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= 0020.0005.p (494 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311886|ref|YP_003775978.1| multi-sensor signal transductio... 101 2e-22 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 89 8e-19 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 88 1e-18 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 86 5e-18 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 83 6e-17 >gi|300311886|ref|YP_003775978.1| multi-sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 475 Score = 101 bits (251), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 64/172 (37%), Positives = 95/172 (55%), Gaps = 1/172 (0%) Query: 27 DDAELVQQELRRSGLAPSLLRVDTEADFLAALQT-PADVILCDFSLPDFDGLAALKITRE 85 +DA L+ +EL+R G P+ RVD E LAALQ P D+++ D+S+P F G+ ALK+ + Sbjct: 3 EDAFLMVRELKRGGFEPAWERVDDEQALLAALQAQPWDIVISDYSMPMFSGVEALKLVKA 62 Query: 86 QYPHVPFIFVSGTIGEELAIQALRQGAYDYVLKDNIARLPSSVRRALRESHERAIRRRTE 145 PFI VSG IGE+ A++ ++ GA DY LK I RLP +V R LR++ R +R + Sbjct: 63 HNDQTPFIIVSGVIGEQTAVEVMKAGAQDYFLKSAIGRLPHAVDRELRDAQARRKQRASA 122 Query: 146 EILFAESTLLSAVFDSAGAVGVMLNAEGRILRFNQAGEKATGYASDDIRGLC 197 + L +A ++A + +A+ R N A G D+ GL Sbjct: 123 QALREMQARFNAFMNAAPMPTWIKDAQLRYSYVNPAQSAFYGMTPGDMDGLT 174 >gi|300314042|ref|YP_003778134.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 948 Score = 89.0 bits (219), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 78/304 (25%), Positives = 133/304 (43%), Gaps = 33/304 (10%) Query: 179 NQAGEKATGYASDDIRGLCFWDIFFPPTQAQNEKERYLSADRSSFPLQFQNQWLTKDGQ- 237 N A + TGY+S T+A + R+L R S P F+ W+ Q Sbjct: 420 NPAFARITGYSS---------------TEAVGKSIRFLEG-RDSDPEGFETVWIAMREQR 463 Query: 238 -----IRTLLCSVSVLENDHF----------RTVFILSGIDITQWQEAEEKVYRLSHFDQ 282 +R S L ND + T F+ + DIT + E ++ + D Sbjct: 464 EHNVVLRNYHKDGSELWNDFYIAPVRDESGEVTHFVAALYDITSMKRYEAELEFQASRDT 523 Query: 283 ISGLPNRAVLRDRLEQAALRNDPHAGSVVHILVELNGLARLRDALGAQAGVALAIAIAGR 342 ++GL NR +LR LEQA + ++ + V+L+ + D LG +AG L +AGR Sbjct: 524 LTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLRTVAGR 583 Query: 343 LQAWKPPGPTTIAQYADRVFAVLIEHVKREDVDAVVQHLLRTLEAPYSIPGQEEIHLQPK 402 L+A T D +L E + +Q ++ + AP ++ G + + Sbjct: 584 LRAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQRIMDAVAAPVTLGGHT-LFMTCS 642 Query: 403 IGIALYPDDTRSAESLFHFSEVALHRAQNSAYEHTQFYTRSFNQEISARHVLANQLRQAI 462 +G+A YP+D E+L +++A++R + + + QFYT + N++ R + LR A+ Sbjct: 643 VGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGDLRNAL 702 Query: 463 QRDE 466 E Sbjct: 703 DHGE 706 >gi|300312026|ref|YP_003776118.1| signal transduction protein containing a membrane domain, an EAL and a GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1106 Score = 88.2 bits (217), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 58/200 (29%), Positives = 102/200 (51%), Gaps = 3/200 (1%) Query: 268 QEAEEKVYRLSHFDQISGLPNRAVLRDRLEQAALRNDPHAGSVVHILVELNGLARLRDAL 327 + A+E++ L+H+D+++GLPNR + + A + G V IL++L+ + D Sbjct: 660 RRADERIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTF 719 Query: 328 