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= 0001.4502.p (510 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 778 0.0 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 620 e-179 gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspi... 436 e-123 gi|300310865|ref|YP_003774957.1| response regulator containing a... 201 8e-53 gi|300312843|ref|YP_003776935.1| response regulator containing a... 200 2e-52 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 778 bits (2008), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/501 (74%), Positives = 435/501 (86%) Query: 7 APGGIPGGKKIKQLKKYLVVVLGIAILMVMAICASTLYQSYRQTRLSAVDNASNVTLIAQ 66 APG G KIKQLK YLVV+L IA+LMVMAI ASTLYQSY+QTR SAV NASNVTL++Q Sbjct: 12 APGEFAGSAKIKQLKNYLVVILAIAVLMVMAISASTLYQSYQQTRQSAVSNASNVTLVSQ 71 Query: 67 RAISRNMEVLSLSLDTLAYRYQHPLSSRRLDEAQRYAYLFGGAASVSHITVMAVIGADGE 126 RAISRN+E+LSLSLDTLAYR+QHPLS+RRL++AQRYAYLFG +VSHI VMAV+ ADG Sbjct: 72 RAISRNLEMLSLSLDTLAYRFQHPLSARRLNDAQRYAYLFGSTTNVSHIAVMAVLDADGR 131 Query: 127 VLASSRRRPGESAPNYSNRAYFTAHRDADNIGLYVSKPIHANLGNDMQVVVLSKRLFNDD 186 V SSR G AP+Y++RAYF AHRD+ +GLYVS+P+ A+LGN++QVVVLSKRL N+D Sbjct: 132 VQVSSRLGRGNGAPHYADRAYFIAHRDSPTVGLYVSRPMQASLGNELQVVVLSKRLSNED 191 Query: 187 GSFAGIVVMALDLSYFRELFEGLSLGANGVISLYSDDGVVYMRVPYKEHVMGRDINASAN 246 GSFAG+VVMALDL+YFRELFEGL+LG G+ISLYSD+G+ YMRVPY+E ++GRDI+ + N Sbjct: 192 GSFAGVVVMALDLAYFRELFEGLALGDEGIISLYSDEGIAYMRVPYRETIIGRDISQTGN 251 Query: 247 FQRIQSALQHEEGSFFARANSDGVERLYTFRRIPNSPLIVFVGYAEEAIFKSWYKTLYAV 306 FQR+++ L EEGSFFA A +DGV RLYTFRRIP SPLIVFVGYAEEAIFK+W KT YAV Sbjct: 252 FQRLRAMLSEEEGSFFAHATNDGVRRLYTFRRIPGSPLIVFVGYAEEAIFKTWRKTFYAV 311 Query: 307 IVSLLIFGLLSAYLLLHVREELRRRVTIEKRLEELALTDGLTGLLNRRALDEALQAAWER 366 +VSL IFGLL+A+LLLHVR+ELRRRVT E++LE LA TDGLT LLNRRALDEALQA WER Sbjct: 312 LVSLAIFGLLTAWLLLHVRQELRRRVTAERQLEALARTDGLTDLLNRRALDEALQATWER 371 Query: 367 CRRNLHSTFSVLFIDVDFFKSYNDTYGHKLGDAVLQEVAQAISENLPRNTDCAGRYGGEE 426 C+RNL ++FSVLFIDVD+FK+YNDTYGHKLGD VL+EVA ++ LPR+TDCAGRYGGEE Sbjct: 372 CQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEE 431 Query: 427 FVVLLELTDLQGACLMAQRLCDAVYSRLIVHATSPLRVVTISVGVATLEREHHRRVEDVL 486 FVVLLE TDLQGA +MAQRLCDAV R I H +SPL VVTISVGVATLER+HHRRVEDVL Sbjct: 432 FVVLLEQTDLQGAQMMAQRLCDAVRERHIAHTSSPLAVVTISVGVATLERDHHRRVEDVL 491 Query: 487 NAADAALYRAKREGRNAVRVS 507 NAADAALYRAK+ GR+ V +S Sbjct: 492 NAADAALYRAKQAGRDRVHLS 512 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 620 bits (1600), Expect = e-179, Method: Compositional matrix adjust. Identities = 