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= 0001.2302.p (880 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [... 516 e-147 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 400 e-112 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 369 e-103 gi|300311036|ref|YP_003775128.1| signal transduction protein [He... 327 2e-90 gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodies... 322 7e-89 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 516 bits (1329), Expect = e-147, Method: Compositional matrix adjust. Identities = 273/569 (47%), Positives = 364/569 (63%), Gaps = 3/569 (0%) Query: 309 REVARRTARLQQSEASLRIAAAAFHSSEAIWVMDADRKVLEANDAFTELTGYRQDELDEH 368 R +R +Q EA LRI+A AF S E + + DA+ K+L N AFTE+TGY +E+ Sbjct: 458 RTSSRDITDRKQIEAELRISAVAFDSREGMLITDANSKILRVNKAFTEITGYSAEEIVGK 517 Query: 369 GMPLCRRDELHDDFRAELWTRVQYEGKWQGELLVLHKNGQTFWAMLTLTAVADPHGKVSH 428 L R D F E+ ++ GKWQGE+ KNG+ + LT++AV + +V+H Sbjct: 518 HPNLLRSDRHGPAFFQEMRESIRRFGKWQGEIWDRRKNGEVYPEWLTISAVKNKDQQVTH 577 Query: 429 YVGTQVDISSQKRLQEETRQLAFYDPLTGLPNRRLLLEKIEAAGASESTRNEVAGALFFV 488 YV T DIS +K +E R+LAF+D LT LPNR LLL++++ A A S R + AL F+ Sbjct: 578 YVSTHHDISDRKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIAL-SLRTKTCAALLFI 636 Query: 489 DIDNFKDLNDALGHSLGDQLLSQIAARLLKLTGSSGLVARLGGDEFVVLLPSALAVQDQK 548 D+D+FK LND +GH GD LL Q+A RLL + VAR+GGDEFVV+L +Q + Sbjct: 637 DLDHFKTLNDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEFVVVLEGLNELQQEA 696 Query: 549 QEQDVASQFAQRIIDVMQERFDLSGVSHFATCSVGVALMRAHGANVEDLLRQGDLAMYAA 608 Q A ++I+ + + L V + T S+G + A+V++L++Q DLAMY A Sbjct: 697 ATQTRA--IGEKILTALGSTYQLDDVEYRTTASIGATVFLGRAASVDELMKQADLAMYKA 754 Query: 609 KQKGRNTFCLFDQEMEYALHFRTGLESDLRRAIDSGEFELHYQPQRDQEGTLIGVEALAR 668 K+ GRN FD M+ A+ R LE+ LR+AID + LHYQPQ + G + G E L R Sbjct: 755 KETGRNALRFFDPAMQTAVLERATLEAGLRKAIDGNQLLLHYQPQVVEGGRVTGAEVLVR 814 Query: 669 WNSPFRGSVSPAIFIPVAEASGLILPLGQWVFQQACRQSVRWNRQGHKTPVVIAVNVSAV 728 W P RG V P FIP+AE +GLIL LG WV + ACRQ W Q + IAVNVSA Sbjct: 815 WQHPQRGMVPPGDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQMADLSIAVNVSAP 874 Query: 729 QLHQPDFVQHILATLQATGADPSHLKLELTESAMVEDVQATIEKMLELKRHGLALSLDDF 788 QL +PDFVQ +L T++ TGA+P LKLELTES +V++V+ I+KM LK +G+ SLDDF Sbjct: 875 QLREPDFVQTVLDTIERTGANPRRLKLELTESLLVDNVEDIIQKMFALKAYGVEFSLDDF 934 Query: 789 