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= 0017.0064.p (328 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 364 e-102 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 144 9e-36 gi|300313030|ref|YP_003777122.1| two component response regulato... 143 2e-35 gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspiri... 132 5e-32 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 123 2e-29 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 364 bits (934), Expect = e-102, Method: Compositional matrix adjust. Identities = 189/328 (57%), Positives = 227/328 (69%), Gaps = 19/328 (5%) Query: 16 PSPQSTIATQEYRFSVLLIDDQLVVQEKIRSAVRPETDIDFHFCGKAADALAKAEACRPT 75 P + EY+ VLL+DDQ +V E IR A+ E IDFHFC +A +AL AE RPT Sbjct: 9 PLVSPALPADEYKIMVLLVDDQPMVGEAIRRALANEPHIDFHFCTRAEEALTVAERTRPT 68 Query: 76 VILQDLVMPDADGLDLVRQYRSSTLLANVPVIVLSSTDEPLIKKDAFLAGANDYVVKSYD 135 VILQDLVMP DG+ LVRQYR+S +L NVP+IVLSS D+ ++K+DAF GANDY+VK D Sbjct: 69 VILQDLVMPGVDGMTLVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGANDYMVKLPD 128 Query: 136 TIELVARIRYHSRSYINLLQRDAAYAALHESQKQLEASNAELKRLTHTDGLTGIANRRYF 195 IELVARIRYHSRSYINLLQRDAAY+AL ESQ+QL+ SN EL+RLT+TDGLTGIANRRYF Sbjct: 129 VIELVARIRYHSRSYINLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYF 188 Query: 196 DDYMKQEWLRAQRDKTPLSLLLMDVDCFKLYNDTYGHPAGXH------------------ 237 DDY+ EW RA+RD L+LLL+DVD FKLYND YGH AG Sbjct: 189 DDYLGAEWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPAD 248 Query: 238 -KARYGGEEFAVILPDTNAAGARELAERICLAVAGLGIAHTTSKAVDHVTVSVGAATVYP 296 AR+GGEEFA+ILP T GA +A+++C V L + H S +TVSVGAAT+ P Sbjct: 249 LSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVP 308 Query: 297 VQGGDIVGLIKRVDDCLYNAKQSGRNRV 324 + ++ LI+ D LY AKQ GRNRV Sbjct: 309 QEQQELRELIEAADRRLYLAKQQGRNRV 336 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 144 bits (363), Expect = 9e-36, Method: Compositional matrix adjust. Identities = 81/180 (45%), Positives = 103/180 (57%), Gaps = 21/180 (11%) Query: 165 ESQKQLEASNAELKRLTHTDGLTGIANRRYFDDYMKQEWLRAQRDKTPLSLLLMDVDCFK 224 E + L +N +L+ L+ TDGLTGIANRR FD+ ++QEW R+ R TPL L +DVD FK Sbjct: 181 ERTRDLAQANEQLRSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFK 240 Query: 225 LYNDTYGHPA-------------------GXHKARYGGEEFAVILPDTNAAGARELAERI 265 YND YGH A G ARYGGEEFA+I DT+ ++ R+ Sbjct: 241 PYNDHYGHLAGDAVLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRM 300 Query: 266 CLAVAGLGIAHTTSKAVDHVTVSVGAATVYPVQ-GGDIVGLIKRVDDCLYNAKQSGRNRV 324 C AV L IAH S A+ +T+S G A+ P Q G + GL++ D LY AK GRNRV Sbjct: 301 CDAVHALAIAHAGS-AMGRITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRNRV 359 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 106/327 (32%), Positives = 149/327 (45%), Gaps = 55/327 (16%) Query: 28 RFSVLLIDDQLVVQEKIRSAVRPETDIDFHFCGKAADALAKAEACRPTVILQDLVMPDAD 87 R +LL DDQ + + + ++ + +I G A L+ E P +IL D+ MP + Sbjct: 15 RPRILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELS--ERVTPDLILMDVNMPGLN 72 Query: 88 GLDLVRQYRSSTLLANVPVIVLSSTDEPLIKKDAFLAGANDYVVKSYDTIELVARIRYH- 