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= 0019.0196.p (324 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313030|ref|YP_003777122.1| two component response regulato... 561 e-161 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 179 3e-46 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 161 6e-41 gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF famil... 138 6e-34 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 137 1e-33 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 561 bits (1447), Expect = e-161, Method: Compositional matrix adjust. Identities = 263/311 (84%), Positives = 290/311 (93%) Query: 1 LKRILEELSSLRGSRPRVLLCDDQPINIRLANALLKGDYEIFMATSGLQAIELCEKVVPD 60 +K+ILEELS+LRG RPR+LLCDDQPINIRL NALLKGDYEIFMATSGLQAIEL E+V PD Sbjct: 1 MKQILEELSTLRGGRPRILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELSERVTPD 60 Query: 61 LILMDVNMPGLNGYETCERLKQNTATLGIPVIFLTGLQSEEDEVKGFDAGGVDFISKPIN 120 LILMDVNMPGLNGY+TC RLKQNT TLGIPVIFLTGL+SEEDEVK F+ GGVDFISKPIN Sbjct: 61 LILMDVNMPGLNGYDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPIN 120 Query: 121 GTVLKARVLTHLTLKLQSDFYRNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLL 180 GTVLKARVLTHLTLKLQSDFY NIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLL Sbjct: 121 GTVLKARVLTHLTLKLQSDFYLNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLL 180 Query: 181 MIDIDYFKKYNDHYGHQAGDHCLAEVAHAIRSNFHRSYDCVARYGGEEFACILPMAGREQ 240 +IDID+FK+YNDHYGHQAGDHCLAEVAH IRSNFHRSYDCVARYGGEEFACILPM GREQ Sbjct: 181 LIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQ 240 Query: 241 ALKLARDVCDAVARLHLPHARSDASEFVTLSIGVASVDVPGHSSTPAALIALADQNLYQA 300 A++ A++VC +VARLHLPHARSD S +V+LSIGVA++ P H+++P AL+ALAD+NLY A Sbjct: 241 AIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAA 300 Query: 301 KAHGRAQVYCA 311 KA+GRAQV+ A Sbjct: 301 KANGRAQVFAA 311 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 179 bits (453), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 114/317 (35%), Positives = 166/317 (52%), Gaps = 30/317 (9%) Query: 18 VLLCDDQP-----INIRLANALLKGDYEIFMATSGLQAIELCEKVVPDLILMDVNMPGLN 72 VLL DDQP I LAN + + T +A+ + E+ P +IL D+ MPG++ Sbjct: 24 VLLVDDQPMVGEAIRRALAN---EPHIDFHFCTRAEEALTVAERTRPTVILQDLVMPGVD 80 Query: 73 GYETCERLKQNTATLGIPVIFLTGLQSEEDEVKGFDAGGVDFISKPINGTVLKARVLTH- 131 G + + + + +P+I L+ + F G D++ K + L AR+ H Sbjct: 81 GMTLVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGANDYMVKLPDVIELVARIRYHS 140 Query: 132 ---LTL---------------KLQ-SDF-YRNIAVTDSLTGLFNRRKFDSELAEKWELCK 171 + L +LQ S+F + + TD LTG+ NRR FD L +W + Sbjct: 141 RSYINLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRAR 200 Query: 172 RSGQAMSLLMIDIDYFKKYNDHYGHQAGDHCLAEVAHAIRSNFHRSYDCVARYGGEEFAC 231 R G ++LL+ID+D+FK YND+YGH AGD L +VA A+ S+ R D AR+GGEEFA Sbjct: 201 RDGLDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAM 260 Query: 232 ILPMAGREQALKLARDVCDAVARLHLPHARSDASEFVTLSIGVASVDVPGHSSTPAALIA 291 ILP G + A +A+ VC V L +PH S S ++T+S+G A++ VP LI Sbjct: 261 ILPRTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATL-VPQEQQELRELIE 319 Query: 292 LADQNLYQAKAHGRAQV 308 AD+ LY AK GR +V Sbjct: 320 AADRRLYLAKQQGRNRV 336 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 161 