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= 0001.2589.p (306 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 156 2e-39 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 156 2e-39 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 148 4e-37 gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspiri... 139 4e-34 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 137 1e-33 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 156 bits (395), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 80/172 (46%), Positives = 111/172 (64%), Gaps = 1/172 (0%) Query: 133 QKELEALSYRDGLTNVANRRMFDSALEVEWANAISTRAPLSLIMLDIDYFKQYNDHYGHI 192 ++LEALS DGLT VANRR FD AL E A+ + L+L+MLD+DYFK+YND YGH+ Sbjct: 395 NRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHL 454 Query: 193 RGDECLKQVAQLLSQTATRSRDFFARYGGEEFVLILPECDEKAALQVAQRCRSLIAQAAI 252 GDECL+ VA++L +++ R+ D ARYGGEEF +I+ ECD ALQ A+ I + + Sbjct: 455 AGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQAIFELKL 514 Query: 253 PHAGSQVAPHITISQGVSTIVPSPMDQRIDFLELADRRLYRAKQLGRNCIAV 304 PHA S +I+ S GV+ ++P + +AD+ LY AK GRN + + Sbjct: 515 PHADSPFG-YISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNRVVL 565 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 156 bits (394), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 79/175 (45%), Positives = 109/175 (62%), Gaps = 3/175 (1%) Query: 131 ELQK---ELEALSYRDGLTNVANRRMFDSALEVEWANAISTRAPLSLIMLDIDYFKQYND 187 +LQK EL+ L+ DGLT +ANRR FD L EW A L+L+++D+D+FK YND Sbjct: 162 QLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYND 221 Query: 188 HYGHIRGDECLKQVAQLLSQTATRSRDFFARYGGEEFVLILPECDEKAALQVAQRCRSLI 247 +YGH+ GD L+QVA+ L + R D AR+GGEEF +ILP A +AQ+ L+ Sbjct: 222 NYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLV 281 Query: 248 AQAAIPHAGSQVAPHITISQGVSTIVPSPMDQRIDFLELADRRLYRAKQLGRNCI 302 +PH GS V+ +T+S G +T+VP + + +E ADRRLY AKQ GRN + Sbjct: 282 ESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQGRNRV 336 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 148 bits (374), Expect = 4e-37, Method: Compositional matrix adjust. Identities = 83/187 (44%), Positives = 110/187 (58%), Gaps = 5/187 (2%) Query: 119 ITERKKTEARLIELQKELEALSYRDGLTNVANRRMFDSALEVEWANAISTRAPLSLIMLD 178 I ER + L + ++L +LS DGLT +ANRR FD LE EW ++ PL L +D Sbjct: 179 IAERTRD---LAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFID 235 Query: 179 IDYFKQYNDHYGHIRGDECLKQVAQLLSQTATRSRDFFARYGGEEFVLILPECDEKAALQ 238 +D+FK YNDHYGH+ GD L+QVAQ L Q+ R D ARYGGEEF +I + D +A Sbjct: 236 VDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGAD 295 Query: 239 VAQRCRSLIAQAAIPHAGSQVAPHITISQGVSTIVPSPMDQRID-FLELADRRLYRAKQL 297 + +R + AI HAGS + ITIS GV++ P +D L+ AD LYRAK Sbjct: 296 MLRRMCDAVHALAIAHAGSAMG-RITISAGVASCNPGQPGAGLDGLLQAADAALYRAKME 354 Query: 298 GRNCIAV 304 GRN + + Sbjct: 355 GRNRVVL 361 >gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspirillum seropedicae SmR1] Length = 358 Score = 139 bits (349), Expect = 4e-34, Method: Compositional matrix adjust. Identities = 74/163 (45%), Positives = 99/163 (60%), Gaps = 7/163 (4%) Query: 134 KELEALSYRDGLTNVANRRMFDSALEVEWANAISTRAPLSLIMLDIDYFKQYNDHYGHIR 193 ++LE + D LT + NRR FD L EW + PLSL+M+D+DYFKQYND YGH Sbjct: 196 QKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARPLSLLMVDVDYFKQYNDTYGHPA 255 Query: 194 GDECLKQVAQLLSQTATRSRDFFARYGGEEFVLILPECDEKAALQVAQRCRSLIAQAAIP 253 GD L Q+ ++L ++ R+ DF ARYGG+EF LILP+ DE ALQVA+R ++ + QA Sbjct: 256 GDALLTQLGRVL-RSPLRASDFLARYGGDEFSLILPDTDEIGALQVAERIKAAVEQAHWE 314 Query: 254 HAGSQVAPHITISQGVSTIVPSPMDQRIDFLELADRRLYRAKQ 296 H I IS G +T+ PS M L+ AD+ +YR K Sbjct: 315 HC------DIEISLGAATVTPSEMCDFSALLQAADQAMYRRKH 351 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 137 bits (345), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 82/199 (41%), Positives = 115/199 (57%), Gaps = 10/199 (5%) Query: 110 NALIGFMFDITERKKTEARLIELQKELEALSYRDGLTNVANRRMFDSALEVEWANAISTR 169 AL G + + R+ + + +K+LE L+ DGLT + NRR D AL W S R Sbjct: 299 TALAGVLLMLVRRELLKR--VAAEKQLEDLARTDGLTGLLNRRSLDEALLAVWQR--SQR 354 Query: 170 AP---LSLIMLDIDYFKQYNDHYGHIRGDECLKQVAQLLSQTATRSRDFFARYGGEEFVL 226 +P S + +D+DYFK+YND YGH GD L+ VA +L + R D RYGGEEFV+ Sbjct: 355 SPTAGFSTLFIDVDYFKRYNDTYGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVV 414 Query: 227 ILPECDEKAALQVAQRCRSLIAQAAIPHAGSQVAPHITISQGVSTIVPSPMDQRIDFLEL 286 +L + DE AL++AQ+ I IPH+GS + I++S GV+T+ +P + D L Sbjct: 415 LLEQTDEHGALRMAQQLCEAIYNRGIPHSGSPLGV-ISVSIGVATMNRAPHQRMEDVLNA 473 Query: 287 ADRRLYRAKQLGRN--CIA 303 AD LY AK+ GRN C+A Sbjct: 474 ADHALYIAKREGRNRVCVA 492 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 0.320 0.134 0.405 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: 934,465 Number of extensions: 36876 Number of successful extensions: 233 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 167 Number of HSP's successfully gapped: 40 Length of query: 306 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 221 Effective length of database: 1,217,395 Effective search space: 269044295 Effective search space used: 269044295 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 (21.8 bits) S2: 130 (54.7 bits)