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= 0020.0235.p (389 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein... 740 0.0 gi|300312514|ref|YP_003776606.1| GGDEF domain-containing protein... 101 1e-22 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 100 2e-22 gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767... 100 2e-22 gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspi... 97 2e-21 >gi|300309602|ref|YP_003773694.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 384 Score = 740 bits (1911), Expect = 0.0, Method: Compositional matrix adjust. Identities = 383/384 (99%), Positives = 383/384 (99%) Query: 6 MALDPSTLLILTIALAAAASLYLTVEWSVVRERSLLLWSSGFAIITVGSFLALLRSRGYL 65 MALDPSTLLILTIALAAAASLYLTVEWSVVRERSLLLWSSGFAIITVGSFLALLRSRGYL Sbjct: 1 MALDPSTLLILTIALAAAASLYLTVEWSVVRERSLLLWSSGFAIITVGSFLALLRSRGYL 60 Query: 66 LVGIWFANGLLIAAHACFLAGVAGCMRTRISRAWWLIALLWLLMLLLPTHAWWSRVMLGL 125 LVGIWFANGLLIAAHACFLAGVAG MRTRISRAWWLIALLWLLMLLLPTHAWWSRVMLGL Sbjct: 61 LVGIWFANGLLIAAHACFLAGVAGFMRTRISRAWWLIALLWLLMLLLPTHAWWSRVMLGL 120 Query: 126 QSLMIAVLTLRASSLLRPHGASLSVGAVQLRYVLLIHGLFYLAKAVSALALGAVVDLAAF 185 QSLMIAVLTLRASSLLRPHGASLSVGAVQLRYVLLIHGLFYLAKAVSALALGAVVDLAAF Sbjct: 121 QSLMIAVLTLRASSLLRPHGASLSVGAVQLRYVLLIHGLFYLAKAVSALALGAVVDLAAF 180 Query: 186 GGTLIQISLVEGSMAVMLIALSMTGTERHRREERIGQLAARDPLTGLLNRRALQARAPAL 245 GGTLIQISLVEGSMAVMLIALSMTGTERHRREERIGQLAARDPLTGLLNRRALQARAPAL Sbjct: 181 GGTLIQISLVEGSMAVMLIALSMTGTERHRREERIGQLAARDPLTGLLNRRALQARAPAL 240 Query: 246 IAQASQAHPGALLLIDIDNFKQVNDLHGHAAGDKLLEALSTLLREVLPDDALAARLGGDE 305 IAQASQAHPGALLLIDIDNFKQVNDLHGHAAGDKLLEALSTLLREVLPDDALAARLGGDE Sbjct: 241 IAQASQAHPGALLLIDIDNFKQVNDLHGHAAGDKLLEALSTLLREVLPDDALAARLGGDE 300 Query: 306 FAILLPDGRQAQVAHIGEQLRQAFVHVTQTAVATPEAVSLSVGVSLFSTAALDLAGLMAR 365 FAILLPDGRQAQVAHIGEQLRQAFVHVTQTAVATPEAVSLSVGVSLFSTAALDLAGLMAR Sbjct: 301 FAILLPDGRQAQVAHIGEQLRQAFVHVTQTAVATPEAVSLSVGVSLFSTAALDLAGLMAR 360 Query: 366 ADAALYEAKRAGRNQIVITPSNAA 389 ADAALYEAKRAGRNQIVITPSNAA Sbjct: 361 ADAALYEAKRAGRNQIVITPSNAA 384 >gi|300312514|ref|YP_003776606.1| GGDEF domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 346 Score = 101 bits (251), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 63/177 (35%), Positives = 104/177 (58%), Gaps = 15/177 (8%) Query: 212 ERHRREERIGQLAARDPLTGLLNRRALQARAPALIAQASQAHPGALLLIDIDNFKQVNDL 271 E R + + +A +DPLTG+ NRR + P +I QA Q L+IDIDNFK++ND Sbjct: 180 ESLRLRKELEFIAFKDPLTGIDNRRRFMQQLP-IILQAGQPSDACFLMIDIDNFKKINDD 238 Query: 272 HGHAAGDKLLEALSTLLREVLPDDALAARLGGDEFAILLPDGRQAQVAHIG----EQLRQ 327 GHA+GD+ L + ++ L + AL R+GG+EF I L G A + +++RQ Sbjct: 239 FGHASGDEALILTARAMQSALSEGAL-GRMGGEEFGIALSGGGLAHAEQVAAKLLQEVRQ 297 Query: 328 AFVHVTQTAVATPEAVSLSVGVSLFSTAALDLAGLMARADAALYEAKRAGRNQIVIT 384 +H A P +++S+G++ +T ++ +++ AD ALY+AKRAG+++ V++ Sbjct: 298 IHIH------ARP--LTVSIGIAR-ATDHSSVSKVLSAADQALYQAKRAGKDRYVVS 345 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 100 bits (250), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 