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= 0002.0193.p (262 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309853|ref|YP_003773945.1| two-component response regulato... 372 e-104 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 132 3e-32 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 127 1e-30 gi|300312843|ref|YP_003776935.1| response regulator containing a... 122 4e-29 gi|300310865|ref|YP_003774957.1| response regulator containing a... 118 4e-28 >gi|300309853|ref|YP_003773945.1| two-component response regulator with GGDEF domain [Herbaspirillum seropedicae SmR1] Length = 277 Score = 372 bits (955), Expect = e-104, Method: Compositional matrix adjust. Identities = 181/208 (87%), Positives = 197/208 (94%) Query: 54 GLEAGMQQLQEEHKQLVEQRDDARTHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEF 113 GLEA +Q LQ+E QLVE+RDDAR HLEEMEKTLARVGLEDALTGLANRRQFERGLLEEF Sbjct: 65 GLEANLQALQQERVQLVEERDDARVHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEF 124 Query: 114 NRAARTNLSLAIIMIDIDLFDEYNASYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGTQ 173 NRAART+LSLA+IMIDIDLFDEYN SYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFG Q Sbjct: 125 NRAARTSLSLAVIMIDIDLFDEYNDSYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQ 184 Query: 174 EIAVLLPGSRLDGALIVAERIRKSIEQLNIEHSASPTGRVTISIGIAAVAPQRQVDEPDT 233 EIAVLLPGSRL+GALIVAERIRKSIE L+I HSASPTGRVTISIGI++VAPQRQVDEP+T Sbjct: 185 EIAVLLPGSRLEGALIVAERIRKSIELLDIPHSASPTGRVTISIGISSVAPQRQVDEPET 244 Query: 234 VLRESEKALALAKAAGRDCIRTTDDFRK 261 VLRE+E++LALAK+AGRDCIRT +D R+ Sbjct: 245 VLREAEESLALAKSAGRDCIRTVEDLRR 272 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 132 bits (332), Expect = 3e-32, Method: Compositional matrix adjust. Identities = 76/194 (39%), Positives = 115/194 (59%), Gaps = 9/194 (4%) Query: 72 QRDDARTHLEEMEKTLARVGLE-------DALTGLANRRQFERGLLEEFNRAARTNLSLA 124 QRD A + L E ++ L + E D LTG+ANRR F+ L E+ RA R L LA Sbjct: 148 QRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLA 207 Query: 125 IIMIDIDLFDEYNASYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGTQEIAVLLPGSRL 184 +++ID+D F YN +YG +AGD VLR+V A+ + RP DL +RFG +E A++LP + L Sbjct: 208 LLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGL 267 Query: 185 DGALIVAERIRKSIEQLNIEHSASP-TGRVTISIGIAAVAPQRQVDEPDTVLRESEKALA 243 DGA +A+++ +E L + H S + +T+S+G A + PQ Q E ++ +++ L Sbjct: 268 DGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQ-QELRELIEAADRRLY 326 Query: 244 LAKAAGRDCIRTTD 257 LAK GR+ + D Sbjct: 327 LAKQQGRNRVVWQD 340 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 127 bits (318), Expect = 1e-30, Method: Compositional matrix adjust. Identities = 82/252 (32%), Positives = 131/252 (51%), Gaps = 32/252 (12%) Query: 31 VVLVLVSALLSWVLARQLLQPLSGLEAGMQQ----------------------------- 61 +V VS LLS +++R + PL L A M++ Sbjct: 311 LVCFAVSLLLSALISRSISVPLQRLVAAMKEAGSGDTTVRVEQHGNDEIAVLSRKFNEMA 370 Query: 62 --LQEEHKQLVEQRDDARTHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAART 119 LQ+ + L EQ LE + L + D LTG+ANRR+F+ L E RA R+ Sbjct: 371 GKLQQNREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRS 430 Query: 120 NLSLAIIMIDIDLFDEYNASYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGTQEIAVLL 179 SLA++M+D+D F +YN YG +AGD+ LR V ++ ++ R DL++R+G +E +V++ Sbjct: 431 GQSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVII 490 Query: 180 PGSRLDGALIVAERIRKSIEQLNIEHSASPTGRVTISIGIAAVAPQRQVDEPDTVLRESE 239 AL AE I ++I +L + H+ SP G ++ SIG+A + P P+ ++R ++ Sbjct: 491 AECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHT-APEQMVRIAD 549 Query: 240 KALALAKAAGRD 251 +AL AK GR+ Sbjct: 550 QALYHAKYQGRN 561 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 122 bits (305), Expect = 4e-29, Method: Compositional matrix adjust. Identities = 70/182 (38%), Positives = 103/182 (56%), Gaps = 16/182 (8%) Query: 29 AAVVLVL-VSALLSWVLARQLLQPLSGLEAGMQQLQEEHKQLVEQRDDARTHLEEMEKTL 87 AAV+L+L + + W L Q+ L + +Q + E Q+ R + H Sbjct: 299 AAVLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGE--LQMANHRLEMLAH-------- 348 Query: 88 ARVGLEDALTGLANRRQFERGLLEEFNRAARTNLSLAIIMIDIDLFDEYNASYGRMAGDK 147 +D LTGLANRR + L EF RA R+ +LA+IMID+D F +YN YG AGD+ Sbjct: 349 -----QDGLTGLANRRHLDTMLETEFKRAERSGAALALIMIDVDFFKQYNDLYGHQAGDE 403 Query: 148 VLRRVGSAIRDTNVRPEDLLSRFGTQEIAVLLPGSRLDGALIVAERIRKSIEQLNIEHSA 207 LRRV +++ RP DL +R+G +E+A+LLPG+ +GA VAE++R I+ L + H Sbjct: 404 CLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQALELPHRG 463 Query: 208 SP 209 +P Sbjct: 464 NP 465 >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 = 118 bits (296), Expect = 4e-28, Method: Compositional matrix adjust. Identities = 70/177 (39%), Positives = 105/177 (59%), Gaps = 1/177 (0%) Query: 76 ARTHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTNLSLAIIMIDIDLFDE 135 AR LE + +TL +D LT + NRR F+ L E R RT SL+++MID+D F + Sbjct: 338 ARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLSLMMIDVDHFKQ 397 Query: 136 YNASYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGTQEIAVLLPGSRLDGALIVAERIR 195 +N +YG AGD LR+V +AI R D+++R+G +E AV+LP A +A R+ Sbjct: 398 FNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVV 457 Query: 196 KSIEQLNIEHSASPTGRVTISIGIAAVAPQRQ-VDEPDTVLRESEKALALAKAAGRD 251 +++ L I H SP G VTIS+G+A++A + + EP ++ ++ AL AK GRD Sbjct: 458 QAVRGLEIAHERSPMGVVTISVGVASLASGKSLLIEPRELIDSADGALYRAKEEGRD 514 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 0.355 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: 648,019 Number of extensions: 25409 Number of successful extensions: 184 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 39 Length of query: 262 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 179 Effective length of database: 1,226,865 Effective search space: 219608835 Effective search space used: 219608835 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: 129 (54.3 bits)