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= 0036.0066.p (448 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313028|ref|YP_003777120.1| two component response regulato... 912 0.0 gi|300310565|ref|YP_003774657.1| response regulator containing a... 117 1e-27 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 83 6e-17 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 77 4e-15 gi|300314016|ref|YP_003778108.1| two component transcription reg... 77 4e-15 >gi|300313028|ref|YP_003777120.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 912 bits (2358), Expect = 0.0, Method: Compositional matrix adjust. Identities = 448/448 (100%), Positives = 448/448 (100%) Query: 1 MSAIHSHEIDTLQQADPFALPPPCVLLVDDEQSILSALKRTFRPQGYRLIMATSAEAALE 60 MSAIHSHEIDTLQQADPFALPPPCVLLVDDEQSILSALKRTFRPQGYRLIMATSAEAALE Sbjct: 1 MSAIHSHEIDTLQQADPFALPPPCVLLVDDEQSILSALKRTFRPQGYRLIMATSAEAALE 60 Query: 61 MMAASEVDLVISDMRMPGMNGAQFLAKVRQQWPSTMRILLTGYSEIGSTISAINDGGINH 120 MMAASEVDLVISDMRMPGMNGAQFLAKVRQQWPSTMRILLTGYSEIGSTISAINDGGINH Sbjct: 61 MMAASEVDLVISDMRMPGMNGAQFLAKVRQQWPSTMRILLTGYSEIGSTISAINDGGINH 120 Query: 121 YLSKPWDDRELLLIVAHALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQSRTEEL 180 YLSKPWDDRELLLIVAHALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQSRTEEL Sbjct: 121 YLSKPWDDRELLLIVAHALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQSRTEEL 180 Query: 181 RQTVMFLESAQEEEQKSFLSMLRVFSDISELRAGLATGQSARVARWCEQLALRMGMTTHH 240 RQTVMFLESAQEEEQKSFLSMLRVFSDISELRAGLATGQSARVARWCEQLALRMGMTTHH Sbjct: 181 RQTVMFLESAQEEEQKSFLSMLRVFSDISELRAGLATGQSARVARWCEQLALRMGMTTHH 240 Query: 241 ARDTMMAGMLHGIGKLELPDELVRKPIEKMNSDEVQRFLWHPVRGQMLLTPIPSLAESGE 300 ARDTMMAGMLHGIGKLELPDELVRKPIEKMNSDEVQRFLWHPVRGQMLLTPIPSLAESGE Sbjct: 241 ARDTMMAGMLHGIGKLELPDELVRKPIEKMNSDEVQRFLWHPVRGQMLLTPIPSLAESGE 300 Query: 301 IIRHQHERYDGRGVPESLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRA 360 IIRHQHERYDGRGVPESLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRA Sbjct: 301 IIRHQHERYDGRGVPESLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRA 360 Query: 361 HAGHRYDPLVVESFIAMMEEQQMALEQQTRLLATQELRVGMKLAEDLRTKSGVLLLNKDH 420 HAGHRYDPLVVESFIAMMEEQQMALEQQTRLLATQELRVGMKLAEDLRTKSGVLLLNKDH Sbjct: 361 HAGHRYDPLVVESFIAMMEEQQMALEQQTRLLATQELRVGMKLAEDLRTKSGVLLLNKDH 420 Query: 421 VLDDALLARLRRFEQLDEMPLKARIVLH 448 VLDDALLARLRRFEQLDEMPLKARIVLH Sbjct: 421 VLDDALLARLRRFEQLDEMPLKARIVLH 448 >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 = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 102/364 (28%), Positives = 173/364 (47%), Gaps = 41/364 (11%) Query: 25 VLLVDDEQSILSALKRTFR--PQGYRLIMATSAEAALEMMAASEVDLVISDMRMPGMNGA 82 +L+VDD+++ LS PQ R+ A AL+ DL++ D MPGM+G Sbjct: 6 ILIVDDDKTNLSLFSHMLGQVPQ-TRIDTCADARQALDWCQEHAPDLILLDYMMPGMDGL 64 Query: 83 QFLAKVRQQWPSTMRILLTGYSEIGSTI--SAINDGGINHYLSKPWDDRELLLIVAHALE 140 FL++ R M ++ +++G + +A+ N +LSKP + ELL V + L Sbjct: 65 DFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSA-NDFLSKPVNRVELLARVKNMLA 123 Query: 141 EQQLRKQKMALERKVREQNLQLADFNRQLERQVQ-SRTEELRQTVMFLESAQEEEQKSFL 199 +R+ ++A+ +K+ + Q+++QV+ S T L + +A + + Sbjct: 124 ---MRRSQLAMSQKIDT-------LSEQVDQQVRHSDTLALDSVDLLARAAGYRDPE--- 170 Query: 200 SMLRVFSDISELRAGLATGQS-ARVARWCEQLALRMGMTTHHARDTMMAGMLHGIGKLEL 258 TG+ R+A + +A RMG+ + + A +H IGK+ + Sbjct: 