GTGYSSLSLLKRLPIDQIKIDQSFVRELLVAPSDVAIAKTIIALANALGLEVLAEGVETR 848 GTGYSSLS LKRLP++Q+KIDQSFVR++L+ P+D +IAKTI+ LA +LGL V+AEGVET Sbjct: 935 GTGYSSLSYLKRLPLNQLKIDQSFVRDVLIDPNDASIAKTIVNLAQSLGLGVIAEGVETD 994 Query: 849 EQQQFLALLGCTRYQGYLFGRPLPAEQFD 877 Q+ FLA GC YQGY F RP+ E F+ Sbjct: 995 AQRSFLADAGCHAYQGYFFCRPVTVEAFE 1023 >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 = 400 bits (1027), Expect = e-112, Method: Compositional matrix adjust. Identities = 251/623 (40%), Positives = 341/623 (54%), Gaps = 45/623 (7%) Query: 291 GGALALLV--VASLMAIYLRREVARRTARLQQ-------------------------SEA 323 G L LLV +ASL+ R ++ R+ R+QQ +E Sbjct: 329 GSLLILLVGVIASLLGAAYMRALSMRSHRIQQLVEERTAELRTTNALLSDDIKARRLAER 388 Query: 324 SLRIAAAAFHSS-EAIWVMDA---DRKVLEANDAFTELTGYRQDELDEHGMPLCR-RDEL 378 +LR+ A +S AI ++ A D + N AF +TGY E + RD Sbjct: 389 ALRLRHQAIEASANAILILSAQEPDYTIEYVNPAFARITGYSSTEAVGKSIRFLEGRDSD 448 Query: 379 HDDFRAELWTRVQYEGKWQGELLVLHKNGQTFWAMLTLTAVADPHGKVSHYVGTQVDISS 438 + F +W ++ + + L HK+G W + V D G+V+H+V DI+S Sbjct: 449 PEGFET-VWIAMREQREHNVVLRNYHKDGSELWNDFYIAPVRDESGEVTHFVAALYDITS 507 Query: 439 QKRLQEETRQLAFYDPLTGLPNRRLLLEKIE-AAGASESTRNEVAGALFFVDIDNFKDLN 497 KR + E A D LTGL NR +L +E A G +E R + A + FVD+D FK +N Sbjct: 508 MKRYEAELEFQASRDTLTGLINRHMLRHHLEQAIGVAE--RQKQALWVVFVDLDRFKFVN 565 Query: 498 DALGHSLGDQLLSQIAARLLKLTGSSGLVARLGGDEFVVLLPSALAVQDQKQEQDVASQF 557 D LGH GD LL +A RL + VARLGGDEF+++LP ++ E + ++ Sbjct: 566 DTLGHKAGDTLLRTVAGRLRAAVREADTVARLGGDEFIMILP-------EQDELTLDTRS 618 Query: 558 AQRIIDVMQERFDLSGVSHFATCSVGVALMRAHGANVEDLLRQGDLAMYAAKQKGRNTFC 617 QRI+D + L G + F TCSVGVA G + E L++ D+AMY KQ GRN F Sbjct: 619 LQRIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETLIKHADIAMYRGKQTGRNNFQ 678 Query: 618 LFDQEMEYALHFRTGLESDLRRAIDSGEFELHYQPQRD-QEGTLIGVEALARWNSPFRGS 676 + M R +E DLR A+D GEF LHYQP+ D G +IG EAL RW P G Sbjct: 679 FYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLASGRVIGSEALIRWQHPQLGM 738 Query: 677 VSPAIFIPVAEASGLILPLGQWVFQQACRQSVRWNRQGHKTPVVIAVNVSAVQLHQPDFV 736 VSPA FI +AE +GLILP+G WV + AC Q +W G+ + ++VN+S Q Q D V Sbjct: 739 VSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYAD-ISVSVNLSVGQFLQKDLV 797 Query: 737 QHILATLQATGADPSHLKLELTESAMVEDVQATIEKMLELKRHGLALSLDDFGTGYSSLS 796 I L+ TG P L+LELTES M+ DV+ I + LK+ G+ LS+DDFGTGYSSL+ Sbjct: 798 SSIADVLEDTGLPPESLELELTESLMMTDVEHAIGILAGLKKLGVRLSIDDFGTGYSSLA 857 Query: 797 