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= 0001.3353.p (462 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase tra... 835 0.0 gi|300313819|ref|YP_003777911.1| two component sensor histidine ... 267 1e-72 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 196 5e-51 gi|300314014|ref|YP_003778106.1| two component sensor histidine ... 189 6e-49 gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 182 5e-47 >gi|300312689|ref|YP_003776781.1| transmembrane sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 459 Score = 835 bits (2156), Expect = 0.0, Method: Compositional matrix adjust. Identities = 427/457 (93%), Positives = 448/457 (98%) Query: 1 MIDSLRLRLLWWLLIPMAAYVGLSTSDAYDNAVASATLVQDRALLASARMMAGQVGWNDG 60 MIDSLRLRLLWWLLIPMA YVGLSTSDAYDNAV+SATLVQDRALLASARM+AGQVGWNDG Sbjct: 1 MIDSLRLRLLWWLLIPMAVYVGLSTSDAYDNAVSSATLVQDRALLASARMIAGQVGWNDG 60 Query: 61 APVVSIPPAALELFASPAQDAVYYQVRMDDDTLLAGRPDFPAEPDFAALYPVYTTTTFNG 120 APVVS+PPAALELFASPAQDAVYYQV MDDDTLLAGRPDFPA PDFAALYPVY+TT+FNG Sbjct: 61 APVVSVPPAALELFASPAQDAVYYQVLMDDDTLLAGRPDFPAAPDFAALYPVYSTTSFNG 120 Query: 121 KPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQMVLLLLAMSLVVL 180 KPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQ+VLLLLA+SLVVL Sbjct: 121 KPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQIVLLLLAISLVVL 180 Query: 181 GMTMELRPILALKDELTTREPDSLTPLRAGGLQQELRPIVEAINQYIQRLNAQVTVQKRF 240 G+TMELRP+LALKDEL TR PDSLTPLRAGGLQQELRPIVEAINQYI RLNAQVTVQKRF Sbjct: 181 GLTMELRPLLALKDELATRRPDSLTPLRAGGLQQELRPIVEAINQYIFRLNAQVTVQKRF 240 Query: 241 VADAAHQLRTPLAVIDSQIQFARQLEDPARVAQVLAALQEGSRSMTDLTNKLLLLSQAEA 300 VADAAHQLRTPLAVIDSQIQFARQL+DPARVAQVLA+LQEGSRSMTDLTNKLLLLSQAEA Sbjct: 241 VADAAHQLRTPLAVIDSQIQFARQLDDPARVAQVLASLQEGSRSMTDLTNKLLLLSQAEA 300 Query: 301 SNSSAFPRAPVDLVAVAALVLEELAGLALKKGIDLGLETTLESALVNGNEAQLGGLLMNL 360 S+SSAFPRAPVDL+AV+A+VLEEL+GLALKKGIDLGLETTLESA+VNGNEAQL G+LMNL Sbjct: 301 SDSSAFPRAPVDLLAVSAMVLEELSGLALKKGIDLGLETTLESAMVNGNEAQLMGMLMNL 360 Query: 361 IDNALRYTPQGGKVTVGLENKRSQVIITVTDNGPGIPAEVRERVFERFYRNAAPDQPGSG 420 IDNALRYTP+GGKVTVGLE KRSQ+IITV+DNGPGIPAEVRERVFERFYRNAAPDQPGSG Sbjct: 361 IDNALRYTPEGGKVTVGLEKKRSQMIITVSDNGPGIPAEVRERVFERFYRNAAPDQPGSG 420 Query: 421 LGLAIVREIVQASQGSIRLDAPAQGSGLVATVCLPAL 457 LGLAIVREIVQASQGSIRLDAPAQGSGLVATV LPAL Sbjct: 421 LGLAIVREIVQASQGSIRLDAPAQGSGLVATVSLPAL 457 >gi|300313819|ref|YP_003777911.