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= 0001.0038.p (406 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 830 0.0 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 481 e-137 gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei... 337 2e-93 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 309 2e-85 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 291 7e-80 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 830 bits (2145), Expect = 0.0, Method: Compositional matrix adjust. Identities = 401/406 (98%), Positives = 403/406 (99%) Query: 1 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA 60 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA Sbjct: 1 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA 60 Query: 61 DVQTDEAEQGDGVESSLGKTAEIEVVQALPEAGKRTDIQAERERAARIISSSEKTVLNMF 120 DVQTDEAEQG+GVESSLGK AEIEV QALPEAGKRTDIQAERERAARIISSSEKTVL MF Sbjct: 61 DVQTDEAEQGNGVESSLGKNAEIEVAQALPEAGKRTDIQAERERAARIISSSEKTVLTMF 120 Query: 121 SQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLA 180 SQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLA Sbjct: 121 SQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLA 180 Query: 181 DQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQEL 240 DQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQEL Sbjct: 181 DQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQEL 240 Query: 241 PGIGDAPLDVSLHHHEKMDGTGYPYKLSGRNISMTARMGAICDVYDAITSDRPYKSGWDP 300 PGIGDAPLDVSLHHHEKMDGTGYPYKLSGR+ISMTARMGAICDVYDAITSDRPYKSGWDP Sbjct: 241 PGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDAITSDRPYKSGWDP 300 Query: 301 SRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRI 360 SRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRI Sbjct: 301 SRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRI 360 Query: 361 FYSTNKKIAVTPTLIDLRRSANKIVGAVDPEKWGVTRLVEQQDLNY 406 FYSTNKKIAVTPTLIDLRRSANKIVGAVDPEKWGVTRLVEQQDLNY Sbjct: 361 FYSTNKKIAVTPTLIDLRRSANKIVGAVDPEKWGVTRLVEQQDLNY 406 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 481 bits (1239), Expect = e-137, Method: Compositional matrix adjust. Identities = 234/398 (58%), Positives = 294/398 (73%), Gaps = 3/398 (0%) Query: 1 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA 60 MLK I QLR+GMYI S G W P RK F +E +DL L+ PI I I+ AKG Sbjct: 1 MLKSIALDQLRLGMYIHSIPGGWISHPFRRKSFKVETLEDLQTLRDCPIDAITINTAKGR 60 Query: 61 DVQTDEAEQGDGVESSLGKTAEIEVVQALPEAGKRTDIQAERERAARIISSSEKTVLNMF 120 DV +E E+ D + + + RTD ERERA RIISSS+ TVL+MF Sbjct: 61 DVTREELEEDDADQDAPAAPPADAANR---NPASRTDTAIERERAQRIISSSKSTVLHMF 117 Query: 121 SQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLA 180 S+ARMGK IDVK+A++LV EI ASVSRNADA+ISL RLKT D+YTY+HSVAVCAMMISLA Sbjct: 118 SEARMGKAIDVKDAAELVTEITASVSRNADALISLARLKTTDDYTYLHSVAVCAMMISLA 177 Query: 181 DQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQEL 240 +QLG++ Q+ +QAGMAGLLHD+GKM VP