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= 0001.4625.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|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 695 0.0 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 500 e-142 gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei... 340 1e-94 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 317 1e-87 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 291 9e-80 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 695 bits (1793), Expect = 0.0, Method: Compositional matrix adjust. Identities = 336/406 (82%), Positives = 368/406 (90%), Gaps = 5/406 (1%) Query: 1 MLKSIALEQLRLGMYVHSIPGGWIKHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGR 60 MLKSIAL+QLRLGMY+HSIPGGWI HPF RKSFK+ETLEDLQTLR+CP++ +TI+TAKGR Sbjct: 1 MLKSIALDQLRLGMYIHSIPGGWISHPFRRKSFKVETLEDLQTLRDCPIDAITINTAKGR 60 Query: 61 DIAPENLTEDDEEPAVELSLDHHGAPTTVAVPKPATRTETTIERERAARIISASKSTVLN 120 D+ E L EDD + + P A PA+RT+T IERERA RIIS+SKSTVL+ Sbjct: 61 DVTREELEEDDADQDAPAA-----PPADAANRNPASRTDTAIERERAQRIISSSKSTVLH 115 Query: 121 MFSEARMGKTVDVKDAAELVTEITSSVARNADALISLARLKTTDDYTYMHSVAVCAMMIS 180 MFSEARMGK +DVKDAAELVTEIT+SV+RNADALISLARLKTTDDYTY+HSVAVCAMMIS Sbjct: 116 MFSEARMGKAIDVKDAAELVTEITASVSRNADALISLARLKTTDDYTYLHSVAVCAMMIS 175 Query: 181 LANQLGMTPEQTKQAGMAGLLHDVGKMAVPLEILNKPAKLTEEEFASVRAHTVHGHGILQ 240 LANQLGMTP+QTKQAGMAGLLHDVGKMAVPL+ILNKPAKLTEEEFASVR HTV GHGILQ Sbjct: 176 LANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRMHTVQGHGILQ 235 Query: 241 QIEGIGEAALDVSLHHHEKIDGSGYPFNLKADAISVMAKMGAVCDVYDAITSNRPYKAGW 300 QIEGIGE ALDVSLHHHEKIDGSGYPFNLKAD+IS+MAKMGAVCDVYDAITSNRPYKAGW Sbjct: 236 QIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGW 295 Query: 301 DPARSIRHMAASAGHFDPVTMEAFVKAIGIYPTGSCVILQSGRLGVVVDQRPDHLLTPRV 360 DPARSIRHMAASAGHFDP+TM+AFVKAIGIYPTGSCV+LQSGRLGVVVDQRPD LLTPRV Sbjct: 296 DPARSIRHMAASAGHFDPITMQAFVKAIGIYPTGSCVMLQSGRLGVVVDQRPDQLLTPRV 355 Query: 361 KLFYSTTNRMPLKPEIIDLTHASDRIVAYADPAKWGIRSLPSIDLL 406 K+FYST NRMPL+ EIIDL H+SD+I AYADPAKWGI +LP I+LL Sbjct: 356 KVFYSTANRMPLESEIIDLAHSSDKITAYADPAKWGIGNLPGIELL 401 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 500 bits (1287), Expect = e-142, Method: Compositional matrix adjust. Identities = 234/401 (58%), Positives = 307/401 (76%), Gaps = 4/401 (0%) Query: 1 MLKSIALEQLRLGMYVHSIPGGWIKHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGR 60 MLK I +QLR+GMY+ S G W + P WRK F +E +DL L+ P+ E+ ID AKG Sbjct: 1 MLKFITPKQLRIGMYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGA 60 Query: 61 DIAPENLTEDDEEPAVELSLDHHGA-PTTVAVPKPATRTETTIERERAARIISASKSTVL 119 D+ + E ++ VE SL + A+P+ RT+ ERERAARIIS+S+ TVL Sbjct: 61 DVQTD---EAEQGNGVESSLGKNAEIEVAQALPEAGKRTDIQAERERAARIISSSEKTVL 117 Query: 120 NMFSEARMGKTVDVKDAAELVTEITSSVARNADALISLARLKTTDDYTYMHSVAVCAMMI 179 MFS+ARMGKT+DVK+A++LV EI +SV+RNADA+ISL RLKT D+YTYMHSVAVCAMMI Sbjct: 118 TMFSQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMI 177 Query: 180 SLANQLGMTPEQTKQAGMAGLLHDVGKMAVPLEILNKPAKLTEEEFASVRAHTVHGHGIL 239 SLA+QLG++ ++ +QAGMAGLLHD+GKM VP ILNKP+KLTEEEF SV++H + GH +L Sbjct: 178 SLADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLL 237 Query: 240 QQIEGIGEAALDVSLHHHEKIDGSGYPFNLKADAISVMAKMGAVCDVYDAITSNRPYKAG 299 Q++ GIG+A LDVSLHHHEK+DG+GYP+ L IS+ A+MGA+CDVYDAITS+RPYK+G Sbjct: 238 QELPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDAITSDRPYKSG 297 Query: 300 WDPARSIRHMAASAGHFDPVTMEAFVKAIGIYPTGSCVILQSGRLGVVVDQRPDHLLTPR 359 WDP+RSI+HMA S GHFD ++AFVKA+GIYP GSCV++Q+G L +V++QRPD LL P Sbjct: 298 WDPSRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPL 357 Query: 360 VKLFYSTTNRMPLKPEIIDLTHASDRIVAYADPAKWGIRSL 400 V++FYST ++ + P +IDL ++++IV DP KWG+ L Sbjct: 358 VRIFYSTNKKIAVTPTLIDLRRSANKIVGAVDPEKWGVTRL 398 >gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 408 Score = 340 bits (871), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 175/379 (46%), Positives = 234/379 (61%), Gaps = 16/379 (4%) Query: 2 LKSIALEQLRLGMYVHSIPGGWIKHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGRD 61 LK I + QL +GMY G WI PFWR SF + ++ R IDT +G D Sbjct: 4 LKKIEVGQLSVGMYFSGFDGAWIDTPFWRTSFLVRKASEIARARAAGYTYCWIDTDQGID 63 Query: 62 IAPENLTEDDEEPAVELSLDHHGAPTTVAVPKPATRTETTIERERAARIISASKSTVLNM 121 +A E D P E P+ A + + E + A R+ +K T M Sbjct: 64 LAG---AEADRLPETE-------------EPEAAGSSSSRSELDDALRLYENAKQTTQQM 107 Query: 122 FSEARMGKTVDVKDAAELVTEITSSVARNADALISLARLKTTDDYTYMHSVAVCAMMISL 181 F +AR+GKT+DV++ LV EI +SVAR+++AL+S+ RLK D+YTY+HS+AVC +M++L Sbjct: 108 FKQARLGKTLDVENCKSLVEEIATSVARDSNALLSIIRLKRVDEYTYLHSIAVCTLMVAL 167 Query: 182 ANQLGMTPEQTKQAGMAGLLHDVGKMAVPLEILNKPAKLTEEEFASVRAHTVHGHGILQQ 241 A LGM K+AG+AG LHDVGK +PLEILNKP +L+E+E+ ++ H G+ L+ Sbjct: 168 ARTLGMDDIACKEAGLAGYLHDVGKAFIPLEILNKPDRLSEQEYKIIQRHPALGYDYLKG 227 Query: 242 IEGIGEAALDVSLHHHEKIDGSGYPFNLKADAISVMAKMGAVCDVYDAITSNRPYKAGWD 