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= 0001.3643.p (544 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313026|ref|YP_003777118.1| signal transduction protein con... 807 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 177 2e-45 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 171 2e-43 gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709... 163 3e-41 gi|300309360|ref|YP_003773452.1| hypothetical protein Hsero_0014... 162 5e-41 >gi|300313026|ref|YP_003777118.1| signal transduction protein containing sensor and EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 544 Score = 807 bits (2084), Expect = 0.0, Method: Compositional matrix adjust. Identities = 414/535 (77%), Positives = 475/535 (88%) Query: 1 VNNKSKVVALAIVATVVAAIAPVAGMLWLSRQAVIQAEHERLARYAETVVERAESTFQAT 60 ++NK+++VA IVAT VAAIAPVA M+WLSRQAV QAEHERLARYAE+V+ RA +F T Sbjct: 1 MSNKNRIVAWTIVATAVAAIAPVAAMMWLSRQAVAQAEHERLARYAESVIARAAHSFDET 60 Query: 61 QRSLKSLSPLFLHPCSDEHIAQMRMIAVYSNAIEEIGYYEYGQLKCTSWERNVQAQRRAQ 120 QRSLKSLSPL L PCSDEHIAQMR+I+V S +IEE+GYYE+GQLKCTSW+ +V A+RR Q Sbjct: 61 QRSLKSLSPLLLLPCSDEHIAQMRLISVNSRSIEEMGYYEHGQLKCTSWDSSVGARRRRQ 120 Query: 121 PRPLFTTREGVGVAPQQPSFIAGGPSMMSIQYGSHAALVHRDRFVDVVLEDGVHVVLARN 180 P+FTT +GV VA Q SF+A GP+M+SIQYG+H+ALVHR RFVDVVLE GVHVVLARN Sbjct: 121 AEPVFTTADGVEVALDQRSFVADGPTMLSIQYGAHSALVHRLRFVDVVLEKGVHVVLARN 180 Query: 181 GFGQVAQYGIPIDPGVAAHALRGVGQQDVDGFFVSTVSRDGWTAAAIINGQQVLDSMTSE 240 GFG VAQYG P+ GVA HAL G+G+QDVDGFF+STVSRDGWTAAAI++G VL+ MT + Sbjct: 181 GFGPVAQYGGPVAAGVAEHALDGLGRQDVDGFFISTVSRDGWTAAAIVDGDHVLEEMTGQ 240 Query: 241 QRWFLPVGVLLGLALVLLVVRASQARLSPLAELQLAVRKREFIVCYQPIIELDSGRCVGA 300 QRWFLPVG+LLG+ LV+LV+R SQARLSPLA+LQLAV+K+EFIV YQPIIE+ SGRC+GA Sbjct: 241 QRWFLPVGILLGIGLVMLVLRVSQARLSPLADLQLAVKKKEFIVHYQPIIEMASGRCIGA 300 Query: 301 EALIRWKRPDGSIVRPDLFIPLAEESGLILPLTDLVIETVVAELGAILRADRALHVAINV 360 EAL+RW+RPDGSIVRPD FI LAEESGLILPLTDLV++TVV E+ LR DRALH+AINV Sbjct: 301 EALLRWRRPDGSIVRPDFFIALAEESGLILPLTDLVVDTVVREMRDTLRQDRALHIAINV 360 Query: 361 AAQDIKTGRILEVVGKNLAGTDIRTEQIWMEATERGCMDIASARVTLARARELGHSMALD 420 AAQD+KTGRILEVV + LAG+DIR EQ+WMEATERGCMDIASA +TLARARE+GHSMALD Sbjct: 361 AAQDMKTGRILEVVSQALAGSDIRPEQLWMEATERGCMDIASASLTLARAREMGHSMALD 420 Query: 421 DFGTGYSNLQYLQGLPMDALKIDKSFVSTIGTGAATSAVIDHIIAMAKSLNLYIVAEGVE 480 DFGTGYSNLQYLQGLPMDALKIDKSFVSTIGTGAATSAVIDHIIAMAKSL LYIVAEGVE Sbjct: 421 DFGTGYSNLQYLQGLPMDALKIDKSFVSTIGTGAATSAVIDHIIAMAKSLKLYIVAEGVE 480 Query: 481 TLEQAAYLSQQEVDFVQGWLFAKPMPAGEFVDFYRATLADYGTGPEIIRGPYPAN 