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= 0001.3637.p (555 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313022|ref|YP_003777114.1| two component sensor histidine ... 930 0.0 gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729... 164 1e-41 gi|300311948|ref|YP_003776040.1| sensor histidine kinase/respons... 146 3e-36 gi|300312677|ref|YP_003776769.1| two component hybrid sensor his... 140 2e-34 gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kin... 135 1e-32 >gi|300313022|ref|YP_003777114.1| two component sensor histidine kinase [Herbaspirillum seropedicae SmR1] Length = 556 Score = 930 bits (2404), Expect = 0.0, Method: Compositional matrix adjust. Identities = 452/556 (81%), Positives = 510/556 (91%), Gaps = 1/556 (0%) Query: 1 MNDRKNSPLPLRFARIDLRLALGLFSLLLICGLWLGALKELATSRQNNLEDARRDAQSLS 60 M+DRK PLRFARIDLR+AL LFSLLLICGLWLGA KEL SR N L+DARRDAQSLS Sbjct: 1 MDDRKQQSFPLRFARIDLRVALSLFSLLLICGLWLGAFKELQNSRNNYLDDARRDAQSLS 60 Query: 61 RLFLEHAYRTIEAADQAAVYLRYRYGERGQNLDLATEIANGLVARNVYNLFSIVDSKGDV 120 RLFLEHAYRTIEAADQAA+YLRYRY ERG L+LATEI NGLVARNVYNLFSIVD++GDV Sbjct: 61 RLFLEHAYRTIEAADQAALYLRYRYAERGNALNLATEIDNGLVARNVYNLFSIVDAQGDV 120 Query: 121 ALSSKPFTPINLSDREHIQVHMHGGPDKLFISKPVLGRVSNKWSLQLTRRINHPDGSFGG 180 LSSKPFTP+NL+DREH+QVHM GG D+LFISKPVLGRVS KWSLQ+TRRIN PDG FGG Sbjct: 121 VLSSKPFTPVNLADREHVQVHMQGGQDQLFISKPVLGRVSKKWSLQITRRINRPDGGFGG 180 Query: 181 VVVVSMDPQYFTSLYHQIDVGHHGVITLLGADGVVRVRRTGEMDAMGEQVSGGKVYAAML 240 VVVVSMDPQYFT LYHQIDVGHHGVITL+GADGV RVRRTG+MDAMGEQV+GGKVYAAML Sbjct: 181 VVVVSMDPQYFTRLYHQIDVGHHGVITLVGADGVARVRRTGDMDAMGEQVAGGKVYAAML 240 Query: 241 AQGDGVVEAVSRIDGRERIYAFHKLRDYPLYASVGIDIEERLAPYYRERNRTLLLATLIT 300 AQG G +EAVS+IDGRER+YAF KLRDYPL+A+VGID++ERLAPYYRER RTL+LA L++ Sbjct: 241 AQGSGTIEAVSKIDGRERLYAFQKLRDYPLFAAVGIDLKERLAPYYRERERTLMLAALLS 300 Query: 301 LAVLLFNALLIWLAGSLVKSRQDAMQASHAKSRFLSNMSHEFRTPLNGVLGYSDALREEL 360 +AVL+FNA+L+WLAGSLV+SR++A+QA+ AKSRFLSNMSHEFRTPLNGVLGYSDALREEL Sbjct: 301 VAVLVFNAVLLWLAGSLVRSRREALQANQAKSRFLSNMSHEFRTPLNGVLGYSDALREEL 360 Query: 361 GESPLAQYATAIHDSGNRLLDLVNAILEVTELEDQRVAIQAEPENIRELISQAVARHYPD 420 GESPLAQYA AIHDSGNRLLDLVNAILEVTELED+RVA+ +P NIREL+ QA+ARHYP Sbjct: 361 GESPLAQYAVAIHDSGNRLLDLVNAILEVTELEDRRVAVHLDPANIRELVGQAIARHYPQ 420 Query: 421 AQAKGLSLECRIGDEVPQVVVCDQRKVLRVLENLLGNAVRYTDSGRILVEVERSG-SQLS 479 AQAKGL LECRIG++VPQ++VCD+RK+ RVL+NL+ NAVRYTD GR++VEVERSG QL+ Sbjct: 421 AQAKGLPLECRIGEDVPQILVCDERKIQRVLDNLISNAVRYTDHGRVMVEVERSGPQQLT 480 Query: 480 VRIKDTGIGIPAGQLDTIFEKFTQADDSERRARDGAGLGLTIAQRLVTLMGGKLMLQSKQ 539 +RIKDTGIGI A Q + IFEKFTQADDS RR+++GAGLGLTIAQRLV LMGG+L+LQS+Q Sbjct: 481 MRIKDTGIGIAASQQNDIFEKFTQADDSPRRSQEGAGLGLTIAQRLVMLMGGQLVLQSEQ 540 Query: 540 HQGSTFSFTLPLQEPK 555 HQGSTFSFTLPLQEPK Sbjct: 541 HQGSTFSFTLPLQEPK 556 >gi|300313023|ref|YP_003777115.1| hypothetical protein Hsero_3729 [Herbaspirillum seropedicae