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= 0111.0004.p (748 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 [... 295 1e-80 gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodies... 288 1e-78 gi|300314042|ref|YP_003778134.1| signal transduction protein con... 286 3e-78 gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspi... 283 3e-77 gi|300311453|ref|YP_003775545.1| signal transduction containing ... 275 7e-75 >gi|300311871|ref|YP_003775963.1| EAL domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 1036 Score = 295 bits (754), Expect = 1e-80, Method: Compositional matrix adjust. Identities = 223/679 (32%), Positives = 352/679 (51%), Gaps = 45/679 (6%) Query: 84 LSADHVGMVVGRNHGQAVLLR-------QRGAN---LFAVFGIAVETYHLAA----VSAR 129 LSAD +VVG NH + LR Q G N L A GIA+ VS+R Sbjct: 275 LSADEY-VVVG-NHNWTLTLRTNAAFHAQFGRNAEPLIATTGIAMSLSLALLAWLMVSSR 332 Query: 130 GPKLRLKPISVPVGKRLGDDRFQAIVRSSGDAIIGKTLNGIVTSWNEGAERLFGYTEKEM 189 +RL + R +++F+AI + + + L+G N GYT +E Sbjct: 333 VRAVRLAQ-KMTAELRASEEQFRAIADCTVNWEVWWGLDGRPRWINHAVLDYTGYTVEEC 391 Query: 190 LGLQMLRLFPIERLDEEYYI---LERILNGEQVAPFETIRIHKDGSKVPVSVSISPVCDE 246 L + + I ++E I L R ++G++ E + KDGS +++S +P+ D Sbjct: 392 LAMDDF-IGTIAHPEDEPRIRAELARCMDGQKREDVELRCVRKDGSVFWLALSCAPIHDA 450 Query: 247 DGNVVGTSKIARNISNQLRLEGAAEQFRALVDSSDDAIISKTMHGRISSWNRAAETIFGY 306 G G +R+I+++ ++E DS + +I+ + +I N+A I GY Sbjct: 451 QGRFTGFRTSSRDITDRKQIEAELRISAVAFDSREGMLITDA-NSKILRVNKAFTEITGY 509 Query: 307 TEAEMLGQ-PML----RLFPA--ERLEEEAFILNKILAGEKVEHFETVRIHKNGKRIHVS 359 + E++G+ P L R PA + + E K GE + KNG+ Sbjct: 510 SAEEIVGKHPNLLRSDRHGPAFFQEMRESIRRFGK-WQGEIWDR------RKNGEVYPEW 562 Query: 360 ATISPIRDREGNIVGASSIARDITMLRRQQEELEHLAHFDALTDLPNRLLLSDRLRQAIA 419 TIS +++++ + S DI+ + +E + LA FDALT LPNR LL DRL+QAIA Sbjct: 563 LTISAVKNKDQQVTHYVSTHHDISDRKLAEERIRELAFFDALTRLPNRTLLLDRLKQAIA 622 Query: 420 LSKRSGKPLAVLYLDLDGFKLINDLHGHDVGDALLVAISERIVGTLRDTDTLARIGGDEF 479 LS R+ A+L++DLD FK +ND GH+ GD LL +++R++ +R+ DT+AR+GGDEF Sbjct: 623 LSLRTKTCAALLFIDLDHFKTLNDTIGHEKGDTLLKQVAQRLLANVRENDTVARVGGDEF 682 Query: 480 VAVLVDID-----SNAKLKRLLERILKACAIPVQIGDKHLEVTASIGVTTYPYDDVSEDQ 534 V VL ++ + + + + E+IL A Q+ D TASIG T + S D+ Sbjct: 683 VVVLEGLNELQQEAATQTRAIGEKILTALGSTYQLDDVEYRTTASIGATVFLGRAASVDE 742 Query: 535 LMRHADLAMYEAKQAGKNRYHLFDAPREAEGKSRHVYVRRLAEALENDELVLHYQPKVNM 594 LM+ ADLAMY+AK+ G+N FD + R L +A++ ++L+LHYQP+V Sbjct: 743 LMKQADLAMYKAKETGRNALRFFDPAMQTAVLERATLEAGLRKAIDGNQLLLHYQPQVVE 802 Query: 595 KTRTVVGVEALLRWQHPERGLLAPALFLPLIEGHHLNEDIGIWVASNALAQMEQW--RQA 652 R V G E L+RWQHP+RG++ P F+PL E L +G WV A Q+ W + Sbjct: 803 GGR-VTGAEVLVRWQHPQRGMVPPGDFIPLAEETGLILSLGNWVLETACRQLATWAAQPQ 861 Query: 653 GIRMPVSINLAPNQLQDTRFPAVMQELLARYPHIAPCDLELEILETSAMHDIEAVSRVMQ 712 + +++N++ QL++ F + + + R P L+LE+ E+ + ++E + + M Sbjct: 862 MADLSIAVNVSAPQLREPDFVQTVLDTIER-TGANPRRLKLELTESLLVDNVEDIIQKMF 920 Query: 713 SCRELGVQFSIDDFGTGYS 731 + + GV+FS+DDFGTGYS Sbjct: 921 ALKAYGVEFSLDDFGTGYS 939 >gi|300312904|ref|YP_003776996.