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= 0011.0068.p (650 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309883|ref|YP_003773975.1| GGDEF domain/EAL domain signal ... 1314 0.0 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 257 2e-69 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 252 9e-68 gi|300312026|ref|YP_003776118.1| signal transduction protein con... 250 2e-67 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 239 5e-64 >gi|300309883|ref|YP_003773975.1| GGDEF domain/EAL domain signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 650 Score = 1314 bits (3401), Expect = 0.0, Method: Compositional matrix adjust. Identities = 645/650 (99%), Positives = 646/650 (99%) Query: 1 MRLSSWMSSLRNYWRVDHERPQLVIAQYQAFSTKMPMMYLILIINSWALAYTYLDLAPLW 60 MRLSSWMSSLRNYWRVDHERPQLVIAQYQAFSTKMPMMYLILIINSWALAYTYLDLAPLW Sbjct: 1 MRLSSWMSSLRNYWRVDHERPQLVIAQYQAFSTKMPMMYLILIINSWALAYTYLDLAPLW 60 Query: 61 LGLYFPAVLSVLCSVRLLFWWRNRHLVPTPVAAAQALRRTNLLVAPIALSFSLWSIMLFP 120 LGLYFPAVLSVLCSVRLLFWWRNRHLVPTPVAAAQALRRTNLLVAPIALSFSLWSIMLFP Sbjct: 61 LGLYFPAVLSVLCSVRLLFWWRNRHLVPTPVAAAQALRRTNLLVAPIALSFSLWSIMLFP 120 Query: 121 YGNAYAQAHVAFYMGITVICCIFCLMYLRSAALTGALIVNGIFTVFFLSTHIPVFVAAAL 180 YGNAYAQAHVAFYMGITVICCIFCLMYLRSAALTGALIVNGIFTVFFLSTHIPVFVAAAL Sbjct: 121 YGNAYAQAHVAFYMGITVICCIFCLMYLRSAALTGALIVNGIFTVFFLSTHIPVFVAAAL 180 Query: 181 NVVLVTIGMLVIVNSHYEDFTRLVEAQLRTAVLSDENLQLANVDSLTQIPNRRKFFAQLN 240 NVVLVTIGMLVIVNSHYEDFTRLVEAQLRTAVLSDENLQLANVDSLTQIPNRRKFFAQLN Sbjct: 181 NVVLVTIGMLVIVNSHYEDFTRLVEAQLRTAVLSDENLQLANVDSLTQIPNRRKFFAQLN 240 Query: 241 EICARAHGAQQRFAVAILDLDGFKAVNDLYGHSHGDRLLEQVGQRLLAACRDPALHLARL 300 EICARAHGAQQRFAVAILDLDGFKAVNDLYGHSHGDRLLEQVGQRLL ACRDPALHLARL Sbjct: 241 EICARAHGAQQRFAVAILDLDGFKAVNDLYGHSHGDRLLEQVGQRLLTACRDPALHLARL 300 Query: 301 GGDEFALIIDRDLSDAALQEIGQQLCHTLRPAFVLDKAVVQIAASVGVATFPDMAADAAA 360 GGDEFALIIDRDLSDAALQEIGQQLCHTLR AFVLDKAVVQIAASVGVATFPDMAADAA Sbjct: 301 GGDEFALIIDRDLSDAALQEIGQQLCHTLRRAFVLDKAVVQIAASVGVATFPDMAADAAT 360 Query: 361 LYEHADYALYQGKRERRGTVTLFSEHDKAQIRRKSNIEQALRLADFERELSVFFQPIVRL 420 LYEHADYALYQGKRERRGTVTLFSEHDKAQIRRKSNIEQALRLADFERELSVFFQPIVRL Sbjct: 361 LYEHADYALYQGKRERRGTVTLFSEHDKAQIRRKSNIEQALRLADFERELSVFFQPIVRL 420 Query: 421 DDGQVIAFEALARWHSTVKGAVSPVEFIPAAERMGIINQLSVILLRKALAAAASWPAQIR 480 DDGQVIAFEALARWHSTVKGAVSPVEFIPAAERMGIINQLSVILLRKALAAAASWPAQIR Sbjct: 421 DDGQVIAFEALARWHSTVKGAVSPVEFIPAAERMGIINQLSVILLRKALAAAASWPAQIR 480 Query: 481 LSFNLSANDINSSEGMAAIIKLIRESGFCPSRLDLEITETALLQDLEKTRQLIHSLRQLG 540 LSFNLSANDINSSEGMA IIKLIRESGFCPSRLDLEITETALLQDLEKTRQLIHSLRQLG Sbjct: 481 LSFNLSANDINSSEGMAEIIKLIRESGFCPSRLDLEITETALLQDLEKTRQLIHSLRQLG 540 Query: 541 CGITLDDFGTGYASLSHLHALPLTRIKIDKSFVADIGQDAVSLKIVKSLLALTLDMDLAC 