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= 0025.0144.p (575 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein... 545 e-156 gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane prot... 126 4e-30 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 125 8e-30 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 125 1e-29 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 124 2e-29 >gi|300311237|ref|YP_003775329.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 585 Score = 545 bits (1403), Expect = e-156, Method: Compositional matrix adjust. Identities = 304/572 (53%), Positives = 396/572 (69%) Query: 1 MSLNRLFWLVSVALMLLFSVLAARIVLIEWEAYRRGARSVDAVRVVQLTMLAMEKVSIER 60 MSLNRLF L+S+AL+LLF A +V EW +YR GA SV A+R +L ++A+EK+S ER Sbjct: 1 MSLNRLFRLISIALLLLFLAFAVSLVWTEWNSYRNGANSVPALRTFRLALVALEKLSAER 60 Query: 61 GPSNALMGGEGDALPALRKRLDEARRNSDEALFRVLDSLRLEADVRYAPAIRKIEAVRQA 120 GP+NA MG A+ +L AR +D AL + +L+ +R + ++ K++ V+QA Sbjct: 61 GPANAFMGASASQREAVADKLKNARAETDAALAALRQALQSHPRLRQSWSLDKVKTVQQA 120 Query: 121 LGPARDRVDQQVGLVKWQRSSREITEAVDGMVALIPMLVSSVADLSSIAIQADPEVLDGL 180 L PAR +D+ + +R++ + AV GMV +IP+++ ++LSS ADPE+ +GL Sbjct: 121 LEPARAAIDRIGRQPEAERNNVYVLSAVGGMVDMIPLMIRVASELSSEVDHADPELREGL 180 Query: 181 TGMRVAASLREYAGQVGSKFTAPVIMRRPLTKNEVIEIGKLYGRIEQLRTLLDIQMRAYK 240 +R AASLREYAGQVGS+FT +I R LT++EVIEIG+LYGRIE LR LL+ QM +Y Sbjct: 181 AAIRAAASLREYAGQVGSRFTPALIAHRKLTQDEVIEIGRLYGRIELLRGLLNTQMASYV 240 Query: 241 DNPAFRTALSDLDTQYFGQGFPFLDGLLQTGLLSGSYEVNTAELAARYVPPMGSILRLRD 300 P F AL +D QYF GF FLD LLQTG+ SG Y + + +L YVP M SI LRD Sbjct: 241 QRPEFARALELVDKQYFDNGFQFLDFLLQTGVASGDYGLTSVDLFRFYVPQMKSITDLRD 300 Query: 301 AILVDLIREAEIRHRQAFNLLIGAITMTLFAFIFFFLLLYLVRQRVLRPVLKATQLVVGL 360 +L D++ +AE +R+A N L+ I +T+ A +FF +L+ L+R+RV++P++ AT LV GL Sbjct: 301 LLLDDMMEQAERHNRRARNYLLLVIAVTVVACLFFQVLMVLIRRRVVQPLVLATDLVSGL 360 Query: 361 AEGNHDAPIPQARHKDEIGDMLRALHVLKARSLERISLAGERETLIEQLQLSSNTDFLTG 420 EG D IPQ R++DEI M+RAL VL+ R ER SLA ERE LI QLQ SSNTDFLTG Sbjct: 361 VEGRLDQEIPQPRYEDEISAMMRALKVLRQRMRERNSLAREREALITQLQTSSNTDFLTG 420 Query: 421 VLNRRAFFAHSEQQLAIAQRYGRNLTLVLLDIDHFKRFNDNYGHLVGDDILRNAVQKIAQ 480 VLNRRAFF H +QQ+ +A+RYGR L +VL DIDHFK+ ND+YGH GD ILR Q ++Q Sbjct: 421 VLNRRAFFTHGQQQMTVAKRYGRELAVVLFDIDHFKQINDSYGHQAGDAILRGVAQSVSQ 480 Query: 481 LLRKMDVFARYGGEEFIILLPEADLEQGIAVAEKLRVMLATQAFALDDGREIGITASFGV 540 LLRK+DV ARYGGEEFIILLPE+ L Q A +EKLR LA F +D GR I +TASFGV Sbjct: 481 LLRKVDVLARYGGEEFIILLPESSLLQAAAASEKLRAALAAGEFEIDGGRRIRVTASFGV 540 Query: 541 TALGTGESLDQLIRQADVALYAAKHKGRNRVE 572 A G L+ LI+QAD+ALY AK GRNRVE Sbjct: 541 AAENGGPGLEHLIKQADIALYRAKKLGRNRVE 572 >gi|300310347|ref|YP_003774439.1| GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 334 Score = 126 bits (317), Expect = 4e-30, Method: Compositional matrix adjust. Identities = 87/201 (43%), Positives = 117/201 (58%), Gaps = 13/201 (6%) Query: 381 MLRALHVLKARSLERIS--------LAGER-ETLIEQLQLSSNTDFLTGVLNRRAFFAHS 431 M+R VL A IS LA +R E L E+L L + TD LTG+ NR Sbjct: 122 MMRIAPVLGAEDFFVISHVVITGRKLAEQRVERLNEKLALLAVTDKLTGLANRMKLDEVL 181 Query: 432 EQQLAIAQRYGRNLTLVLLDIDHFKRFNDNYGHLVGDDILRNAVQKIAQLLRKMDVFARY 491 + ++ A RYG+NL+L+LLDIDHFK NDN+GH GD +L + + +R D+ R+ Sbjct: 182 DNEINRADRYGKNLSLILLDIDHFKEVNDNFGHSTGDAVLVRIAEILRANVRSSDLAGRW 241 Query: 492 GGEEFIILLPEADLEQGIAVAEKLRVMLATQAFALDDGREIGITASFGVTALGTGESLDQ 551 GGEEF+++LPE D+E +AEKLR+++ F + GR T SFGV A G Sbjct: 242 GGEEFLLILPECDMEDAARMAEKLRLLIENYNF-VPVGRR---TCSFGVAAYQAGHDRTT 297 Query: 552 LIRQADVALYAAKHKGRNRVE 572 L+ AD+ALY AK+ GRNRVE Sbjct: 298 LLTLADLALYRAKNTGRNRVE 318 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 125 bits (314), Expect = 