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 485 Score = 267 bits (682), Expect = 1e-72, Method: Compositional matrix adjust. Identities = 173/472 (36%), Positives = 260/472 (55%), Gaps = 21/472 (4%) Query: 2 IDSLRLRLLWWLLIPMAAYVGLSTSDAYDNAVASATLVQDRALLASARMMAGQVGWNDGA 61 + SLR +L+ WLLIP+ V + Y NA+ A L DR+LLAS R +A +V DG Sbjct: 8 LGSLRSQLVRWLLIPLTLLVAVDAVSVYYNALEVADLAYDRSLLASTRALAERVSVVDGH 67 Query: 62 PVVSIPPAALELFASPAQDAVYYQVRMDDDTLLAGRPDFPAEP---DFAALYPV---YTT 115 +P AL+ F + +YY+V + L++G D P P + +YP + Sbjct: 68 VTADVPYVALDSFETDNLGRIYYKVTGLNGELVSGYDDLPPVPPDVKRSEVYPALVRFYQ 127 Query: 116 TTFNGKPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQMVLLLLAM 175 ++ +P+R+ + ++ ++D+ + + VG+TM+GR M +L RQ L+ +A Sbjct: 128 ADYHDQPVRIAALLQPVYDDSIRGIALIQVGETMEGRNGMTRKILFDTLWRQGTLVTVAA 187 Query: 176 SLVVLGMTMELRPILALKDELTTREPDSLTPLRAGGLQQELRPIVEAINQYIQRLNAQVT 235 LV + LRP++ LK E+ +R P L+ + +E+RP+V+A+N Y+ RL A ++ Sbjct: 188 LLVWFAVRFVLRPLMQLKGEVESRAPTDLSGFDTALVHKEMRPLVQAMNGYMGRLQALIS 247 Query: 236 VQKRFVADAAHQLRTPLAVIDSQIQFA-RQLEDPARVAQVLAALQEGSRSMTD----LTN 290 Q+RF+ADA+HQLRTPL V+ +Q + R+L A L L EG TD L N Sbjct: 248 AQRRFIADASHQLRTPLTVLKTQSELTLRELRREQVDAAELRDLVEGMARTTDAAVHLAN 307 Query: 291 KLLLLSQAEASNSSAFPRAPVDLVAVAALVLEELAGLALKKGIDLGLETTLESALVNGNE 350 +LL L++AE + P+ L A V EL+ A+ + I L E + + + N Sbjct: 308 RLLTLARAEHGAAEG-GTMPLSLSDAARQVALELSQQAVSREIGLAFEEEGDVS-IEANA 365 Query: 351 AQLGGLLMNLIDNALRYTPQGGKVTVGLENKRSQ-----VIITVTDNGPGIPAEVRERVF 405 L L++NL+DNA+RYTP GG VT+ + + S ++ V D+GPGIPA RE+VF Sbjct: 366 LLLHELMVNLLDNAIRYTPAGGHVTLRVRAQSSPGQPTVALLEVEDSGPGIPAAEREKVF 425 Query: 406 ERFYRNAAPDQ---PGSGLGLAIVREIVQASQGSIRLDAPAQGSGLVATVCL 454 E FYR A G+GLGL+IVREI + S+ LDAPAQGSGLV + Sbjct: 426 EPFYRAGATQHVNPGGTGLGLSIVREIAAMHRASVTLDAPAQGSGLVVRIVF 477 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 196 bits (497), Expect = 5e-51, Method: Compositional matrix adjust. Identities = 113/307 (36%), Positives = 177/307 (57%), Gaps = 6/307 (1%) Query: 139 RMVAVSVGQTMQGRQEMIDDQWHASLRRQMVLLLLAMSLVVLGMTMELRPILALKDELTT 198 R+ V VG+T++ R ++ ++ + Q ++L +A++LV ++ L P+ L+ + Sbjct: 51 RLATVQVGETLEKRAQLANEIIKGVILPQFIILPVALALVWFALSRGLSPLSELQQRIRA 110 Query: 199 REPDSLTPLRAGGLQQELRPIVEAINQYIQRLNAQVTVQKRFVADAAHQLRTPLAVIDSQ 258 R PD L+P+ +G + +E+ P+V ++N + RL+ + +QKRF+ADAAHQ++TPLA + Q Sbjct: 111 