146 G D + + +TL +PVI L+ + AF G D++ K + L AR+ H Sbjct: 73 GYDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHL 132 Query: 147 -----SRSYINLLQRDAAYAALHESQKQLEASNAELKRLTHTDGLTGIANRRYFDDYMKQ 201 S Y+N+ TD LTG+ NRR FD + + Sbjct: 133 TLKLQSDFYLNI---------------------------AVTDSLTGLFNRRKFDSELAE 165 Query: 202 EWLRAQRDKTPLSLLLMDVDCFKLYNDTYGHPAGXH-------------------KARYG 242 +W +R +SLLL+D+D FK YND YGH AG H ARYG Sbjct: 166 KWELCKRSGQAMSLLLIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYG 225 Query: 243 GEEFAVILPDTNAAGARELAERICLAVAGLGIAHTTSKAVDHVTVSVGAAT-VYPVQGGD 301 GEEFA ILP T A A+ +C +VA L + H S V++S+G AT + P Sbjct: 226 GEEFACILPMTGREQAIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNAS 285 Query: 302 IVGLIKRVDDCLYNAKQSGRNRVRAAE 328 V L+ D LY AK +GR +V AAE Sbjct: 286 PVALLALADKNLYAAKANGRAQVFAAE 312 >gi|300309626|ref|YP_003773718.1| diguanylate cyclase [Herbaspirillum seropedicae SmR1] Length = 358 Score = 132 bits (331), Expect = 5e-32, Method: Compositional matrix adjust. Identities = 79/183 (43%), Positives = 103/183 (56%), Gaps = 26/183 (14%) Query: 155 QRDAAYAALHESQKQLEASNA--ELKRLTHTDGLTGIANRRYFDDYMKQEWLRAQRDKTP 212 QRDA + + QLEA A +L++ T TD LTGI NRR FD +++EW R R+ P Sbjct: 174 QRDAFLKLGRQLEGQLEARRAMQKLEQQTLTDALTGIGNRRSFDLRLREEWTRHLRNARP 233 Query: 213 LSLLLMDVDCFKLYNDTYGHPAG------------------XHKARYGGEEFAVILPDTN 254 LSLL++DVD FK YNDTYGHPAG ARYGG+EF++ILPDT+ Sbjct: 234 LSLLMVDVDYFKQYNDTYGHPAGDALLTQLGRVLRSPLRASDFLARYGGDEFSLILPDTD 293 Query: 255 AAGARELAERICLAVAGLGIAHTTSKAVDHVTVSVGAATVYPVQGGDIVGLIKRVDDCLY 314 GA ++AERI AV H + +S+GAATV P + D L++ D +Y Sbjct: 294 EIGALQVAERIKAAVEQAHWEHC------DIEISLGAATVTPSEMCDFSALLQAADQAMY 347 Query: 315 NAK 317 K Sbjct: 348 RRK 350 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust. Identities = 70/176 (39%), Positives = 99/176 (56%), Gaps = 20/176 (11%) Query: 168 KQLEASNAELKRLTHTDGLTGIANRRYFDDYMKQEWLRAQRDKTPLSLLLMDVDCFKLYN 227 ++LE +N +L+ L+ TDGLTG+ANRR FD+ + E RA R L+LL++DVD FK YN Sbjct: 389 RELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKKYN 448 Query: 228 DTYGHPAGXH-------------------KARYGGEEFAVILPDTNAAGARELAERICLA 268 D YGH AG ARYGGEEF+VI+ + + A + AE IC A Sbjct: 449 DRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQA 508 Query: 269 VAGLGIAHTTSKAVDHVTVSVGAATVYPVQGGDIVGLIKRVDDCLYNAKQSGRNRV 324 + L + H S +++ S+G A + P + +++ D LY+AK GRNRV Sbjct: 509 IFELKLPHADSP-FGYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNRV 563 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 0.318 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: 900,432 Number of extensions: 35249 Number of successful extensions: 317 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 282 Number of HSP's successfully gapped: 43 Length of query: 328 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 242 Effective length of database: 1,212,660 Effective search space: 293463720 Effective search space used: 293463720 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 131 (55.1 bits)