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= 0001.0283.p (555 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309652|ref|YP_003773744.1| HD-GYP domain-containing protei... 972 0.0 gi|300309839|ref|YP_003773931.1| metal-dependent phosphohydrolas... 173 3e-44 gi|300310565|ref|YP_003774657.1| response regulator containing a... 77 4e-15 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 72 1e-13 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 71 2e-13 >gi|300309652|ref|YP_003773744.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 552 Score = 973 bits (2514), Expect = 0.0, Method: Compositional matrix adjust. Identities = 472/545 (86%), Positives = 502/545 (92%), Gaps = 1/545 (0%) Query: 12 PTAGEHRDIAYRLERLTDLCRELGSNRDIPMLLERILLTARDITRADGGTLYRTTDNGEA 71 P A HR+IAYRLERLT+LCRELGS+RDIP+LLERILLTA+DIT+ADGGTLYR + G++ Sbjct: 8 PAAERHRNIAYRLERLTELCRELGSSRDIPLLLERILLTAKDITQADGGTLYRINEGGDS 67 Query: 72 LRFDISVNQTLKMHQGGSSGRAVSTPEIALTLPDGQPNLSAVAAYAANTRHSVNIGDVYQ 131 LRF ISVN TLKMHQGGSSG+A+S P+IAL LPDGQPNLSAVAAYAANTR SVNI DVYQ Sbjct: 68 LRFYISVNDTLKMHQGGSSGKAISIPDIALRLPDGQPNLSAVAAYAANTRKSVNIADVYQ 127 Query: 132 -ASGFNFNGMRLFDEKYGYRSKSILTVPMQDHEGELVGVLQLINAIDPDTGEPQPFSETD 190 +SGFNFNGMRLFDEKYGY+SKS LTVPM+DHEGELVGVLQLINAIDP TG P PFSETD Sbjct: 128 VSSGFNFNGMRLFDEKYGYQSKSFLTVPMEDHEGELVGVLQLINAIDPATGAPLPFSETD 187 Query: 191 QRFIEALASQAAMAMTNQQLIGRLENLFESLIKLINIGIGAKSPHTGRHCEQVPQLAMML 250 Q FIEALASQAAMAMTNQQLI RLE LFESLI+LINIGIG KSPHTGRHCEQVP+LAMML Sbjct: 188 QHFIEALASQAAMAMTNQQLIQRLEQLFESLIRLINIGIGEKSPHTGRHCEQVPELAMML 247 Query: 251 AEAAHNTTEGPLADFRMTDADRRELWLAGLLHDCGKIGTPSHIVEKATKLETIFDRIHLV 310 AEAAHN TEGPLADF M++ADRRELWLA LLHDCGKI TP+HIVEKATKLETIFDRIHLV Sbjct: 248 AEAAHNATEGPLADFHMSEADRRELWLAALLHDCGKISTPTHIVEKATKLETIFDRIHLV 307 Query: 311 DTRFEVVKRDAEIALLQQKLALGAALTPARAAELDAAFQAELAKLDEERAFLRKINYGTE 370 +TR EV+KRDAEI +LQ+KLALGAAL RAAELDA AELA+LD ERAFLRKIN GTE Sbjct: 308 ETRIEVLKRDAEIRVLQEKLALGAALDAQRAAELDAGLAAELAQLDLERAFLRKINVGTE 367 Query: 371 GMRPEDQQRVLDIAARTWRGPDGQLRQLLDDEEASNLRIRAGTLNDEERAIINNHIVITI 430 GMRPEDQQRVLDIA R+WRGPDGQLR LLD+EE++NLRIRAGTLND ER IINNHIVITI Sbjct: 368 GMRPEDQQRVLDIAQRSWRGPDGQLRPLLDEEESANLRIRAGTLNDAERQIINNHIVITI 427 Query: 431 KMLESLPWPKQLARVTEFAGGHHERMDGKGYPKGLTREQMSVQARIMAVADIFEAVTAVD 490 KMLESLPWPKQLARVTEFAGGHHERMDGKGYPKGLTREQMSVQARIMAVADIFEAVTA D Sbjct: 428 KMLESLPWPKQLARVTEFAGGHHERMDGKGYPKGLTREQMSVQARIMAVADIFEAVTAAD 487 Query: 491 RPYKRGNTLNEAVEILAGFKARDHIDPDLFDLFVRERIYEKYAAQFMHPSQIDEVDLSRI 550 RPYKRGNTLNEAVEILAGFKARDHIDPDLFDLFVRERIYEKYA +FMHPSQIDEVDLSRI Sbjct: 488 RPYKRGNTLNEAVEILAGFKARDHIDPDLFDLFVRERIYEKYAEKFMHPSQIDEVDLSRI 547 Query: 551 PGHGG 555 PG G Sbjct: 548 PGFGA 552 >gi|300309839|ref|YP_003773931.1| metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 975 Score = 173 bits (439), Expect = 3e-44, Method: Compositional matrix adjust. Identities = 102/230 (44%), Positives = 140/230 (60%), Gaps = 12/230 (5%) Query: 159 MQDHEGELVGVLQLINAIDPDTGEPQPFSETDQRFIEALASQAAMAMTNQQLIGRLENLF 218 ++ G L G+L L++A D G+P+ + F L+ A+A+ +QLI + L Sbjct: 523 LRGRNGSLEGLLVLVHAHDSAHGDPRFLA-----FARRLSGMLAVAIETRQLIAAQKALL 577 Query: 219 ESLIKLINIGIGAKSPHTGRHCEQVPQLAMMLAEAAHNTTEGPLADFRMTDADRRELWLA 278 ESLI+L+ I AKSP+TG HCE+VP LA+ML E EGP A F + + +R LA Sbjct: 578 ESLIRLMADAIDAKSPYTGGHCERVPHLAIMLVERLAQEREGPYAGFSLNEDERYAFRLA 637 Query: 279 