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domains protein [Herbaspirillum seropedicae SmR1] Length = 701 Score = 288 bits (736), Expect = 1e-78, Method: Compositional matrix adjust. Identities = 170/474 (35%), Positives = 266/474 (56%), Gaps = 14/474 (2%) Query: 266 LEGAAEQFRALVDSSDDAIISKTMHGRISSWNRAAETIFGYTEAEMLGQPM------LRL 319 L+ A ++R++ +++ + + T G + N A I+GY E L + L + Sbjct: 134 LQEAERRYRSIFENAIEGVFQTTPDGTYIAVNPALARIYGYHSPEDLIVGLRDISHQLYV 193 Query: 320 FPAERLEEEAFILNKILAGEKVEHFETVRIHKNGKRIHVSATISPIRDREGNIVGASSIA 379 P R E + + V +FE+ ++G+ I +S + D G + Sbjct: 194 EPERRQE----FMRLMEEQGSVSNFESRVYRRDGEIIWISENARAVYDEAGKLSCYEGTV 249 Query: 380 RDITMLRRQQEELEHLAHFDALTDLPNRLLLSDRLRQAIALSKRSGKPLAVLYLDLDGFK 439 IT + + E+ H A DALT LPNR +L + L++A+ ++++ G AV ++DLD FK Sbjct: 250 EAITERKAHEAEMRHQATHDALTGLPNRNMLHEHLQRALRVARQKGALTAVAFVDLDQFK 309 Query: 440 LINDLHGHDVGDALLVAISERIVGTLRDTDTLARIGGDEFVAVLVD-IDSNAKLKRLLER 498 IND GH VGD LL +++R+ LR+ D +AR GGDEFV VL + + A + +++R Sbjct: 310 FINDSLGHQVGDELLKTVAQRLQACLREADMVARQGGDEFVLVLQNQTEGEAGIAEVMQR 369 Query: 499 ILKACAIPVQIGDKHLEVTASIGVTTYPYDDVSEDQLMRHADLAMYEAKQAGKNRYHLFD 558 IL A A P Q GD+ +VTASIGV+ YP D + L++HAD AMY AK+ G+N + F Sbjct: 370 ILAAVARPWQAGDREFQVTASIGVSRYPADGKDVESLLKHADSAMYRAKEQGRNNFQFFA 429 Query: 559 APREAEGKSRHVYVRRLAEALENDELVLHYQPKVNMKTRTVVGVEALLRWQHPERGLLAP 618 +++ +R + L AL+ DE L+YQPK++++ ++G EAL+RW+ P++G++ P Sbjct: 430 PWMDSQVSNRLEMLINLRRALDQDEFKLYYQPKLSLQDGRLIGAEALIRWESPQQGMVPP 489 Query: 619 ALFLPLIEGHHLNEDIGIWVASNALAQMEQWRQAGI-RMPVSINLAPNQLQDTRFPAVMQ 677 F+P E L IG WV A Q + W+QAG+ +PV++NL+P QL + P + Sbjct: 490 DRFIPFAEEAGLIVPIGEWVLRTACRQNQAWQQAGLPPIPVAVNLSPRQLNQS-LPDFVA 548 Query: 678 ELLARYPHIAPCDLELEILETSAMHDIEAVSRVMQSCRELGVQFSIDDFGTGYS 731 +LA+ +A LELEI E M D E + + + LG+Q S+DDFGTGYS Sbjct: 549 GVLAQ-SGLAASWLELEITENVVMKDAEKSVATLHALKRLGLQISVDDFGTGYS 601 >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 = 286 bits (733), Expect = 3e-78, Method: Compositional matrix adjust. Identities = 165/437 (37%), Positives = 243/437 (55%), Gaps = 4/437 (0%) Query: 297 NRAAETIFGYTEAEMLGQPMLRLFPAERLEEEAFILNKILAGEKVEHFETVR-IHKNGKR 355 N A I GY+ E +G+ +R + E F I E+ EH +R HK+G Sbjct: 420 NPAFARITGYSSTEAVGKS-IRFLEGRDSDPEGFETVWIAMREQREHNVVLRNYHKDGSE 