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= 0008.0024.p (715 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... 304 2e-83 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 286 4e-78 gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protei... 271 1e-73 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 261 1e-70 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 257 2e-69 >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 = 304 bits (779), Expect = 2e-83, Method: Compositional matrix adjust. Identities = 181/436 (41%), Positives = 250/436 (57%), Gaps = 17/436 (3%) Query: 203 MYHVWARFRSENVLAFQAAHDPLTGLAHRGSFERRLKTM------ADQPHTVVLGMIDRF 256 +Y + + R E L FQA+ D LTGL +R L+ Q VV +DRF Sbjct: 502 LYDITSMKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRF 561 Query: 257 ERVVGGLGHAFGDRLMQEMATRIKRAAERHGGEVFRLNGANVAILYKSHGDNVSFQEALS 316 + V LGH GD L++ +A R+ RAA R V RL G ++ + +L Sbjct: 562 KFVNDTLGHKAGDTLLRTVAGRL-RAAVREADTVARLGGDEFIMILPEQDELTLDTRSLQ 620 Query: 317 SLQEYMRQPFEFGQHEIFSSMSMGGAEYPRDGA------APAAIASLXADAGG-DCFVQY 369 + + + P G H +F + S+G A YP DG A IA G + F Y Sbjct: 621 RIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFY 680 Query: 370 SNALNTRAQERLALEAQLRHAIERNELELHFQPQQGLTDDRLVGFEALVRWRR-NGELIS 428 + A+N +A ERL +E LR+A++ E LH+QP+ L R++G EAL+RW+ ++S Sbjct: 681 TPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVS 740 Query: 429 PADFIPLAEESGLIVPIGDWVLAEACRQAKIWSLETPRKFVIAVNISPRQFHHPSFLRRV 488 PA FI LAEE+GLI+PIG WVL AC Q + W L ++VN+S QF + + Sbjct: 741 PARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSI 800 Query: 489 TTTLAESMIDPSFIELEITEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLK 548 L ++ + P +ELE+TE ++M DVE I +L L+K G+ L+IDDFGTGYSSLAYLK Sbjct: 801 ADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLK 860 Query: 549 RFSIDKLKIDQSFIRHLRPNSEDAAIVQAVINLGHHLGLSVIAEGVETVTQRELLRAWGC 608 RF ID LKID+SF+R + +++DAAI ++I+L HL L VIAEGVET Q + LR +GC Sbjct: 861 RFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGC 920 Query: 609 DEIQGYFYGRPAVVPA 624 DEIQGY + P VPA Sbjct: 921 DEIQGYLFSPP--VPA 934 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 286 bits (732), Expect = 4e-78, Method: Compositional matrix adjust. Identities = 165/440 (37%), Positives = 254/440 (57%), Gaps = 24/440 (5%) Query: 219 QAAHDPLTGLAHRG----SFERRLKTMADQPHTVVLGMID--RFERVVGGLGHAFGDRLM 272 QA HD LTGL +R +R L+ + + +D +F+ + LGH GD L+ Sbjct: 265 QATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFKFINDSLGHQVGDELL 324 Query: 273 QEMATRIKRAAERHGGEVFRLNGANVAILYKSHGD-NVSFQEALSSLQEYMRQPFEFGQH 331 + +A R++ A R V R G ++ ++ + E + + + +P++ G Sbjct: 325 KTVAQRLQ-ACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQAGDR 383 Query: 332 EIFSSMSMGGAEYPRDGAAPAAIASLXADA-------GGDCFVQYSNALNTRAQERLALE 384 E + S+G + YP DG ++ A G + F ++ ++++ RL + Sbjct: 384 EFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRLEML 443 Query: 385 AQLRHAIERNELELHFQPQQGLTDDRLVGFEALVRWRRNGELISPAD-FIPLAEESGLIV 443 LR A++++E +L++QP+ L D RL+G EAL+RW + + P D FIP AEE+GLIV Sbjct: 444 INLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAGLIV 503 