69/175 (39%), Positives = 101/175 (57%), Gaps = 11/175 (6%) Query: 217 EERIGQLAARDPLTGLLNRRALQARAPALIA--QASQAHPGA---LLLIDIDNFKQVNDL 271 E+++ LA D LTGLLNRR+L AL+A Q SQ P A L ID+D FK+ ND Sbjct: 320 EKQLEDLARTDGLTGLLNRRSLDE---ALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDT 376 Query: 272 HGHAAGDKLLEALSTLLREVLP-DDALAARLGGDEFAILLPDGRQAQVAHIGEQLRQAFV 330 +GH GD +L+A++ +LRE L + LA R GG+EF +LL + + +QL +A Sbjct: 377 YGHEMGDTVLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIY 436 Query: 331 HVTQTAVATPEAV-SLSVGVSLFSTAALD-LAGLMARADAALYEAKRAGRNQIVI 383 + +P V S+S+GV+ + A + ++ AD ALY AKR GRN++ + Sbjct: 437 NRGIPHSGSPLGVISVSIGVATMNRAPHQRMEDVLNAADHALYIAKREGRNRVCV 491 >gi|300312078|ref|YP_003776170.1| hypothetical protein Hsero_2767 [Herbaspirillum seropedicae SmR1] Length = 534 Score = 100 bits (250), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 61/171 (35%), Positives = 96/171 (56%), Gaps = 12/171 (7%) Query: 219 RIGQLAARDPLTGLLNRRALQARAPALIAQA-SQAHPGALLLIDIDNFKQVNDLHGHAAG 277 ++G+L D LTG LNRR + I A + P + L+D+D+FK++ND HGHA G Sbjct: 359 QMGELVREDQLTGSLNRRGMDESLDREITNALRRDTPLCVALLDLDDFKRINDTHGHATG 418 Query: 278 DKLLEALSTLLREVLPDDALAARLGGDEFAILLPDGRQAQVAHI-----GEQLRQAFVHV 332 D++L + ++RE L + AR GG+EF +L+P+ I E ++ F+H Sbjct: 419 DEVLVHMVQVIRETLRKLDVIARFGGEEFLVLMPETAPQDAVQIITRVQRELTKRIFMHE 478 Query: 333 TQTAVATPEAVSLSVGVSLFSTAALDLAGLMARADAALYEAKRAGRNQIVI 383 +Q + ++ S GV+++ A L+ RAD ALY+AK AG+N+IV Sbjct: 479 SQRLL-----ITFSAGVAVYHPGE-SQADLLKRADVALYKAKNAGKNRIVF 523 >gi|300311572|ref|YP_003775664.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 77/228 (33%), Positives = 115/228 (50%), Gaps = 22/228 (9%) Query: 156 RYVL-LIHGLFYLAKAVSALALGAVVDLAAFGGTLIQISLVEGSMAVMLIALSMTGTERH 214 R+VL H ++ A+S + + A++ L G+L+ S+++M+I +R Sbjct: 176 RFVLSFSHPELFIPPAMSNIGV-ALIYLIPLSGSLLF------SVSLMMIYFERLLADRQ 228 Query: 215 RREERIGQLAARDPLTGLLNRRALQARAPALIAQASQAHPG-ALLLIDIDNFKQVNDLHG 273 R LA D LTG LNRR L L+A+A + AL ID+D+FKQ+ND HG Sbjct: 229 R-------LATEDQLTGALNRRELVRCGELLLARAVERKSVLALAFIDVDHFKQINDRHG 281 Query: 274 HAAGDKLLEAL-STLLREVLPDDALAARLGGDEFAILLPDGRQAQVAHIGEQLRQAFVHV 332 H AGD++L + +TL + P D L R GG+EF + P Q IG++L ++ V Sbjct: 282 HLAGDRVLAGIGATLAQSCRPGDVL-GRYGGEEFCAVFPGVDHDQACQIGQRLLES---V 337 Query: 333 TQTAVATPEAVSLSVGVSLFSTA-ALDLAGLMARADAALYEAKRAGRN 379 V++SVG+++ L+ AD ALY AK GRN Sbjct: 338 RTQRFEHGHPVTISVGLAVLQPGNQRSWDELVHEADLALYRAKNEGRN 385 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 0.326 0.136 0.396 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: 999,677 Number of extensions: 37680 Number of successful extensions: 311 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 240 Number of HSP's successfully gapped: 39 Length of query: 389 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 302 Effective length of database: 1,207,925 Effective search space: 364793350 Effective search space used: 364793350 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 (21.7 bits) S2: 131 (55.1 bits)