535 TLEQAAYL+++ VDF QGWLF++P+P EFV FY ATLADYG+GPEIIRGP PA+ Sbjct: 481 TLEQAAYLAERGVDFAQGWLFSRPLPVEEFVAFYCATLADYGSGPEIIRGPQPAS 535 >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 = 2e-45, Method: Compositional matrix adjust. Identities = 104/248 (41%), Positives = 149/248 (60%), Gaps = 3/248 (1%) Query: 266 RLSPLAELQLAVRKREFIVCYQPIIELDSGRCVGAEALIRWKRPDGSIVRPDLFIPLAEE 325 RL L L+ A+ + EF + YQP + L GR +GAEALIRW+ P +V PD FIP AEE Sbjct: 439 RLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEE 498 Query: 326 SGLILPLTDLVIETVVAELGAILRADRA-LHVAINVAAQDIKTGRILEVVGKNLAGTDIR 384 +GLI+P+ + V+ T + A +A + VA+N++ + + + + V LA + + Sbjct: 499 AGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQS-LPDFVAGVLAQSGLA 557 Query: 385 TEQIWMEATERGCMDIASARV-TLARARELGHSMALDDFGTGYSNLQYLQGLPMDALKID 443 + +E TE M A V TL + LG +++DDFGTGYS+L YL+ P+DALKID Sbjct: 558 ASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKID 617 Query: 444 KSFVSTIGTGAATSAVIDHIIAMAKSLNLYIVAEGVETLEQAAYLSQQEVDFVQGWLFAK 503 KSFV I A ++A++ II++A LNL ++AEGVE EQ A+L + D VQG+ F K Sbjct: 618 KSFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGK 677 Query: 504 PMPAGEFV 511 PM F Sbjct: 678 PMEVAVFT 685 >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 = 171 bits (432), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 102/256 (39%), Positives = 150/256 (58%), Gaps = 10/256 (3%) Query: 266 RLSPLAELQLAVRKREFIVCYQPIIELDSGRCVGAEALIRWKRPDGSIVRPDLFIPLAEE 325 RL +L+ A+ EF++ YQP ++L SGR +G+EALIRW+ P +V P FI LAEE Sbjct: 691 RLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEE 750 Query: 326 SGLILPLTDLVIETVVAE-----LGAILRADRALHVAINVAAQDIKTGRILEVVGKNLAG 380 +GLILP+ V+ + LG AD + V++N++ ++ + L Sbjct: 751 TGLILPIGAWVLRAACTQCRQWQLGGY--AD--ISVSVNLSVGQFLQKDLVSSIADVLED 806 Query: 381 TDIRTEQIWMEATERGCM-DIASARVTLARARELGHSMALDDFGTGYSNLQYLQGLPMDA 439 T + E + +E TE M D+ A LA ++LG +++DDFGTGYS+L YL+ P+D Sbjct: 807 TGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDV 866 Query: 440 LKIDKSFVSTIGTGAATSAVIDHIIAMAKSLNLYIVAEGVETLEQAAYLSQQEVDFVQGW 499 LKID+SFV I A +A+ II++A+ L L ++AEGVET EQ YL D +QG+ Sbjct: 867 LKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGY 926 Query: 500 LFAKPMPAGEFVDFYR 515 LF+ P+PA +F R Sbjct: 927 LFSPPVPADKFEQILR 942 >gi|300311038|ref|YP_003775130.1| hypothetical protein Hsero_1709 [Herbaspirillum seropedicae SmR1] Length = 598 Score = 163 bits (413), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 87/231 (37%), Positives = 132/231 (57%), Gaps = 1/231 (0%) Query: 281 EFIVCYQPIIELDSGRCVGAEALIRWKRPDGSIVRPDLFIPLAEESGLILPLTDLVIETV 340 E ++ +QP + L G CVG EALIRW P + PD+FIPLAE++G I +T V+ V Sbjct: 360 ELVLHFQPKVRLRDGACVGVEALIRWHHPIHGNIPPDVFIPLAEKTGQIRQVTAWVLRQV 419 Query: 341 VAELGAILRADRALHVAINVAAQDIKTGRILEVVGKNLAGTDIRTEQIWMEATERGCMDI 400 VA++ L++ RAL VA N +A+D + + E++ + L + I +E TE + Sbjct: 420 VAQVARWLKSGRALPVAFNASARDFDSDELRELLAQQLKLHKVPPALIEIEFTEHAMANH 479 Query: 401 AS-ARVTLARARELGHSMALDDFGTGYSNLQYLQGLPMDALKIDKSFVSTIGTGAATSAV 459 R + RELG +A+DDFG G+SNL YL+ +P D +KID+SF+ + A + Sbjct: 480 PQQVRQRVQALRELGVKVAIDDFGAGFSNLSYLKNIPADTMKIDRSFIHRLLDDEADQLI 539 Query: 460 IDHIIAMAKSLNLYIVAEGVETLEQAAYLSQQEVDFVQGWLFAKPMPAGEF 510 + I+ +A +L +VAEG+E+ A L D+ QG+ A+PMP E Sbjct: 540 VPSILHLAHNLGFSVVAEGLESERTATLLRHLGCDYGQGYAIARPMPLAEL 590 >gi|300309360|ref|YP_003773452.1| hypothetical protein Hsero_0014 [Herbaspirillum seropedicae SmR1] Length = 726 Score = 162 bits (411), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 98/246 (39%), Positives = 144/246 (58%), Gaps = 4/246 (1%) Query: 271 AELQLAVRKREFIVCYQPIIELDSGRCVGAEALIRWKRPDGSIVRPDLFIPLAEESGLIL 330 AEL+ AV +R+FIV YQP + + G VGAEAL+RW+ P IV P FI LAE+ GL+ Sbjct: 474 AELRQAVARRQFIVYYQPQVTYE-GDVVGAEALVRWQHPIRGIVSPTTFISLAEDMGLMD 532 Query: 331 PLTDLVIETVVAELGAILRAD--RALHVAINVAAQDIKTGRILEVVGKNLAGTDIRTEQI 388 + V+ + +L R R L VAINV+AQ+ K + + + + + + Sbjct: 533 EIGRQVLHRICTDLENWQREGLARDLVVAINVSAQEFKVDNFVYRFREIMREHHVPSHSV 592 Query: 389 WMEATERGCMDIASARVTLARA-RELGHSMALDDFGTGYSNLQYLQGLPMDALKIDKSFV 447 +E TE +D +T +A R S++LDDFGTGYS+L YL P+D +KID++FV Sbjct: 593 KVELTESMMVDHIEDVITKMQALRSNEVSISLDDFGTGYSSLSYLGRFPIDQIKIDQTFV 652 Query: 448 STIGTGAATSAVIDHIIAMAKSLNLYIVAEGVETLEQAAYLSQQEVDFVQGWLFAKPMPA 507 + AA +++I II + +SLNL I+AEGVET +Q +L Q QG+ ++KP+P Sbjct: 653 REMQNDAAMASIIRSIIMLGQSLNLSIIAEGVETEQQRDFLHAQGCLLYQGYWYSKPIPG 712 Query: 508 GEFVDF 513 +F D Sbjct: 713 EQFADL 718 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 0.136 0.394 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: 1,572,339 Number of extensions: 63434 Number of successful extensions: 240 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 220 Number of HSP's successfully gapped: 18 Length of query: 544 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 454 Effective length of database: 1,193,720 Effective search space: 541948880 Effective search space used: 541948880 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: 133 (55.8 bits)