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= 0019.0199.p (450 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... 797 0.0 gi|300310565|ref|YP_003774657.1| response regulator containing a... 116 4e-27 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 78 2e-15 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 77 2e-15 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 72 8e-14 >gi|300313028|ref|YP_003777120.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 797 bits (2059), Expect = 0.0, Method: Compositional matrix adjust. Identities = 389/450 (86%), Positives = 429/450 (95%), Gaps = 2/450 (0%) Query: 1 MTAIQSQELQTLQQADPFALPPPCVLLVDDEQSILSALKRTFRPQGYRLLTATSAEAGLD 60 M+AI S E+ TLQQADPFALPPPCVLLVDDEQSILSALKRTFRPQGYRL+ ATSAEA L+ Sbjct: 1 MSAIHSHEIDTLQQADPFALPPPCVLLVDDEQSILSALKRTFRPQGYRLIMATSAEAALE 60 Query: 61 ILASADVDLVISDMRMPGMNGAQFLAQVKQXWGGPATMRILLTGYSEIGSTISAINDGGI 120 ++A+++VDLVISDMRMPGMNGAQFLA+V+Q W P+TMRILLTGYSEIGSTISAINDGGI Sbjct: 61 MMAASEVDLVISDMRMPGMNGAQFLAKVRQQW--PSTMRILLTGYSEIGSTISAINDGGI 118 Query: 121 HHYLSKPWEDRELLMVVTHALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQARTE 180 +HYLSKPW+DRELL++V HALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQ+RTE Sbjct: 119 NHYLSKPWDDRELLLIVAHALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQSRTE 178 Query: 181 ELRQTVLFLENAQEEEQKAFLSMLHVFSDISELRAGLANGQSARVARWCEQLALRMGMNA 240 ELRQTV+FLE+AQEEEQK+FLSML VFSDISELRAGLA GQSARVARWCEQLALRMGM Sbjct: 179 ELRQTVMFLESAQEEEQKSFLSMLRVFSDISELRAGLATGQSARVARWCEQLALRMGMTT 238 Query: 241 HHAKEMMMAGMLHGIGKLDLSDDLVKKPIEKMSSDELQRFLWHPVKGQMLLTPIPTLAET 300 HHA++ MMAGMLHGIGKL+L D+LV+KPIEKM+SDE+QRFLWHPV+GQMLLTPIP+LAE+ Sbjct: 239 HHARDTMMAGMLHGIGKLELPDELVRKPIEKMNSDEVQRFLWHPVRGQMLLTPIPSLAES 298 Query: 301 GEIIRHQHERYDGRGVPESLSGDAIPLGSRILAVVRDFEGLCNGGITSHNVSPEKALSML 360 GEIIRHQHERYDGRGVPESLSGDAIPLG+RILAVVRDFEGLCNGGITS N SPEKALSML Sbjct: 299 GEIIRHQHERYDGRGVPESLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSML 358 Query: 361 RTHAGHRYDPVVVNTFIAMMEEQRMALEQQTRLLSPAELRVGMKLAEDLRTRSGVLLLNK 420 R HAGHRYDP+VV +FIAMMEEQ+MALEQQTRLL+ ELRVGMKLAEDLRT+SGVLLLNK Sbjct: 359 RAHAGHRYDPLVVESFIAMMEEQQMALEQQTRLLATQELRVGMKLAEDLRTKSGVLLLNK 418 Query: 421 EHVLDEAILARLRRFEQIDEMPLKARIVLH 450 +HVLD+A+LARLRRFEQ+DEMPLKARIVLH Sbjct: 419 DHVLDDALLARLRRFEQLDEMPLKARIVLH 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 = 116 bits (291), Expect = 4e-27, Method: Compositional matrix adjust. Identities = 101/366 (27%), Positives = 167/366 (45%), Gaps = 43/366 (11%) Query: 25 VLLVDDEQSILSALKRTFR--PQGYRLLTATSAEAGLDILASADVDLVISDMRMPGMNGA 82 +L+VDD+++ LS PQ R+ T A LD DL++ D MPGM+G Sbjct: 6 ILIVDDDKTNLSLFSHMLGQVPQT-RIDTCADARQALDWCQEHAPDLILLDYMMPGMDGL 64 Query: 83 QFLAQVKQXWGGPATMRILLTGYSEIGSTISAINDGGIHHYLSKPWEDRELLMVVTHALE 142 FL++ + G T I++T + +A+ + +LSKP ELL V + L Sbjct: 65 DFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSA-NDFLSKPVNRVELLARVKNMLA 123 Query: 143 EQQLRKQKMALERKVREQNLQLADFNRQLERQVQARTEELRQTVLFLENAQEEEQKAFLS 202 +R+ ++A+ +K+ + Q+++QV+ +V L A Sbjct: 124 ---MRRSQLAMSQKIDT-------LSEQVDQQVRHSDTLALDSVDLLARA---------- 163 Query: 203 MLHVFSDISELRAGLANGQSA----RVARWCEQLALRMGMNAHHAKEMMMAGMLHGIGKL 258 