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= 0011.0035.p (260 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... 506 e-145 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 134 9e-33 gi|300312843|ref|YP_003776935.1| response regulator containing a... 131 7e-32 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 130 1e-31 gi|300310865|ref|YP_003774957.1| response regulator containing a... 120 1e-28 >gi|300309853|ref|YP_003773945.1| two-component response regulator with GGDEF domain [Herbaspirillum seropedicae SmR1] Length = 277 Score = 506 bits (1304), Expect = e-145, Method: Compositional matrix adjust. Identities = 259/260 (99%), Positives = 260/260 (100%) Query: 1 MVLLTAAVLTVLATTAPASMVVAAIALVLAAALLSWLLLRQLLRPLSGLEANLQALQQER 60 MVLLTAAVLTVLATTAPASMVVAAIALVLAAALLSWLLLRQLLRPLSGLEANLQALQQER Sbjct: 18 MVLLTAAVLTVLATTAPASMVVAAIALVLAAALLSWLLLRQLLRPLSGLEANLQALQQER 77 Query: 61 VQLVEERDDARVHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTSLSLAVI 120 VQLVEERDDARVHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTSLSLAVI Sbjct: 78 VQLVEERDDARVHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTSLSLAVI 137 Query: 121 MIDIDLFDEYNESYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRLEG 180 MIDIDLFDEYN+SYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRLEG Sbjct: 138 MIDIDLFDEYNDSYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRLEG 197 Query: 181 ALIVAERIRKSIELLDIPHSASPTGRVTISIGISSVAPQRQVDEPETVLREAEESLALAK 240 ALIVAERIRKSIELLDIPHSASPTGRVTISIGISSVAPQRQVDEPETVLREAEESLALAK Sbjct: 198 ALIVAERIRKSIELLDIPHSASPTGRVTISIGISSVAPQRQVDEPETVLREAEESLALAK 257 Query: 241 SAGRDCIRTVEDLRRMRGQA 260 SAGRDCIRTVEDLRRMRGQA Sbjct: 258 SAGRDCIRTVEDLRRMRGQA 277 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 134 bits (336), Expect = 9e-33, Method: Compositional matrix adjust. Identities = 74/188 (39%), Positives = 114/188 (60%), Gaps = 9/188 (4%) Query: 66 ERDDARVHLEEMEKTLARVGLE-------DALTGLANRRQFERGLLEEFNRAARTSLSLA 118 +RD A L E ++ L + E D LTG+ANRR F+ L E+ RA R L LA Sbjct: 148 QRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLDLA 207 Query: 119 VIMIDIDLFDEYNESYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRL 178 +++ID+D F YN++YG +AGD VLR+V A+ + RP DL +RFG +E A++LP + L Sbjct: 208 LLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRTGL 267 Query: 179 EGALIVAERIRKSIELLDIPHSASP-TGRVTISIGISSVAPQRQVDEPETVLREAEESLA 237 +GA +A+++ +E L +PH S + +T+S+G +++ PQ Q E ++ A+ L Sbjct: 268 DGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQ-QELRELIEAADRRLY 326 Query: 238 LAKSAGRD 245 LAK GR+ Sbjct: 327 LAKQQGRN 334 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 131 bits (329), Expect = 7e-32, Method: Compositional matrix adjust. Identities = 77/205 (37%), Positives = 116/205 (56%), Gaps = 17/205 (8%) Query: 1 MVLLTAAVLTVLATTAPASMVVAAIALVLAA--ALLSWLLLRQLLRPLSGLEANLQALQQ 58 ++++T A LA + V A L+L A + W L+ Q+ L + LQA+ + Sbjct: 276 VLVVTLAREEALADWKQQTFVYGAAVLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGE 335 Query: 59 ERVQLVEERDDARVHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTSLSLA 118 +Q+ R + H +D LTGLANRR + L EF RA R+ +LA Sbjct: 336 --LQMANHRLEMLAH-------------QDGLTGLANRRHLDTMLETEFKRAERSGAALA 380 Query: 119 VIMIDIDLFDEYNESYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRL 178 +IMID+D F +YN+ YG AGD+ LRRV +++ RP DL +R+G +E+A+LLPG+ Sbjct: 381 LIMIDVDFFKQYNDLYGHQAGDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGTDA 440 Query: 179 EGALIVAERIRKSIELLDIPHSASP 203 EGA VAE++R I+ L++PH +P Sbjct: 441 EGACAVAEKLRAGIQALELPHRGNP 465 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 130 bits (326), Expect = 1e-31, Method: Compositional matrix adjust. Identities = 73/191 (38%), Positives = 117/191 (61%), Gaps = 3/191 (1%) Query: 56 LQQERVQLVEERDDARV-HLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTS 114 LQQ R +++EE+ R LE + L + D LTG+ANRR+F+ L E RA R+ Sbjct: 373 LQQNR-EVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSG 431 Query: 115 LSLAVIMIDIDLFDEYNESYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLP 174 SLA++M+D+D F +YN+ YG +AGD+ LR V ++ ++ R DL++R+G +E +V++ Sbjct: 432 QSLALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIA 491 Query: 175 GSRLEGALIVAERIRKSIELLDIPHSASPTGRVTISIGISSVAPQRQVDEPETVLREAEE 234 AL AE I ++I L +PH+ SP G ++ SIG++ + P PE ++R A++ Sbjct: 492 ECDTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHT-APEQMVRIADQ 550 Query: 235 SLALAKSAGRD 245 +L AK GR+ Sbjct: 551 ALYHAKYQGRN 561 >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 = 120 bits (301), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 70/177 (39%), Positives = 107/177 (60%), Gaps = 1/177 (0%) Query: 70 ARVHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTSLSLAVIMIDIDLFDE 129 AR LE + +TL +D LT + NRR F+ L E R RT SL+++MID+D F + Sbjct: 338 ARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLSLMMIDVDHFKQ 397 Query: 130 YNESYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRLEGALIVAERIR 189 +N++YG AGD LR+V +AI R D+++R+G +E AV+LP A +A R+ Sbjct: 398 FNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVV 457 Query: 190 KSIELLDIPHSASPTGRVTISIGISSVAPQRQ-VDEPETVLREAEESLALAKSAGRD 245 +++ L+I H SP G VTIS+G++S+A + + EP ++ A+ +L 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 0.319 0.134 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: 571,843 Number of extensions: 22197 Number of successful extensions: 156 Number of sequences better than 1.0e-08: 38 Number of HSP's gapped: 130 Number of HSP's successfully gapped: 38 Length of query: 260 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 177 Effective length of database: 1,226,865 Effective search space: 217155105 Effective search space used: 217155105 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: 129 (54.3 bits)