299/492 (60%), Positives = 386/492 (78%), Gaps = 1/492 (0%) Query: 17 IKQLKKYLVVVLGIAILMVMAICASTLYQSYRQTRLSAVDNASNVTLIAQRAISRNMEVL 76 + +L+KYL ++LG+ I+MV++IC ++LY+ YRQTR+SA+ A+NVTLI QRAISRNME+L Sbjct: 1 MGRLQKYLALILGLIIMMVLSICGASLYEGYRQTRISAITEANNVTLIVQRAISRNMEIL 60 Query: 77 SLSLDTLAYRYQHPLSSRRLDEAQRYAYLFGGAASVSHITVMAVIGADGEVLASSRRRPG 136 SL++DTLAYRYQHPL + +RY YLFG A+ HIT +A++ ADG V +SRR Sbjct: 61 SLAMDTLAYRYQHPLDLTHASDEERYNYLFGSTAAAHHITALAILDADGYVRVTSRRSAS 120 Query: 137 ESAP-NYSNRAYFTAHRDADNIGLYVSKPIHANLGNDMQVVVLSKRLFNDDGSFAGIVVM 195 S NYS R YFT HRD+ + GL++S+PI ANLGN++ VVVLSKRL DGSF G+V+M Sbjct: 121 PSVVVNYSERTYFTVHRDSADAGLFISRPIKANLGNELPVVVLSKRLSRKDGSFDGVVLM 180 Query: 196 ALDLSYFRELFEGLSLGANGVISLYSDDGVVYMRVPYKEHVMGRDINASANFQRIQSALQ 255 ALD+SYFR+LF GL+LG +G++SLYSDDGV YMRVPY +GR+I + NFQR+++ L Sbjct: 181 ALDMSYFRDLFTGLTLGEDGIMSLYSDDGVTYMRVPYHPSSIGREITNNPNFQRLRAMLV 240 Query: 256 HEEGSFFARANSDGVERLYTFRRIPNSPLIVFVGYAEEAIFKSWYKTLYAVIVSLLIFGL 315 +G+FFARA++DGVERLYTFRRIP++PLIV +G +E IFK+WY TLY+V++ L+IF Sbjct: 241 DNDGNFFARAHTDGVERLYTFRRIPDAPLIVLLGRSERFIFKTWYDTLYSVLLLLIIFTA 300 Query: 316 LSAYLLLHVREELRRRVTIEKRLEELALTDGLTGLLNRRALDEALQAAWERCRRNLHSTF 375 L+ LL+ VR EL +RV EK+LE+LA TDGLTGLLNRR+LDEAL A W+R +R+ + F Sbjct: 301 LAGVLLMLVRRELLKRVAAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGF 360 Query: 376 SVLFIDVDFFKSYNDTYGHKLGDAVLQEVAQAISENLPRNTDCAGRYGGEEFVVLLELTD 435 S LFIDVD+FK YNDTYGH++GD VLQ VA + E+L R D AGRYGGEEFVVLLE TD Sbjct: 361 STLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTD 420 Query: 436 LQGACLMAQRLCDAVYSRLIVHATSPLRVVTISVGVATLEREHHRRVEDVLNAADAALYR 495 GA MAQ+LC+A+Y+R I H+ SPL V+++S+GVAT+ R H+R+EDVLNAAD ALY Sbjct: 421 EHGALRMAQQLCEAIYNRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYI 480 Query: 496 AKREGRNAVRVS 507 AKREGRN V V+ Sbjct: 481 AKREGRNRVCVA 492 >gi|300313782|ref|YP_003777874.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 475 Score = 436 bits (1121), Expect = e-123, Method: Compositional matrix adjust. Identities = 228/476 (47%), Positives = 310/476 (65%), Gaps = 12/476 (2%) Query: 34 MVMAICASTLYQSYRQTRLSAVDNASNVTLIAQRAISRNMEVLSLSLDTLAYRYQHPLSS 93 M + + LYQS+RQ +A+++ +N+ IAQR+ISRN+E+L+L+LD+L +RY+H Sbjct: 1 MTATVSCAVLYQSHRQVERAAIEHGANIARIAQRSISRNVELLTLALDSLTWRYRHT-QL 59 Query: 94 RRLDEAQRYAYLFGGAASVSHITVMAVIGADGEVL----ASSRRRPGESAPNYSNRAYFT 149 + Q+ +L G ++ + ++ DGE++ A S+ PG Y+ +FT Sbjct: 60 HEMPLQQKMEFLLGENIEARYVAALGIVDTDGELVVGSAALSQILPGP----YAQSDFFT 115 Query: 150 AHRD---ADNIGLYVSKPIHANLGNDMQVVVLSKRLFNDDGSFAGIVVMALDLSYFRELF 