600 CGITLDDFGTGYASLSHLHALPLTRIKIDKSFVADIGQDAVSLKIVKSLLALTLDMDLAC Sbjct: 541 CGITLDDFGTGYASLSHLHALPLTRIKIDKSFVADIGQDAVSLKIVKSLLALTLDMDLAC 600 Query: 601 VVEGLETPQHLAVLRELGAVYGQGYLYARPMAADDVAPWLAQRAARVQAG 650 VVEGLETPQHLAVLRELGA+YGQGYLYARPMAADDVAPWLAQRAARVQAG Sbjct: 601 VVEGLETPQHLAVLRELGAMYGQGYLYARPMAADDVAPWLAQRAARVQAG 650 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 257 bits (656), Expect = 2e-69, Method: Compositional matrix adjust. Identities = 165/440 (37%), Positives = 248/440 (56%), Gaps = 20/440 (4%) Query: 221 ANVDSLTQIPNRRKFFAQLNEI--CARAHGAQQRFAVAILDLDGFKAVNDLYGHSHGDRL 278 A D+LT +PNR L AR GA AVA +DLD FK +ND GH GD L Sbjct: 266 ATHDALTGLPNRNMLHEHLQRALRVARQKGALT--AVAFVDLDQFKFINDSLGHQVGDEL 323 Query: 279 LEQVGQRLLAACRDPALHLARLGGDEFALII-DRDLSDAALQEIGQQ-LCHTLRPAFVLD 336 L+ V QRL A R+ + +AR GGDEF L++ ++ +A + E+ Q+ L RP D Sbjct: 324 LKTVAQRLQACLREADM-VARQGGDEFVLVLQNQTEGEAGIAEVMQRILAAVARPWQAGD 382 Query: 337 KAVVQIAASVGVATFPDMAADAAALYEHADYALYQGKRERRGTVTLFSEHDKAQIRRKSN 396 + Q+ AS+GV+ +P D +L +HAD A+Y+ K + R F+ +Q+ + Sbjct: 383 RE-FQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFAPWMDSQVSNRLE 441 Query: 397 IEQALRLADFERELSVFFQPIVRLDDGQVIAFEALARWHSTVKGAVSPVEFIPAAERMGI 456 + LR A + E +++QP + L DG++I EAL RW S +G V P FIP AE G+ Sbjct: 442 MLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPPDRFIPFAEEAGL 501 Query: 457 INQLSVILLRKALAAAASWP----AQIRLSFNLSANDINSS--EGMAAIIKLIRESGFCP 510 I + +LR A +W I ++ NLS +N S + +A ++ +SG Sbjct: 502 IVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQSLPDFVAGVLA---QSGLAA 558 Query: 511 SRLDLEITETALLQDLEKTRQLIHSLRQLGCGITLDDFGTGYASLSHLHALPLTRIKIDK 570 S L+LEITE +++D EK+ +H+L++LG I++DDFGTGY+SLS+L P+ +KIDK Sbjct: 559 SWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDK 618 Query: 571 SFVADIGQDAVSLKIVKSLLALTLDMDLACVVEGLETPQHLAVLRELGAVYGQGYLYARP 630 SFV DI +DA S IVK++++L ++L + EG+E + A L+E QGY + +P Sbjct: 619 SFVRDIVRDADSAAIVKAIISLAHILNLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKP 678 Query: 631 MAADDVAPWLAQRAARVQAG 650 M W++++A QAG Sbjct: 679 MEVAVFTAWMSEQA---QAG 695 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 252 bits (643), Expect = 9e-68, Method: Compositional matrix adjust. Identities = 179/543 (32%), Positives = 260/543 (47%), Gaps = 34/543 (6%) Query: 123 NAYAQAHVAFYMGITVICCIFCLMYLRSAALTGALIVNGIFTV-------------FFLS 169 AY++A ++G V CC SAA TG +++ L Sbjct: 446 EAYSKAIDGLHVGPMVGCC-------GSAAYTGQTVISEDIQTDPHWNDYKHLALPHGLR 498 Query: 170 THIPVFVAAALNVVLVTIGMLVIVNSHYEDFTRL-VEAQLRTAVLSDENL-------QLA 221 + +A V+ T G F L VEA L L+ E QLA Sbjct: 499 ACWSTPIKSASGQVIGTFGFYYRHPGQPSAFHHLLVEAGLHLCALAIEREDARARIHQLA 558 Query: 222 NVDSLTQIPNRRKFFAQLNEICARAHGAQQRFAVAILDLDGFKAVNDLYGHSHGDRLLEQ 