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= 0001.0501.p (275 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... 383 e-108 gi|300312843|ref|YP_003776935.1| response regulator containing a... 135 3e-33 gi|300312320|ref|YP_003776412.1| response regulator protein [Her... 134 6e-33 gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodies... 132 2e-32 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 = 383 bits (984), Expect = e-108, Method: Compositional matrix adjust. Identities = 213/273 (78%), Positives = 245/273 (89%), Gaps = 1/273 (0%) Query: 1 MSLSRTLQIRLTLAASAAVVLTAAVLCALVLGGSAQGIVLAAVVLVLLSVLSCWLLVRQL 60 MSLS+TLQ RL+LA +A V+LTAAVL L A +V+AA+ LVL + L WLL+RQL Sbjct: 1 MSLSQTLQTRLSLATAAMVLLTAAVLTVLATTAPA-SMVVAAIALVLAAALLSWLLLRQL 59 Query: 61 LQPLAALETDLQQMQQQHQQMLEQRDDARSHLEEMEKTLARVGLEDALTGLANRRQFERG 120 L+PL+ LE +LQ +QQ+ Q++E+RDDAR HLEEMEKTLARVGLEDALTGLANRRQFERG Sbjct: 60 LRPLSGLEANLQALQQERVQLVEERDDARVHLEEMEKTLARVGLEDALTGLANRRQFERG 119 Query: 121 LLEEFNRAARTNLSLAIIMIDIDFFDEYNATYGRMAGDKVLRRVGSAIRDTNVRPEDLLS 180 LLEEFNRAART+LSLA+IMIDID FDEYN +YGRMAGDKVLRRVGSAIRDTNVRPEDLLS Sbjct: 120 LLEEFNRAARTSLSLAVIMIDIDLFDEYNDSYGRMAGDKVLRRVGSAIRDTNVRPEDLLS 179 Query: 181 RFGAQEIAVLLPGSRLEGALIVAERIRKSIEQLNIEHSASPSGRVTISIGIAAVAPQRQV 240 RFGAQEIAVLLPGSRLEGALIVAERIRKSIE L+I HSASP+GRVTISIGI++VAPQRQV Sbjct: 180 RFGAQEIAVLLPGSRLEGALIVAERIRKSIELLDIPHSASPTGRVTISIGISSVAPQRQV 239 Query: 241 DEPDTVLRESEQALALAKASGRDCIRTTEDLKQ 273 DEP+TVLRE+E++LALAK++GRDCIRT EDL++ Sbjct: 240 DEPETVLREAEESLALAKSAGRDCIRTVEDLRR 272 >gi|300312843|ref|YP_003776935.1| response regulator containing a CheY-like receiver and a GGDEF domains protein [Herbaspirillum seropedicae SmR1] Length = 525 Score = 135 bits (340), Expect = 3e-33, Method: Compositional matrix adjust. Identities = 78/188 (41%), Positives = 109/188 (57%), Gaps = 17/188 (9%) Query: 36 QGIVLAAVVLVLLSVLSC--WLLVRQLLQPLAALETDLQQMQQQHQQMLEQRDDARSHLE 93 Q V A VL+LL+++ W LV Q+ L A + LQ M + QM R + +H Sbjct: 293 QTFVYGAAVLLLLAIIGVFGWRLVGQIELRLRAEDRALQAMGEL--QMANHRLEMLAH-- 348 Query: 94 EMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTNLSLAIIMIDIDFFDEYNATYG 153 +D LTGLANRR + L EF RA R+ +LA+IMID+DFF +YN YG Sbjct: 349 -----------QDGLTGLANRRHLDTMLETEFKRAERSGAALALIMIDVDFFKQYNDLYG 397 Query: 154 RMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRLEGALIVAERIRKSIEQL 213 AGD+ LRRV +++ RP DL +R+G +E+A+LLPG+ EGA VAE++R I+ L Sbjct: 398 HQAGDECLRRVAGVLKERQRRPGDLAARYGGEEMAMLLPGTDAEGACAVAEKLRAGIQAL 457 Query: 214 NIEHSASP 221 + H +P Sbjct: 458 ELPHRGNP 465 >gi|300312320|ref|YP_003776412.1| response regulator protein [Herbaspirillum seropedicae SmR1] Length = 341 Score = 134 bits (338), Expect = 6e-33, Method: Compositional matrix adjust. Identities = 78/190 (41%), Positives = 114/190 (60%), Gaps = 9/190 (4%) Query: 82 LEQRDDARSHLEEMEKTLARVGLE-------DALTGLANRRQFERGLLEEFNRAARTNLS 