ILNKP+KLTEEEF SV+ H + GH +LQ++ Sbjct: 178 NQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRMHTVQGHGILQQI 237 Query: 241 PGIGDAPLDVSLHHHEKMDGTGYPYKLSGRNISMTARMGAICDVYDAITSDRPYKSGWDP 300 GIG+ LDVSLHHHEK+DG+GYP+ L +IS+ A+MGA+CDVYDAITS+RPYK+GWDP Sbjct: 238 EGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDP 297 Query: 301 SRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRI 360 +RSI+HMA S GHFD +QAFVKA+GIYP GSCV++Q+G L +V++QRPD LL P V++ Sbjct: 298 ARSIRHMAASAGHFDPITMQAFVKAIGIYPTGSCVMLQSGRLGVVVDQRPDQLLTPRVKV 357 Query: 361 FYSTNKKIAVTPTLIDLRRSANKIVGAVDPEKWGVTRL 398 FYST ++ + +IDL S++KI DP KWG+ L Sbjct: 358 FYSTANRMPLESEIIDLAHSSDKITAYADPAKWGIGNL 395 >gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 408 Score = 337 bits (863), Expect = 2e-93, Method: Compositional matrix adjust. Identities = 166/376 (44%), Positives = 238/376 (63%), Gaps = 14/376 (3%) Query: 2 LKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGAD 61 LK I QL +GMY F GAW P WR FL+ K ++ +A+ ID +G D Sbjct: 4 LKKIEVGQLSVGMYFSGFDGAWIDTPFWRTSFLVRKASEIARARAAGYTYCWIDTDQGID 63 Query: 62 VQTDEAEQGDGVESSLGKTAEIEVVQALPEAGKRTDIQAERERAARIISSSEKTVLNMFS 121 + EA++ L +T E PEA + ++E + A R+ ++++T MF Sbjct: 64 LAGAEADR-------LPETEE-------PEAAGSSSSRSELDDALRLYENAKQTTQQMFK 109 Query: 122 QARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLAD 181 QAR+GKT+DV+ LV EI SV+R+++A++S++RLK D YTY+HS+AVC +M++LA Sbjct: 110 QARLGKTLDVENCKSLVEEIATSVARDSNALLSIIRLKRVDEYTYLHSIAVCTLMVALAR 169 Query: 182 QLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQELP 241 LG+ ++AG+AG LHD+GK +P ILNKP +L+E+E+ +Q HP G+ L+ Sbjct: 170 TLGMDDIACKEAGLAGYLHDVGKAFIPLEILNKPDRLSEQEYKIIQRHPALGYDYLKGFS 229 Query: 242 GIGDAPLDVSLHHHEKMDGTGYPYKLSGRNISMTARMGAICDVYDAITSDRPYKSGWDPS 301 G+ D LDV LHHHEK+DG+GYP + G IS+ +RM A+CDVYDA+TS+RPYKSGWDP+ Sbjct: 230 GVPDYVLDVCLHHHEKIDGSGYPSRHQGNQISVYSRMAAVCDVYDAVTSERPYKSGWDPA 289 Query: 302 RSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRIF 361 S+ MA +GHFD + AFVKA+GIYP+GS V +Q+G A+V+ Q L P+V+ F Sbjct: 290 ESLSRMASWQGHFDRPIFLAFVKALGIYPIGSIVKLQSGRTALVIRQNHVDLTKPVVKAF 349 Query: 362 YSTNKKIAVTPTLIDL 377 +T V +IDL Sbjct: 350 VTTPSIEVVESEIIDL 365 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 309 bits (792), Expect = 2e-85, Method: Compositional matrix adjust. Identities = 166/397 (41%), Positives = 227/397 (57%), Gaps = 11/397 (2%) Query: 1 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA 60 MLK I + L +GMY F AW P W+ FLL+ D +L AS I ID +G Sbjct: 1 MLKKIKVEDLVLGMYFCGFEAAWLDHPFWKNKFLLKNDSELRQAHASGIAYCWIDTERGL 60 Query: 61 DV-QTDEAEQGDGVESSLGKTAEIEVVQALPEAGKRTDIQAERERAARIISSSEKTVLNM 119 DV Q +EA + E E A P D A RE A +K M Sbjct: 61 DVAQEEEAADSAAPLQETEPSPEPEHAAAPPIDAVLLDAMALRETA-------KKATKAM 113 Query: 120 FSQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISL 179 FS+ARMGK +D++ +V EI SV ++ + +S++RLK AD YTY+HSVAVCA+M++L Sbjct: 114 