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= 0001.4501.p (466 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 ... 648 0.0 gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor his... 78 2e-15 gi|300309980|ref|YP_003774072.1| two component transmembrane sen... 75 1e-14 gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sens... 74 4e-14 gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sens... 73 4e-14 >gi|300313917|ref|YP_003778009.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 517 Score = 648 bits (1672), Expect = 0.0, Method: Compositional matrix adjust. Identities = 348/461 (75%), Positives = 391/461 (84%), Gaps = 9/461 (1%) Query: 7 LLNTQNTIQRDLLILWAFIATIALILAFLLLQLSRQGASSQISQATGQATVSCATMSAGL 66 +LN++ T++RDL+ILWAFIA IAL+LAFLL QLSRQGAS+QI QATGQAT+SCA MSAGL Sbjct: 65 VLNSKTTVKRDLVILWAFIALIALVLAFLLWQLSRQGASAQIGQATGQATISCAAMSAGL 124 Query: 67 AHALSGSSGAAHSKPDADGLPGTSMMQAVIDLSLREQAGVEGGFWHPQRAVVAYAFPTYD 126 +HAL GAA S P D T +MQAVIDL+LR+QAGVEGGFW + VVAYAFPTYD Sbjct: 125 SHAL----GAA-STPGQDASAPTPVMQAVIDLALRDQAGVEGGFWQAGKGVVAYAFPTYD 179 Query: 127 GSGIKRDPPGAEMERIVSTAQRALDSGASVTDVRPGLREAVVFAACPVPLS-GLPLAAWT 185 GSG+KRDPPGAEMERI STAQRALDS ++TDVRPGLREAVVFAACP+ ++ LAAWT Sbjct: 180 GSGVKRDPPGAEMERIDSTAQRALDSKTTITDVRPGLREAVVFAACPLSVTTDAALAAWT 239 Query: 186 LKRVPVMSAAVLNQLLAASALLLAFVIISGVWLGATLTRWRGQSERLAAQLAQSERLATL 245 LKRVPVMSAAVL+QLL A LLLAFV+I+G+WLGATLTRWR QSERLAAQLA +ERLATL Sbjct: 240 LKRVPVMSAAVLDQLLVAIGLLLAFVVITGLWLGATLTRWRSQSERLAAQLAHAERLATL 299 Query: 246 GRVAAGMAHEIRNPIGAMRMKAENALAAPPQVRQTRVTGALEMVVSQTERLDALVASLLA 305 GRVAAGMAHEIRNPIG MRMKAENALAAPPQ+R+ R T ALEMVV+QTERLDALV SLLA Sbjct: 300 GRVAAGMAHEIRNPIGTMRMKAENALAAPPQMREARATSALEMVVAQTERLDALVGSLLA 359 Query: 306 LAQPFQVQRQVLDLAAWIDERRQAHAELAEKHQVQLQAAIDLPSFTGGLATSALDPVQMA 365 L+QPFQ+QRQ LDLA W+ +RR AH E+AE+ V++Q + LP L T +LDP Q+A Sbjct: 360 LSQPFQLQRQPLDLAQWLPQRRLAHLEMAERQGVRIQ--VTLPE-QDDLVTHSLDPAQLA 416 Query: 366 RALDNLLLNALAHCSAGGRIEIGARRQSNGRLLLWVADDGPGVPAELRDSLFDPFVSQRS 425 RALDNLLLNALAHC AGG IEIGAR +S GRL LWVAD+GPGVP +LR SLFDPFVSQR Sbjct: 417 RALDNLLLNALAHCPAGGEIEIGARLRSPGRLFLWVADNGPGVPQDLRQSLFDPFVSQRP 476 Query: 426 GGTGLGLVLVREIVHAHGGEITLASAARGARFEMELPWRAS 466 GGTGLGLVLVREI+HAHGGEI LA A GARFEMELPWRAS Sbjct: 477 GGTGLGLVLVREIIHAHGGEIILAPTAAGARFEMELPWRAS 517 >gi|300312426|ref|YP_003776518.1| nitrogen regulation (sensor histidine kinase) transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 366 Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 70/230 (30%), Positives = 110/230 (47%), Gaps = 27/230 (11%) Query: 251 GMAHEIRNPIGAMRMKAENALAAPPQVRQTRVTGALEMVVSQTERLDALVASLLALAQPF 310 +AHEI+NP+G +R A+ P+ + ++++ + +RL LV LLA P Sbjct: 146 NLAHEIKNPLGGIRGAAQLLELELPERHLKELREYTQVIIKEADRLQTLVDRLLA---PH 202 Query: 311 QVQRQVLDLAAW-IDERRQA--HAELAEKHQVQLQAAIDLPSFTGGLATSALDPVQMARA 367 + V D+ + ER ++ AE + ++ + +P F G D Q+ +A Sbjct: 203 RHPHIVGDVNIHEVCERVRSLVMAEFPQGLTIKRDYDLSIPEFRG-------DKEQLIQA 255 Query: 368 LDNLLLNA---LAHCSAGGRIEIGAR----RQ---SNGR----LLLWVADDGPGVPAELR 413 + N++ NA LA G E+ R RQ S R L L + D+GPG+P +++ Sbjct: 256 VLNIVHNAAQALADRIRAGDGELILRTRVSRQVTLSKVRYRLALDLHIIDNGPGIPPDIQ 315 Query: 414 DSLFDPFVSQRSGGTGLGLVLVREIVHAHGGEITLASAARGARFEMELPW 463 D +F P VS R GG+GLGL L + VH H G I S F + +P Sbjct: 316 DRIFYPLVSGREGGSGLGLTLAQTFVHQHMGVIECDSRPGCTDFRILIPL 365 >gi|300309980|ref|YP_003774072.1| two component transmembrane sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 390 Score = 75.1 bits (183), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 