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= 0027.0085.p (761 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 365 e-102 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 342 5e-95 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 305 1e-83 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 295 9e-81 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 291 1e-79 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 365 bits (938), Expect = e-102, Method: Compositional matrix adjust. Identities = 194/437 (44%), Positives = 277/437 (63%), Gaps = 4/437 (0%) Query: 307 TVRDISETKAHELALLDQLNTDELTGLPNRHWVIRYLNRLLHDAAGDGRGFAVLFVDLDD 366 TV I+E KAHE + Q D LTGLPNR+ + +L R L A G AV FVDLD Sbjct: 248 TVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQ 307 Query: 367 FKNINDTLGHSSGDLLLQAVTQRLCELVPAPHEVVRFSGDSFTVIHQGGSIDDA--AQLA 424 FK IND+LGH GD LL+ V QRL + V R GD F ++ Q + +A A++ Sbjct: 308 FKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVM 367 Query: 425 DRILLAFSRPLMLSNQNILQINLSIGISIFPRDGNSVDTLLKHADTAMHAAKSEGKKRFR 484 RIL A +RP ++ Q+ SIG+S +P DG V++LLKHAD+AM+ AK +G+ F+ Sbjct: 368 QRILAAVARPWQAGDRE-FQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQ 426 Query: 485 FYQPQLSERLQIKIENENALRLAIERDEFVLYFQPRVNTMTGEFCSMEALARWQHPVRGI 544 F+ P + ++ ++E LR A+++DEF LY+QP+++ G EAL RW+ P +G+ Sbjct: 427 FFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGM 486 Query: 545 VSPLEFIPVAEETGLILKLGELIIRKACAQLAQWRIAGLPLLPMSVNVSSRQLNQGNLND 604 V P FIP AEE GLI+ +GE ++R AC Q W+ AGLP +P++VN+S RQLNQ +L D Sbjct: 487 VPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQ-SLPD 545 Query: 605 IIATALAEHAVDPAQLEIELTESCMMADAIEVAEELASFRQLGIKLLVDDFGTGYSSLSQ 664 +A LA+ + + LE+E+TE+ +M DA + L + ++LG+++ VDDFGTGYSSLS Sbjct: 546 FVAGVLAQSGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSY 605 Query: 665 LQRLDLDVLKVDKAFTAELGVRAESEVLFNAMVSMAHALRMTVVAEGVETEAQLHLLQAL 724 L+R +D LK+DK+F ++ A+S + A++S+AH L + V+AEGVE E Q L+ Sbjct: 606 LRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKEN 665 Query: 725 GCDEVQGYYISHPIPAA 741 CDEVQGYY P+ A Sbjct: 666 ACDEVQGYYFGKPMEVA 682 >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 = 342 bits (878), Expect = 5e-95, Method: Compositional matrix adjust. Identities = 182/433 (42%), Positives = 263/433 (60%), Gaps = 4/433 (0%) Query: 310 DISETKAHELALLDQLNTDELTGLPNRHWVIRYLNRLLHDAAGDGRGFAVLFVDLDDFKN 369 DI+ K +E L Q + D LTGL NRH + +L + + A + V+FVDLD FK Sbjct: 504 DITSMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKF 563 Query: 370 INDTLGHSSGDLLLQAVTQRLCELVPAPHEVVRFSGDSFTVI--HQGGSIDDAAQLADRI 427 +NDTLGH +GD LL+ V RL V V R GD F +I Q D L RI Sbjct: 564 VNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILPEQDELTLDTRSL-QRI 622 Query: 428 LLAFSRPLMLSNQNILQINLSIGISIFPRDGNSVDTLLKHADTAMHAAKSEGKKRFRFYQ 487 + A + P+ L + + S+G++ +P DG +TL+KHAD AM+ K G+ F+FY Sbjct: 623 MDAVAAPVTLGGHTLF-MTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYT 681 Query: 488 PQLSERLQIKIENENALRLAIERDEFVLYFQPRVNTMTGEFCSMEALARWQHPVRGIVSP 547 P ++E+ ++ E LR A++ EF+L++QP+V+ +G EAL RWQHP G+VSP Sbjct: 682 PAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSP 741 