AG + ++ R+A + +A RMG+++ + ++ A +H IGK+ Sbjct: 164 ------------AGYRDPETGEHLTRMANYARIIAARMGLDSQQQELLLNAAPMHDIGKM 211 Query: 259 DLSDDLVKKPIEKMSSDELQRFLWHPVKGQMLL--TPIPTLAETGEIIRHQHERYDGRGV 316 + D ++ KP ++ +EL+ H G +L +P P L +I HE++DG G Sbjct: 212 GIPDHILLKP-GRLDEEELKVMRMHARIGADILVASPSPLLQTASQIALTHHEKWDGSGY 270 Query: 317 PESLSGDAIPLGSRILAVVRDFEGLCNGGITSHNVSPEKALSMLRTHAGHRYDPVVVNTF 376 P L G+ IPL RI+AV F+ L + S E+A LR +G +DP V F Sbjct: 271 PNGLKGEQIPLYGRIVAVADVFDALTSSRPYKPGWSLERASQYLREQSGAHFDPRCVEAF 330 Query: 377 IAMMEE 382 A EE Sbjct: 331 FAGWEE 336 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 77.8 bits (190), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 42/148 (28%), Positives = 78/148 (52%), Gaps = 3/148 (2%) Query: 231 QLALRMGMNAHHAKEMMMAGMLHGIGKLDLSDDLVKKPIEKMSSDELQRFLWHPVKGQML 290 LA ++GM K+ MAG+LH +GK+ + D++ KP K++ +E H V+G + Sbjct: 175 SLANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKP-AKLTEEEFASVRMHTVQGHGI 233 Query: 291 LTPIPTLAETG-EIIRHQHERYDGRGVPESLSGDAIPLGSRILAVVRDFEGLCNGGITSH 349 L I + E ++ H HE+ DG G P +L D+I + +++ AV ++ + + Sbjct: 234 LQQIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKA 293 Query: 350 NVSPEKALSMLRTHAGHRYDPVVVNTFI 377 P +++ + AGH +DP+ + F+ Sbjct: 294 GWDPARSIRHMAASAGH-FDPITMQAFV 320 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 44/150 (29%), Positives = 79/150 (52%), Gaps = 3/150 (2%) Query: 232 LALRMGMNAHHAKEMMMAGMLHGIGKLDLSDDLVKKPIEKMSSDELQRFLWHPVKGQMLL 291 L +G++ +E ++G LH +GK + D+++ KP K++++E HP G L Sbjct: 170 LGRTLGLSEAACREAGLSGYLHDVGKAFIDDEILNKP-GKLTAEEFALIKRHPELGYQYL 228 Query: 292 TPIPTL-AETGEIIRHQHERYDGRGVPESLSGDAIPLGSRILAVVRDFEGLCNGGITSHN 350 P + A ++ RH HER DGRG P++L ++I L +R+ AV ++ L + H Sbjct: 229 IQTPDMPAYASDVCRHHHERLDGRGYPDALPAESITLYARMTAVCDVYDALTSERPYKHG 288 Query: 351 VSPEKALSMLRTHAGHRYDPVVVNTFIAMM 380 P +A+S + GH +D ++ F+ + Sbjct: 289 WDPAEAISQMARWEGH-FDRRLLLAFVKTL 317 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 72.4 bits (176), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 41/147 (27%), Positives = 77/147 (52%), Gaps = 3/147 (2%) Query: 232 LALRMGMNAHHAKEMMMAGMLHGIGKLDLSDDLVKKPIEKMSSDELQRFLWHPVKGQMLL 291 LA ++G++A ++ MAG+LH IGK+ + ++ KP K++ +E HP+ G LL Sbjct: 179 LADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKP-SKLTEEEFVSVQSHPLAGHRLL 237 Query: 292 TPIPTLAETG-EIIRHQHERYDGRGVPESLSGDAIPLGSRILAVVRDFEGLCNGGITSHN 350 +P + + ++ H HE+ DG G P LSG I + +R+ A+ ++ + + Sbjct: 238 QELPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDAITSDRPYKSG 297 Query: 351 VSPEKALSMLRTHAGHRYDPVVVNTFI 377 P +++ + GH +D V+ F+ Sbjct: 298 WDPSRSIQHMAQSKGH-FDFDVLQAFV 323 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 0.381 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: 1,326,554 Number of extensions: 55415 Number of successful extensions: 338 Number of sequences better than 1.0e-08: 17 Number of HSP's gapped: 342 Number of HSP's successfully gapped: 17 Length of query: 450 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 362 Effective length of database: 1,203,190 Effective search space: 435554780 Effective search space used: 435554780 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)