LLKRLPIDQIKIDQSFVRELLVAPSDVAIAKTIIALANALGLEVLAEGVETREQQQFLAL 856 LKR PID +KID+SFVR++ + D AI +II+LA L L V+AEGVET EQ +L Sbjct: 858 YLKRFPIDVLKIDRSFVRDITIDADDAAITASIISLARHLKLRVIAEGVETDEQLDYLRH 917 Query: 857 LGCTRYQGYLFGRPLPAEQFDAV 879 GC QGYLF P+PA++F+ + Sbjct: 918 YGCDEIQGYLFSPPVPADKFEQI 940 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 369 bits (946), Expect = e-103, Method: Compositional matrix adjust. Identities = 227/582 (39%), Positives = 328/582 (56%), Gaps = 24/582 (4%) Query: 306 YLRREVARRTARLQQSEASLRIAAAAFHSSEAIWVMDADRKVLEANDAFTELTGYRQDEL 365 +L+ R+ A EA R + ++ E ++ D + N A + GY E Sbjct: 120 FLQDVTERKEAAQALQEAERRYRSIFENAIEGVFQTTPDGTYIAVNPALARIYGYHSPE- 178 Query: 366 DEHGMPLCRRDELHDDF-----RAELWTRVQYEGKWQG-ELLVLHKNGQTFWAMLTLTAV 419 + + RD H + R E ++ +G E V ++G+ W AV Sbjct: 179 ---DLIVGLRDISHQLYVEPERRQEFMRLMEEQGSVSNFESRVYRRDGEIIWISENARAV 235 Query: 420 ADPHGKVSHYVGTQVDISSQKRLQEETRQLAFYDPLTGLPNRRLLLEKIEAAGASESTRN 479 D GK+S Y GT I+ +K + E R A +D LTGLPNR +L E ++ A + Sbjct: 236 YDEAGKLSCYEGTVEAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKG 295 Query: 480 EVAGALFFVDIDNFKDLNDALGHSLGDQLLSQIAARLLKLTGSSGLVARLGGDEFVVLLP 539 + A+ FVD+D FK +ND+LGH +GD+LL +A RL + +VAR GGDEFV++L Sbjct: 296 ALT-AVAFVDLDQFKFINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVL- 353 Query: 540 SALAVQDQKQEQDVASQFAQRIIDVMQERFDLSGVSHFATCSVGVALMRAHGANVEDLLR 599 Q+Q + + ++ QRI+ + + T S+GV+ A G +VE LL+ Sbjct: 354 -----QNQTEGEAGIAEVMQRILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLK 408 Query: 600 QGDLAMYAAKQKGRNTFCLFDQEMEYALHFRTGLESDLRRAIDSGEFELHYQPQRD-QEG 658 D AMY AK++GRN F F M+ + R + +LRRA+D EF+L+YQP+ Q+G Sbjct: 409 HADSAMYRAKEQGRNNFQFFAPWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDG 468 Query: 659 TLIGVEALARWNSPFRGSVSPAIFIPVAEASGLILPLGQWVFQQACRQSVRWNRQGHKTP 718 LIG EAL RW SP +G V P FIP AE +GLI+P+G+WV + ACRQ+ W + G P Sbjct: 469 RLIGAEALIRWESPQQGMVPPDRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAG-LPP 527 Query: 719 VVIAVNVSAVQLHQ--PDFVQHILATLQATGADPSHLKLELTESAMVEDVQATIEKMLEL 776 + +AVN+S QL+Q PDFV +LA +G S L+LE+TE+ +++D + ++ + L Sbjct: 528 IPVAVNLSPRQLNQSLPDFVAGVLAQ---SGLAASWLELEITENVVMKDAEKSVATLHAL 584 Query: 777 KRHGLALSLDDFGTGYSSLSLLKRLPIDQIKIDQSFVRELLVAPSDVAIAKTIIALANAL 836 KR GL +S+DDFGTGYSSLS L+R P+D +KID+SFVR+++ AI K II+LA+ L Sbjct: 585 KRLGLQISVDDFGTGYSSLSYLRRFPVDALKIDKSFVRDIVRDADSAAIVKAIISLAHIL 