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= 0033.0050.p (476 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313917|ref|YP_003778009.1| two component sensor histidine ... 647 0.0 gi|300312679|ref|YP_003776771.1| periplasmic sensor signal trans... 86 8e-18 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 78 2e-15 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 76 6e-15 gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 75 9e-15 >gi|300313917|ref|YP_003778009.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 517 Score = 647 bits (1668), Expect = 0.0, Method: Compositional matrix adjust. Identities = 346/460 (75%), Positives = 383/460 (83%), Gaps = 9/460 (1%) Query: 18 LNIKNTIKRDLVILWAFIALIALILAFLLLQLSRQGASSQISQATGQAAVSCATMSAGLA 77 LN K T+KRDLVILWAFIALIAL+LAFLL QLSRQGAS+QI QATGQA +SCA MSAGL+ Sbjct: 66 LNSKTTVKRDLVILWAFIALIALVLAFLLWQLSRQGASAQIGQATGQATISCAAMSAGLS 125 Query: 78 HALSSGSGASRTAADGDGLPGSSIMQAVIDLSLRDQAGVEGGFWHPQRDVVAYAFPTYDG 137 HAL GA+ T P + +MQAVIDL+LRDQAGVEGGFW + VVAYAFPTYDG Sbjct: 126 HAL----GAASTPGQDASAP-TPVMQAVIDLALRDQAGVEGGFWQAGKGVVAYAFPTYDG 180 Query: 138 SGIKRDPPGAEMERIVSTAQRALDGGTTVTDVRPGLREAVVFAACPVPLG-KVALAAWTL 196 SG+KRDPPGAEMERI STAQRALD TT+TDVRPGLREAVVFAACP+ + ALAAWTL Sbjct: 181 SGVKRDPPGAEMERIDSTAQRALDSKTTITDVRPGLREAVVFAACPLSVTTDAALAAWTL 240 Query: 197 KRVPVMSASVLNQLLVASALLLAFVIISGVWLGATLTRWRSQSERLASQLAHAERLATLG 256 KRVPVMSA+VL+QLLVA LLLAFV+I+G+WLGATLTRWRSQSERLA+QLAHAERLATLG Sbjct: 241 KRVPVMSAAVLDQLLVAIGLLLAFVVITGLWLGATLTRWRSQSERLAAQLAHAERLATLG 300 Query: 257 RVAAGMAHEIRNPIGAMRMKAENALAAPAQVRETRVTGALEMVVSQTERLDTLVASLLAL 316 RVAAGMAHEIRNPIG MRMKAENALAAP Q+RE R T ALEMVV+QTERLD LV SLLAL Sbjct: 301 RVAAGMAHEIRNPIGTMRMKAENALAAPPQMREARATSALEMVVAQTERLDALVGSLLAL 360 Query: 317 AQPFQVQRQAVDLASWIEARCQAHAELAERQQVRLASAIDAASFGGSLATSALDPVQMAR 376 +QPFQ+QRQ +DLA W+ R AH E+AERQ VR+ + L T +LDP Q+AR Sbjct: 361 SQPFQLQRQPLDLAQWLPQRRLAHLEMAERQGVRIQVTLPEQD---DLVTHSLDPAQLAR 417 Query: 377 AVDNLLLNALAHCTAGGHIALGARLREDGRLLLWVADDGPGVPAELRDSLFDPFVSQRTG 436 A+DNLLLNALAHC AGG I +GARLR GRL LWVAD+GPGVP +LR SLFDPFVSQR G Sbjct: 418 ALDNLLLNALAHCPAGGEIEIGARLRSPGRLFLWVADNGPGVPQDLRQSLFDPFVSQRPG 477 Query: 437 GTGLGLVLVREIVHAHGGVIHLAASERGARFEMELPWRAS 476 GTGLGLVLVREI+HAHGG I LA + GARFEMELPWRAS Sbjct: 478 GTGLGLVLVREIIHAHGGEIILAPTAAGARFEMELPWRAS 517 >gi|300312679|ref|YP_003776771.1| periplasmic sensor signal transduction histidine kinase [Herbaspirillum seropedicae SmR1] Length = 459 Score = 85.5 bits (210), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 63/212 (29%), Positives = 106/212 (50%), Gaps = 17/212 (8%) Query: 260 AGMAHEIRNPIGAMRMKAENALAAPAQVRETRVTGALEMVVSQTERLDTLVASLLALAQP 319 A +AH++R P+ ++++ E L + +L M+ S ER+ LLALA+ Sbjct: 242 ADVAHQLRTPLTGLKLQLE--LLHDKHQDQPDTARSLAMMNSSVERMIRQSRQLLALARS 299 Query: 320 ----FQVQR-QAVDLASWIEARCQAHAELAERQQVRLASAIDAASFGGSLATSALDPVQM 374 F+ ++ + + L +E Q E A+++++ L + A G D + Sbjct: 300 EPGLFESRKLEELSLDKLVEESVQHFIEEADKKRIDLGFDLRPARLRG-------DRFLL 352 Query: 375 ARAVDNLLLNALAHCTAGGHIALGARLREDGRLLLWVADDGPGVPAELRDSLFDPFV--S 432 + +DNL+ NA+ + G + + L E +L V D GPG+ E R+ +FD F + Sbjct: 353 SDLIDNLIDNAVRYSPPHGTVTVRC-LEEQDATVLSVEDSGPGIAPEHRELIFDRFYRAN 411 Query: 433 QRTGGTGLGLVLVREIVHAHGGVIHLAASERG 464 + G+GLGL +VREI H HGGVI + E+G Sbjct: 412 DKVAGSGLGLAIVREIAHDHGGVISVDCKEQG 443 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/233 (30%), Positives = 110/233 (47%), Gaps = 10/233 (4%) Query: 244 SQLAHAERLATLGRVAAGMAHEIRNPIGAMRMKAENALAAPAQVRETRVTGALEMVVSQT 303 ++L A +LA LG++AAG+ HE+ P+ A+R A+NA+ A+ + + LE + S + Sbjct: 368 NELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQAVENLEYISSAS 427 Query: 304 ERLDTLVASLLALAQPFQVQRQAVDLASWIEARCQAHAELAERQQVRLASAIDAASFGGS 363 + ++A L A+ VDL+ IEA A ++ ++ I AA Sbjct: 428 ATMGKIIAQLKGFARKSGEAVACVDLSQAIEASSLLLASECQKLGATISIDIRAA----- 482 Query: 364 LATSALDPVQMARAVDNLLLNALAHCTAGGHIALGARLR-EDGRLLLWVADDGPGVPAEL 422 A D V+ + + NLL NAL H + L G L+ + D G G+ E+ Sbjct: 483 -ACVTGDVVRTEQVLVNLLRNALDAVEEAEHKRIAVVLEVAGGYALVRIRDSGGGIADEV 541 Query: 423 RDSLFDPFVSQRTG--GTGLGLVLVREIVHAHGGVIHLAASER-GARFEMELP 472 LF+PF + ++ G GLGL + IV A G + E GA F + LP Sbjct: 542 APHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLP 594 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 75.9 bits (185), Expect = 6e-15, Method: Compositional matrix adjust. Identities = 69/228 (30%), Positives = 108/228 (47%), Gaps = 21/228 (9%) Query: 249 AERLATLGRVAAGMAHEIRNPIGAMRMKAENALAAPAQVRETRVTGALEMVVSQTERLDT 308 ++ +A R A AH+++ P+ MRM++E AL QV R +LE + +E Sbjct: 143 SQTIAIQKRFIADAAHQMKTPLAGMRMQSELALRQDDQVDVRR---SLEQLAKSSETATR 199 Query: 309 LVASLLALAQPFQVQRQA-----VDLASWIEARCQAHAELAERQQVRLASAIDAASFGGS 363 LV LL+LA+ Q Q+ V+L + Q ++ Q++ L Sbjct: 200 LVNQLLSLARAENQQSQSGGMIPVELNELARSVVQDWVPMSFTQRIDLGFEQPDHPI--- 256 Query: 364 LATSALDPVQMARAVDNLLLNALAHCTAGGHIALGARLRED---GRLLLWVADDGPGVPA 420 L T +PV + + NLL NAL + G+ + R R D G +L V D+GPG+P Sbjct: 257 LITG--NPVMLRELLSNLLDNALHYTPHDGNGRVTVRARTDEGGGLAILEVEDNGPGIPV 314 Query: 421 ELRDSLFDPFV----SQRTG-GTGLGLVLVREIVHAHGGVIHLAASER 463 R ++F+ F + TG G GLGL +VREI H + + ++ R Sbjct: 315 AERANVFERFYRILGTPSTGSGLGLGLAIVREIAQQHEAALEITSNPR 362 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 75.5 bits (184), Expect = 9e-15, Method: Compositional matrix adjust. Identities = 71/239 (29%), Positives = 108/239 (45%), Gaps = 45/239 (18%) Query: 261 GMAHEIRNPIGAMRMKAEN-ALAAPA-QVRETRVTGALEMVVSQTERLDTLVASLLALA- 317 +AHEI+NP+G +R A+ L P ++E R ++++ + +RL TLV LLA Sbjct: 146 NLAHEIKNPLGGIRGAAQLLELELPERHLKELR--EYTQVIIKEADRLQTLVDRLLAPHR 203 Query: 318 QPFQVQRQAVDLASWIE-ARCQAHAELAERQQVRLASAIDAASFGGSLATSALDPVQMAR 376 P V V++ E R AE + ++ + F G D Q+ + Sbjct: 204 HPHIVG--DVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRG-------DKEQLIQ 254 Query: 377 AVDNLLLNALAHCTAGGHIALGARLRE-DGRLLL---------------------WVADD 414 AV N++ NA AL R+R DG L+L + D+ Sbjct: 255 AVLNIVHNAAQ--------ALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHIIDN 306 Query: 415 GPGVPAELRDSLFDPFVSQRTGGTGLGLVLVREIVHAHGGVIHLAASERGARFEMELPW 473 GPG+P +++D +F P VS R GG+GLGL L + VH H GVI + F + +P Sbjct: 307 GPGIPPDIQDRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPL 365 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 0.321 0.133 0.387 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: 1,342,780 Number of extensions: 51614 Number of successful extensions: 307 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 269 Number of HSP's successfully gapped: 38 Length of query: 476 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 387 Effective length of database: 1,198,455 Effective search space: 463802085 Effective search space used: 463802085 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 (21.9 bits) S2: 132 (55.5 bits)