281 DSLT +PNR Q + A A AV +DLD FK VND GH GD LL Sbjct: 559 FYDSLTGLPNRSLLLVQAGQAIAAAERNCSTVAVMFIDLDRFKQVNDSLGHQAGDELLRT 618 Query: 282 VGQRLLAACRDPALHLARLGGDEFALIIDRDLSDAALQEIGQQLCHTLRPAFVLDKAVVQ 341 V RL + R + + RL GDEF +++ + L E+ +++ L ++ + Sbjct: 619 VATRLQSQARRSDI-VGRLSGDEFVVVLTQ-YDTQHLTEVVKRIQERLAMPCHINGTPLN 676 Query: 342 IAASVGVATFPDMAADAAALYEHADYALYQGKRERRGTVTLFSEHDKAQIRRKSNIEQAL 401 +AS+GVA FPD D L AD A+YQ K RG + FSE + + + +E AL Sbjct: 677 PSASIGVAIFPDNGNDIETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMAQERLALESAL 736 Query: 402 RLADFERELSVFFQPIVRLDDGQVIAFEALARWHSTVKGAVSPVEFIPAAERMGIINQLS 461 R A +L + FQP ++L D + EALARWH G +SP FIP AE G+I +L Sbjct: 737 RDALRGGDLELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIAEECGLIGELG 796 Query: 462 VILLRKALAAAASWPAQ----IRLSFNLSANDINSSEGMAAIIKLIRESGFCPSRLDLEI 517 L +A + W + +S NLSA + + + + L+R PS L LEI Sbjct: 797 KWALEEACFQLSDWRRRGIQVPSISVNLSATNFHDLDLPQFVTGLLRRYALEPSDLTLEI 856 Query: 518 TETALLQDLEKTRQLIHSLRQLGCGITLDDFGTGYASLSHLHALPLTRIKIDKSFVADIG 577 TET L+ T Q I ++ LG + +DDFGTGY+SL +L LP++ +K+D+SFV D+ Sbjct: 857 TETVLMDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSELKLDQSFVRDMA 916 Query: 578 QDAVSLKIVKSLLALTLDMDLACVVEGLETPQHLAVLRELGAVYGQGYLYARPMAADDVA 637 +D + +++ + + L V EG+E + A+L G QGYL++RPM+AD + Sbjct: 917 KDPAVSALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVAQGYLFSRPMSADALE 976 Query: 638 PWL 640 W+ Sbjct: 977 NWV 979 >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 = 250 bits (639), Expect = 2e-67, Method: Compositional matrix adjust. Identities = 146/442 (33%), Positives = 242/442 (54%), Gaps = 8/442 (1%) Query: 214 SDENLQ-LANVDSLTQIPNRRKFFAQLNEICARAHGAQQRFAVAILDLDGFKAVNDLYGH 272 +DE ++ LA+ D LT +PNR ++ A AV ++DLD FK +ND +GH Sbjct: 662 ADERIRHLAHYDELTGLPNRFLCTQHVSNAITHAEHRNGMVAVILMDLDRFKNINDTFGH 721 Query: 273 SHGDRLLEQVGQRLLAACRDPALHLARLGGDEFALIIDRDLSDAA-LQEIGQQLCHTLRP 331 G+ +L+++ QR + R+ + LAR+GGDEF +++D D D L EI Q+L R Sbjct: 722 ETGEAVLQEIAQRFRNSLRELDI-LARVGGDEFIVLVD-DFDDPVQLGEIAQKLLTEARK 779 Query: 332 AFVLDKAVVQIAASVGVATFPDMAADAAALYEHADYALYQGKRERRGTVTLFSEHDKAQI 391 F++D ++ S+G+AT+P +A L ++AD A+Y+ K + FS+ Sbjct: 780 PFIIDGQEAMLSVSIGIATYPGDGDNAQTLIKNADIAMYRAKHHGKDDYRFFSDEINTNT 839 Query: 392 RRKSNIEQALRLADFERELSVFFQPIVRLDDGQVIAFEALARWHSTVKGAVSPVEFIPAA 451 + +E LR A E V +QP + L +G+++ EAL RW ++G + P EFI A Sbjct: 840 VERIALEAELRRAIERAEFVVHYQPKIELAEGRIVGAEALVRWQHPLRGLLPPGEFITLA 899 Query: 452 ERMGIINQLSVILLRKALAAAASWPAQI----RLSFNLSANDINSSEGMAAIIKLIRESG 507 E +I+Q+ +++L A Q R+S NL+ + + I +++ G Sbjct: 900 EETRLIDQIGLLVLDVACRDIGLMRQQQMTCGRISINLTGSQFGDERLLDDIKEVVDRHG 959 Query: 508 FCPSRLDLEITETALLQDLEKTRQLIHSLRQLGCGITLDDFGTGYASLSHLHALPLTRIK 