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= 0027.0292.p (345 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310565|ref|YP_003774657.1| response regulator containing a... 714 0.0 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 119 3e-28 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 113 3e-26 gi|300313980|ref|YP_003778072.1| two component response regulato... 112 5e-26 gi|300313028|ref|YP_003777120.1| two component response regulato... 111 1e-25 >gi|300310565|ref|YP_003774657.1| response regulator containing a CheY-like receiver domain and an HD-GYP domain [Herbaspirillum seropedicae SmR1] Length = 348 Score = 714 bits (1844), Expect = 0.0, Method: Compositional matrix adjust. Identities = 345/345 (100%), Positives = 345/345 (100%) Query: 1 MNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAPDLILLDYMMPGMDG 60 MNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAPDLILLDYMMPGMDG Sbjct: 4 MNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAPDLILLDYMMPGMDG 63 Query: 61 LDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVKNMLA 120 LDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVKNMLA Sbjct: 64 LDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVKNMLA 123 Query: 121 MRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANYAR 180 MRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANYAR Sbjct: 124 MRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANYAR 183 Query: 181 IIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADIL 240 IIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADIL Sbjct: 184 IIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADIL 243 Query: 241 VASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKP 300 VASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKP Sbjct: 244 VASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKP 303 Query: 301 GWSLERASQYLREQSGAHFDPRCVEAFFAGWEEVLEIFNRYQEGK 345 GWSLERASQYLREQSGAHFDPRCVEAFFAGWEEVLEIFNRYQEGK Sbjct: 304 GWSLERASQYLREQSGAHFDPRCVEAFFAGWEEVLEIFNRYQEGK 348 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 119 bits (298), Expect = 3e-28, Method: Compositional matrix adjust. Identities = 62/147 (42%), Positives = 90/147 (61%), Gaps = 2/147 (1%) Query: 182 IAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADILV 241 +A ++G+ QQ + A +HD+GKM +P IL KP +L EEE +RMH G IL Sbjct: 176 LANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRMHTVQGHGIL- 234 Query: 242 ASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKPG 301 + + A ++L HHEK DGSGYP LK + I + ++ AV DV+DA+TS+RPYK G Sbjct: 235 QQIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAG 294 Query: 302 WSLERASQYLREQSGAHFDPRCVEAFF 328 W R+ +++ +G HFDP ++AF Sbjct: 295 WDPARSIRHMAASAG-HFDPITMQAFV 320 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 113 bits (282), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 76/218 (34%), Positives = 115/218 (52%), Gaps = 15/218 (6%) Query: 116 KNMLAMRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARAAGYRDPETGEHLTRM 175 K +L M SQ M + ID ++ VR + + D + + + ++ + Sbjct: 114 KTVLTMF-SQARMGKTIDV--KEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSV 170 Query: 176 ANYARII--AARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHA 233 A A +I A ++GL +Q+++ A +HDIGKM +P IL KP +L EEE ++ H Sbjct: 171 AVCAMMISLADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHP 230 Query: 234 RIGADILVASP----SPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVF 289 G +L P +PL ++L HHEK DG+GYP L G I + R+ A+ DV+ Sbjct: 231 LAGHRLLQELPGIGDAPL-----DVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICDVY 285 Query: 290 DALTSSRPYKPGWSLERASQYLREQSGAHFDPRCVEAF 327 DA+TS RPYK GW R+ Q++ QS HFD ++AF Sbjct: 286 DAITSDRPYKSGWDPSRSIQHM-AQSKGHFDFDVLQAF 322 >gi|300313980|ref|YP_003778072.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 199 Score = 112 bits (279), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 62/184 (33%), Positives = 99/184 (53%), Gaps = 2/184 (1%) Query: 143 VRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANYARIIAARMGLDSQQQELLLNAAPM 202 V S+ + + +D + D T H + A A +I + L +++ + L A+ + Sbjct: 3 VSESNKIYQEVIDAMIAVHRLTDGYTPNHEDQTAELAVMIGRHLDLATERIDALHMASQV 62 Query: 203 HDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADILVASPSPLLQTASQIALTHHEKW 262 HDIGK IP +L KPGR+ EE V++ H + G +IL P ++I HHE Sbjct: 63 HDIGKARIPLALLTKPGRISVEEYDVLKTHVQFGYEILNKISFPF--NLAEIVHCHHEYL 120 Query: 263 DGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKPGWSLERASQYLREQSGAHFDPR 322 DGSGYP G+ G++IPL RI+ VAD+ +++++ RPY+ + A ++ QSG D Sbjct: 121 DGSGYPRGISGDEIPLEARILTVADIVESMSADRPYRKSLGMSAALDEIQRQSGVRLDAV 180 Query: 323 CVEA 326 V+A Sbjct: 181 VVDA 184 >gi|300313028|ref|YP_003777120.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 111 bits (277), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 102/364 (28%), Positives = 173/364 (47%), Gaps = 41/364 (11%) Query: 3 ILIVDDDKTNLSLFSHMLGQVPQ-TRIDTCADARQALDWCQEHAPDLILLDYMMPGMDGL 61 +L+VDD+++ LS PQ R+ A AL+ DL++ D MPGM+G Sbjct: 25 VLLVDDEQSILSALKRTFR--PQGYRLIMATSAEAALEMMAASEVDLVISDMRMPGMNGA 82 Query: 62 DFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSA-NDFLSKPVNRVELLARVKNMLA 120 FL++ R M ++ +++G + +A+ N +LSKP + ELL V + L Sbjct: 83 QFLAKVRQQWPSTMRILLTGYSEIGSTI--SAINDGGINHYLSKPWDDRELLLIVAHALE 140 Query: 121 ---MRRSQLAMSQKIDT-------LSEQVDQQVRHSDTLALDSVDLLARAAGYRDPE--- 167 +R+ ++A+ +K+ + Q+++QV+ S T L + +A + + Sbjct: 141 EQQLRKQKMALERKVREQNLQLADFNRQLERQVQ-SRTEELRQTVMFLESAQEEEQKSFL 199 Query: 168 -----------------TGEHLTRMANYARIIAARMGLDSQQQELLLNAAPMHDIGKMGI 210 TG+ R+A + +A RMG+ + + A +H IGK+ + Sbjct: 200 SMLRVFSDISELRAGLATGQS-ARVARWCEQLALRMGMTTHHARDTMMAGMLHGIGKLEL 258 Query: 211 PDHILLKP-GRLDEEELKVMRMHARIGADILVASPSPLLQTASQIALTHHEKWDGSGYPN 269 PD ++ KP +++ +E++ H G +L +P P L + +I HE++DG G P Sbjct: 259 PDELVRKPIEKMNSDEVQRFLWHPVRGQMLL--TPIPSLAESGEIIRHQHERYDGRGVPE 316 Query: 270 GLKGEQIPLYGRIVAVADVFDALTSSRPYKPGWSLERASQYLREQSGAHFDPRCVEAFFA 329 L G+ IPL RI+AV F+ L + S E+A LR +G +DP VE+F A Sbjct: 317 SLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRAHAGHRYDPLVVESFIA 376 Query: 330 GWEE 333 EE Sbjct: 377 MMEE 380 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 0.398 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: 1,075,408 Number of extensions: 44963 Number of successful extensions: 303 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 299 Number of HSP's successfully gapped: 40 Length of query: 345 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 259 Effective length of database: 1,212,660 Effective search space: 314078940 Effective search space used: 314078940 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: 131 (55.1 bits)