70/229 (30%), Positives = 103/229 (44%), Gaps = 23/229 (10%) Query: 239 SERLATLGRVAAGMAHEIRNPIGAMRMKAENALAAPPQVRQTRVTGALEMVVSQTERLDA 298 S+ +A R A AH+++ P+ MRM++E AL Q Q V +LE + +E Sbjct: 143 SQTIAIQKRFIADAAHQMKTPLAGMRMQSELALR---QDDQVDVRRSLEQLAKSSETATR 199 Query: 299 LVASLLALAQPFQVQRQV-----LDLAAWIDERRQAHAELAEKHQVQLQ-AAIDLPSFTG 352 LV LL+LA+ Q Q ++L Q ++ ++ L D P Sbjct: 200 LVNQLLSLARAENQQSQSGGMIPVELNELARSVVQDWVPMSFTQRIDLGFEQPDHPILIT 259 Query: 353 GLATSALDPVQMARALDNLLLNALAHC--SAGGRIEIGARRQSNGRL-LLWVADDGPGVP 409 G +PV + L NLL NAL + GR+ + AR G L +L V D+GPG+P Sbjct: 260 G------NPVMLRELLSNLLDNALHYTPHDGNGRVTVRARTDEGGGLAILEVEDNGPGIP 313 Query: 410 AELRDSLFDPF-----VSQRSGGTGLGLVLVREIVHAHGGEITLASAAR 453 R ++F+ F G GLGL +VREI H + + S R Sbjct: 314 VAERANVFERFYRILGTPSTGSGLGLGLAIVREIAQQHEAALEITSNPR 362 >gi|300310177|ref|YP_003774269.1| C4-dicarboxylate transport sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 674 Score = 73.6 bits (179), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 72/254 (28%), Positives = 113/254 (44%), Gaps = 32/254 (12%) Query: 226 RGQSERLAAQLAQSERLATLGRVAAGMAHEIRNPIGAMRMKAENALA------APPQVRQ 279 R Q E+L A S RLA++G +A+ +AHE+ P+ A+ AL A P+ Q Sbjct: 430 RTQEEKLQA----SARLASMGEIASTLAHELNQPLAAISSYTTGALNLMQQGQADPKALQ 485 Query: 280 TRVTGALEMVVSQTERLDALVASLLALAQPFQVQRQVLDLAAWIDERRQAHAELAEKHQV 339 ALE + +Q +R ++ S+ + + RQ + + ID A++ V Sbjct: 486 P----ALEKIHAQAQRAGHVIRSVHQFVKKREPARQRVQMRQLIDNVAPLIELQAQQFFV 541 Query: 340 --QLQAAIDLPSFTGGLATSALDPVQMARALDNLLLN---ALAHCSAGGRI-----EIGA 389 QLQ LP G D + + + + NL N A+A + RI E+ Sbjct: 542 VLQLQVPRSLPPVLG-------DQILLEQVILNLTRNGIQAMAAVPSARRILRVAAEVTR 594 Query: 390 RRQSNGRLLLWVADDGPGVPAELRDSLFDPFVSQRSGGTGLGLVLVREIVHAHGGEITLA 449 + + V D G G+P ++ LF PF S ++ G G+GL + R + HGG +T Sbjct: 595 NEDGAESVTVSVTDQGHGIPDDVAARLFSPFFSTKAEGMGMGLNICRTTIEFHGGTLTYT 654 Query: 450 -SAARGARFEMELP 462 + A G F LP Sbjct: 655 DNPAGGTIFRFSLP 668 >gi|300312655|ref|YP_003776747.1| C4-dicarboxylate transport sensor kinase transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 600 Score = 73.2 bits (178), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 67/232 (28%), Positives = 110/232 (47%), Gaps = 10/232 (4%) Query: 235 QLAQSERLATLGRVAAGMAHEIRNPIGAMRMKAENALAAPPQVRQTRVTGALEMVVSQTE 294 +L Q+ +LA LG++AAG+ HE+ P+ A+R A+NA+ + + + LE + S + Sbjct: 369 ELVQAGKLAMLGQMAAGVTHELNQPLTAIRAFADNAVKFLARGQSAQAVENLEYISSASA 428 Query: 295 RLDALVASLLALAQPFQVQRQVLDLAAWIDERRQAHAELAEKHQVQLQAAIDLPSFTGGL 354 + ++A L A+ +DL+ I+ A + L +L A I + Sbjct: 429 TMGKIIAQLKGFARKSGEAVACVDLSQAIE----ASSLLLASECQKLGATISIDIRAAAC 484 Query: 355 ATSALDPVQMARALDNLLLNALAHCSAGGRIEIGARRQ-SNGRLLLWVADDGPGVPAELR 413 T D V+ + L NLL NAL I + + G L+ + D G G+ E+ Sbjct: 485 VTG--DVVRTEQVLVNLLRNALDAVEEAEHKRIAVVLEVAGGYALVRIRDSGGGIADEVA 542 Query: 414 DSLFDPFVSQRSG--GTGLGLVLVREIVHAHGGEITLASAAR-GARFEMELP 462 LF+PF + +S G GLGL + IV A G+++ + GA F + LP Sbjct: 543 PHLFEPFFTTKSSSKGLGLGLAISSSIVQAMNGQLSAHNHEEGGAEFVVRLP 594 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 0.132 0.381 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: 1,307,521 Number of extensions: 51045 Number of successful extensions: 341 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 296 Number of HSP's successfully gapped: 45 Length of query: 466 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 377 Effective length of database: 1,198,455 Effective search space: 451817535 Effective search space used: 451817535 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)