567 PS L+ EITE+ ++ + E+ ++ +R G I++DDFGTGY+SL++L P+ +K Sbjct: 960 TPPSCLEFEITESMVMHNRERAIAIMDGIRAEGFTISIDDFGTGYSSLAYLKRFPVNTLK 1019 Query: 568 IDKSFVADIGQDAVSLKIVKSLLALTLDMDLACVVEGLETPQHLAVLRELGAVYGQGYLY 627 IDKSF+ DI + S IV++++A++ ++L V EG+ET + L LRE G+ QGY + Sbjct: 1020 IDKSFINDIPDNPNSSAIVQAIIAMSHALNLKVVTEGVETEKQLQALREFGSDEYQGYYF 1079 Query: 628 ARPMAADDVAPWLAQRAARVQA 649 ++P+ LA + R Q Sbjct: 1080 SKPVPYAQFVQLLAGQQDRPQG 1101 >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 = 239 bits (610), Expect = 5e-64, Method: Compositional matrix adjust. Identities = 152/426 (35%), Positives = 220/426 (51%), Gaps = 5/426 (1%) Query: 221 ANVDSLTQIPNRRKFFAQLNEICARAHGAQQRFAVAILDLDGFKAVNDLYGHSHGDRLLE 280 A+ D+LT + NR L + A +Q V +DLD FK VND GH GD LL Sbjct: 519 ASRDTLTGLINRHMLRHHLEQAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLR 578 Query: 281 QVGQRLLAACRDPALHLARLGGDEFALIIDRDLSDAALQEIGQQLCHTLRPAFVLDKAVV 340 V RL AA R+ A +ARLGGDEF +I+ Q++ + L + Sbjct: 579 TVAGRLRAAVRE-ADTVARLGGDEFIMILPEQDELTLDTRSLQRIMDAVAAPVTLGGHTL 637 Query: 341 QIAASVGVATFPDMAADAAALYEHADYALYQGKRERRGTVTLFSEHDKAQIRRKSNIEQA 400 + SVGVA +P+ D L +HAD A+Y+GK+ R ++ Q + IE Sbjct: 638 FMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGD 697 Query: 401 LRLADFERELSVFFQPIVRLDDGQVIAFEALARWHSTVKGAVSPVEFIPAAERMGIINQL 460 LR A E + +QP V L G+VI EAL RW G VSP FI AE G+I + Sbjct: 698 LRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPI 757 Query: 461 SVILLRKALAAAASWP----AQIRLSFNLSANDINSSEGMAAIIKLIRESGFCPSRLDLE 516 +LR A W A I +S NLS + +++I ++ ++G P L+LE Sbjct: 758 GAWVLRAACTQCRQWQLGGYADISVSVNLSVGQFLQKDLVSSIADVLEDTGLPPESLELE 817 Query: 517 ITETALLQDLEKTRQLIHSLRQLGCGITLDDFGTGYASLSHLHALPLTRIKIDKSFVADI 576 +TE+ ++ D+E ++ L++LG +++DDFGTGY+SL++L P+ +KID+SFV DI Sbjct: 818 LTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLAYLKRFPIDVLKIDRSFVRDI 877 Query: 577 GQDAVSLKIVKSLLALTLDMDLACVVEGLETPQHLAVLRELGAVYGQGYLYARPMAADDV 636 DA I S+++L + L + EG+ET + L LR G QGYL++ P+ AD Sbjct: 878 TIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRHYGCDEIQGYLFSPPVPADKF 937 Query: 637 APWLAQ 642 L Q Sbjct: 938 EQILRQ 943 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 0.326 0.138 0.410 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: 1,881,250 Number of extensions: 75737 Number of successful extensions: 405 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 352 Number of HSP's successfully gapped: 43 Length of query: 650 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 559 Effective length of database: 1,188,985 Effective search space: 664642615 Effective search space used: 664642615 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.7 bits) S2: 134 (56.2 bits)