RRPDDLSPIDSGQVPEEISPLVRSLNDMLARLSQTIAIQKRFIADAAHQMKTPLAGMRMQ 170 Query: 259 IQFARQLEDPARVAQVLAALQEGSRSMTDLTNKLLLLSQAEASNSSAFPRAPVDLVAVAA 318 + A + +D V + L L + S + T L N+LL L++AE S + PV+L +A Sbjct: 171 SELALRQDDQVDVRRSLEQLAKSSETATRLVNQLLSLARAENQQSQSGGMIPVELNELAR 230 Query: 319 LVLEELAGLALKKGIDLGLETTLESALVNGNEAQLGGLLMNLIDNALRYTPQGGKVTVGL 378 V+++ ++ + IDLG E L+ GN L LL NL+DNAL YTP G V + Sbjct: 231 SVVQDWVPMSFTQRIDLGFEQPDHPILITGNPVMLRELLSNLLDNALHYTPHDGNGRVTV 290 Query: 379 ENKRSQ----VIITVTDNGPGIPAEVRERVFERFYRNAAPDQPGS--GLGLAIVREIVQA 432 + + I+ V DNGPGIP R VFERFYR GS GLGLAIVREI Q Sbjct: 291 RARTDEGGGLAILEVEDNGPGIPVAERANVFERFYRILGTPSTGSGLGLGLAIVREIAQQ 350 Query: 433 SQGSIRL 439 + ++ + Sbjct: 351 HEAALEI 357 >gi|300314014|ref|YP_003778106.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 467 Score = 189 bits (479), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 135/442 (30%), Positives = 225/442 (50%), Gaps = 14/442 (3%) Query: 4 SLRLRLLWWLLIPMAAYVGLSTSDAYDNAVASATLVQDRALLASARMMAGQVGWNDGAPV 63 S+R LL W++ P+A ++ + + Y N + S DR L+AS + + +G Sbjct: 10 SVRAYLLAWIISPIALFIIIDSFSLYRNTLESVNTAYDRMLIASVHSIGDLLRIENGELK 69 Query: 64 VSIPPAALELFASPAQDAVYYQVRMDDDTLLAGRPDFPA---EPDFAALYPVYTTT---T 117 S+P AALE++ + + Y++ D G D P+ + D A+YP T Sbjct: 70 ASLPYAALEIYEADYSSRMIYRINGLDGKFFDGDADLPSYKGKADKEAIYPALAHIYEDT 129 Query: 118 FNGKPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQMVLLLLAMSL 177 +NG P+RV + + + V V +TM+ R + + +L RQ LL++ +S+ Sbjct: 130 YNGVPVRVAALFQPVVTNDPRGAALVQVAETMENRSALARKIFWETLIRQAALLVVIVSV 189 Query: 178 VVLGMTMELRPILALKDELTTREPDSLTPLRAGGLQQELRPIVEAINQYIQRLNAQVTVQ 237 + + L+P+ AL+ +L R D L+P+ +EL+P ++A+NQ + RL + Q Sbjct: 190 TLYVVRRALQPVDALRRQLDERPADDLSPVAPPMAPRELQPFIDALNQLMARLRRLLDHQ 249 Query: 238 KRFVADAAHQLRTPLAVIDSQIQFARQLEDPARVAQVLAALQEGSRSMTDLTNKLLLLSQ 297 +RFVA+A+HQLRTPLAV+ +Q+Q + + PA V + + T L N+LL L++ Sbjct: 250 QRFVANASHQLRTPLAVLKTQLQSGLRGDAPAPV--IWQEMSGTVERATTLANQLLSLAK 307 Query: 298 AEASNSSAFPRAPVDLVAVAALVLEELAGLALKKGIDLGLETTLESALVNGNEAQLGGLL 357 E + DL +A +L+ L +K +D LE E LV G+ +G L+ Sbjct: 308 VEQIRGRG-AQEVCDLGMLARETAVDLSPLIAEKDLDFELEA--EKILVMGHPWMIGELI 364 Query: 358 MNLIDNALRYTPQGGKVTVGLENKRSQVIITVTDNGPGIPAEVRERVFERFYRNAAPDQP 417 NL+ NA+R+TP G++ + + + + + D+G GI + E VF+ F N + Sbjct: 365 SNLLHNAIRHTPAQGRLGIRITAREDVAELLIWDSGEGIDDQAMENVFKAFSSNVS---S 421 Query: 418 GSGLGLAIVREIVQASQGSIRL 