134 L QRD A S L E ++ L + E D LTG+ANRR F+ L E+ RA R L Sbjct: 146 LLQRDAAYSALRESQQQLQKSNFELQRLTNTDGLTGIANRRYFDDYLGAEWRRARRDGLD 205 Query: 135 LAIIMIDIDFFDEYNATYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGS 194 LA+++ID+DFF YN YG +AGD VLR+V A+ + RP DL +RFG +E A++LP + Sbjct: 206 LALLLIDVDFFKLYNDNYGHVAGDAVLRQVAEALDSSIQRPADLSARFGGEEFAMILPRT 265 Query: 195 RLEGALIVAERIRKSIEQLNIEHSASP-SGRVTISIGIAAVAPQRQVDEPDTVLRESEQA 253 L+GA +A+++ +E L + H S S +T+S+G A + PQ Q E ++ +++ Sbjct: 266 GLDGAHAIAQKVCHLVESLQVPHEGSSVSAWLTVSVGAATLVPQEQ-QELRELIEAADRR 324 Query: 254 LALAKASGRD 263 L LAK GR+ Sbjct: 325 LYLAKQQGRN 334 >gi|300313993|ref|YP_003778085.1| diguanylate cyclase/phosphodiesterase with PAS/PAC sensor domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 573 Score = 132 bits (333), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 73/199 (36%), Positives = 121/199 (60%), Gaps = 2/199 (1%) Query: 76 QQHQQMLEQRDDARS-HLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTNLS 134 QQ++++LE++ R+ LE + L + D LTG+ANRR+F+ L E RA R+ S Sbjct: 374 QQNREVLEEQVRLRTRELERANRKLEALSATDGLTGVANRRRFDEALANEMRRAVRSGQS 433 Query: 135 LAIIMIDIDFFDEYNATYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGS 194 LA++M+D+D+F +YN YG +AGD+ LR V ++ ++ R DL++R+G +E +V++ Sbjct: 434 LALLMLDVDYFKKYNDRYGHLAGDECLRIVARVLQKSSRRATDLVARYGGEEFSVIIAEC 493 Query: 195 RLEGALIVAERIRKSIEQLNIEHSASPSGRVTISIGIAAVAPQRQVDEPDTVLRESEQAL 254 AL AE I ++I +L + H+ SP G ++ SIG+A + P P+ ++R ++QAL Sbjct: 494 DTTQALQQAENICQAIFELKLPHADSPFGYISASIGVAVLLPDEHT-APEQMVRIADQAL 552 Query: 255 ALAKASGRDCIRTTEDLKQ 273 AK GR+ + D Q Sbjct: 553 YHAKYQGRNRVVLGSDATQ 571 >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 (302), Expect = 1e-28, Method: Compositional matrix adjust. Identities = 71/177 (40%), Positives = 105/177 (59%), Gaps = 1/177 (0%) Query: 88 ARSHLEEMEKTLARVGLEDALTGLANRRQFERGLLEEFNRAARTNLSLAIIMIDIDFFDE 147 AR LE + +TL +D LT + NRR F+ L E R RT SL+++MID+D F + Sbjct: 338 ARQELESLYRTLEAQSQKDGLTDVFNRRYFDAALAAELARLNRTGESLSLMMIDVDHFKQ 397 Query: 148 YNATYGRMAGDKVLRRVGSAIRDTNVRPEDLLSRFGAQEIAVLLPGSRLEGALIVAERIR 207 +N TYG AGD LR+V +AI R D+++R+G +E AV+LP A +A R+ Sbjct: 398 FNDTYGHAAGDVCLRQVAAAISTVARRQGDIVARYGGEEFAVILPNCHPGSAQGLAHRVV 457 Query: 208 KSIEQLNIEHSASPSGRVTISIGIAAVAPQRQ-VDEPDTVLRESEQALALAKASGRD 263 +++ 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 0.320 0.133 0.358 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: 611,679 Number of extensions: 23775 Number of successful extensions: 174 Number of sequences better than 1.0e-08: 37 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 37 Length of query: 275 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 191 Effective length of database: 1,222,130 Effective search space: 233426830 Effective search space used: 233426830 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)