Query: 548 LEFIPVAEETGLILKLGELIIRKACAQLAQWRIAGLPLLPMSVNVSSRQLNQGNLNDIIA 607 FI +AEETGLIL +G ++R AC Q QW++ G + +SVN+S Q Q +L IA Sbjct: 742 ARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIA 801 Query: 608 TALAEHAVDPAQLEIELTESCMMADAIEVAEELASFRQLGIKLLVDDFGTGYSSLSQLQR 667 L + + P LE+ELTES MM D LA ++LG++L +DDFGTGYSSL+ L+R Sbjct: 802 DVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKR 861 Query: 668 LDLDVLKVDKAFTAELGVRAESEVLFNAMVSMAHALRMTVVAEGVETEAQLHLLQALGCD 727 +DVLK+D++F ++ + A+ + +++S+A L++ V+AEGVET+ QL L+ GCD Sbjct: 862 FPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCD 921 Query: 728 EVQGYYISHPIPA 740 E+QGY S P+PA Sbjct: 922 EIQGYLFSPPVPA 934 >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 = 305 bits (780), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 163/417 (39%), Positives = 242/417 (58%), Gaps = 6/417 (1%) Query: 328 DELTGLPNRHWVIRYLNRLLHDAAGDGRGFAVLFVDLDDFKNINDTLGHSSGDLLLQAVT 387 DELTGLPNR ++++ + A AV+ +DLD FKNINDT GH +G+ +LQ + Sbjct: 673 DELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFGHETGEAVLQEIA 732 Query: 388 QRLCELVPAPHEVVRFSGDSFTVIHQGGSIDDAAQL---ADRILLAFSRPLMLSNQNILQ 444 QR + + R GD F V+ DD QL A ++L +P ++ Q + Sbjct: 733 QRFRNSLRELDILARVGGDEFIVLVD--DFDDPVQLGEIAQKLLTEARKPFIIDGQEAM- 789 Query: 445 INLSIGISIFPRDGNSVDTLLKHADTAMHAAKSEGKKRFRFYQPQLSERLQIKIENENAL 504 +++SIGI+ +P DG++ TL+K+AD AM+ AK GK +RF+ +++ +I E L Sbjct: 790 LSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNTVERIALEAEL 849 Query: 505 RLAIERDEFVLYFQPRVNTMTGEFCSMEALARWQHPVRGIVSPLEFIPVAEETGLILKLG 564 R AIER EFV+++QP++ G EAL RWQHP+RG++ P EFI +AEET LI ++G Sbjct: 850 RRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLAEETRLIDQIG 909 Query: 565 ELIIRKACAQLAQWRIAGLPLLPMSVNVSSRQLNQGNLNDIIATALAEHAVDPAQLEIEL 624 L++ AC + R + +S+N++ Q L D I + H P+ LE E+ Sbjct: 910 LLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEVVDRHGTPPSCLEFEI 969 Query: 625 TESCMMADAIEVAEELASFRQLGIKLLVDDFGTGYSSLSQLQRLDLDVLKVDKAFTAELG 684 TES +M + + R G + +DDFGTGYSSL+ L+R ++ LK+DK+F ++ Sbjct: 970 TESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLKIDKSFINDIP 1029 Query: 685 VRAESEVLFNAMVSMAHALRMTVVAEGVETEAQLHLLQALGCDEVQGYYISHPIPAA 741 S + A+++M+HAL + VV EGVETE QL L+ G DE QGYY S P+P A Sbjct: 1030 DNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYFSKPVPYA 1086 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 295 bits (755), Expect = 9e-81, Method: Compositional matrix adjust. Identities = 159/411 (38%), Positives = 248/411 (60%), Gaps = 1/411 (0%) Query: 328 DELTGLPNRHWVIRYLNRLLHDAAGDGRGFAVLFVDLDDFKNINDTLGHSSGDLLLQAVT 387 D+LT LPNR + LN+ ++ AA + FA++F+DLD FK IND+LGH GD LL V Sbjct: 269 DQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEVA 328 Query: 388 QRLCELVPAPHEVVRFSGDSFTVIHQGGSIDDAAQLADRILLAFSRPLMLSNQNILQINL 447 QRL A V R GD F ++ + +DA +A++++ A ++P + +Q+ L+++ Sbjct: 329 QRLTSSSRANDTVARLGGDEFVILVDLNTPEDAMGVAEKLVEAVNQPFKV-DQHELRVSA 387 Query: 448 SIGISIFPRDGNSVDTLLKHADTAMHAAKSEGKKRFRFYQPQLSERLQIKIENENALRLA 507 S+GI+I+P DG + L+ +AD AM+ K G+ + F++P ++ Q +++ LR+A Sbjct: 388 SVGIAIYPEDGATRHDLVINADAAMYHTKRSGRNGYHFFEPSMNANAQQQLQWLQDLRVA 447 Query: 508 