439 GLGL I EIV + Q +I L Sbjct: 422 AGGLGLTICGEIVDSMQATISL 443 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 182 bits (462), Expect = 5e-47, Method: Compositional matrix adjust. Identities = 143/469 (30%), Positives = 229/469 (48%), Gaps = 25/469 (5%) Query: 1 MIDSLRLRLLWWLLIPMAAYVGLSTSDAYDNAVASATLVQDRALLASARMMAGQVGWNDG 60 M S+R LL WL+ P+ + Y A A D+ L+ S + QV Sbjct: 4 MHSSIRRDLLKWLIAPLLLVNLIGAGLTYWLAWLPAQHAFDQNLMDSTWGLYAQVRHRQE 63 Query: 61 APVVSIPPAALELFASPAQDAVYYQVRMDDDTLLAGRPDFPAEPDFAAL-YPVYTTTTFN 119 + A ++ S D ++ VR + ++ G FP P P+ Sbjct: 64 RTTAELTQQAEQILRSNHSDTTFFAVRNTEGQIVVGDKGFPQLPASDVFDRPINYDGEMR 123 Query: 120 GKPLRVVSYIRALFDEGTLRMVAVSVGQTMQGRQEMIDDQWHASLRRQMVLLLLAMSL-- 177 G+P+R+ + ++ G ++ V+V +T++ R D+ H ++ ++L A++ Sbjct: 124 GEPVRIAA-MQVRVKNG---VIWVAVAETIRKR-----DRAHYTILLSFLVLDGALTFAS 174 Query: 178 ---VVLGMTMELRPILALKDELTTREPDSLTPLRAGGLQQELRPIVEAINQYIQRLNAQV 234 V++ + LRP+ +L+ L R+ L + G EL+P++ A+N+ + R+N Sbjct: 175 IFVVLVAVRRGLRPLKSLQRNLEQRDHGKLGAIDGRGAPVELQPLIVAMNELMARINKGE 234 Query: 235 TVQKRFVADAAHQLRTPLAVIDSQIQFAR-QLEDPARVAQVLAALQEGSRSMTDLTNKLL 293 Q+ F+AD AHQLRTPL + Q++ + +D A+ LA + M + +LL Sbjct: 235 QAQQNFMADVAHQLRTPLTGLKLQLELLHDKHQDQPDTARSLAMMNSSVERMIRQSRQLL 294 Query: 294 LLSQAEASNSSAFPRAPVDLVAVAALVLEELAGL---ALKKGIDLGLETTLESALVNGNE 350 L+++E F ++ +++ LV E + A KK IDLG + L A + G+ Sbjct: 295 ALARSE---PGLFESRKLEELSLDKLVEESVQHFIEEADKKRIDLGFD--LRPARLRGDR 349 Query: 351 AQLGGLLMNLIDNALRYTPQGGKVTVGLENKRSQVIITVTDNGPGIPAEVRERVFERFYR 410 L L+ NLIDNA+RY+P G VTV ++ +++V D+GPGI E RE +F+RFYR Sbjct: 350 FLLSDLIDNLIDNAVRYSPPHGTVTVRCLEEQDATVLSVEDSGPGIAPEHRELIFDRFYR 409 Query: 411 NAAPDQPGSGLGLAIVREIVQASQGSIRLDAPAQGSGLVATVCLPALPP 459 A GSGLGLAIVREI G I +D QG G + TV P PP Sbjct: 410 -ANDKVAGSGLGLAIVREIAHDHGGVISVDCKEQGQGTIFTVRFPLAPP 457 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 0.319 0.134 0.378 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: 1,271,867 Number of extensions: 50586 Number of successful extensions: 344 Number of sequences better than 1.0e-08: 46 Number of HSP's gapped: 268 Number of HSP's successfully gapped: 46 Length of query: 462 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 373 Effective length of database: 1,198,455 Effective search space: 447023715 Effective search space used: 447023715 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)