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= 0022.0086.p (525 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... 555 e-159 gi|300312976|ref|YP_003777068.1| GGDEF family protein [Herbaspir... 154 2e-38 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 150 3e-37 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 137 1e-33 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 135 1e-32 >gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspirillum seropedicae SmR1] Length = 358 Score = 555 bits (1431), Expect = e-159, Method: Compositional matrix adjust. Identities = 268/353 (75%), Positives = 295/353 (83%), Gaps = 1/353 (0%) Query: 9 RSIFKRTQAAH-RAMTDNASQRIELAHTDSDADAWLEPALSDFISLASSVCGTPMGMFSQ 67 R+ F TQ R+ + RI+LA+ ADAWLEP L+DFISLA+S+C PMGM SQ Sbjct: 4 RNFFPPTQPERARSQRGLSGSRIDLANAGGQADAWLEPTLADFISLATSLCSMPMGMVSQ 63 Query: 68 LHADIGLQHPYLSVNNGRGDARNQWWRFPGQTGVMRNAVDFSLCETAARTPGQITEVNDL 127 LHADIG+QHP++S+ NGRGD RNQWWRFPGQ GV R VDFSLCE AAR PGQ+TE++DL Sbjct: 64 LHADIGMQHPFVSIVNGRGDRRNQWWRFPGQNGVARTVVDFSLCEYAARRPGQLTEISDL 123 Query: 128 SSDLRFATSALARGNPAVRFYAGVPLVSGNGDILGTLCVMDRVPRTLTPAQRDAFQKLAR 187 +D RF SALA GNP VRFYA VPLVS NGDI GTLCVMDR R LT AQRDAF KL R Sbjct: 124 QADQRFCDSALANGNPRVRFYAAVPLVSSNGDIFGTLCVMDREARVLTAAQRDAFLKLGR 183 Query: 188 QLEAQIDSHRAMQKLEQQTMTDALTGIGNRRSFDSRLREEWTRHLRNARPLTMLMVDVDY 247 QLE Q+++ RAMQKLEQQT+TDALTGIGNRRSFD RLREEWTRHLRNARPL++LMVDVDY Sbjct: 184 QLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVDVDY 243 Query: 248 FKQYNDTYGHPAGDALLVQLARVLRSPLRASDFLARYGGDEFSLILPDTDETGAMQVSER 307 FKQYNDTYGHPAGDALL QL RVLRSPLRASDFLARYGGDEFSLILPDTDE GA+QV+ER Sbjct: 244 FKQYNDTYGHPAGDALLTQLGRVLRSPLRASDFLARYGGDEFSLILPDTDEIGALQVAER 303 Query: 308 IKQSVARVKWPHTDIEISLGAATVTPSEMCDFSALLHAADQAMYQRKHGRNPR 360 IK +V + W H DIEISLGAATVTPSEMCDFSALL AADQAMY+RKHGR PR Sbjct: 304 IKAAVEQAHWEHCDIEISLGAATVTPSEMCDFSALLQAADQAMYRRKHGREPR 356 >gi|300312976|ref|YP_003777068.1| GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 154 bits (388), Expect = 2e-38, Method: Compositional matrix adjust. Identities = 109/338 (32%), Positives = 153/338 (45%), Gaps = 32/338 (9%) Query: 25 NASQRIELAHTDSDADAWLEPALSDFISLASSVCGTPMGMFSQLHADIGLQHPYLSVNNG 84 N + RI+ H+ D E LA + PM + + + Sbjct: 9 NEAARIDALHSLRILDTPREERFDRLTRLARRLFDVPMAVVTMI---------------- 52 Query: 85 RGDARNQWWR-FPGQTGVMRNAVDFSLCETAARTPGQITEVNDLSSDLRFATSALARGNP 143 D QW++ G + + S C A ++T V D + D RF+ + G P Sbjct: 53 --DVNRQWFKSCVGLGDATETSREVSFCAHAI-LHEEMTIVPDATLDPRFSGNPQVTGEP 109 Query: 144 AVRFYAGVPLVSGNGDILGTLCVMDRVPRTLTPAQRDAFQKLARQLEAQIDSHRAMQKLE 203 +RFYAG P+ S +G LGTLC++D VPR+ +R + LA +E ++ + R Sbjct: 110 FIRFYAGCPIKSESGFTLGTLCLVDTVPRSFDADERALLKDLAAMVEQELTAVR------ 163 Query: 204 QQTMTDALTGIGNRRSFDSRLREEWTRHLRNARPLTMLMVDVDYFKQYNDTYGHPAGDAL 263 D LTGI NRR FD+ R R P ML D+D FKQ ND +GH GDA Sbjct: 164 -MATIDELTGISNRRGFDALARHALANSRRMDWPACMLYFDLDQFKQINDRFGHAEGDAA 222 Query: 264 LVQLARVLRSPLRASDFLARYGGDEFSLILPDTDETGAMQVSERIKQSVARVKW----PH 319 LV A +L S R SD +AR GGDEF++ L + D + V QSV P+ Sbjct: 223 LVDFAALLSSSFRESDVIARLGGDEFAVFLTNADLAESDTVLAHFAQSVREFNVLRPRPY 282 Query: 320 TDIEISLGAATVTPSEMCDFSALLHAADQAMYQRKHGR 357 + S+G + D +AL H+AD MY+RK R Sbjct: 283 A-LAYSVGVVQYDAARHADLAALQHSADALMYERKKTR 319 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 150 bits (379), Expect = 3e-37, Method: Compositional matrix adjust. Identities = 81/170 (47%), Positives = 109/170 (64%), Gaps = 7/170 (4%) Query: 196 HRAMQKLEQQTMTDALTGIGNRRSFDSRLREEWTRHLRNARPLTMLMVDVDYFKQYNDTY 255 RA +KLE + TD LTG+ NRR FD L E R +R+ + L +LM+DVDYFK+YND Y Sbjct: 392 ERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKKYNDRY 451 Query: 256 GHPAGDALLVQLARVL-RSPLRASDFLARYGGDEFSLILPDTDETGAMQVSERIKQSVAR 314 GH AGD L +ARVL +S RA+D +ARYGG+EFS+I+ + D T A+Q +E I Q++ Sbjct: 452 GHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQAIFE 511 Query: 315 VKWPHTD-----IEISLGAATVTPSEMCDFSALLHAADQAMYQRKH-GRN 358 +K PH D I S+G A + P E ++ ADQA+Y K+ GRN Sbjct: 512 LKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRN 561 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 78/189 (41%), Positives = 116/189 (61%), Gaps = 10/189 (5%) Query: 178 QRDAFQKLARQLEAQIDSHRAMQKLEQQTMTDALTGIGNRRSFDSRLREEWTRHLRNARP 237 QRDA R+ + Q+ ++ +L++ T TD LTGI NRR FD L EW R R+ Sbjct: 148 QRDAAYSALRESQQQL--QKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLD 205 Query: 238 LTMLMVDVDYFKQYNDTYGHPAGDALLVQLARVLRSPL-RASDFLARYGGDEFSLILPDT 296 L +L++DVD+FK YND YGH AGDA+L Q+A L S + R +D AR+GG+EF++ILP T Sbjct: 206 LALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRT 265 Query: 297 DETGAMQVSERIKQSVARVKWPHTD------IEISLGAATVTPSEMCDFSALLHAADQAM 350 GA +++++ V ++ PH + +S+GAAT+ P E + L+ AAD+ + Sbjct: 266 GLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRL 325 Query: 351 Y-QRKHGRN 358 Y ++ GRN Sbjct: 326 YLAKQQGRN 334 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 135 bits (339), Expect = 1e-32, Method: Compositional matrix adjust. Identities = 80/194 (41%), Positives = 111/194 (57%), Gaps = 13/194 (6%) Query: 178 QRDAFQKLARQLEAQI-----DSHRAMQKLEQQTMTDALTGIGNRRSFDSRLREEWTRHL 232 ++ + L R LE +I D +A ++L ++TD LTGI NRRSFD L +EW R + Sbjct: 164 EKQSLSALNRSLELRIAERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSM 223 Query: 233 RNARPLTMLMVDVDYFKQYNDTYGHPAGDALLVQLARVLRSPL-RASDFLARYGGDEFSL 291 R+ PL + +DVD+FK YND YGH AGDA+L Q+A+ LR + R D +ARYGG+EF++ Sbjct: 224 RHGTPLMLAFIDVDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAI 283 Query: 292 ILPDTDETGAMQVSERIKQSVARVKWPHTD-----IEISLGAATVTPSE-MCDFSALLHA 345 I DTD + R+ +V + H I IS G A+ P + LL A Sbjct: 284 IAADTDGQAGADMLRRMCDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQA 343 Query: 346 ADQAMYQRK-HGRN 358 AD A+Y+ K GRN Sbjct: 344 ADAALYRAKMEGRN 357 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 0.321 0.134 0.411 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: 1,819,787 Number of extensions: 81030 Number of successful extensions: 275 Number of sequences better than 1.0e-08: 41 Number of HSP's gapped: 240 Number of HSP's successfully gapped: 41 Length of query: 525 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 435 Effective length of database: 1,193,720 Effective search space: 519268200 Effective search space used: 519268200 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)