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= 0036.0064.p (320 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... 656 0.0 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 190 1e-49 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 157 7e-40 gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspi... 135 7e-33 gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspi... 133 2e-32 >gi|300313030|ref|YP_003777122.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 320 Score = 656 bits (1692), Expect = 0.0, Method: Compositional matrix adjust. Identities = 316/320 (98%), Positives = 318/320 (99%) Query: 1 LKRILEELSTLRGGRPRILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELSERVTPD 60 +K+ILEELSTLRGGRPRILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELSERVTPD Sbjct: 1 MKQILEELSTLRGGRPRILLCDDQPINIRLVNALLKGDYEIFMATSGLQAIELSERVTPD 60 Query: 61 LILMDVNMPGLNGYDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPIN 120 LILMDVNMPGLNGYDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPIN Sbjct: 61 LILMDVNMPGLNGYDTCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPIN 120 Query: 121 GTVLKARVLTHLTLTLQSDFYRNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLL 180 GTVLKARVLTHLTL LQSDFY NIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLL Sbjct: 121 GTVLKARVLTHLTLKLQSDFYLNIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLL 180 Query: 181 LIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQ 240 LIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQ Sbjct: 181 LIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQ 240 Query: 241 AIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAA 300 AIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAA Sbjct: 241 AIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAA 300 Query: 301 KANGRAQVFAAELPLFNDAA 320 KANGRAQVFAAELPLFNDAA Sbjct: 301 KANGRAQVFAAELPLFNDAA 320 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 190 bits (483), Expect = 1e-49, Method: Compositional matrix adjust. Identities = 113/314 (35%), Positives = 166/314 (52%), Gaps = 24/314 (7%) Query: 18 ILLCDDQPINIRLVNALLKGDYEI--FMATSGLQAIELSERVTPDLILMDVNMPGLNGYD 75 +LL DDQP+ + L + I T +A+ ++ER P +IL D+ MPG++G Sbjct: 24 VLLVDDQPMVGEAIRRALANEPHIDFHFCTRAEEALTVAERTRPTVILQDLVMPGVDGMT 83 Query: 76 TCARLKQNTLTLGIPVIFLTGLKSEEDEVKAFEVGGVDFISKPINGTVLKARVLTHLTLT 135 + + + + + +P+I L+ + AF G D++ K + L AR+ H Sbjct: 84 LVRQYRASAVLVNVPIIVLSSRDDAVVKRDAFAGGANDYMVKLPDVIELVARIRYHSRSY 143 Query: 136 L--------------------QSDF-YRNIAVTDSLTGLFNRRKFDSELAEKWELCKRSG 174 + +S+F + + TD LTG+ NRR FD L +W +R G Sbjct: 144 INLLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDG 203 Query: 175 QAMSLLLIDIDHFKQYNDHYGHQAGDHCLAEVAHTIRSNFHRSYDCVARYGGEEFACILP 234 ++LLLID+D FK YND+YGH AGD L +VA + S+ R D AR+GGEEFA ILP Sbjct: 204 LDLALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILP 263 Query: 235 MTGREQAIRQAQEVCHSVARLHLPHARSDTSAWVSLSIGVATMIAPDHNASPVALLALAD 294 TG + A AQ+VCH V L +PH S SAW+++S+G AT++ P L+ AD Sbjct: 264 RTGLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLV-PQEQQELRELIEAAD 322 Query: 