206 AH+ + GLY+S P+ L MQVVVLSKRL DGSFAGI +M L L YFR+LF Sbjct: 116 AHQTHHAQGDTGLYISAPLTVRLERRMQVVVLSKRLAQPDGSFAGISLMVLYLDYFRDLF 175 Query: 207 EGLSLGANGVISLYSDDGVVYMRVPYKEHVMGRDINASANFQRIQSALQHEEGSFFARAN 266 +GL+L +GVISLYS DG+ YMR+PY E +G +N S + +RI S +GS+FARA Sbjct: 176 QGLTLENDGVISLYSADGLAYMRIPYNEAFIGSRLNISEDLERIFSPSGPAQGSYFARAQ 235 Query: 267 SDGVERLYTFRRIPNSPLIVFVGYAEEAIFKSWYKTLYAVIVSLLIFGLLSAYLLLHVRE 326 DG LYTF R+P + VF+G IF+ WY LYAV+ + F + S YL+ VR Sbjct: 236 QDGPRWLYTFARVPGTGWTVFIGRTGARIFREWYNMLYAVLFLMASFCIASIYLIRRVRV 295 Query: 327 ELRRRVTIEKRLEELALTDGLTGLLNRRALDEALQAAWERCRRNLHSTFSVLFIDVDFFK 386 EL+RR ++++LEELA TD LT LLNRRALDEAL AW+R N + FS+LF+DVDFFK Sbjct: 296 ELQRRSALDQQLEELARTDKLTSLLNRRALDEALARAWKRAEENPDAIFSLLFVDVDFFK 355 Query: 387 SYNDTYGHKLGDAVLQEVAQAISENLPRNTDCAGRYGGEEFVVLLELTDLQGACLMAQRL 446 YNDTYGHK GD L V++ I + R +D +GRYGGEEFVVLL TD GA +A+R+ Sbjct: 356 LYNDTYGHKAGDYALMAVSRCIVAAVSRLSDQSGRYGGEEFVVLLNGTDTVGATHVAKRI 415 Query: 447 CDAVYSRLIVHATSPLRVVTISVGVATLEREHHRRVEDVLNAADAALYRAKREGRN 502 A+ S I H SP ++T+S+GV +L REHH +EDV+ ADAALYRAK++GRN Sbjct: 416 ISAIQSLKIPHERSPFDILTVSIGVTSLLREHHSSIEDVVKDADAALYRAKQDGRN 471 >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 = 201 bits (512), Expect = 8e-53, Method: Compositional matrix adjust. Identities = 146/465 (31%), Positives = 243/465 (52%), Gaps = 28/465 (6%) Query: 57 NASNVTLIAQRAISRNMEVLSLSLDTLAYRYQHP--LSSRRLDEAQRYAYLFGGAASVSH 114 +ASNV L + ++++ + L+T+ H +S R+ + + ++ AS+ Sbjct: 59 DASNVALALIQHAEQSIKEADIVLETVQEHLDHEDRSASARI---RTHDFMIRSVASLPQ 115 Query: 115 ITVMAVIGADGEVLASSRRRPGES-APNYSNRAYFTAHRDADNIGLYVSKPIHANLGNDM 173 + + V+ G +ASS++R ++ +P + + HR +D ++ +P+ +++ Sbjct: 116 LAQLTVVDEQGRTVASSQQRMVQTGSPVQDDYFQYHQHRRSDRP--FIGQPMRSHV-TGQ 172 Query: 174 QVVVLSKRLFNDDGSFAGIVVMALDLSYFRELFEGLSLGANGVISLYSDDGVVYMRVPYK 233 + + +S+R+ + DGSFAG++V +DL+YF+ +E ++G +GVI G + +R P Sbjct: 173 RTLTVSRRINHVDGSFAGVIVAEIDLAYFQRYYEQFNIGPHGVILFGLTGGSLILRRPLL 232 Query: 234 EHVMGRDINASANFQRIQSALQHEEGSFFARANSDGVERLYTFRRIPNSPLIVFVGYAEE 293 + R S ++ Q GSF R+ DGVER+ F++ P+ V A++ Sbjct: 233 ADMTDRSPAMSEALRKHME--QARRGSFAMRSERDGVERISCFQQGEAYPIFTVVALAKD 290 Query: 294 AIFKSWYKTLYA------VIVSLLIFGLLSAYLLLHVREELRRRV--------TIEKRLE 339 I + W + ++ ++++++ FG +L+ RE + ++ + LE Sbjct: 291 DILEDWSRHVWVRGIGVVLLLAVICFGGKRLVVLVAGRERAEAQAIAARQELESLYRTLE 350 Query: 340 ELALTDGLTGLLNRRALDEALQAAWERCRRNLHSTFSVLFIDVDFFKSYNDTYGHKLGDA 399 + DGLT + NRR D AL A R R S S++ IDVD FK +NDTYGH GD Sbjct: 351 AQSQKDGLTDVFNRRYFDAALAAELARLNRTGES-LSLMMIDVDHFKQFNDTYGHAAGDV 