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= 0034.0219.p (504 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310865|ref|YP_003774957.1| response regulator containing a... 394 e-111 gi|300312843|ref|YP_003776935.1| response regulator containing a... 379 e-106 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 231 1e-61 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 207 2e-54 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 181 1e-46 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 394 bits (1013), Expect = e-111, Method: Compositional matrix adjust. Identities = 221/502 (44%), Positives = 314/502 (62%), Gaps = 1/502 (0%) Query: 1 MVHYKRSSTALLAAAFVLLACVAIIGLDIWRTWQARVIQEREATVSVTNMARALAQHADD 60 M + ++ T+ A FV++ CV I+ L+ W W+AR + E+T +N+A AL QHA+ Sbjct: 14 MAQHGKTHTSRTALLFVVVVCVVILLLEAWTAWRAREVALSESTTDASNVALALIQHAEQ 73 Query: 61 TLKEADTVLVGLLERLRIDGTGPEALERLHRLLAVQVKELPQLNGIFVYDNQGRWVVNSQ 120 ++KEAD VL + E L + A R H + V LPQL + V D QGR V +SQ Sbjct: 74 SIKEADIVLETVQEHLDHEDRSASARIRTHDFMIRSVASLPQLAQLTVVDEQGRTVASSQ 133 Query: 121 PRLDNTQNNADREYFIYHRDHPDDGPYIGSPVRSRSTGKWIATVSRRVNNADGSFGGVVL 180 R+ T + +YF YH+ D P+IG P+RS TG+ TVSRR+N+ DGSF GV++ Sbjct: 134 QRMVQTGSPVQDDYFQYHQHRRSDRPFIGQPMRSHVTGQRTLTVSRRINHVDGSFAGVIV 193 Query: 181 ATVDMAYFQRFYDSFDIGKSGAILLALNRGTIVFRRPLREDSIGKSMADAAIYRDHAARH 240 A +D+AYFQR+Y+ F+IG G IL L G+++ RRPL D +S A + R H + Sbjct: 194 AEIDLAYFQRYYEQFNIGPHGVILFGLTGGSLILRRPLLADMTDRSPAMSEALRKHMEQA 253 Query: 241 ASGLAVIKSSQDGVERINGYRHLDAFPLFVSVALSRDEIFAEWRADAYMHMIGVLLLVTG 300 G ++S +DGVERI+ ++ +A+P+F VAL++D+I +W ++ IGV+LL+ Sbjct: 254 RRGSFAMRSERDGVERISCFQQGEAYPIFTVVALAKDDILEDWSRHVWVRGIGVVLLLAV 313 Query: 301 FALMGQRMVAQIDKRSIAENEANEARAQVEKLNQTLERLALQDGLTGLANRRQFDGALAR 360 G+R+V + R AE +A AR ++E L +TLE + +DGLT + NRR FD ALA Sbjct: 314 ICFGGKRLVVLVAGRERAEAQAIAARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAA 373 Query: 361 EMSRAVRSGESLALIMIDVDRFKLYNDLYGHLSGDECLRKVGKTILSGERRPGDLAARYG 420 E++R R+GESL+L+MIDVD FK +ND YGH +GD CLR+V I + RR GD+ ARYG Sbjct: 374 ELARLNRTGESLSLMMIDVDHFKQFNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYG 433 Query: 421 GEEFAIILPDCDAAGATAIAEQIRLAVRAQQIEHAANPDGIVTVSLGVGCLPEVKQGM-S 479 GEEFA+ILP+C A +A ++ AVR +I H +P G+VT+S+GV L K + Sbjct: 434 GEEFAVILPNCHPGSAQGLAHRVVQAVRGLEIAHERSPMGVVTISVGVASLASGKSLLIE 493 Query: 480 VRDLIGVADQALYRAKGDGRDR 501 R+LI AD ALYRAK +GRDR Sbjct: 494 PRELIDSADGALYRAKEEGRDR 515 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 379 bits (974), Expect = e-106, Method: Compositional matrix adjust. Identities = 212/502 (42%), Positives = 305/502 (60%), Gaps = 5/502 (0%) Query: 4 YKRSSTALLAAAFVLLACVAIIGLDIWRTWQARVIQEREATVSVTNMARALAQHADDTLK 63 + R S A A FV+L C AI G +W++ AR +Q N+A+ALA+HA D L+ Sbjct: 11 HARHSVARRARLFVVLICAAIAGGHLWQSMTARGVQLENNRSYSGNVAKALARHAYDVLQ 70 Query: 64 EADTVLVGLLERLRIDGTGPEALERLHRLLAVQVKELPQLNGIFVYDNQGRWVVNSQPRL 123 D +L+ + +R+ G L L +L E+PQL+G++V+D G+ ++ S Sbjct: 71 