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= 0010.0005.p (857 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300314042|ref|YP_003778134.1| signal transduction protein con... 198 1e-51 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 196 6e-51 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 189 6e-49 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 177 3e-45 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 176 7e-45 >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 = 198 bits (504), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 146/454 (32%), Positives = 220/454 (48%), Gaps = 52/454 (11%) Query: 417 NLYRLYHELRDKVDRDQESGLLS----------LIGAAERLEQSAWEQATVCMVEINNYV 466 ++ R EL + RD +GL++ IG AER +Q+ W V V+++ + Sbjct: 507 SMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALW----VVFVDLDRFK 562 Query: 467 VLADTLNKVALRHLWQSLCQQVAPVWGDFAAQRLVRCRYSESRIAVVMLGAPVDHEDMLM 526 + DTL A L +++ A RL R E+ V LG ++ +M Sbjct: 563 FVNDTLGHKAGDTLLRTV------------AGRL-RAAVREAD-TVARLGG----DEFIM 604 Query: 527 RLRSKSELVLSTGGAEEV-------------RVFLSFGVSV-CEQRSKAAMEKSLANAAI 572 L + EL L T + + +F++ V V C E + +A I Sbjct: 605 ILPEQDELTLDTRSLQRIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADI 664 Query: 573 ALRQAQQPGGGGYCVFQPAMLAREERVQALLAAMD--AATLEAEFSMVYQPICDLRSGAL 630 A+ + +Q G + + PAM E+ ++ L D A EF + YQP DL SG + Sbjct: 665 AMYRGKQTGRNNFQFYTPAM--NEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRV 722 Query: 631 HGVEALMRWHSPAFGAVSPAEFIPLAERSERISQLGALAFRKVAADVAQWQALGILPEGF 690 G EAL+RW P G VSPA FI LAE + I +GA R QWQ G Sbjct: 723 IGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGY--ADI 780 Query: 691 TAHVNVSVRQAMNVHFFEQVRDIVLNAGVAPPMITLELTESLLIDDSHHLQAQFRQLSTY 750 + VN+SV Q + + D++ + G+ P + LELTESL++ D H L Sbjct: 781 SVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKL 840 Query: 751 GFGLCLDDFGTGYSSLSTLHNFDFNCVKLDRSFILRVSEEGRASSLLPAIIGIARSQQME 810 G L +DDFGTGYSSL+ L F + +K+DRSF+ ++ + +++ +II +AR ++ Sbjct: 841 GVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLR 900 Query: 811 CVAEGVETEEQAELLRGMGCAFVQGYLFARPMAA 844 +AEGVET+EQ + LR GC +QGYLF+ P+ A Sbjct: 901 VIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPA 934 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 196 bits (499), Expect = 6e-51, Method: Compositional matrix adjust. Identities = 113/303 (37%), Positives = 167/303 (55%), Gaps = 1/303 (0%) Query: 540 GAEEVRVFLSFGVSVCEQRSKAAMEKSLANAAIALRQAQQPGGGGYCVFQPAMLAREERV 599 G VR+ S G+++ + + + A A+ A+ G G F M + Sbjct: 427 GEHRVRISASVGIAIYPHDADT-VTTLIGCADQAMFAAKGGGRNGLAFFTEDMREKSFER 485 Query: 600 QALLAAMDAATLEAEFSMVYQPICDLRSGALHGVEALMRWHSPAFGAVSPAEFIPLAERS 659 + LL + A E +F + +QP +L+SG +H EAL+RW PAFG +SP FIPLAE S Sbjct: 486 RRLLNDLYDALQEGQFELHFQPALELQSGVIHKAEALVRWRHPAFGMISPDRFIPLAEES 545 Query: 660 ERISQLGALAFRKVAADVAQWQALGILPEGFTAHVNVSVRQAMNVHFFEQVRDIVLNAGV 719 I LG ++ A +W A G P VN+S Q +N H+ V D + G Sbjct: 546 GLIFDLGRWILQEAARVSVRWNAQGTSPFRKQISVNLSPVQFLNGHYDAIVMDQLSLQGC 605 Query: 720 APPMITLELTESLLIDDSHHLQAQFRQLSTYGFGLCLDDFGTGYSSLSTLHNFDFNCVKL 779 P +I +E+TE LL+DDS +++Q L G + LDDFGTGYS++S L F + +K+ Sbjct: 606 QPGLIAIEITEGLLLDDSEAVRSQLNNLRAAGIQVALDDFGTGYSAMSYLKKFSMDYLKI 665 Query: 780 DRSFILRVSEEGRASSLLPAIIGIARSQQMECVAEGVETEEQAELLRGMGCAFVQGYLFA 839 DRSF+ + + +++ AII +A M+ +AEGVET QA+LLR GC +VQGYL++ Sbjct: 666 DRSFVQDMVDADSNKAIVEAIIVMAHRLGMKVIAEGVETMVQAQLLRDAGCEYVQGYLYS 725 Query: 840 RPM 842 RP+ Sbjct: 726 RPL 728 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 189 bits (481), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 110/316 (34%), Positives = 170/316 (53%), Gaps = 3/316 (0%) Query: 542 EEVRVFLSFGVSVCEQRSKAAMEKSLANAAIALRQAQQPGGGGYCVFQPAMLAREERVQA 601 E+RV S G+++ + A + NA A+ ++ G GY F+P+M A ++ Sbjct: 381 HELRVSASVGIAIYPE-DGATRHDLVINADAAMYHTKRSGRNGYHFFEPSMNANAQQQLQ 439 Query: 602 LLAAMDAATLEAEFSMVYQPICDLRSGALHGVEALMRWHSPAFGAVSPAEFIPLAERSER 661 L + A +F +VYQP L +G + G EAL+RW P G V+P +FI