLQEASQQSEQYRSQLERRARELTELNADLLQQTQDNEMFIYSVSHDLRSPL 299 Query: 65 RAISGY----------------AMMVEEDYAAALDA----KGQELLQVIRRNVSKMDALI 104 + G+ A+ V + A L + Q L+ I+ V++ +I Sbjct: 300 VNLQGFSKEIGHATTDLLNAVQALPVPDADKAKLRSVVADDIQPALRFIQNAVTRSAGII 359 Query: 105 SDLLKLSKSATGELTLGHFSMR---EQVEQSIAGLRRENAGVEFIVDPLEDVIANQVLLG 161 +L+LS++ E M +++ +++G R+ V + L + + Sbjct: 360 DSMLRLSRAGRVEYQPVMLDMNVIAQRIVAAMSGSIRDKGAVVEVAPELPPAFGDPTAIE 419 Query: 162 QVWDNLLGNAVKFSKKAEHAVVRVS-------STSTPEEVIYQVQDNGIGFDMRYVHKLF 214 QV NL+GNAV + A + + + + PE +Y V+DNG+G Y+HK+F Sbjct: 420 QVLGNLVGNAVNYLDPARPGRITIDHLREEGGAATGPETNVYVVRDNGLGIPPAYMHKMF 479 Query: 215 GTFQRLHRQEDYAGAGIGLALVQRIVVRHGGRVWAESRSGEGASFY 260 FQRLH G GIGLALV+R+V RHGGR+W ES G+G+SFY Sbjct: 480 IAFQRLHGNA-APGEGIGLALVKRVVERHGGRIWVESTEGQGSSFY 524 >gi|300311948|ref|YP_003776040.1| sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 87.0 bits (214), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 80/259 (30%), Positives = 135/259 (52%), Gaps = 26/259 (10%) Query: 14 VIHDISGRKQTEREIEELNASLKRQAQHLSNINKELESFSYSVSHDLRAPLRAISGYAMM 73 ++ +I KQT+ E++ ++A +N+ K F +SH+LR PL +I GYA + Sbjct: 660 LLQEIEAHKQTDAELQR-----AKEAAESANLAKS--RFVAGMSHELRTPLNSILGYAQI 712 Query: 74 VEEDYAAALDAKGQELLQVIRRNVSKMDALISDLLKLSKSATGELTLG--HFSMREQVEQ 131 + D A + ++ + VIRR+ + +LI LL ++K G++ L ++ +EQ Sbjct: 713 LHVD--ATIPPARKDAIGVIRRSGEHLLSLIDGLLDIAKIEAGKMRLASDELALEAFLEQ 770 Query: 132 SIAGL---RRENAGVEFIVDP---LEDVI-ANQVLLGQVWDNLLGNAVKFSKKAEHAVVR 184 I G+ + E G+ F D L ++ A+Q L Q+ NLLGNAVKF+ +H V Sbjct: 771 -IVGMFAPQAEQKGLHFRFDKSGRLPQIVHADQKRLRQILINLLGNAVKFT---DHGGVT 826 Query: 185 VSSTSTPEEVIYQVQDNGIGFDMRYVHKLFGTFQR---LHRQEDYAGAGIGLALVQRIVV 241 + E + V D GIG ++F F+R + +ED G G+GLA+ + +V Sbjct: 827 LRLRYAREIAYFDVIDTGIGIADDDRERIFLPFERSSAANLREDI-GTGLGLAISRMLVH 885 Query: 242 RHGGRVWAESRSGEGASFY 260 GG + +S+ G+G+SF+ Sbjct: 886 IMGGELSVQSQVGQGSSFH 904 >gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 723 Score = 83.2 bits (204), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 66/227 (29%), Positives = 118/227 (51%), Gaps = 25/227 (11%) Query: 51 SFSYSVSHDLRAPLRAISGYAMMVEEDYAAALDAKGQELLQVIRRNVSKMDALISDLLKL 110 +F ++SH++R P+ A+ G A ++ + LD + E + I + + +++D+L Sbjct: 89 AFLSTMSHEIRTPMNAVLGMAGLLR---STRLDTQQAEFAKAIEDSAHALLGIVNDVLDF 145 Query: 111 SKSATGELTLG--HFSMREQVEQSIAGLR---REN-----AGVEFIVDPLEDVIANQVLL 160 SK G++ + F + + VE S L RE A ++ + P ++ + + Sbjct: 146 SKIDVGKMDIAVVEFDLAKVVEASAEALSFKAREKRVRLLAHLDSRLPP--RLVGDPGRI 203 Query: 161 GQVWDNLLGNAVKFSKKAEHAVVRVSS---TSTPEEVIYQVQDNGIGFDMRYVHKLFGTF 217 Q+ NLLGNA+KF+ E ++RV + TS V ++V+D+GIG D + +LF F Sbjct: 204 RQILLNLLGNALKFTHAGE-VLLRVQALQVTSDHCRVRFEVRDSGIGMDEDTLRRLFSPF 262 Query: 218 QR----LHRQEDYAGAGIGLALVQRIVVRHGGRVWAESRSGEGASFY 260 + + RQ Y G G+GL++ +R+V GG + ES G G+ F+ Sbjct: 263 AQADSSVTRQ--YGGTGLGLSICKRLVELMGGSIGVESALGTGSCFW 307 >gi|300311808|ref|YP_003775900.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 289 Score = 81.6 bits (200), Expect = 5e-17, Method: Compositional matrix adjust. Identities = 76/247 (30%), Positives = 118/247 (47%), Gaps = 29/247 (11%) Query: 30 ELNASLKRQAQHLSNINKELESFSYSVSHDLRAPLRAISGYAMMVEEDYAAALD-AKGQE 88 E + +RQA ++ + E F ++SH+LR PL AI G+ + D++ A KG Sbjct: 34 ETQRAARRQADSVTRLKDE---FLATLSHELRTPLNAIVGWTQYLLNDHSDADRLVKG-- 88 Query: 89 LLQVIRRNVSKMDALISDLLKLSKSATGELTLGHFSM--REQVEQSIAGLRRENAGVEFI 146 LQVI RN ++ DLL +S+ G+L L M E++IA +R + Sbjct: 89 -LQVIERNARLQAQMVEDLLDMSRMLAGKLRLETRPMDLASVAEEAIAAVRPAAEARQIE 147 Query: 147 VDPLED----VIANQVLLGQVWDNLLGNAVKFSKKAEHAVVRVSSTSTPEEVIYQVQDNG 202 + P ++ + L QV NLL NA+KF+ + V +S + V +V DNG Sbjct: 148 LHPALGQGGVILGDPARLQQVVWNLLMNAIKFTPR--QGRVSLSLRQHDDTVALEVSDNG 205 Query: 203 IGFDMRYVHKLFGTFQRLHRQEDY---------AGAGIGLALVQRIVVRHGGRVWAESR- 252 G ++ +F F QED +G G+GLA+ + +V HGG++ A S Sbjct: 206 RGIKGEFLGSVFDRFT----QEDVSTGSTGSTASGLGLGLAIARHLVELHGGQIRAASAG 261 Query: 253 SGEGASF 259 G GA+F Sbjct: 262 PGMGAAF 268 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 0.317 0.133 0.370 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: 786,917 Number of extensions: 30808 Number of successful extensions: 255 Number of sequences better than 1.0e-08: 22 Number of HSP's gapped: 230 Number of HSP's successfully gapped: 22 Length of query: 260 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 177 Effective length of database: 1,226,865 Effective search space: 217155105 Effective search space used: 217155105 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 129 (54.3 bits)