FSEARMGKVLDMERCVSVVEEIAGSVIKSPNGALSVLRLKLADEYTYLHSVAVCALMVAL 173 Query: 180 ADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQE 239 LGL ++AG+ G LHD+GK +P +LNKP KL++EEF ++ HP G++ L + Sbjct: 174 GRTLGLDETACREAGLGGFLHDVGKAFIPHELLNKPGKLSDEEFSQIKKHPELGYKYLSQ 233 Query: 240 LPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRNISMTARMGAICDVYDAITSDRPYKSGWD 299 P + D DV LHHHEK+DG GYP L I++ +RM AICDVYDA+TSDRPYK WD Sbjct: 234 DPNVPDYARDVCLHHHEKIDGNGYPEGLRAGAITLYSRMAAICDVYDALTSDRPYKRAWD 293 Query: 300 PSRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVR 359 P+ +I MA GHFD + AFVK +GIYPVGS V +++G V+ Q L P+++ Sbjct: 294 PAEAISAMASWTGHFDRAMFLAFVKTLGIYPVGSIVKLESGRSGFVIRQNAQDLTRPVLK 353 Query: 360 IFYSTNKKIAVTPTLIDL--RRSANKIVGAVDPEKWG 394 +F+ + ++DL A+ IV A E+W Sbjct: 354 VFHYDDSMTVTDTEILDLLANPEADTIV-ARGGEEWA 389 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 291 bits (745), Expect = 7e-80, Method: Compositional matrix adjust. Identities = 160/405 (39%), Positives = 230/405 (56%), Gaps = 15/405 (3%) Query: 1 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA 60 MLK I L +GMY F +W P W+ FLL ++ DL +AS I ID+++G Sbjct: 1 MLKKIKVGDLVLGMYFCGFEASWLAHPFWKTRFLLSRESDLQQARASGIAYCWIDVSRGR 60 Query: 61 DVQTDEAEQGDGVESSLGKTAEIEVVQALPEAGKRTDIQAERERAARIISSSEKTVLNMF 120 DV + A A A+R A + + + MF Sbjct: 61 DVAGAAPAK---------AEAAAAPASPDQSAATHAGADADRASAVALREHAREVTRQMF 111 Query: 121 SQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLA 180 + ARMGK +++ + LV EI SV R+ + ++S++RLK D YTY+HSV+VCA++I L Sbjct: 112 NAARMGKMVELPQCVALVEEIACSVLRDPNGLLSVLRLKLNDEYTYLHSVSVCALVIGLG 171 Query: 181 DQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQEL 240 LGLS ++AG++G LHD+GK + ILNKP KLT EEF ++ HP G++ L + Sbjct: 172 RTLGLSEAACREAGLSGYLHDVGKAFIDDEILNKPGKLTAEEFALIKRHPELGYQYLIQT 231 Query: 241 PGIGDAPLDVSLHHHEKMDGTGYPYKLSGRNISMTARMGAICDVYDAITSDRPYKSGWDP 300 P + DV HHHE++DG GYP L +I++ ARM A+CDVYDA+TS+RPYK GWDP Sbjct: 232 PDMPAYASDVCRHHHERLDGRGYPDALPAESITLYARMTAVCDVYDALTSERPYKHGWDP 291 Query: 301 SRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRI 360 + +I MA+ +GHFD +L AFVK +GIYPVGS V +++G +V+ Q P L P++++ Sbjct: 292 AEAISQMARWEGHFDRRLLLAFVKTLGIYPVGSLVRLESGVSGVVIRQNPADLTRPVLKV 351 Query: 361 FYSTNKKIAVTPTLIDLRR--SANKIVGAVDPEKWGVTRLVEQQD 403 + ++DL + I+G D E+W TRL QQD Sbjct: 352 LHLQGPHETTIGGVLDLMAWPRTDTIIGRGD-EEW--TRL-RQQD 392 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 0.318 0.133 0.380 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: 1,208,597 Number of extensions: 49074 Number of successful extensions: 166 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 159 Number of HSP's successfully gapped: 10 Length of query: 406 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 319 Effective length of database: 1,207,925 Effective search space: 385328075 Effective search space used: 385328075 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 132 (55.5 bits)