478 Query: 356 IHVSATISPIRDREGNIVGASSIARDITMLRRQQEELEHLAHFDALTDLPNRLLLSDRLR 415 + I+P+RD G + + DIT ++R + ELE A D LT L NR +L L Sbjct: 479 LWNDFYIAPVRDESGEVTHFVAALYDITSMKRYEAELEFQASRDTLTGLINRHMLRHHLE 538 Query: 416 QAIALSKRSGKPLAVLYLDLDGFKLINDLHGHDVGDALLVAISERIVGTLRDTDTLARIG 475 QAI +++R + L V+++DLD FK +ND GH GD LL ++ R+ +R+ DT+AR+G Sbjct: 539 QAIGVAERQKQALWVVFVDLDRFKFVNDTLGHKAGDTLLRTVAGRLRAAVREADTVARLG 598 Query: 476 GDEFVAVLVDIDSNAKLKRLLERILKACAIPVQIGDKHLEVTASIGVTTYPYDDVSEDQL 535 GDEF+ +L + D R L+RI+ A A PV +G L +T S+GV YP D + L Sbjct: 599 GDEFIMILPEQDELTLDTRSLQRIMDAVAAPVTLGGHTLFMTCSVGVACYPNDGTDGETL 658 Query: 536 MRHADLAMYEAKQAGKNRYHLFDAPREAEGKSRHVYVRRLAEALENDELVLHYQPKVNMK 595 ++HAD+AMY KQ G+N + + + R L AL++ E +LHYQPKV++ Sbjct: 659 IKHADIAMYRGKQTGRNNFQFYTPAMNEQALERLRIEGDLRNALDHGEFLLHYQPKVDLA 718 Query: 596 TRTVVGVEALLRWQHPERGLLAPALFLPLIEGHHLNEDIGIWVASNALAQMEQWRQAGIR 655 + V+G EAL+RWQHP+ G+++PA F+ L E L IG WV A Q QW+ G Sbjct: 719 SGRVIGSEALIRWQHPQLGMVSPARFIGLAEETGLILPIGAWVLRAACTQCRQWQLGGYA 778 Query: 656 -MPVSINLAPNQLQDTRFPAVMQELLARYPHIAPCDLELEILETSAMHDIEAVSRVMQSC 714 + VS+NL+ Q + + ++L + P LELE+ E+ M D+E ++ Sbjct: 779 DISVSVNLSVGQFLQKDLVSSIADVLED-TGLPPESLELELTESLMMTDVEHAIGILAGL 837 Query: 715 RELGVQFSIDDFGTGYS 731 ++LGV+ SIDDFGTGYS Sbjct: 838 KKLGVRLSIDDFGTGYS 854 >gi|300310189|ref|YP_003774281.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 706 Score = 283 bits (725), Expect = 3e-77, Method: Compositional matrix adjust. Identities = 158/347 (45%), Positives = 219/347 (63%), Gaps = 5/347 (1%) Query: 387 RQQEELEHLAHFDALTDLPNRLLLSDRLRQAIALSKRSGKPLAVLYLDLDGFKLINDLHG 446 R ++L H A D LT LPNR LL+DR++ A+ +++R+GK AVL++DLDGFK IND G Sbjct: 253 RTNDKLLHFATHDVLTGLPNRALLADRIQHAVEVARRNGKTFAVLFMDLDGFKAINDSLG 312 Query: 447 HDVGDALLVAISERIVGTLRDTDTLARIGGDEFVAVLVDIDSNAKLKRLLERILKACAIP 506 H VGD LLVA+++RI LR D +ARIGGDEFV V+ ++ S +++L E IL A Sbjct: 313 HAVGDGLLVAVAQRIRQCLRGEDMVARIGGDEFVVVVGNLSSPDVVEQLSENILAALRQD 372 Query: 507 VQIGDKHLEVTASIGVTTYPYDDVSEDQLMRHADLAMYEAKQAGKNRYHLFDAPREAEGK 566 QI D L VT+SIG+ YP S D LM++AD AMYEAKQ+G+N Y F+ A Sbjct: 373 FQIDDATLRVTSSIGIAVYPNSGDSVDALMKNADAAMYEAKQSGRNTYRFFEPAMHASAM 432 Query: 567 SRHVYVRR-LAEALENDELVLHYQPKVNMKTRTVVGVEALLRWQHPERGLLAPALFLPLI 625 RH+ VR+ L +A++ + LH+QPK ++ + G+EALLRW HP+ G +AP F+P+ Sbjct: 433 -RHLQVRQALQQAIDEQQFRLHFQPKYRGASKELTGLEALLRWTHPQLGEMAPTEFIPIA 491 Query: 626 EGHHLNEDIGIWVASNALAQMEQWRQAGIR-MPVSINLAPNQLQDTRFPAVMQELLARYP 684 E IG WV Q+ +W AG++ + V++NL+P Q++ T A + EL+ Sbjct: 492 ERSGQILCIGDWVLQAVCEQIARWDAAGMKPVKVALNLSPLQMR-TDLVARIVELVG-AA 549 Query: 685 