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= 0035.0203.p (341 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... 693 0.0 gi|300313030|ref|YP_003777122.1| two component response regulato... 191 6e-50 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 167 1e-42 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 166 4e-42 gi|300312843|ref|YP_003776935.1| response regulator containing a... 151 9e-38 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 693 bits (1789), Expect = 0.0, Method: Compositional matrix adjust. Identities = 341/341 (100%), Positives = 341/341 (100%) Query: 1 MSSVHTDIPLVSPALPADEYKIMVLLVDDQPMVGEAIRRALANEPHIDFHFCTRAEEALT 60 MSSVHTDIPLVSPALPADEYKIMVLLVDDQPMVGEAIRRALANEPHIDFHFCTRAEEALT Sbjct: 1 MSSVHTDIPLVSPALPADEYKIMVLLVDDQPMVGEAIRRALANEPHIDFHFCTRAEEALT 60 Query: 61 VAERTRPTVILQDLVMPGVDGMTLVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGAN 120 VAERTRPTVILQDLVMPGVDGMTLVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGAN Sbjct: 61 VAERTRPTVILQDLVMPGVDGMTLVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGAN 120 Query: 121 DYMVKLPDVIELVARIRYHSRSYINLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLT 180 DYMVKLPDVIELVARIRYHSRSYINLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLT Sbjct: 121 DYMVKLPDVIELVARIRYHSRSYINLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLT 180 Query: 181 GIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALD 240 GIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALD Sbjct: 181 GIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALD 240 Query: 241 SSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVS 300 SSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVS Sbjct: 241 SSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVS 300 Query: 301 VGAATLVPQEQQELRELIEAADRRLYLAKQQGRNRVVWQDG 341 VGAATLVPQEQQELRELIEAADRRLYLAKQQGRNRVVWQDG Sbjct: 301 VGAATLVPQEQQELRELIEAADRRLYLAKQQGRNRVVWQDG 341 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 191 bits (486), Expect = 6e-50, Method: Compositional matrix adjust. Identities = 114/314 (36%), Positives = 166/314 (52%), Gaps = 24/314 (7%) Query: 24 VLLVDDQPMVGEAIRRALANEPHIDFHFCTRAEEALTVAERTRPTVILQDLVMPGVDGMT 83 +LL DDQP+ + L + I T +A+ ++ER P +IL D+ MPG++G Sbjct: 18 ILLCDDQPINIRLVNALLKGDYEI--FMATSGLQAIELSERVTPDLILMDVNMPGLNGYD 75 Query: 84 LVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGANDYMVKLPDVIELVARIRYHSRSY 143 + + + + + +P+I L+ + AF G D++ K + L AR+ H Sbjct: 76 TCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHLTLK 135 Query: 144 INLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDG 203 + +S+F L + TD LTG+ NRR FD L +W +R G Sbjct: 136 L--------------------QSDFYLN-IAVTDSLTGLFNRRKFDSELAEKWELCKRSG 174 Query: 204 LDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILP 263 ++LLLID+D FK YND+YGH AGD L +VA + S+ R D AR+GGEEFA ILP Sbjct: 175 QAMSLLLIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILP 234 Query: 264 RTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLV-PQEQQELRELIEAAD 322 TG + A AQ+VCH V L +PH S SAW+++S+G AT++ P L+ AD Sbjct: 235 MTGREQAIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALAD 294 Query: 323 RRLYLAKQQGRNRV 336 + LY AK GR +V Sbjct: 295 KNLYAAKANGRAQV 308 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 167 bits (422), Expect = 1e-42, Method: Compositional matrix adjust. Identities = 85/182 (46%), Positives = 119/182 (65%), Gaps = 1/182 (0%) Query: 156 LRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDF 215 +R ++L+++N +L+ L+ TDGLTG+ANRR FD+ L E RRA R G LALL++DVD+ Sbjct: 384 VRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDY 443 Query: 216 FKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQ 275 FK YND YGH+AGD LR VA L S +R DL AR+GGEEF++I+ A A+ Sbjct: 444 FKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAE 503 Query: 276 KVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQQELRELIEAADRRLYLAKQQGRNR 335 +C + L++PH S +++ S+G A L+P E +++ AD+ LY AK QGRNR Sbjct: 504 NICQAIFELKLPHADSPF-GYISASIGVAVLLPDEHTAPEQMVRIADQALYHAKYQGRNR 562 Query: 336 VV 337 VV Sbjct: 563 VV 564 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 166 bits (419), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 103/226 (45%), Positives = 136/226 (60%), Gaps = 15/226 (6%) Query: 126 LPDVIELV-ARIRYHSRS----YINLLQRDAAYSALR--------ESQQQLQKSNFELQR 172 L D I L+ A++ H+ Y L Q + SAL E + L ++N +L+ Sbjct: 136 LADAINLMLAKLHRHTIHNHALYKELEQEKQSLSALNRSLELRIAERTRDLAQANEQLRS 195 Query: 173 LTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFKLYNDNYGHVAGDAVL 232 L+ TDGLTGIANRR FD+ L EWRR+ R G L L IDVD+FK YND+YGH+AGDAVL Sbjct: 196 LSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFKPYNDHYGHLAGDAVL 255 Query: 233 RQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKVCHLVESLQVPHEGSS 292 RQVA+ L SI R D AR+GGEEFA+I T + +++C V +L + H GS+ Sbjct: 256 RQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRMCDAVHALAIAHAGSA 315 Query: 293 VSAWLTVSVGAATLVP-QEQQELRELIEAADRRLYLAKQQGRNRVV 337 + +T+S G A+ P Q L L++AAD LY AK +GRNRVV Sbjct: 316 MGR-ITISAGVASCNPGQPGAGLDGLLQAADAALYRAKMEGRNRVV 360 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 151 bits (381), Expect = 9e-38, Method: Compositional matrix adjust. Identities = 85/180 (47%), Positives = 119/180 (66%), Gaps = 1/180 (0%) Query: 158 ESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLALLLIDVDFFK 217 ++ +LQ +N L+ L + DGLTG+ANRR+ D L E++RA R G LAL++IDVDFFK Sbjct: 331 QAMGELQMANHRLEMLAHQDGLTGLANRRHLDTMLETEFKRAERSGAALALIMIDVDFFK 390 Query: 218 LYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGLDGAHAIAQKV 277 YND YGH AGD LR+VA L +RP DL+AR+GGEE AM+LP T +GA A+A+K+ Sbjct: 391 QYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGTDAEGACAVAEKL 450 Query: 278 CHLVESLQVPHEGSSVSAWLTVSVGAA-TLVPQEQQELRELIEAADRRLYLAKQQGRNRV 336 +++L++PH G+ V A L+P + ++ L+ AAD LY AK +GRN+V Sbjct: 451 RAGIQALELPHRGNPVGVVTVSVGVCALELLPSAARSVQALLGAADAALYEAKHEGRNQV 510 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 0.136 0.389 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: 1,004,372 Number of extensions: 38908 Number of successful extensions: 332 Number of sequences better than 1.0e-08: 50 Number of HSP's gapped: 288 Number of HSP's successfully gapped: 50 Length of query: 341 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 255 Effective length of database: 1,212,660 Effective search space: 309228300 Effective search space used: 309228300 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: 131 (55.1 bits)