8e-30, Method: Compositional matrix adjust. Identities = 105/291 (36%), Positives = 148/291 (50%), Gaps = 45/291 (15%) Query: 320 LLIGAITMTLFAFIFFFLLLYLVRQRVLRPVLKATQLVVGLAEGNHDAP----IP-QARH 374 +LI ++ TL + +F+ LY+ R+ + +P+ + V L + P +P + RH Sbjct: 75 ILINSVIKTL---VLWFIFLYVFRRWLGQPITRLADFVRELDLNQMETPRSIHLPGRRRH 131 Query: 375 K-----DEIGDMLRALH--------VLKARSLERISLAGERETL--------------IE 407 + D I ML LH + K E+ SL+ +L E Sbjct: 132 ELHFLADAINLMLAKLHRHTIHNHALYKELEQEKQSLSALNRSLELRIAERTRDLAQANE 191 Query: 408 QLQLSSNTDFLTGVLNRRAFFAHSEQQLAIAQRYGRNLTLVLLDIDHFKRFNDNYGHLVG 467 QL+ S TD LTG+ NRR+F EQ+ + R+G L L +D+D FK +ND+YGHL G Sbjct: 192 QLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFKPYNDHYGHLAG 251 Query: 468 DDILRNAVQKIAQ-LLRKMDVFARYGGEEFIILLPEADLEQGIAVAEKLRVML-ATQAFA 525 D +LR Q + Q + R D ARYGGEEF I+ + D G A A+ LR M A A A Sbjct: 252 DAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTD---GQAGADMLRRMCDAVHALA 308 Query: 526 L-DDGREIG-ITASFGVTALGTGE---SLDQLIRQADVALYAAKHKGRNRV 571 + G +G IT S GV + G+ LD L++ AD ALY AK +GRNRV Sbjct: 309 IAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRNRV 359 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 125 bits (314), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 72/182 (39%), Positives = 109/182 (59%), Gaps = 5/182 (2%) Query: 394 ERISLAGERETLIEQ--LQLSS--NTDFLTGVLNRRAFFAHSEQQLAIAQRYGRNLTLVL 449 + + A ER +EQ LQ+ D LTG LNRR ++++ A R L + L Sbjct: 341 QEVEKAEERIQTLEQQLLQMGELVREDQLTGSLNRRGMDESLDREITNALRRDTPLCVAL 400 Query: 450 LDIDHFKRFNDNYGHLVGDDILRNAVQKIAQLLRKMDVFARYGGEEFIILLPEADLEQGI 509 LD+D FKR ND +GH GD++L + VQ I + LRK+DV AR+GGEEF++L+PE + + Sbjct: 401 LDLDDFKRINDTHGHATGDEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQDAV 460 Query: 510 AVAEKLRVMLATQAFALDDGREIGITASFGVTALGTGESLDQLIRQADVALYAAKHKGRN 569 + +++ L + F + + + + IT S GV GES L+++ADVALY AK+ G+N Sbjct: 461 QIITRVQRELTKRIF-MHESQRLLITFSAGVAVYHPGESQADLLKRADVALYKAKNAGKN 519 Query: 570 RV 571 R+ Sbjct: 520 RI 521 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 124 bits (311), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 94/268 (35%), Positives = 137/268 (51%), Gaps = 32/268 (11%) Query: 325 ITMTLFAFIFFFLLLYLVRQRVLRPVLKATQLVVGLAE-GNHDAPIPQARH-KDEIGDML 382 I + L F LL L+ + + P+ + LV + E G+ D + +H DEI + Sbjct: 307 IAIGLVCFAVSLLLSALISRSISVPLQR---LVAAMKEAGSGDTTVRVEQHGNDEIAVLS 363 Query: 383 RALHVLKARSLERISLAGERETLIEQLQLS--------------SNTDFLTGVLNRRAFF 428 R + + + L RE L EQ++L S TD LTGV NRR F Sbjct: 364 RKFNEMAGK------LQQNREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFD 417 Query: 429 AHSEQQLAIAQRYGRNLTLVLLDIDHFKRFNDNYGHLVGDDILR---NAVQKIAQLLRKM 485 ++ A R G++L L++LD+D+FK++ND YGHL GD+ LR +QK ++ R Sbjct: 418 EALANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSR--RAT 475 Query: 486 DVFARYGGEEFIILLPEADLEQGIAVAEKLRVMLATQAFALDDGREIGITASFGVTALGT 545 D+ ARYGGEEF +++ E D Q + AE + + D I+AS GV L Sbjct: 476 DLVARYGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLP 535 Query: 546 GESL--DQLIRQADVALYAAKHKGRNRV 571 E +Q++R AD ALY AK++GRNRV Sbjct: 536 DEHTAPEQMVRIADQALYHAKYQGRNRV 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 0.324 0.139 0.387 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: 1,654,078 Number of extensions: 68491 Number of successful extensions: 415 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 363 Number of HSP's successfully gapped: 39 Length of query: 575 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 485 Effective length of database: 1,193,720 Effective search space: 578954200 Effective search space used: 578954200 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 133 (55.8 bits)