171 -----------------TGEHLTRMANYARIIAARMGLDSQQQELLLNAAPMHDIGKMGI 213 Query: 259 PDELVRKPIEKMNSDEVQRFLWHPVRGQMLL--TPIPSLAESGEIIRHQHERYDGRGVPE 316 PD ++ KP +++ +E++ H G +L +P P L + +I HE++DG G P Sbjct: 214 PDHILLKP-GRLDEEELKVMRMHARIGADILVASPSPLLQTASQIALTHHEKWDGSGYPN 272 Query: 317 SLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRAHAGHRYDPLVVESFIA 376 L G+ IPL RI+AV F+ L + S E+A LR +G +DP VE+F A Sbjct: 273 GLKGEQIPLYGRIVAVADVFDALTSSRPYKPGWSLERASQYLREQSGAHFDPRCVEAFFA 332 Query: 377 MMEE 380 EE Sbjct: 333 GWEE 336 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 82.8 bits (203), Expect = 6e-17, Method: Compositional matrix adjust. Identities = 44/147 (29%), Positives = 81/147 (55%), Gaps = 3/147 (2%) Query: 230 LALRMGMTTHHARDTMMAGMLHGIGKLELPDELVRKPIEKMNSDEVQRFLWHPVRGQMLL 289 LA ++GMT + MAG+LH +GK+ +P +++ KP K+ +E H V+G +L Sbjct: 176 LANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKP-AKLTEEEFASVRMHTVQGHGIL 234 Query: 290 TPIPSLAESG-EIIRHQHERYDGRGVPESLSGDAIPLGARILAVVRDFEGLCNGGITSLN 348 I + E ++ H HE+ DG G P +L D+I + A++ AV ++ + + Sbjct: 235 QQIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAG 294 Query: 349 ASPEKALSMLRAHAGHRYDPLVVESFI 375 P +++ + A AGH +DP+ +++F+ Sbjct: 295 WDPARSIRHMAASAGH-FDPITMQAFV 320 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 64/238 (26%), Positives = 108/238 (45%), Gaps = 17/238 (7%) Query: 145 RKQKMALERKVREQNLQLADFNRQLERQVQSRTEELRQTVMFLE---SAQEEEQKSFLSM 201 R +AL RE Q+ + R + EL Q V +E + + LS+ Sbjct: 93 RASAVALREHAREVTRQMFNAARM------GKMVELPQCVALVEEIACSVLRDPNGLLSV 146 Query: 202 LRVFSDISELRAGLATGQSARVARWCEQLALRMGMTTHHARDTMMAGMLHGIGKLELPDE 261 LR+ +L S V L +G++ R+ ++G LH +GK + DE Sbjct: 147 LRL-----KLNDEYTYLHSVSVCALVIGLGRTLGLSEAACREAGLSGYLHDVGKAFIDDE 201 Query: 262 LVRKPIEKMNSDEVQRFLWHPVRGQMLLTPIPSL-AESGEIIRHQHERYDGRGVPESLSG 320 ++ KP K+ ++E HP G L P + A + ++ RH HER DGRG P++L Sbjct: 202 ILNKP-GKLTAEEFALIKRHPELGYQYLIQTPDMPAYASDVCRHHHERLDGRGYPDALPA 260 Query: 321 DAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRAHAGHRYDPLVVESFIAMM 378 ++I L AR+ AV ++ L + P +A+S + GH +D ++ +F+ + Sbjct: 261 ESITLYARMTAVCDVYDALTSERPYKHGWDPAEAISQMARWEGH-FDRRLLLAFVKTL 317 >gi|300314016|ref|YP_003778108.1| two component transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 466 Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 41/94 (43%), Positives = 57/94 (60%), Gaps = 1/94 (1%) Query: 46 GYRLIMATSAEAALEMMAASEVDLVISDMRMPGMNGAQFLAKVRQQWPSTMRILLTGYSE 105 GYR++ SAEAAL +A S LVI+D+R+PGM+G A++R ++P+ ILLT + Sbjct: 34 GYRILAVESAEAALAQLAISLPALVITDVRLPGMDGLALFAEIRSRYPALPVILLTAHGT 93 Query: 106 IGSTISAINDGGINHYLSKPWDDRELLLIVAHAL 139 I + A G YL+KP+D LL VA AL Sbjct: 94 IPDAVDATTQGAFA-YLTKPFDGHVLLDKVAQAL 126 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 0.134 0.378 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: 1,200,081 Number of extensions: 46213 Number of successful extensions: 320 Number of sequences better than 1.0e-08: 21 Number of HSP's gapped: 331 Number of HSP's successfully gapped: 21 Length of query: 448 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 360 Effective length of database: 1,203,190 Effective search space: 433148400 Effective search space used: 433148400 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: 132 (55.5 bits)