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= 0229.0024.p (198 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... 224 5e-60 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 180 7e-47 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 171 5e-44 gi|300312843|ref|YP_003776935.1| response regulator containing a... 166 1e-42 gi|300310865|ref|YP_003774957.1| response regulator containing a... 158 4e-40 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 224 bits (570), Expect = 5e-60, Method: Compositional matrix adjust. Identities = 113/186 (60%), Positives = 136/186 (73%) Query: 11 LEARVRQRTHELEDSNSKLATLSQTDGLTGIANRRRFDEVFAAEWSRAGRSGQSLALAML 70 LE +VR RT ELE +N KL LS TDGLTG+ANRRRFDE A E RA RSGQSLAL ML Sbjct: 380 LEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLML 439 Query: 71 DVDYFKAYNDTYGHQCGDDCLRAIANLLGKNVRRVGDLAARYGGEEFAFIAPMTDSHSAL 130 DVDYFK YND YGH GD+CLR +A +L K+ RR DL ARYGGEEF+ I D+ AL Sbjct: 440 DVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQAL 499 Query: 131 GIAETIRRALEQLNLPHAASPFHVVTASIGVAVIIPGKSDTPQGLLQMADAALYQAKQQG 190 AE I +A+ +L LPHA SPF ++ASIGVAV++P + P+ ++++AD ALY AK QG Sbjct: 500 QQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQG 559 Query: 191 RNQVVL 196 RN+VVL Sbjct: 560 RNRVVL 565 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 180 bits (456), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 98/190 (51%), Positives = 121/190 (63%), Gaps = 1/190 (0%) Query: 9 RGLEARVRQRTHELEDSNSKLATLSQTDGLTGIANRRRFDEVFAAEWSRAGRSGQSLALA 68 R LE R+ +RT +L +N +L +LS TDGLTGIANRR FDE EW R+ R G L LA Sbjct: 173 RSLELRIAERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLA 232 Query: 69 MLDVDYFKAYNDTYGHQCGDDCLRAIANLLGKNVRRVGDLAARYGGEEFAFIAPMTDSHS 128 +DVD+FK YND YGH GD LR +A L +++ RVGD ARYGGEEFA IA TD + Sbjct: 233 FIDVDWFKPYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQA 292 Query: 129 ALGIAETIRRALEQLNLPHAASPFHVVTASIGVAVIIPGKSDTP-QGLLQMADAALYQAK 187 + + A+ L + HA S +T S GVA PG+ GLLQ ADAALY+AK Sbjct: 293 GADMLRRMCDAVHALAIAHAGSAMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAK 352 Query: 188 QQGRNQVVLA 197 +GRN+VVLA Sbjct: 353 MEGRNRVVLA 362 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 171 bits (432), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 87/182 (47%), Positives = 116/182 (63%), Gaps = 1/182 (0%) Query: 15 VRQRTHELEDSNSKLATLSQTDGLTGIANRRRFDEVFAAEWSRAGRSGQSLALAMLDVDY 74 +R+ +L+ SN +L L+ TDGLTGIANRR FD+ AEW RA R G LAL ++DVD+ Sbjct: 156 LRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDF 215 Query: 75 FKAYNDTYGHQCGDDCLRAIANLLGKNVRRVGDLAARYGGEEFAFIAPMTDSHSALGIAE 134 FK YND YGH GD LR +A L +++R DL+AR+GGEEFA I P T A IA+ Sbjct: 216 FKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQ 275 Query: 135 TIRRALEQLNLPHAASPFHV-VTASIGVAVIIPGKSDTPQGLLQMADAALYQAKQQGRNQ 193 + +E L +PH S +T S+G A ++P + + L++ AD LY AKQQGRN+ Sbjct: 276 KVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQGRNR 335 Query: 194 VV 195 VV Sbjct: 336 VV 337 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 166 bits (421), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 102/197 (51%), Positives = 131/197 (66%), Gaps = 5/197 (2%) Query: 3 ELRVRERGLEARVRQRTHELEDSNSKLATLSQTDGLTGIANRRRFDEVFAAEWSRAGRSG 62 ELR+R E R Q EL+ +N +L L+ DGLTG+ANRR D + E+ RA RSG Sbjct: 320 ELRLRA---EDRALQAMGELQMANHRLEMLAHQDGLTGLANRRHLDTMLETEFKRAERSG 376 Query: 63 QSLALAMLDVDYFKAYNDTYGHQCGDDCLRAIANLLGKNVRRVGDLAARYGGEEFAFIAP 122 +LAL M+DVD+FK YND YGHQ GD+CLR +A +L + RR GDLAARYGGEE A + P Sbjct: 377 AALALIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLP 436 Query: 123 MTDSHSALGIAETIRRALEQLNLPHAASPFHVVTASIGVAV--IIPGKSDTPQGLLQMAD 180 TD+ A +AE +R ++ L LPH +P VVT S+GV ++P + + Q LL AD Sbjct: 437 GTDAEGACAVAEKLRAGIQALELPHRGNPVGVVTVSVGVCALELLPSAARSVQALLGAAD 496 Query: 181 AALYQAKQQGRNQVVLA 197 AALY+AK +GRNQV LA Sbjct: 497 AALYEAKHEGRNQVRLA 513 >gi|300310865|ref|YP_003774957.1| response regulator containing a CheY-like receiver domain and a GGDEF domain transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 554 Score = 158 bits (399), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 93/191 (48%), Positives = 119/191 (62%), Gaps = 3/191 (1%) Query: 7 RERGLEARVRQRTHELEDSNSKLATLSQTDGLTGIANRRRFDEVFAAEWSRAGRSGQSLA 66 RER EA+ ELE L SQ DGLT + NRR FD AAE +R R+G+SL+ Sbjct: 328 RERA-EAQAIAARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLS 386 Query: 67 LAMLDVDYFKAYNDTYGHQCGDDCLRAIANLLGKNVRRVGDLAARYGGEEFAFIAPMTDS 126 L M+DVD+FK +NDTYGH GD CLR +A + RR GD+ ARYGGEEFA I P Sbjct: 387 LMMIDVDHFKQFNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHP 446 Query: 127 HSALGIAETIRRALEQLNLPHAASPFHVVTASIGVAVIIPGKS--DTPQGLLQMADAALY 184 SA G+A + +A+ L + H SP VVT S+GVA + GKS P+ L+ AD ALY Sbjct: 447 GSAQGLAHRVVQAVRGLEIAHERSPMGVVTISVGVASLASGKSLLIEPRELIDSADGALY 506 Query: 185 QAKQQGRNQVV 195 +AK++GR++ V Sbjct: 507 RAKEEGRDRAV 517 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 0.319 0.133 0.381 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: 627,850 Number of extensions: 26230 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 127 Number of HSP's successfully gapped: 39 Length of query: 198 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 118 Effective length of database: 1,241,070 Effective search space: 146446260 Effective search space used: 146446260 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: 128 (53.9 bits)