HIAPCDLELEILETSAMHDIEAVSRVMQSCRELGVQFSIDDFGTGYS 731 IAP L EI ET+AM D+E RV+ + LG +IDDFGTGYS Sbjct: 550 GIAPQRLMFEITETAAMKDVERSQRVIGELQALGFDIAIDDFGTGYS 596 >gi|300311453|ref|YP_003775545.1| signal transduction containing PAS/GGDEF/EAL domains protein [Herbaspirillum seropedicae SmR1] Length = 683 Score = 275 bits (704), Expect = 7e-75, Method: Compositional matrix adjust. Identities = 171/471 (36%), Positives = 259/471 (54%), Gaps = 10/471 (2%) Query: 265 RLEGAAEQFRALVDSSDDAIISKTMHGRISSWNRAAETIFGYTEAEMLGQPMLRLFPAER 324 ++E EQ +++ +++I+ G I+SWNR AE +FGY+ E +G+ +L L+ E Sbjct: 116 QIEAKLEQQAQILNQMHESVITMDPAGFITSWNRGAEQLFGYSAMEAIGRNVLFLYENED 175 Query: 325 LEEEAFILNKILAGEKVEHFETVRIHKNGKRIHVSATISPIRDREGNIVGASSIARDITM 384 E+ L+ + E R K+G+ S ++S +RD+ G+ +G DIT Sbjct: 176 EEDS---LHDLFLEHGGREMEVRRRKKSGEVFWASLSLSVMRDQNGHPIGLIGYLNDITE 232 Query: 385 LRRQQEELEHLAHFDALTDLPNRLLLSDRLRQAIALSKRSGKPLAVLYLDLDGFKLINDL 444 + ++ + HLA++DALT LPNR LL+ + QA+ ++ V+++DL+ FK IND Sbjct: 233 RKNAEKLIHHLAYYDALTGLPNRTLLTRTVDQALEEARHENLHGCVMFIDLNRFKPINDT 292 Query: 445 HGHDVGDALLVAISERIVGTLRDTDTLARIGGDEFVAVLVDIDSNAKLKRLLERILKACA 504 GH GD LLV ++ R+ LR+ D +AR+G DEF L ID ++ + +++L Sbjct: 293 LGHVAGDMLLVEVAMRLRRALREQDVVARLGADEFAVALFGIDKDSP-AYVAQKLLALFD 351 Query: 505 IPVQIGDKHLEVTASIGVTTYPYDDVSEDQLMRHADLAMYEAKQAGKNRYHLFDAPREAE 564 P I L V ASIGV+ YP + + L+R AD+AMY AKQ G+N + E Sbjct: 352 DPFFIDGHELRVGASIGVSLYPENATDTETLLRLADIAMYRAKQGGENNEGGYACYSEEM 411 Query: 565 GKSRHVYVR---RLAEALENDELVLHYQPKVNMKTRTVVGVEALLRWQHPERGLLAPALF 621 ++ +R L A E +EL+L+YQPKV+M+T + G EAL+RWQHPERGLL P F Sbjct: 412 NRNTLDLLRIETGLLHAFEYNELLLYYQPKVDMQTLAITGAEALVRWQHPERGLLLPGEF 471 Query: 622 LPLIEGHHLNEDIGIWVASNALAQMEQWRQAGIRMPVSINLAPNQLQDTR-FPAVMQELL 680 +P+ E L + WV Q W+ AG+ P+ I L + TR P + L Sbjct: 472 IPIAEETGLIVQLSDWVLDAVCRQARAWKDAGLP-PIRIALNVTAREFTRSLPDRVGAAL 530 Query: 681 ARYPHIAPCDLELEILETSAMHDIEAVSRVMQSCRELGVQFSIDDFGTGYS 731 R+ ++ LELEI E+ MH + V +M+ LG+ S+DDFGTGYS Sbjct: 531 ERH-MLSGEWLELEITESMLMHSTDRVISIMEKICGLGITVSLDDFGTGYS 580 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 0.320 0.137 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: 2,287,944 Number of extensions: 100048 Number of successful extensions: 482 Number of sequences better than 1.0e-08: 46 Number of HSP's gapped: 404 Number of HSP's successfully gapped: 46 Length of query: 748 Length of database: 1,619,870 Length adjustment: 92 Effective length of query: 656 Effective length of database: 1,184,250 Effective search space: 776868000 Effective search space used: 776868000 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: 134 (56.2 bits)