295 KNLYAAKANGRAQV 308 + LY AK GR +V Sbjct: 323 RRLYLAKQQGRNRV 336 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 157 bits (398), Expect = 7e-40, Method: Compositional matrix adjust. Identities = 76/165 (46%), Positives = 112/165 (67%), Gaps = 2/165 (1%) Query: 144 IAVTDSLTGLFNRRKFDSELAEKWELCKRSGQAMSLLLIDIDHFKQYNDHYGHQAGDHCL 203 ++ TD LTG+ NRR+FD LA + RSGQ+++LL++D+D+FK+YND YGH AGD CL Sbjct: 401 LSATDGLTGVANRRRFDEALANEMRRAVRSGQSLALLMLDVDYFKKYNDRYGHLAGDECL 460 Query: 204 AEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQAIRQAQEVCHSVARLHLPHARSD 263 VA ++ + R+ D VARYGGEEF+ I+ QA++QA+ +C ++ L LPHA S Sbjct: 461 RIVARVLQKSSRRATDLVARYGGEEFSVIIAECDTTQALQQAENICQAIFELKLPHADS- 519 Query: 264 TSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAAKANGRAQV 308 ++S SIGVA ++ PD + +P ++ +AD+ LY AK GR +V Sbjct: 520 PFGYISASIGVAVLL-PDEHTAPEQMVRIADQALYHAKYQGRNRV 563 >gi|300313918|ref|YP_003778010.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 515 Score = 135 bits (339), Expect = 7e-33, Method: Compositional matrix adjust. Identities = 75/166 (45%), Positives = 97/166 (58%), Gaps = 3/166 (1%) Query: 144 IAVTDSLTGLFNRRKFDSELAEKWELCKRS-GQAMSLLLIDIDHFKQYNDHYGHQAGDHC 202 +A TD LT L NRR D L WE C+R+ G + S+L ID+D+FK YND YGH+ GD Sbjct: 346 LARTDGLTDLLNRRALDEALQATWERCQRNLGASFSVLFIDVDYFKAYNDTYGHKLGDTV 405 Query: 203 LAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQAIRQAQEVCHSVARLHLPHARS 262 L EVA T+ + R DC RYGGEEF +L T + A AQ +C +V H+ H S Sbjct: 406 LKEVAATLTARLPRHTDCAGRYGGEEFVVLLEQTDLQGAQMMAQRLCDAVRERHIAHT-S 464 Query: 263 DTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAAKANGRAQV 308 A V++S+GVAT+ DH+ +L AD LY AK GR +V Sbjct: 465 SPLAVVTISVGVATL-ERDHHRRVEDVLNAADAALYRAKQAGRDRV 509 >gi|300313329|ref|YP_003777421.1| transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 501 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 78/177 (44%), Positives = 99/177 (55%), Gaps = 4/177 (2%) Query: 143 NIAVTDSLTGLFNRRKFDSELAEKWELCKRSGQA-MSLLLIDIDHFKQYNDHYGHQAGDH 201 ++A TD LTGL NRR D L W+ +RS A S L ID+D+FK+YND YGH+ GD Sbjct: 325 DLARTDGLTGLLNRRSLDEALLAVWQRSQRSPTAGFSTLFIDVDYFKRYNDTYGHEMGDT 384 Query: 202 CLAEVAHTIRSNFHRSYDCVARYGGEEFACILPMTGREQAIRQAQEVCHSVARLHLPHAR 261 L VA +R + R D RYGGEEF +L T A+R AQ++C ++ +PH+ Sbjct: 385 VLQAVAAVLREHLQRQNDLAGRYGGEEFVVLLEQTDEHGALRMAQQLCEAIYNRGIPHSG 444 Query: 262 SDTSAWVSLSIGVATMIAPDHNASPVALLALADKNLYAAKANGRAQVFAAELPLFND 318 S +S+SIGVATM H L A AD LY AK GR +V A P ND Sbjct: 445 SPLGV-ISVSIGVATMNRAPHQRMEDVLNA-ADHALYIAKREGRNRVCVAH-PGQND 498 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 0.322 0.136 0.402 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: 981,481 Number of extensions: 38799 Number of successful extensions: 296 Number of sequences better than 1.0e-08: 60 Number of HSP's gapped: 259 Number of HSP's successfully gapped: 60 Length of query: 320 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 235 Effective length of database: 1,217,395 Effective search space: 286087825 Effective search space used: 286087825 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: 130 (54.7 bits)