644 Query: 837 GLEVLAEGVETREQQQFLALLGCTRYQGYLFGRPLPAEQFDA 878 L V+AEGVE EQ FL C QGY FG+P+ F A Sbjct: 645 NLRVIAEGVEDEEQHAFLKENACDEVQGYYFGKPMEVAVFTA 686 >gi|300311036|ref|YP_003775128.1| signal transduction protein [Herbaspirillum seropedicae SmR1] Length = 750 Score = 327 bits (839), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 208/567 (36%), Positives = 310/567 (54%), Gaps = 19/567 (3%) Query: 317 RLQQSEASLRIAAAAFHSSEAIWVMDADRKVLEANDAFTELTGYRQDELDEHGMPLCRRD 376 R++ SE R +S + I D + + + AN AFT TG D+ D + + + Sbjct: 179 RIRSSERQFRTLVD--NSPDVILRYDMEGRCVFANPAFTRETGLMADQ-DINTILDRSAN 235 Query: 377 ELHDDFRAELWTRV-QYEGKWQGELLVL---HKNGQTFWAMLTLTAVADPHGKVSHYVGT 432 DD RV Q +++VL H G + + D ++ + Sbjct: 236 RRWDDESCSFGERVRQVAATGVADVVVLEWRHPQGHLVSHEMHIVPEYDADEQIFGTLAI 295 Query: 433 QVDISSQKRLQEETRQLAFYDPLTGLPNRRLLLEKIEAAGASESTRNEVAGALFFVDIDN 492 D++ +K ++ + R A YDPL+GLPNRRLL + ++ AS + ++ A+ F+D+D Sbjct: 296 GRDVTRRKEVEFKLRHQANYDPLSGLPNRRLLGDMLQREVAS-AKKHAYPLAVVFIDLDR 354 Query: 493 FKDLNDALGHSLGDQLLSQIAARLLKLTGSSGLVARLGGDEFVVLLPSALAVQDQKQEQD 552 FKD+ND+LGHS+GDQLL A R+ LVARL GDEFV +LP + + Sbjct: 355 FKDVNDSLGHSVGDQLLVVAAQRVRASVREHDLVARLAGDEFVAVLP-------RLEASA 407 Query: 553 VASQFAQRIIDVMQERFDLSGVSHFATCSVGVALMRAHGANVEDLLRQGDLAMYAAKQKG 612 ++ I+ + E F L + SVG+A+ V L+ D AM+AAK G Sbjct: 408 ALTRIGDDIVAALAEPFQLGEHRVRISASVGIAIYPHDADTVTTLIGCADQAMFAAKGGG 467 Query: 613 RNTFCLFDQEMEYALHFRTGLESDLRRAIDSGEFELHYQPQRD-QEGTLIGVEALARWNS 671 RN F ++M R L +DL A+ G+FELH+QP + Q G + EAL RW Sbjct: 468 RNGLAFFTEDMREKSFERRRLLNDLYDALQEGQFELHFQPALELQSGVIHKAEALVRWRH 527 Query: 672 PFRGSVSPAIFIPVAEASGLILPLGQWVFQQACRQSVRWNRQGHKTPVV--IAVNVSAVQ 729 P G +SP FIP+AE SGLI LG+W+ Q+A R SVRWN QG +P I+VN+S VQ Sbjct: 528 PAFGMISPDRFIPLAEESGLIFDLGRWILQEAARVSVRWNAQG-TSPFRKQISVNLSPVQ 586 Query: 730 LHQPDFVQHILATLQATGADPSHLKLELTESAMVEDVQATIEKMLELKRHGLALSLDDFG 789 + ++ L G P + +E+TE +++D +A ++ L+ G+ ++LDDFG Sbjct: 587 FLNGHYDAIVMDQLSLQGCQPGLIAIEITEGLLLDDSEAVRSQLNNLRAAGIQVALDDFG 646 Query: 790 TGYSSLSLLKRLPIDQIKIDQSFVRELLVAPSDVAIAKTIIALANALGLEVLAEGVETRE 849 TGYS++S LK+ +D +KID+SFV++++ A S+ AI + II +A+ LG++V+AEGVET Sbjct: 647 TGYSAMSYLKKFSMDYLKIDRSFVQDMVDADSNKAIVEAIIVMAHRLGMKVIAEGVETMV 706 Query: 850 QQQFLALLGCTRYQGYLFGRPLPAEQF 876 Q Q L GC QGYL+ RPLP + F Sbjct: 707 QAQLLRDAGCEYVQGYLYSRPLPEDDF 733 >gi|300310170|ref|YP_003774262.1| diguanylate