ATDGLLLDMSDRIDSVGIAHARLVDLMPMLRRLSSEMPQLDGLYVFDEHGKRLLTSSAPP 130 Query: 124 DNTQNNADREYFIYHRDHPDDGPYIGSPVRSRSTGKWIATVSRRVNNADGSFGGVVLATV 183 NN+DR+YFI+HRDH D GP++G + SRSTG+WI +SRR+N+ DGSF GV+LAT+ Sbjct: 131 LAPANNSDRDYFIWHRDHDDVGPHVGKALLSRSTGRWIIPMSRRLNHPDGSFAGVLLATL 190 Query: 184 DMAYFQRFYDSFDIGKSGAILLALNRGTIVFRRPLREDSIGKSMADAAIYRDHAARHASG 243 D+ +F + Y + +IGK G+I L L GT++ R P I + + ++ + G Sbjct: 191 DINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFLEGLPHSPFG 250 Query: 244 LAVIKSSQDGVERINGYRHLDAFPLFVSVALSRDEIFAEWRADAYMHMIGVLLLVTGFAL 303 + S D +R Y+ +D +PL + V L+R+E A+W+ +++ VLLL+ + Sbjct: 251 YLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAAVLLLLAIIGV 310 Query: 304 MGQRMVAQIDKRSIAENEANEARAQVEKLNQTLERLALQDGLTGLANRRQFDGALAREMS 363 G R+V QI+ R AE+ A +A +++ N LE LA QDGLTGLANRR D L E Sbjct: 311 FGWRLVGQIELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLDTMLETEFK 370 Query: 364 RAVRSGESLALIMIDVDRFKLYNDLYGHLSGDECLRKVGKTILSGERRPGDLAARYGGEE 423 RA RSG +LALIMIDVD FK YNDLYGH +GDECLR+V + +RRPGDLAARYGGEE Sbjct: 371 RAERSGAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAARYGGEE 430 Query: 424 FAIILPDCDAAGATAIAEQIRLAVRAQQIEHAANP---DGIVTVSLGVGCLPEVKQGMSV 480 A++LP DA GA A+AE++R ++A ++ H NP + + LP + SV Sbjct: 431 MAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELLPSAAR--SV 488 Query: 481 RDLIGVADQALYRAKGDGRDRV 502 + L+G AD ALY AK +GR++V Sbjct: 489 QALLGAADAALYEAKHEGRNQV 510 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 231 bits (588), Expect = 1e-61, Method: Compositional matrix adjust. Identities = 150/403 (37%), Positives = 215/403 (53%), Gaps = 26/403 (6%) Query: 108 VYDNQGRWVVNSQ-PRLDNTQNNADREYFIYHRDHPDDGPYIGSPVRSRSTGKWIATV-- 164 V D GR V+S+ R + + ADR YFI HRD P G Y+ P+++ S G + V Sbjct: 125 VLDADGRVQVSSRLGRGNGAPHYADRAYFIAHRDSPTVGLYVSRPMQA-SLGNELQVVVL 183 Query: 165 SRRVNNADGSFGGVVLATVDMAYFQRFYDSFDIGKSGAILLALNRGTIVFRRPLREDSIG 224 S+R++N DGSF GVV+ +D+AYF+ ++ +G G I L + G R P RE IG Sbjct: 184 SKRLSNEDGSFAGVVVMALDLAYFRELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIG 243 Query: 225 KSMADAAIYRDHAA--RHASGLAVIKSSQDGVERINGYRHLDAFPLFVSVALSRDEIFAE 282 + ++ ++ A G ++ DGV R+ +R + PL V V + + IF Sbjct: 244 RDISQTGNFQRLRAMLSEEEGSFFAHATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKT 303 Query: 283 WRADAYMHMIGVLL--LVTGFALMGQRMVAQIDKRSIAENEANEARAQVEKLNQTLERLA 340 WR Y ++ + + L+T + L+ R ++ +R AE + LE LA Sbjct: 304 WRKTFYAVLVSLAIFGLLTAWLLLHVRQ--ELRRRVTAERQ--------------LEALA 347 Query: 341 LQDGLTGLANRRQFDGALAREMSRAVRS-GESLALIMIDVDRFKLYNDLYGHLSGDECLR 399 DGLT L NRR D AL R R+ G S +++ IDVD FK YND YGH GD L+ Sbjct: 348 RTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTVLK 407 Query: 400 KVGKTILSGERRPGDLAARYGGEEFAIILPDCDAAGATAIAEQIRLAVRAQQIEHAANPD 459 +V T+ + R D A RYGGEEF ++L D GA +A+++ AVR + I H ++P Sbjct: 408 EVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSPL 467 Query: 460 GIVTVSLGVGCLPEVKQGMSVRDLIGVADQALYRAKGDGRDRV 502 +VT+S+GV L E V D++ AD ALYRAK GRDRV Sbjct: 468 AVVTISVGVATL-ERDHHRRVEDVLNAADAALYRAKQAGRDRV 