LAERS Sbjct: 440 WLQDLRVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGLAERSGL 499 Query: 662 ISQLGALAFRKVAADVAQWQALGILPEGFTAHVNVSVRQAMNVHFFEQVRDIVLNAGVAP 721 I +GA + + +W ALG + +T VN+S Q + H E VR + + P Sbjct: 500 ILPIGAWVLDEACRQMREWFALGYVD--WTMSVNLSALQFADPHLLEVVRTTLERHQLPP 557 Query: 722 PMITLELTESLLIDDSHHLQAQFRQLSTYGFGLCLDDFGTGYSSLSTLHNFDFNCVKLDR 781 P +TLE+TES + D+ RQ++ G + +DDFGTGYSSL L N +K+DR Sbjct: 558 PCLTLEVTESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDR 617 Query: 782 SFILRVSEEGRASSLLPAIIGIARSQQMECVAEGVETEEQAELLRGMGCAFVQGYLFARP 841 F+ + ++G ++++ AI+ + R+ + VAEGVET EQ + L GC +QGYL RP Sbjct: 618 GFVRELRQDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRP 677 Query: 842 MAAQALVAWIGSRDRA 857 M + + + R ++ Sbjct: 678 MTPELFLQTMRERHKS 693 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 177 bits (449), Expect = 3e-45, Method: Compositional matrix adjust. Identities = 108/319 (33%), Positives = 163/319 (51%), Gaps = 4/319 (1%) Query: 539 GGAEEVRVFLSFGVSVCEQRSKAAMEKSLANAAIALRQAQQPGGGGYCVFQPAMLAREER 598 G E +V S GVS K +E L +A A+ +A++ G + F P M ++ Sbjct: 380 AGDREFQVTASIGVSRYPADGKD-VESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSN 438 Query: 599 VQALLAAMDAATLEAEFSMVYQPICDLRSGALHGVEALMRWHSPAFGAVSPAEFIPLAER 658 +L + A + EF + YQP L+ G L G EAL+RW SP G V P FIP AE Sbjct: 439 RLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEE 498 Query: 659 SERISQLGALAFRKVAADVAQWQALGILPEGFTAHVNVSVRQAMNVHFFEQVRDIVLNAG 718 + I +G R WQ G+ P VN+S RQ +N + V ++ +G Sbjct: 499 AGLIVPIGEWVLRTACRQNQAWQQAGLPP--IPVAVNLSPRQ-LNQSLPDFVAGVLAQSG 555 Query: 719 VAPPMITLELTESLLIDDSHHLQAQFRQLSTYGFGLCLDDFGTGYSSLSTLHNFDFNCVK 778 +A + LE+TE++++ D+ A L G + +DDFGTGYSSLS L F + +K Sbjct: 556 LAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALK 615 Query: 779 LDRSFILRVSEEGRASSLLPAIIGIARSQQMECVAEGVETEEQAELLRGMGCAFVQGYLF 838 +D+SF+ + + +++++ AII +A + +AEGVE EEQ L+ C VQGY F Sbjct: 616 IDKSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYF 675 Query: 839 ARPMAAQALVAWIGSRDRA 857 +PM AW+ + +A Sbjct: 676 GKPMEVAVFTAWMSEQAQA 694 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 176 bits (446), Expect = 7e-45, Method: Compositional matrix adjust. Identities = 106/303 (34%), Positives = 158/303 (52%), Gaps = 3/303 (0%) Query: 549 SFGVSVCEQRSKAAMEKSLANAAIALRQAQQPGGGGYCVFQPAMLAREERVQALLAAMDA 608 S GV++ +E L A IA+ QA+ G + F M + + AL +A+ Sbjct: 680 SIGVAIFPDNGND-IETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMAQERLALESALRD 738 Query: 609 ATLEAEFSMVYQPICDLRSGALHGVEALMRWHSPAFGAVSPAEFIPLAERSERISQLGAL 668 A + + +QP L +LHGVEAL RWH P G +SP FIP+AE I +LG Sbjct: 739 ALRGGDLELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLIGELGKW 798 Query: 669 AFRKVAADVAQWQALGILPEGFTAHVNVSVRQAMNVHFFEQVRDIVLNAGVAPPMITLEL 728 A + ++ W+ GI + VN+S ++ + V ++ + P +TLE+ Sbjct: 799 ALEEACFQLSDWRRRGIQVPSIS--VNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEI 856 Query: 729 TESLLIDDSHHLQAQFRQLSTYGFGLCLDDFGTGYSSLSTLHNFDFNCVKLDRSFILRVS 788 TE++L+D + + G L +DDFGTGYSSL L + +KLD+SF+ ++ Sbjct: 857 TETVLMDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMA 916 Query: 789 EEGRASSLLPAIIGIARSQQMECVAEGVETEEQAELLRGMGCAFVQGYLFARPMAAQALV 848 ++ S+L A+I I S ++ VAEGVE EQ LL GC QGYLF+RPM+A AL Sbjct: 917 KDPAVSALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALE 976 Query: 849 AWI 851 W+ Sbjct: 977 NWV 979 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 0.323 0.136 0.403 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: 2,581,942 Number of extensions: 106077 Number of successful extensions: 377 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 356 Number of HSP's successfully gapped: 18 Length of query: 857 Length of database: 1,619,870 Length adjustment: 93 Effective length of query: 764 Effective length of database: 1,179,515 Effective search space: 901149460 Effective search space used: 901149460 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 135 (56.6 bits)