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= 0030.0046.p (474 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 573 e-164 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 191 9e-50 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 174 1e-44 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 160 2e-40 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 154 1e-38 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 573 bits (1476), Expect = e-164, Method: Compositional matrix adjust. Identities = 278/368 (75%), Positives = 315/368 (85%), Gaps = 3/368 (0%) Query: 98 MALGNIIDHDGKQIHVDADGARSAVKPGFFNAATSHRFPILYRDEHGVTHDIGAWTVYSS 157 MALGNIID G Q+H++ DG++SAV+PGF NAATSHRFPILYRDEHGV HDIG+WTVYSS Sbjct: 1 MALGNIIDSSGAQVHIEEDGSQSAVRPGFLNAATSHRFPILYRDEHGVMHDIGSWTVYSS 60 Query: 158 RHVVIRKVAYGFTLILINSVIKTLVLWFIFLYVFHRWLGRPITRLSDFVRGQDLNQPDHP 217 RHVVI KVAYGFTLILINSVIKTLVLWFIFLYVF RWLG+PITRL+DFVR DLNQ + Sbjct: 61 RHVVIGKVAYGFTLILINSVIKTLVLWFIFLYVFRRWLGQPITRLADFVRELDLNQME-- 118 Query: 218 DNPQRIRLRGRTRHELHFLADAINAMLSSLRKQSRQNRALYAQLEQEKESLRALNKSLEL 277 P+ I L GR RHELHFLADAIN ML+ L + + N ALY +LEQEK+SL ALN+SLEL Sbjct: 119 -TPRSIHLPGRRRHELHFLADAINLMLAKLHRHTIHNHALYKELEQEKQSLSALNRSLEL 177 Query: 278 RIAERTRDLAQANERLRSLSLTDGLTGIANRRSFDETLDHEWRRSLRHAKPLTVAFIDVD 337 RIAERTRDLAQANE+LRSLSLTDGLTGIANRRSFDETL+ EWRRS+RH PL +AFIDVD Sbjct: 178 RIAERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVD 237 Query: 338 WFKPYNDHYGHVAGDAVLRQVAQTLQHTIGRAGETVARYGGEEFAVILAETDGLQGQHIV 397 WFKPYNDHYGH+AGDAVLRQVAQTL+ +I R G+TVARYGGEEFA+I A+TDG G ++ Sbjct: 238 WFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADML 297 Query: 398 QRMCDAIHALNLPHAGSALGRITISAGVAWCVPAHPDARLESLLQAADRALYQAKTDGRN 457 +RMCDA+HAL + HAGSA+GRITISAGVA C P P A L+ LLQAAD ALY+AK +GRN Sbjct: 298 RRMCDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRN 357 Query: 458 RVLLAAAL 465 RV+LA L Sbjct: 358 RVVLATEL 365 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 191 bits (486), Expect = 9e-50, Method: Compositional matrix adjust. Identities = 103/213 (48%), Positives = 138/213 (64%), Gaps = 8/213 (3%) Query: 251 SRQNRALYAQLEQEKESLRALNKSLELRIAERTRDLAQANERLRSLSLTDGLTGIANRRS 310 SR+ + +L+Q +E L E ++ RTR+L +AN +L +LS TDGLTG+ANRR Sbjct: 363 SRKFNEMAGKLQQNREVL-------EEQVRLRTRELERANRKLEALSATDGLTGVANRRR 415 Query: 311 FDETLDHEWRRSLRHAKPLTVAFIDVDWFKPYNDHYGHVAGDAVLRQVAQTLQHTIGRAG 370 FDE L +E RR++R + L + +DVD+FK YND YGH+AGD LR VA+ LQ + RA Sbjct: 416 FDEALANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRAT 475 Query: 371 ETVARYGGEEFAVILAETDGLQGQHIVQRMCDAIHALNLPHAGSALGRITISAGVAWCVP 430 + VARYGGEEF+VI+AE D Q + +C AI L LPHA S G I+ S GVA +P Sbjct: 476 DLVARYGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLP 535 Query: 431 AHPDARLESLLQAADRALYQAKTDGRNRVLLAA 463 A E +++ AD+ALY AK GRNRV+L + Sbjct: 536 DEHTAP-EQMVRIADQALYHAKYQGRNRVVLGS 567 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 174 bits (442), Expect = 1e-44, Method: Compositional matrix adjust. Identities = 106/227 (46%), Positives = 139/227 (61%), Gaps = 17/227 (7%) Query: 236 LADAINAMLSSLRKQSRQNRALYAQLEQEKESLRALNKSLELRIAERTRDLAQANERLRS 295 L D I +++ +R SR Y L Q + AL +S + L ++N L+ Sbjct: 126 LPDVIE-LVARIRYHSRS----YINLLQRDAAYSALRES--------QQQLQKSNFELQR 172 Query: 296 LSLTDGLTGIANRRSFDETLDHEWRRSLRHAKPLTVAFIDVDWFKPYNDHYGHVAGDAVL 355 L+ TDGLTGIANRR FD+ L EWRR+ R L + IDVD+FK YND+YGHVAGDAVL Sbjct: 173 LTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVL 232 Query: 356 RQVAQTLQHTIGRAGETVARYGGEEFAVILAETDGLQGQH-IVQRMCDAIHALNLPHAGS 414 RQVA+ L +I R + AR+GGEEFA+IL T GL G H I Q++C + +L +PH GS Sbjct: 233 RQVAEALDSSIQRPADLSARFGGEEFAMILPRT-GLDGAHAIAQKVCHLVESLQVPHEGS 291 Query: 415 ALGR-ITISAGVAWCVPAHPDARLESLLQAADRALYQAKTDGRNRVL 460 ++ +T+S G A VP L L++AADR LY AK GRNRV+ Sbjct: 292 SVSAWLTVSVGAATLVP-QEQQELRELIEAADRRLYLAKQQGRNRVV 337 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 160 bits (406), Expect = 2e-40, Method: Compositional matrix adjust. Identities = 86/175 (49%), Positives = 112/175 (64%), Gaps = 2/175 (1%) Query: 289 ANERLRSLSLTDGLTGIANRRSFDETLDHEWRRSLRHAKP-LTVAFIDVDWFKPYNDHYG 347 A ++L L+ TDGLTG+ NRRS DE L W+RS R + FIDVD+FK YND YG Sbjct: 319 AEKQLEDLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTYG 378 Query: 348 HVAGDAVLRQVAQTLQHTIGRAGETVARYGGEEFAVILAETDGLQGQHIVQRMCDAIHAL 407 H GD VL+ VA L+ + R + RYGGEEF V+L +TD + Q++C+AI+ Sbjct: 379 HEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNR 438 Query: 408 NLPHAGSALGRITISAGVAWCVPAHPDARLESLLQAADRALYQAKTDGRNRVLLA 462 +PH+GS LG I++S GVA A P R+E +L AAD ALY AK +GRNRV +A Sbjct: 439 GIPHSGSPLGVISVSIGVATMNRA-PHQRMEDVLNAADHALYIAKREGRNRVCVA 492 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 154 bits (390), Expect = 1e-38, Method: Compositional matrix adjust. Identities = 86/190 (45%), Positives = 114/190 (60%), Gaps = 2/190 (1%) Query: 275 LELRIAERTRDLAQANERLRSLSLTDGLTGIANRRSFDETLDHEWRRSLRH-AKPLTVAF 333 L L + + R A +L +L+ TDGLT + NRR+ DE L W R R+ +V F Sbjct: 325 LLLHVRQELRRRVTAERQLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLF 384 Query: 334 IDVDWFKPYNDHYGHVAGDAVLRQVAQTLQHTIGRAGETVARYGGEEFAVILAETDGLQG 393 IDVD+FK YND YGH GD VL++VA TL + R + RYGGEEF V+L +TD Sbjct: 385 IDVDYFKAYNDTYGHKLGDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGA 444 Query: 394 QHIVQRMCDAIHALNLPHAGSALGRITISAGVAWCVPAHPDARLESLLQAADRALYQAKT 453 Q + QR+CDA+ ++ H S L +TIS GVA H R+E +L AAD ALY+AK Sbjct: 445 QMMAQRLCDAVRERHIAHTSSPLAVVTISVGVATLERDH-HRRVEDVLNAADAALYRAKQ 503 Query: 454 DGRNRVLLAA 463 GR+RV L++ Sbjct: 504 AGRDRVHLSS 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 0.322 0.136 0.406 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: 1,444,571 Number of extensions: 60445 Number of successful extensions: 338 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 264 Number of HSP's successfully gapped: 39 Length of query: 474 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 385 Effective length of database: 1,198,455 Effective search space: 461405175 Effective search space used: 461405175 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: 132 (55.5 bits)