509 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 207 bits (526), Expect = 2e-54, Method: Compositional matrix adjust. Identities = 132/381 (34%), Positives = 199/381 (52%), Gaps = 19/381 (4%) Query: 128 NNADREYFIYHRDHPDDGPYIGSPVRSRSTGKW-IATVSRRVNNADGSFGGVVLATVDMA 186 N ++R YF HRD D G +I P+++ + + +S+R++ DGSF GVVL +DM+ Sbjct: 126 NYSERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLMALDMS 185 Query: 187 YFQRFYDSFDIGKSGAILLALNRGTIVFRRPLREDSIGKSMADAAIYRDHAARHAS--GL 244 YF+ + +G+ G + L + G R P SIG+ + + ++ A G Sbjct: 186 YFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRLRAMLVDNDGN 245 Query: 245 AVIKSSQDGVERINGYRHLDAFPLFVSVALSRDEIFAEWRADAYMHMIGVLLLVTGFALM 304 ++ DGVER+ +R + PL V + S IF W Y + VLLL+ F + Sbjct: 246 FFARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTW----YDTLYSVLLLLIIFTAL 301 Query: 305 GQRMVAQIDKRSIAENEANEARAQVEKLNQTLERLALQDGLTGLANRRQFDGALAREMSR 364 ++ + +R + + A E + LE LA DGLTGL NRR D AL R Sbjct: 302 AGVLLMLV-RRELLKRVAAE---------KQLEDLARTDGLTGLLNRRSLDEALLAVWQR 351 Query: 365 AVRSGES-LALIMIDVDRFKLYNDLYGHLSGDECLRKVGKTILSGERRPGDLAARYGGEE 423 + RS + + + IDVD FK YND YGH GD L+ V + +R DLA RYGGEE Sbjct: 352 SQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEE 411 Query: 424 FAIILPDCDAAGATAIAEQIRLAVRAQQIEHAANPDGIVTVSLGVGCLPEVKQGMSVRDL 483 F ++L D GA +A+Q+ A+ + I H+ +P G+++VS+GV + + D+ Sbjct: 412 FVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPH-QRMEDV 470 Query: 484 IGVADQALYRAKGDGRDRVGV 504 + AD ALY AK +GR+RV V Sbjct: 471 LNAADHALYIAKREGRNRVCV 491 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 181 bits (460), Expect = 1e-46, Method: Compositional matrix adjust. Identities = 94/190 (49%), Positives = 127/190 (66%), Gaps = 3/190 (1%) Query: 314 KRSIAENEANEARAQVEKLNQTLERLALQDGLTGLANRRQFDGALAREMSRAVRSGESLA 373 R + E + ++E+ N+ LE L+ DGLTG+ANRR+FD ALA EM RAVRSG+SLA Sbjct: 376 NREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLA 435 Query: 374 LIMIDVDRFKLYNDLYGHLSGDECLRKVGKTILSGERRPGDLAARYGGEEFAIILPDCDA 433 L+M+DVD FK YND YGHL+GDECLR V + + RR DL ARYGGEEF++I+ +CD Sbjct: 436 LLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDT 495 Query: 434 AGATAIAEQIRLAVRAQQIEHAANPDGIVTVSLGVGC-LPEVKQGMSVRDLIGVADQALY 492 A AE I A+ ++ HA +P G ++ S+GV LP+ + + ++ +ADQALY Sbjct: 496 TQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPD--EHTAPEQMVRIADQALY 553 Query: 493 RAKGDGRDRV 502 AK GR+RV Sbjct: 554 HAKYQGRNRV 563 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 0.322 0.137 0.396 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: 1,589,926 Number of extensions: 69010 Number of successful extensions: 313 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 240 Number of HSP's successfully gapped: 42 Length of query: 504 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 415 Effective length of database: 1,198,455 Effective search space: 497358825 Effective search space used: 497358825 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)