GAQAGVALAIAIAGRLQAWKPPGPTTIAQYADRVFAVLIEHVKRE-DVDAVVQHLLRTLE 386 G + G A+ IA R + +A+ F VL++ + + Q LL Sbjct: 720 GHETGEAVLQEIAQRFRN-SLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEAR 778 Query: 387 APYSIPGQEEIHLQPKIGIALYPDDTRSAESLFHFSEVALHRAQNSAYEHTQFYTRSFNQ 446 P+ I GQE + L IGIA YP D +A++L +++A++RA++ + +F++ N Sbjct: 779 KPFIIDGQEAM-LSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINT 837 Query: 447 EISARHVLANQLRQAIQRDE 466 R L +LR+AI+R E Sbjct: 838 NTVERIALEAELRRAIERAE 857 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 86.3 bits (212), Expect = 5e-18, Method: Compositional matrix adjust. Identities = 68/287 (23%), Positives = 146/287 (50%), Gaps = 14/287 (4%) Query: 167 VMLNAEGRILRFNQAGEKATGYASDDIRGLCFWDIFFPPTQAQNEKERYLSADRSSFPLQ 226 + ++ G I +N+ E+ GY++ + G +F + + + L + ++ Sbjct: 136 ITMDPAGFITSWNRGAEQLFGYSAMEAIGRNV--LFLYENEDEEDSLHDLFLEHGGREME 193 Query: 227 FQNQWLTKDGQIRTLLCSVSVLENDHFRTVFILSGI-DITQWQEAEEKVYRLSHFDQISG 285 + + K G++ S+SV+ + + + ++ + DIT+ + AE+ ++ L+++D ++G Sbjct: 194 VRRR--KKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITERKNAEKLIHHLAYYDALTG 251 Query: 286 LPNRAVLRDRLEQA--ALRNDPHAGSVVHILVELNGLARLRDALGAQAGVALAIAIAGRL 343 LPNR +L ++QA R++ G V + ++LN + D LG AG L + +A RL Sbjct: 252 LPNRTLLTRTVDQALEEARHENLHGCV--MFIDLNRFKPINDTLGHVAGDMLLVEVAMRL 309 Query: 344 -QAWKPPGPTTIAQYADRVFAVLIEHVKREDVDAVVQHLLRTLEAPYSIPGQEEIHLQPK 402 +A + +A+ FAV + + ++ V Q LL + P+ I G E+ + Sbjct: 310 RRALRE--QDVVARLGADEFAVALFGIDKDSPAYVAQKLLALFDDPFFIDGH-ELRVGAS 366 Query: 403 IGIALYPDDTRSAESLFHFSEVALHRAQNSAYEHTQFYTRSFNQEIS 449 IG++LYP++ E+L +++A++RA+ + Y +++E++ Sbjct: 367 IGVSLYPENATDTETLLRLADIAMYRAKQGGENNEGGYA-CYSEEMN 412 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 82.8 bits (203), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 60/205 (29%), Positives = 101/205 (49%), Gaps = 4/205 (1%) Query: 264 ITQWQEAEEKVYRLSHFDQISGLPNRAVLRDRLEQAALRNDPHAGSVVHI-LVELNGLAR 322 IT+ + E ++ + D ++GLPNR +L + L Q ALR G++ + V+L+ Sbjct: 252 ITERKAHEAEMRHQATHDALTGLPNRNMLHEHL-QRALRVARQKGALTAVAFVDLDQFKF 310 Query: 323 LRDALGAQAGVALAIAIAGRLQAWKPPGPTTIAQYADRVFAVLIEHVKRE-DVDAVVQHL 381 + D+LG Q G L +A RLQA Q D VL + E + V+Q + Sbjct: 311 INDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRI 370 Query: 382 LRTLEAPYSIPGQEEIHLQPKIGIALYPDDTRSAESLFHFSEVALHRAQNSAYEHTQFYT 441 L + P+ G E + IG++ YP D + ESL ++ A++RA+ + QF+ Sbjct: 371 LAAVARPWQ-AGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFA 429 Query: 442 RSFNQEISARHVLANQLRQAIQRDE 466 + ++S R + LR+A+ +DE Sbjct: 430 PWMDSQVSNRLEMLINLRRALDQDE 454 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 0.134 0.391 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: 1,470,073 Number of extensions: 58022 Number of successful extensions: 308 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 310 Number of HSP's successfully gapped: 12 Length of query: 494 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 405 Effective length of database: 1,198,455 Effective search space: 485374275 Effective search space used: 485374275 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)