GLLHDCGKIGTPSHIVEKATKLETIFDRIHLVDTRFEVVKRDAEIALLQQKLALGAALTP 338 LLHDCGK+ +P HIV+KATKLE I +RIH V RFEV+ RDAE+ALL Q L AL+ Sbjct: 638 ALLHDCGKVTSPEHIVDKATKLEVIHNRIHEVRMRFEVLWRDAELALLHQ---LPQALSE 694 Query: 339 ARAAELDAAFQAELAKLDEERAFLRKINYGTEGMRPEDQQRVLDIAARTW 388 +A A +A+ A+L E+ AF+ + N G+E M E R+ IA +TW Sbjct: 695 QQA----QALEAQRARLREDFAFVAQCNVGSEAMSEEAIARLARIATQTW 740 Score = 158 bits (400), Expect = 9e-40, Method: Compositional matrix adjust. Identities = 75/153 (49%), Positives = 101/153 (66%) Query: 403 EASNLRIRAGTLNDEERAIINNHIVITIKMLESLPWPKQLARVTEFAGGHHERMDGKGYP 462 E NL IR GTL E+R INNHIV T+ ML+SLPWP+ L V + A HHE+MDG GYP Sbjct: 819 ELHNLGIRRGTLTPEDRFAINNHIVQTLVMLKSLPWPESLKSVPDTAANHHEKMDGTGYP 878 Query: 463 KGLTREQMSVQARIMAVADIFEAVTAVDRPYKRGNTLNEAVEILAGFKARDHIDPDLFDL 522 + L ++ +Q R+MA+AD+FEA+TA DRPYK TL+E++ I+A H+D +LF Sbjct: 879 RRLKASELPLQDRVMALADVFEALTAADRPYKPAKTLSESLRIMANMCRERHLDTELFRY 938 Query: 523 FVRERIYEKYAAQFMHPSQIDEVDLSRIPGHGG 555 F+R R++E YA + + QID VD+ I G Sbjct: 939 FLRSRLWEVYAGELLKEGQIDAVDIVEIEALTG 971 >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 = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 44/118 (37%), Positives = 69/118 (58%), Gaps = 3/118 (2%) Query: 406 NLRIRAGTLNDEERAIINNHIVITIKMLESLPWPKQLARVTEFAGGHHERMDGKGYPKGL 465 ++ ++ G L++EE ++ H I +L + P P L ++ A HHE+ DG GYP GL Sbjct: 216 HILLKPGRLDEEELKVMRMHARIGADILVASPSPL-LQTASQIALTHHEKWDGSGYPNGL 274 Query: 466 TREQMSVQARIMAVADIFEAVTAVDRPYKRGNTLNEAVEILAGFKARDHIDPDLFDLF 523 EQ+ + RI+AVAD+F+A+T+ RPYK G +L A + L ++ H DP + F Sbjct: 275 KGEQIPLYGRIVAVADVFDALTS-SRPYKPGWSLERASQYLRE-QSGAHFDPRCVEAF 330 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 72.0 bits (175), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 41/116 (35%), Positives = 65/116 (56%), Gaps = 5/116 (4%) Query: 410 RAGTLNDEERAIINNHIVITIKMLESLPWPKQLARVTEFAGGHHERMDGKGYPKGLTREQ 469 + G L+DEE + I H + K L P AR + HHE++DG GYP+GL Sbjct: 208 KPGKLSDEEFSQIKKHPELGYKYLSQDPNVPDYAR--DVCLHHHEKIDGNGYPEGLRAGA 265 Query: 470 MSVQARIMAVADIFEAVTAVDRPYKRGNTLNEAVEILAGFKARDHIDPDLFDLFVR 525 +++ +R+ A+ D+++A+T+ DRPYKR EA+ +A + H D +F FV+ Sbjct: 266 ITLYSRMAAICDVYDALTS-DRPYKRAWDPAEAISAMASWTG--HFDRAMFLAFVK 318 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust. Identities = 44/130 (33%), Positives = 71/130 (54%), Gaps = 9/130 (6%) Query: 396 RQLLDDEEASNLRIRAGTLNDEERAIINNHIVITIKMLESLPWPKQLARVTEFAGGHHER 455 + +DDE + + G L EE A+I H + + L + P A ++ HHER Sbjct: 195 KAFIDDE----ILNKPGKLTAEEFALIKRHPELGYQYL--IQTPDMPAYASDVCRHHHER 248 Query: 456 MDGKGYPKGLTREQMSVQARIMAVADIFEAVTAVDRPYKRGNTLNEAVEILAGFKARDHI 515 +DG+GYP L E +++ AR+ AV D+++A+T+ +RPYK G EA+ +A ++ H Sbjct: 249 LDGRGYPDALPAESITLYARMTAVCDVYDALTS-ERPYKHGWDPAEAISQMARWEG--HF 305 Query: 516 DPDLFDLFVR 525 D L FV+ Sbjct: 306 DRRLLLAFVK 315 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 0.319 0.135 0.388 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: 1,653,533 Number of extensions: 68090 Number of successful extensions: 225 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 220 Number of HSP's successfully gapped: 10 Length of query: 555 Length of database: 1,619,870 Length adjustment: 90 Effective length of query: 465 Effective length of database: 1,193,720 Effective search space: 555079800 Effective search space used: 555079800 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: 133 (55.8 bits)