SmR1] Length = 765 Score = 164 bits (416), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 138/537 (25%), Positives = 250/537 (46%), Gaps = 43/537 (8%) Query: 48 NLEDARRDAQSLSRLFLEHAYRTIEAA-----------DQAAVYLRYRYGERGQNLDLAT 96 +L D R D +LS + E+ +T+ +A +QA + + +++ + Sbjct: 45 SLNDWRNDLSTLSTVLAENTAQTMSSARLVIDSIQADIEQANPTDQQQLQRHVGSVEFSQ 104 Query: 97 EIANGLVARNVYNLFSIVDSKGDVALSSK--PFTPINLSDREHIQVHMHGGPDKLFISKP 154 + + + + +++G + S+ P PI+L+DR++ H F+ + Sbjct: 105 IMREKIRGLPFISGIGVANAEGRILALSRVYPAPPIDLTDRDYYLHHRSSDSTADFVGET 164 Query: 155 VLGRVSNKWSLQLTRRINHPDGSFGGVVVVSMDPQYFTSLYHQIDVGHHGVITLLGADGV 214 VL R + ++RR+N G ++V+ + +F + + + I L DG Sbjct: 165 VLSRAGGVPTFYVSRRVNDRQGRLLAIIVIGLPCAFFETFFDNVTRDKPFSIVLARKDG- 223 Query: 215 VRVRRTGEMDAMGEQ------VSGGKVYAAMLAQGDGVVEAVSRIDGRERIYAFHK-LRD 267 + D + EQ +++ +M A +G S + + H+ +R+ Sbjct: 224 ---KTLTSTDLLPEQGQRRSITPLAQLHPSMPADDEG---RQSHVFMQSHWLGIHRPVRN 277 Query: 268 YPLYASVGIDIEERLAPYYRERNRTLLLATLITLAVLLFNALLIWL------AGSLVKSR 321 +P+Y +G+ E + E L+L I+L L+ +L W +L+ +R Sbjct: 278 WPMYLEIGVTDEVYFGEWM-ESMYPLMLVAAISLVGLIGGFVLTWRQVRRREEDALLATR 336 Query: 322 --QDAMQASHAKSRFLSNMSHEFRTPLNGVLGYSDALREELGESPLAQYATAIHDSGNRL 379 ++A A+ AKS FL+ +SHE RTP+NG+LG S+ L E S YA +IH + L Sbjct: 337 LKEEADHANEAKSHFLAMVSHEIRTPMNGILGLSELLMESGLSSKQRDYADSIHGATGGL 396 Query: 380 LDLVNAILEVTELEDQRVAIQAEPENIRELISQAVARHYPDAQAKGLSLECRIGDEVPQV 439 + ++N IL+ +++E ++ ++ + L+ + + P Q K + + + Sbjct: 397 VRIINDILDFSKIESGKLDLEMVAFHPVRLVQELSDLYRPSLQRKDVQFDLHLDCPENLS 456 Query: 440 VVCDQRKVLRVLENLLGNAVRYTDSGRILVEV----ERSGS---QLSVRIKDTGIGIPAG 492 VV D ++ +VL NLL NA+++T +G + + + + SG +L I DTGIGI Sbjct: 457 VVGDPARLKQVLGNLLSNAIKFTQAGHVQLSMSARQDESGPSRWRLFFAITDTGIGISPE 516 Query: 493 QLDTIFEKFTQADDSERRARDGAGLGLTIAQRLVTLMGGKLMLQSKQHQGSTFSFTL 549 L +F F QAD S R G GLGL I++ LV LMGG + QS + + FSF + Sbjct: 517 ALQQLFRPFAQADSSISRRFGGTGLGLAISKNLVELMGGTIACQSIPGESTRFSFEI 573 >gi|300311948|ref|YP_003776040.1| sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1145 Score = 146 bits (369), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 84/238 (35%), Positives = 136/238 (57%), Gaps = 1/238 (0%) Query: 317 LVKSRQDAMQASHAKSRFLSNMSHEFRTPLNGVLGYSDALREELGESPLAQYAT-AIHDS 375 L ++++ A A+ AKSRF++ MSHE RTPLN +LGY+ L + P + A I S Sbjct: 674 LQRAKEAAESANLAKSRFVAGMSHELRTPLNSILGYAQILHVDATIPPARKDAIGVIRRS 733 Query: 376 GNRLLDLVNAILEVTELEDQRVAIQAEPENIRELISQAVARHYPDAQAKGLSLECRIGDE 435 G LL L++ +L++ ++E ++ + ++ + + Q V P A+ KGL Sbjct: 734 GEHLLSLIDGLLDIAKIEAGKMRLASDELALEAFLEQIVGMFAPQAEQKGLHFRFDKSGR 793 Query: 436 VPQVVVCDQRKVLRVLENLLGNAVRYTDSGRILVEVERSGSQLSVRIKDTGIGIPAGQLD 495 +PQ+V DQ+++ ++L NLLGNAV++TD G + + + + + DTGIGI + Sbjct: 794 LPQIVHADQKRLRQILINLLGNAVKFTDHGGVTLRLRYAREIAYFDVIDTGIGIADDDRE 853 Query: 496 TIFEKFTQADDSERRARDGAGLGLTIAQRLVTLMGGKLMLQSKQHQGSTFSFTLPLQE 553 IF F ++ + R G GLGL I++ LV +MGG+L +QS+ QGS+F + L E Sbjct: 854 RIFLPFERSSAANLREDIGTGLGLAISRMLVHIMGGELSVQSQVGQGSSFHLKIYLPE 911 >gi|300312677|ref|YP_003776769.1| two component hybrid sensor histidine kinase/response regulator protein [Herbaspirillum seropedicae SmR1] Length = 1160 Score = 140 bits (353), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 85/239 (35%), Positives = 140/239 (58%), Gaps = 6/239 (2%) Query: 317 LVKSRQDAMQASHAKSRFLSNMSHEFRTPLNGVLGYSDALREE----LGESPLAQYATAI 372 LV+ + +A+ KS FL+NMSHE RTPLN L + L + L + + ++A I Sbjct: 461 LVEKATELERANQYKSEFLANMSHELRTPLNSTLILAKLLADNKQGNLSDEQV-RFAQTI 519 Query: 373 HDSGNRLLDLVNAILEVTELEDQRVAIQAEPENIRELISQAVARHYPDAQAKGLSLECRI 432 +GN LL L+N IL+++++E ++ I E + +L + A AQ KGL + + Sbjct: 520 SSAGNDLLALINDILDLSKMEAGKLDIVPESFPLTKLADELSASFAITAQQKGLGFKVEV 579 Query: 433 GDEVPQVVVCDQRKVLRVLENLLGNAVRYTDSGRILVEV-ERSGSQLSVRIKDTGIGIPA 491 VPQ + D +++ ++L+NLL NA+++T+ G + + + +G +++ ++DTGIGI Sbjct: 580 EPGVPQRMETDIQRLGQILKNLLSNAIKFTEKGEVSLRIYPDAGGRIAFAVRDTGIGIGE 639 Query: 492 GQLDTIFEKFTQADDSERRARDGAGLGLTIAQRLVTLMGGKLMLQSKQHQGSTFSFTLP 550 Q IFE F QAD S R G GLGL+I++ L L+GG + + S+ +GS F+ +LP Sbjct: 640 DQHQFIFEAFRQADGSTHRKYGGTGLGLSISRDLAHLLGGDIRVTSRLGEGSIFTLSLP 698 >gi|300310566|ref|YP_003774658.1| Hpt sensor hybrid histidine kinase [Herbaspirillum seropedicae SmR1] Length = 723 Score = 135 bits (340), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 83/241 (34%), Positives = 137/241 (56%), Gaps = 5/241 (2%) Query: 314 AGSLVKSRQDAMQASHAKSRFLSNMSHEFRTPLNGVLGYSDALREELGESPLAQYATAIH 373 A LV++++ A A + FLS MSHE RTP+N VLG + LR ++ A++A AI Sbjct: 70 AEKLVQAKEAADHAMLTRGAFLSTMSHEIRTPMNAVLGMAGLLRSTRLDTQQAEFAKAIE 129 Query: 374 DSGNRLLDLVNAILEVTELEDQRVAIQAEPENIRELISQAVARHYPDAQAKGLSLECRIG 433 DS + LL +VN +L+ ++++ ++ I ++ +++ + A+ K + L + Sbjct: 130 DSAHALLGIVNDVLDFSKIDVGKMDIAVVEFDLAKVVEASAEALSFKAREKRVRLLAHLD 189 Query: 434 DEVPQVVVCDQRKVLRVLENLLGNAVRYTDSGRILVEVER---SGSQLSVR--IKDTGIG 488 +P +V D ++ ++L NLLGNA+++T +G +L+ V+ + VR ++D+GIG Sbjct: 190 SRLPPRLVGDPGRIRQILLNLLGNALKFTHAGEVLLRVQALQVTSDHCRVRFEVRDSGIG 249 Query: 489 IPAGQLDTIFEKFTQADDSERRARDGAGLGLTIAQRLVTLMGGKLMLQSKQHQGSTFSFT 548 + L +F F QAD S R G GLGL+I +RLV LMGG + ++S GS F F Sbjct: 250 MDEDTLRRLFSPFAQADSSVTRQYGGTGLGLSICKRLVELMGGSIGVESALGTGSCFWFE 309 Query: 549 L 549 L Sbjct: 310 L 310 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 0.137 0.389 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: 1,625,753 Number of extensions: 68112 Number of successful extensions: 389 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 320 Number of HSP's successfully gapped: 43 Length of query: 555 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 465 Effective length of database: 1,193,720 Effective search space: 555079800 Effective search space used: 555079800 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: 133 (55.8 bits)