IERDEFVLYFQPRVNTMTGEFCSMEALARWQHPVRGIVSPLEFIPVAEETGLILKLGELI 567 +ER +F L +QP+ + G EAL RW+HPV G+V+P +FI +AE +GLIL +G + Sbjct: 448 LERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGLAERSGLILPIGAWV 507 Query: 568 IRKACAQLAQWRIAGLPLLPMSVNVSSRQLNQGNLNDIIATALAEHAVDPAQLEIELTES 627 + +AC Q+ +W G MSVN+S+ Q +L +++ T L H + P L +E+TES Sbjct: 508 LDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERHQLPPPCLTLEVTES 567 Query: 628 CMMADAIEVAEELASFRQLGIKLLVDDFGTGYSSLSQLQRLDLDVLKVDKAFTAELGVRA 687 M D + L LG+++ +DDFGTGYSSL L+RL + LK+D+ F EL Sbjct: 568 TAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELRQDG 627 Query: 688 ESEVLFNAMVSMAHALRMTVVAEGVETEAQLHLLQALGCDEVQGYYISHPI 738 E + +A+V++ L + +VAEGVET Q L A GCD +QGY + P+ Sbjct: 628 EDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRPM 678 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 291 bits (746), Expect = 1e-79, Method: Compositional matrix adjust. Identities = 168/442 (38%), Positives = 251/442 (56%), Gaps = 5/442 (1%) Query: 302 FGLAITVRDISETKAHELALLDQLNTDELTGLPNRHWVIRYLNRLLHDAAGDGRGFAVLF 361 GL + DI+E K E + D LTGLPNR + R +++ L +A + V+F Sbjct: 221 IGLIGYLNDITERKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHGCVMF 280 Query: 362 VDLDDFKNINDTLGHSSGDLLLQAVTQRLCELVPAPHEVVRFSGDSFTVIHQGGSIDDAA 421 +DL+ FK INDTLGH +GD+LL V RL + V R D F V G D A Sbjct: 281 IDLNRFKPINDTLGHVAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGIDKDSPA 340 Query: 422 QLADRILLAFSRPLMLSNQNILQINLSIGISIFPRDGNSVDTLLKHADTAMHAAKSEGKK 481 +A ++L F P + L++ SIG+S++P + +TLL+ AD AM+ AK G+ Sbjct: 341 YVAQKLLALFDDPFFIDGHE-LRVGASIGVSLYPENATDTETLLRLADIAMYRAKQGGEN 399 Query: 482 R---FRFYQPQLSERLQIKIENENALRLAIERDEFVLYFQPRVNTMTGEFCSMEALARWQ 538 + Y +++ + E L A E +E +LY+QP+V+ T EAL RWQ Sbjct: 400 NEGGYACYSEEMNRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMQTLAITGAEALVRWQ 459 Query: 539 HPVRGIVSPLEFIPVAEETGLILKLGELIIRKACAQLAQWRIAGLPLLPMSVNVSSRQLN 598 HP RG++ P EFIP+AEETGLI++L + ++ C Q W+ AGLP + +++NV++R+ Sbjct: 460 HPERGLLLPGEFIPIAEETGLIVQLSDWVLDAVCRQARAWKDAGLPPIRIALNVTAREFT 519 Query: 599 QGNLNDIIATALAEHAVDPAQLEIELTESCMMADAIEVAEELASFRQLGIKLLVDDFGTG 658 + +L D + AL H + LE+E+TES +M V + LGI + +DDFGTG Sbjct: 520 R-SLPDRVGAALERHMLSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLDDFGTG 578 Query: 659 YSSLSQLQRLDLDVLKVDKAFTAELGVRAESEVLFNAMVSMAHALRMTVVAEGVETEAQL 718 YSSLS L+R ++ LK+D++FT + + +A++ +A LR V+AEGVE E Q Sbjct: 579 YSSLSYLKRFPINTLKIDRSFTMGIPDDTNDCAIASAIIGIAKQLRHKVIAEGVEDEKQF 638 Query: 719 HLLQALGCDEVQGYYISHPIPA 740 + L+ GC+E+QGY S P+PA Sbjct: 639 NFLREAGCNELQGYIFSRPVPA 660 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 0.322 0.136 0.398 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: 2,372,079 Number of extensions: 100080 Number of successful extensions: 396 Number of sequences better than 1.0e-08: 45 Number of HSP's gapped: 350 Number of HSP's successfully gapped: 46 Length of query: 761 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 668 Effective length of database: 1,179,515 Effective search space: 787916020 Effective search space used: 787916020 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: 134 (56.2 bits)