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= 0020.0214.p (358 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspiri... 737 0.0 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 140 2e-34 gi|300312976|ref|YP_003777068.1| GGDEF family protein [Herbaspir... 134 1e-32 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 133 2e-32 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 132 6e-32 >gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspirillum seropedicae SmR1] Length = 358 Score = 737 bits (1903), Expect = 0.0, Method: Compositional matrix adjust. Identities = 358/358 (100%), Positives = 358/358 (100%) Query: 1 MTIRNFFPPTQPERARSQRGLSGSRIDLANAGGQADAWLEPTLADFISLATSLCSMPMGM 60 MTIRNFFPPTQPERARSQRGLSGSRIDLANAGGQADAWLEPTLADFISLATSLCSMPMGM Sbjct: 1 MTIRNFFPPTQPERARSQRGLSGSRIDLANAGGQADAWLEPTLADFISLATSLCSMPMGM 60 Query: 61 VSQLHADIGMQHPFVSIVNGRGDRRNQWWRFPGQNGVARTVVDFSLCEYAARRPGQLTEI 120 VSQLHADIGMQHPFVSIVNGRGDRRNQWWRFPGQNGVARTVVDFSLCEYAARRPGQLTEI Sbjct: 61 VSQLHADIGMQHPFVSIVNGRGDRRNQWWRFPGQNGVARTVVDFSLCEYAARRPGQLTEI 120 Query: 121 SDLQADQRFCDSALANGNPRVRFYAAVPLVSSNGDIFGTLCVMDREARVLTAAQRDAFLK 180 SDLQADQRFCDSALANGNPRVRFYAAVPLVSSNGDIFGTLCVMDREARVLTAAQRDAFLK Sbjct: 121 SDLQADQRFCDSALANGNPRVRFYAAVPLVSSNGDIFGTLCVMDREARVLTAAQRDAFLK 180 Query: 181 LGRQLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVD 240 LGRQLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVD Sbjct: 181 LGRQLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVD 240 Query: 241 VDYFKQYNDTYGHPAGDALLTQLGRVLRSPLRASDFLARYGGDEFSLILPDTDEIGALQV 300 VDYFKQYNDTYGHPAGDALLTQLGRVLRSPLRASDFLARYGGDEFSLILPDTDEIGALQV Sbjct: 241 VDYFKQYNDTYGHPAGDALLTQLGRVLRSPLRASDFLARYGGDEFSLILPDTDEIGALQV 300 Query: 301 AERIKAAVEQAHWEHCDIEISLGAATVTPSEMCDFSALLQAADQAMYRRKHGREPRHA 358 AERIKAAVEQAHWEHCDIEISLGAATVTPSEMCDFSALLQAADQAMYRRKHGREPRHA Sbjct: 301 AERIKAAVEQAHWEHCDIEISLGAATVTPSEMCDFSALLQAADQAMYRRKHGREPRHA 358 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 140 bits (352), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 78/168 (46%), Positives = 104/168 (61%), Gaps = 6/168 (3%) Query: 190 EARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVDVDYFKQYND 249 E RA +KLE + TD LTG+ NRR FD L E R +R+ + L+LLM+DVDYFK+YND Sbjct: 390 ELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKKYND 449 Query: 250 TYGHPAGDALLTQLGRVL-RSPLRASDFLARYGGDEFSLILPDTDEIGALQVAERIKAAV 308 YGH AGD L + RVL +S RA+D +ARYGG+EFS+I+ + D ALQ AE I A+ Sbjct: 450 RYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQAI 509 Query: 309 EQAHWEHCD-----IEISLGAATVTPSEMCDFSALLQAADQAMYRRKH 351 + H D I S+G A + P E +++ ADQA+Y K+ Sbjct: 510 FELKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKY 557 >gi|300312976|ref|YP_003777068.1| GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 134 bits (337), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 101/335 (30%), Positives = 141/335 (42%), Gaps = 30/335 (8%) Query: 23 GSRIDLANAGGQADAWLEPTLADFISLATSLCSMPMGMVSQLHADIGMQHPFVSIVNGRG 82 +RID ++ D E LA L +PM +V+ + Sbjct: 11 AARIDALHSLRILDTPREERFDRLTRLARRLFDVPMAVVTMI------------------ 52 Query: 83 DRRNQWWR-FPGQNGVARTVVDFSLCEYAARRPGQLTEISDLQADQRFCDSALANGNPRV 141 D QW++ G T + S C +A ++T + D D RF + G P + Sbjct: 53 DVNRQWFKSCVGLGDATETSREVSFCAHAILHE-EMTIVPDATLDPRFSGNPQVTGEPFI 111 Query: 142 RFYAAVPLVSSNGDIFGTLCVMDREARVLTAAQRDAFLKLGRQLEGQLEARRAMQKLEQQ 201 RFYA P+ S +G GTLC++D R A +R L +E +L A R Sbjct: 112 RFYAGCPIKSESGFTLGTLCLVDTVPRSFDADERALLKDLAAMVEQELTAVR-------M 164 Query: 202 TLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVDVDYFKQYNDTYGHPAGDALLT 261 D LTGI NRR FD R R P +L D+D FKQ ND +GH GDA L Sbjct: 165 ATIDELTGISNRRGFDALARHALANSRRMDWPACMLYFDLDQFKQINDRFGHAEGDAALV 224 Query: 262 QLGRVLRSPLRASDFLARYGGDEFSLILPDTDEIGALQVAERIKAAVEQAHW---EHCDI 318 +L S R SD +AR GGDEF++ L + D + V +V + + + Sbjct: 225 DFAALLSSSFRESDVIARLGGDEFAVFLTNADLAESDTVLAHFAQSVREFNVLRPRPYAL 284 Query: 319 EISLGAATVTPSEMCDFSALLQAADQAMYRRKHGR 353 S+G + D +AL +AD MY RK R Sbjct: 285 AYSVGVVQYDAARHADLAALQHSADALMYERKKTR 319 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 133 bits (334), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 81/195 (41%), Positives = 111/195 (56%), Gaps = 10/195 (5%) Query: 163 MDREARVLTAAQRDAFLKLGRQLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLRE 222 +++E + L+A R L++ E + +A ++L +LTD LTGI NRRSFD L + Sbjct: 161 LEQEKQSLSALNRSLELRIA---ERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQ 217 Query: 223 EWTRHLRNARPLSLLMVDVDYFKQYNDTYGHPAGDALLTQLGRVLRSPL-RASDFLARYG 281 EW R +R+ PL L +DVD+FK YND YGH AGDA+L Q+ + LR + R D +ARYG Sbjct: 218 EWRRSMRHGTPLMLAFIDVDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYG 277 Query: 282 GDEFSLILPDTDEIGALQVAERIKAAVEQAHWEHCD-----IEISLGAATVTPSE-MCDF 335 G+EF++I DTD + R+ AV H I IS G A+ P + Sbjct: 278 GEEFAIIAADTDGQAGADMLRRMCDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGL 337 Query: 336 SALLQAADQAMYRRK 350 LLQAAD A+YR K Sbjct: 338 DGLLQAADAALYRAK 352 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 132 bits (331), Expect = 6e-32, Method: Compositional matrix adjust. Identities = 78/185 (42%), Positives = 112/185 (60%), Gaps = 9/185 (4%) Query: 174 QRDAFLKLGRQLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARP 233 QRDA R+ + QL+ ++ +L++ T TD LTGI NRR FD L EW R R+ Sbjct: 148 QRDAAYSALRESQQQLQ--KSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLD 205 Query: 234 LSLLMVDVDYFKQYNDTYGHPAGDALLTQLGRVLRSPL-RASDFLARYGGDEFSLILPDT 292 L+LL++DVD+FK YND YGH AGDA+L Q+ L S + R +D AR+GG+EF++ILP T Sbjct: 206 LALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRT 265 Query: 293 DEIGALQVAERIKAAVEQAHWEHCD------IEISLGAATVTPSEMCDFSALLQAADQAM 346 GA +A+++ VE H + +S+GAAT+ P E + L++AAD+ + Sbjct: 266 GLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRL 325 Query: 347 YRRKH 351 Y K Sbjct: 326 YLAKQ 330 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 0.135 0.409 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: 1,168,913 Number of extensions: 48987 Number of successful extensions: 222 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 181 Number of HSP's successfully gapped: 41 Length of query: 358 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 272 Effective length of database: 1,212,660 Effective search space: 329843520 Effective search space used: 329843520 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: 131 (55.1 bits)