bits (408), Expect = 6e-41, Method: Compositional matrix adjust. Identities = 86/191 (45%), Positives = 119/191 (62%), Gaps = 7/191 (3%) Query: 124 LKARVLTHLTLKLQSDFYRNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLLMID 183 L+ R L KL++ ++ TD LTG+ NRR+FD LA + RSGQ+++LLM+D Sbjct: 386 LRTRELERANRKLEA-----LSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLD 440 Query: 184 IDYFKKYNDHYGHQAGDHCLAEVAHAIRSNFHRSYDCVARYGGEEFACILPMAGREQALK 243 +DYFKKYND YGH AGD CL VA ++ + R+ D VARYGGEEF+ I+ QAL+ Sbjct: 441 VDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQ 500 Query: 244 LARDVCDAVARLHLPHARSDASEFVTLSIGVASVDVPGHSSTPAALIALADQNLYQAKAH 303 A ++C A+ L LPHA S +++ SIGVA V +P + P ++ +ADQ LY AK Sbjct: 501 QAENICQAIFELKLPHADSPFG-YISASIGVA-VLLPDEHTAPEQMVRIADQALYHAKYQ 558 Query: 304 GRAQVYCATPA 314 GR +V + A Sbjct: 559 GRNRVVLGSDA 569 >gi|300310067|ref|YP_003774159.1| diguanylate cyclase GGDEF family protein [Herbaspirillum seropedicae SmR1] Length = 369 Score = 138 bits (348), Expect = 6e-34, Method: Compositional matrix adjust. Identities = 80/175 (45%), Positives = 103/175 (58%), Gaps = 9/175 (5%) Query: 142 RNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLLMIDIDYFKKYNDHYGHQAGDH 201 R++++TD LTG+ NRR FD L ++W R G + L ID+D+FK YNDHYGH AGD Sbjct: 194 RSLSLTDGLTGIANRRSFDETLEQEWRRSMRHGTPLMLAFIDVDWFKPYNDHYGHLAGDA 253 Query: 202 CLAEVAHAIRSNFHRSYDCVARYGGEEFACILPMAGREQALKLARDVCDAVARLHLPHAR 261 L +VA +R + R D VARYGGEEFA I + + R +CDAV L + HA Sbjct: 254 VLRQVAQTLRQSIARVGDTVARYGGEEFAIIAADTDGQAGADMLRRMCDAVHALAIAHAG 313 Query: 262 SDASEFVTLSIGVASVDVPGHSSTPAA----LIALADQNLYQAKAHGRAQVYCAT 312 S A +T+S GVAS + PG P A L+ AD LY+AK GR +V AT Sbjct: 314 S-AMGRITISAGVASCN-PGQ---PGAGLDGLLQAADAALYRAKMEGRNRVVLAT 363 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 91/236 (38%), Positives = 125/236 (52%), Gaps = 15/236 (6%) Query: 88 GIPVIFLTGLQSE---EDEVKGFDAGGVDFISKPINGTVLKARVLTHLTLKLQSDF---- 140 G P+I G E + K F A +S I G +L A +L H+ +L+ Sbjct: 286 GSPLIVFVGYAEEAIFKTWRKTFYA---VLVSLAIFG-LLTAWLLLHVRQELRRRVTAER 341 Query: 141 -YRNIAVTDSLTGLFNRRKFDSELAEKWELCKRS-GQAMSLLMIDIDYFKKYNDHYGHQA 198 +A TD LT L NRR D L WE C+R+ G + S+L ID+DYFK YND YGH+ Sbjct: 342 QLEALARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGHKL 401 Query: 199 GDHCLAEVAHAIRSNFHRSYDCVARYGGEEFACILPMAGREQALKLARDVCDAVARLHLP 258 GD L EVA + + R DC RYGGEEF +L + A +A+ +CDAV H+ Sbjct: 402 GDTVLKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIA 461 Query: 259 HARSDASEFVTLSIGVASVDVPGHSSTPAALIALADQNLYQAKAHGRAQVYCATPA 314 H S + VT+S+GVA+++ H L A AD LY+AK GR +V+ ++ A Sbjct: 462 HTSSPLA-VVTISVGVATLERDHHRRVEDVLNA-ADAALYRAKQAGRDRVHLSSQA 515 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 0.135 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: 980,612 Number of extensions: 39064 Number of successful extensions: 303 Number of sequences better than 1.0e-08: 58 Number of HSP's gapped: 261 Number of HSP's successfully gapped: 58 Length of query: 324 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 239 Effective length of database: 1,217,395 Effective search space: 290957405 Effective search space used: 290957405 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: 131 (55.1 bits)