409 Query: 400 VLQEVAQAISENLPRNTDCAGRYGGEEFVVLLELTDLQGACLMAQRLCDAVYSRLIVHAT 459 L++VA AIS R D RYGGEEF V+L A +A R+ AV I H Sbjct: 410 CLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVVQAVRGLEIAHER 469 Query: 460 SPLRVVTISVGVATLEREHHRRVE--DVLNAADAALYRAKREGRN 502 SP+ VVTISVGVA+L +E +++++AD ALYRAK EGR+ Sbjct: 470 SPMGVVTISVGVASLASGKSLLIEPRELIDSADGALYRAKEEGRD 514 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 200 bits (509), Expect = 2e-52, Method: Compositional matrix adjust. Identities = 142/392 (36%), Positives = 212/392 (54%), Gaps = 26/392 (6%) Query: 135 PGESAPNYSNRAYFTAHRDADNIGLYVSKPIHANLGNDMQVVVLSKRLFNDDGSFAGIVV 194 P + N S+R YF HRD D++G +V K + + ++ +S+RL + DGSFAG+++ Sbjct: 129 PPLAPANNSDRDYFIWHRDHDDVGPHVGKALLSR-STGRWIIPMSRRLNHPDGSFAGVLL 187 Query: 195 MALDLSYFRELFEGLSLGANGVISLYSDDGVVYMRVPYKEHVMGRDINASANFQRIQSAL 254 LD+++F +L+ + +G G I+L DG + R+P+ + RD + F L Sbjct: 188 ATLDINHFNQLYRTVEIGKGGSIALLLRDGTLLTRMPFDPGYINRDFSQGRLFL---EGL 244 Query: 255 QHEEGSFFARANS-DGVERLYTFRRIPNSPLIVFVGYAEEAIFKSWYKTLY----AVIVS 309 H + + D +R +++ + PL++ V A E W + + AV++ Sbjct: 245 PHSPFGYLEVVSPLDARQRFLSYQAVDKYPLVLVVTLAREEALADWKQQTFVYGAAVLLL 304 Query: 310 LLIFGLLSAYLLLHVREELRRRV------------TIEKRLEELALTDGLTGLLNRRALD 357 L I G+ L+ + ELR R RLE LA DGLTGL NRR LD Sbjct: 305 LAIIGVFGWRLVGQI--ELRLRAEDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLD 362 Query: 358 EALQAAWERCRRNLHSTFSVLFIDVDFFKSYNDTYGHKLGDAVLQEVAQAISENLPRNTD 417 L+ ++R R+ + +++ IDVDFFK YND YGH+ GD L+ VA + E R D Sbjct: 363 TMLETEFKRAERS-GAALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGD 421 Query: 418 CAGRYGGEEFVVLLELTDLQGACLMAQRLCDAVYSRLIVHATSPLRVVTISVGVATLE-- 475 A RYGGEE +LL TD +GAC +A++L + + + H +P+ VVT+SVGV LE Sbjct: 422 LAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELL 481 Query: 476 REHHRRVEDVLNAADAALYRAKREGRNAVRVS 507 R V+ +L AADAALY AK EGRN VR++ Sbjct: 482 PSAARSVQALLGAADAALYEAKHEGRNQVRLA 513 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 0.389 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: 1,339,220 Number of extensions: 52644 Number of successful extensions: 284 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 193 Number of HSP's successfully gapped: 41 Length of query: 510 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 421 Effective length of database: 1,198,455 Effective search space: 504549555 Effective search space used: 504549555 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 (22.0 bits) S2: 133 (55.8 bits)