cyclase/phosphodiesterase A protein [Herbaspirillum seropedicae SmR1] Length = 1002 Score = 322 bits (826), Expect = 7e-89, Method: Compositional matrix adjust. Identities = 180/431 (41%), Positives = 258/431 (59%), Gaps = 11/431 (2%) Query: 448 QLAFYDPLTGLPNRRLLLEKIEAAGASESTRNEVAGALFFVDIDNFKDLNDALGHSLGDQ 507 QLAFYD LTGLPNR LLL + A A+ + RN A+ F+D+D FK +ND+LGH GD+ Sbjct: 556 QLAFYDSLTGLPNRSLLLVQAGQAIAA-AERNCSTVAVMFIDLDRFKQVNDSLGHQAGDE 614 Query: 508 LLSQIAARLLKLTGSSGLVARLGGDEFVVLLPSALAVQDQKQEQDVASQFAQRIIDVMQE 567 LL +A RL S +V RL GDEFVV+L Q Q + ++ +RI + + Sbjct: 615 LLRTVATRLQSQARRSDIVGRLSGDEFVVVLT-------QYDTQHL-TEVVKRIQERLAM 666 Query: 568 RFDLSGVSHFATCSVGVALMRAHGANVEDLLRQGDLAMYAAKQKGRNTFCLFDQEMEYAL 627 ++G + S+GVA+ +G ++E LL + D+AMY AK R F F +EM Sbjct: 667 PCHINGTPLNPSASIGVAIFPDNGNDIETLLHRADIAMYQAKAVNRGRFSFFSEEMNSMA 726 Query: 628 HFRTGLESDLRRAIDSGEFELHYQPQ-RDQEGTLIGVEALARWNSPFRGSVSPAIFIPVA 686 R LES LR A+ G+ EL++QPQ + + +L GVEALARW+ P G +SP FIP+A Sbjct: 727 QERLALESALRDALRGGDLELNFQPQIKLHDQSLHGVEALARWHHPQLGQISPGRFIPIA 786 Query: 687 EASGLILPLGQWVFQQACRQSVRWNRQGHKTPVVIAVNVSAVQLHQPDFVQHILATLQAT 746 E GLI LG+W ++AC Q W R+G + P I+VN+SA H D Q + L+ Sbjct: 787 EECGLIGELGKWALEEACFQLSDWRRRGIQVPS-ISVNLSATNFHDLDLPQFVTGLLRRY 845 Query: 747 GADPSHLKLELTESAMVEDVQATIEKMLELKRHGLALSLDDFGTGYSSLSLLKRLPIDQI 806 +PS L LE+TE+ +++ +T + + + G+ L++DDFGTGYSSL L++LP+ ++ Sbjct: 846 ALEPSDLTLEITETVLMDTNPSTSQTIAAVHALGIPLAMDDFGTGYSSLGYLRKLPVSEL 905 Query: 807 KIDQSFVRELLVAPSDVAIAKTIIALANALGLEVLAEGVETREQQQFLALLGCTRYQGYL 866 K+DQSFVR++ P+ A+ +I + +L L V+AEGVE EQ L GC QGYL Sbjct: 906 KLDQSFVRDMAKDPAVSALTNAVIRIGESLKLTVVAEGVEDAEQYALLISQGCDVAQGYL 965 Query: 867 FGRPLPAEQFD 877 F RP+ A+ + Sbjct: 966 FSRPMSADALE 976 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 0.135 0.399 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: 2,669,629 Number of extensions: 110543 Number of successful extensions: 533 Number of sequences better than 1.0e-08: 44 Number of HSP's gapped: 432 Number of HSP's successfully gapped: 44 Length of query: 880 Length of database: 1,619,870 Length adjustment: 94 Effective length of query: 786 Effective length of database: 1,174,780 Effective search space: 923377080 Effective search space used: 923377080 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 (21.8 bits) S2: 135 (56.6 bits)