Query: 444 PIGDWVLAEACRQAKIWSLETPRKFVIAVNISPRQFHH--PSFLRRVTTTLAESMIDPSF 501 PIG+WVL ACRQ + W +AVN+SPRQ + P F V LA+S + S+ Sbjct: 504 PIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQSLPDF---VAGVLAQSGLAASW 560 Query: 502 IELEITEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSF 561 +ELEITE +VM+D E+++ L L++ GL +++DDFGTGYSSL+YL+RF +D LKID+SF Sbjct: 561 LELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSF 620 Query: 562 IRHLRPNSEDAAIVQAVINLGHHLGLSVIAEGVETVTQRELLRAWGCDEIQGYFYGRP-- 619 +R + +++ AAIV+A+I+L H L L VIAEGVE Q L+ CDE+QGY++G+P Sbjct: 621 VRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPME 680 Query: 620 -AVVPAVLRPAAAAGAVVPA 638 AV A + A AG V+ Sbjct: 681 VAVFTAWMSEQAQAGQVLSC 700 >gi|300312606|ref|YP_003776698.1| EAL domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 695 Score = 271 bits (693), Expect = 1e-73, Method: Compositional matrix adjust. Identities = 170/413 (41%), Positives = 234/413 (56%), Gaps = 18/413 (4%) Query: 222 HDPLTGLAHRGSFERRL-----KTMADQPHTVVLGM-IDRFERVVGGLGHAFGDRLMQEM 275 HD LT L +R E RL K +Q H ++ M +D F+ + LGH GDRL+ E+ Sbjct: 268 HDQLTRLPNRTLLEDRLNQAINKAAREQGHFALMFMDLDGFKAINDSLGHHVGDRLLVEV 327 Query: 276 ATRIKRAAERHGGEVFRLNGANVAILYKSHGDNVSFQEALSSLQEYMRQPFEFGQHEIFS 335 A R+ ++ R V RL G IL + + A L E + QPF+ QHE+ Sbjct: 328 AQRLT-SSSRANDTVARLGGDEFVILVDLNTPEDAMGVA-EKLVEAVNQPFKVDQHELRV 385 Query: 336 SMSMGGAEYPRDGAAPAAIASLXADA--------GGDCFVQYSNALNTRAQERLALEAQL 387 S S+G A YP DGA + + ADA G + + + ++N AQ++L L Sbjct: 386 SASVGIAIYPEDGATRHDLV-INADAAMYHTKRSGRNGYHFFEPSMNANAQQQLQWLQDL 444 Query: 388 RHAIERNELELHFQPQQGLTDDRLVGFEALVRWRRNGE-LISPADFIPLAEESGLIVPIG 446 R A+ER + L +QP+ L ++G EAL+RW L++P FI LAE SGLI+PIG Sbjct: 445 RVALERGQFRLVYQPKFSLPAGPVLGAEALLRWEHPVHGLVAPDQFIGLAERSGLILPIG 504 Query: 447 DWVLAEACRQAKIWSLETPRKFVIAVNISPRQFHHPSFLRRVTTTLAESMIDPSFIELEI 506 WVL EACRQ + W + ++VN+S QF P L V TTL + P + LE+ Sbjct: 505 AWVLDEACRQMREWFALGYVDWTMSVNLSALQFADPHLLEVVRTTLERHQLPPPCLTLEV 564 Query: 507 TEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLKIDQSFIRHLR 566 TE M D E +++ L + G+ ++IDDFGTGYSSL YLKR ++LKID+ F+R LR Sbjct: 565 TESTAMHDTEASLQTLRQIADLGVEISIDDFGTGYSSLLYLKRLPANELKIDRGFVRELR 624 Query: 567 PNSEDAAIVQAVINLGHHLGLSVIAEGVETVTQRELLRAWGCDEIQGYFYGRP 619 + EDAAIV A++ LG L L ++AEGVETV Q++ L A GCD +QGY GRP Sbjct: 625 QDGEDAAIVSAIVALGRTLNLRIVAEGVETVEQQDFLTAAGCDALQGYLMGRP 677 >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 = 261 bits (667), Expect = 1e-70, Method: Compositional matrix adjust. Identities = 165/423 (39%), Positives = 234/423 (55%), Gaps = 15/423 (3%) Query: 211 RSENVLAFQAAHDPLTGLAHRGSFERRLK---TMADQPH---TVVLGMIDRFERVVGGLG 264 R++ + A +D LTGL +R + + T A+ + V+L +DRF+ + G Sbjct: 661 RADERIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFG 720 Query: 265 HAFGDRLMQEMATRIKRAAERHGGEVFRLNGANVAILYKSHGDNVSFQEALSSLQEYMRQ 324 H G+ ++QE+A R R + R + R+ G +L D V E L R+ Sbjct: 721 HETGEAVLQEIAQRF-RNSLRELDILARVGGDEFIVLVDDFDDPVQLGEIAQKLLTEARK 779 Query: 325 PFEFGQHEIFSSMSMGGAEYPRDG------AAPAAIASLXADA-GGDCFVQYSNALNTRA 377 PF E S+S+G A YP DG A IA A G D + +S+ +NT Sbjct: 780 PFIIDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNT 839 Query: 378 QERLALEAQLRHAIERNELELHFQPQQGLTDDRLVGFEALVRWRRNGE-LISPADFIPLA 436 ER+ALEA+LR AIER E +H+QP+ L + R+VG EALVRW+ L+ P +FI LA Sbjct: 840 VERIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLA 899 Query: 437 EESGLIVPIGDWVLAEACRQAKIWSLETPRKFVIAVNISPRQFHHPSFLRRVTTTLAESM 496 EE+ LI IG VL ACR + + I++N++ QF L + + Sbjct: 900 EETRLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEVVDRHG 959 Query: 497 IDPSFIELEITEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKRFSIDKLK 556 PS +E EITE +VM + ER I +++ +R G T++IDDFGTGYSSLAYLKRF ++ LK Sbjct: 960 TPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLK 1019 Query: 557 IDQSFIRHLRPNSEDAAIVQAVINLGHHLGLSVIAEGVETVTQRELLRAWGCDEIQGYFY 616 ID+SFI + N +AIVQA+I + H L L V+ EGVET Q + LR +G DE QGY++ Sbjct: 1020 IDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYF 1079 Query: 617 GRP 619 +P Sbjct: 1080 SKP 1082 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 257 bits (657), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 164/430 (38%), Positives = 236/430 (54%), Gaps = 17/430 (3%) Query: 206 VWARFRSENVLAFQAAHDPLTGLAHR---GSFERRLKTMADQ---PHTVVLGMIDRFERV 259 V R E L QA +DPL+GL +R G +R A + P VV +DRF+ V Sbjct: 299 VTRRKEVEFKLRHQANYDPLSGLPNRRLLGDMLQREVASAKKHAYPLAVVFIDLDRFKDV 358 Query: 260 VGGLGHAFGDRLMQEMATRIKRAAERHGGEVFRLNGANVAILYKSHGDNVSFQEALSSLQ 319 LGH+ GD+L+ A R+ RA+ R V RL G + + + + Sbjct: 359 NDSLGHSVGDQLLVVAAQRV-RASVREHDLVARLAGDEFVAVLPRLEASAALTRIGDDIV 417 Query: 320 EYMRQPFEFGQHEIFSSMSMGGAEYPRDGAAPAAI------ASLXADAGG-DCFVQYSNA 372 + +PF+ G+H + S S+G A YP D + A A GG + ++ Sbjct: 418 AALAEPFQLGEHRVRISASVGIAIYPHDADTVTTLIGCADQAMFAAKGGGRNGLAFFTED 477 Query: 373 LNTRAQERLALEAQLRHAIERNELELHFQPQQGLTDDRLVGFEALVRWRRNG-ELISPAD 431 + ++ ER L L A++ + ELHFQP L + EALVRWR +ISP Sbjct: 478 MREKSFERRRLLNDLYDALQEGQFELHFQPALELQSGVIHKAEALVRWRHPAFGMISPDR 537 Query: 432 FIPLAEESGLIVPIGDWVLAEACRQAKIWSLE--TPRKFVIAVNISPRQFHHPSFLRRVT 489 FIPLAEESGLI +G W+L EA R + W+ + +P + I+VN+SP QF + + V Sbjct: 538 FIPLAEESGLIFDLGRWILQEAARVSVRWNAQGTSPFRKQISVNLSPVQFLNGHYDAIVM 597 Query: 490 TTLAESMIDPSFIELEITEGIVMRDVERTIELLEDLRKRGLTLAIDDFGTGYSSLAYLKR 549 L+ P I +EITEG+++ D E L +LR G+ +A+DDFGTGYS+++YLK+ Sbjct: 598 DQLSLQGCQPGLIAIEITEGLLLDDSEAVRSQLNNLRAAGIQVALDDFGTGYSAMSYLKK 657 Query: 550 FSIDKLKIDQSFIRHLRPNSEDAAIVQAVINLGHHLGLSVIAEGVETVTQRELLRAWGCD 609 FS+D LKID+SF++ + + AIV+A+I + H LG+ VIAEGVET+ Q +LLR GC+ Sbjct: 658 FSMDYLKIDRSFVQDMVDADSNKAIVEAIIVMAHRLGMKVIAEGVETMVQAQLLRDAGCE 717 Query: 610 EIQGYFYGRP 619 +QGY Y RP Sbjct: 718 YVQGYLYSRP 727 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 0.137 0.406 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: 2,000,088 Number of extensions: 79350 Number of successful extensions: 388 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 334 Number of HSP's successfully gapped: 18 Length of query: 715 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 623 Effective length of database: 1,184,250 Effective search space: 737787750 Effective search space used: 737787750 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: 134 (56.2 bits)