301 G+ + LDV LHHHEKIDGSGYP + + ISV ++M AVCDVYDA+TS RPYK+GWD Sbjct: 228 FSGVPDYVLDVCLHHHEKIDGSGYPSRHQGNQISVYSRMAAVCDVYDAVTSERPYKSGWD 287 Query: 302 PARSIRHMAASAGHFDPVTMEAFVKAIGIYPTGSCVILQSGRLGVVVDQRPDHLLTPRVK 361 PA S+ MA+ GHFD AFVKA+GIYP GS V LQSGR +V+ Q L P VK Sbjct: 288 PAESLSRMASWQGHFDRPIFLAFVKALGIYPIGSIVKLQSGRTALVIRQNHVDLTKPVVK 347 Query: 362 LFYSTTNRMPLKPEIIDLT 380 F +T + ++ EIIDL+ Sbjct: 348 AFVTTPSIEVVESEIIDLS 366 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 317 bits (812), Expect = 1e-87, Method: Compositional matrix adjust. Identities = 168/394 (42%), Positives = 229/394 (58%), Gaps = 18/394 (4%) Query: 1 MLKSIALEQLRLGMYVHSIPGGWIKHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGR 60 MLK I +E L LGMY W+ HPFW+ F ++ +L+ + IDT +G Sbjct: 1 MLKKIKVEDLVLGMYFCGFEAAWLDHPFWKNKFLLKNDSELRQAHASGIAYCWIDTERGL 60 Query: 61 DIAPENLTEDDEEPAVELSL----DHHGAPTTVAVPKPATRTETTIERERAARIISASKS 116 D+A E D P E +H AP P A + RE A + A Sbjct: 61 DVAQEEEAADSAAPLQETEPSPEPEHAAAP-----PIDAVLLDAMALRETAKKATKA--- 112 Query: 117 TVLNMFSEARMGKTVDVKDAAELVTEITSSVARNADALISLARLKTTDDYTYMHSVAVCA 176 MFSEARMGK +D++ +V EI SV ++ + +S+ RLK D+YTY+HSVAVCA Sbjct: 113 ----MFSEARMGKVLDMERCVSVVEEIAGSVIKSPNGALSVLRLKLADEYTYLHSVAVCA 168 Query: 177 MMISLANQLGMTPEQTKQAGMAGLLHDVGKMAVPLEILNKPAKLTEEEFASVRAHTVHGH 236 +M++L LG+ ++AG+ G LHDVGK +P E+LNKP KL++EEF+ ++ H G+ Sbjct: 169 LMVALGRTLGLDETACREAGLGGFLHDVGKAFIPHELLNKPGKLSDEEFSQIKKHPELGY 228 Query: 237 GILQQIEGIGEAALDVSLHHHEKIDGSGYPFNLKADAISVMAKMGAVCDVYDAITSNRPY 296 L Q + + A DV LHHHEKIDG+GYP L+A AI++ ++M A+CDVYDA+TS+RPY Sbjct: 229 KYLSQDPNVPDYARDVCLHHHEKIDGNGYPEGLRAGAITLYSRMAAICDVYDALTSDRPY 288 Query: 297 KAGWDPARSIRHMAASAGHFDPVTMEAFVKAIGIYPTGSCVILQSGRLGVVVDQRPDHLL 356 K WDPA +I MA+ GHFD AFVK +GIYP GS V L+SGR G V+ Q L Sbjct: 289 KRAWDPAEAISAMASWTGHFDRAMFLAFVKTLGIYPVGSIVKLESGRSGFVIRQNAQDLT 348 Query: 357 TPRVKLFYSTTNRMPLKPEIIDL--THASDRIVA 388 P +K+F+ + EI+DL +D IVA Sbjct: 349 RPVLKVFHYDDSMTVTDTEILDLLANPEADTIVA 382 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 291 bits (744), Expect = 9e-80, Method: Compositional matrix adjust. Identities = 155/364 (42%), Positives = 208/364 (57%), Gaps = 11/364 (3%) Query: 1 MLKSIALEQLRLGMYVHSIPGGWIKHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGR 60 MLK I + L LGMY W+ HPFW+ F + DLQ R + ID ++GR Sbjct: 1 MLKKIKVGDLVLGMYFCGFEASWLAHPFWKTRFLLSRESDLQQARASGIAYCWIDVSRGR 60 Query: 61 DIAPENLTEDDEEPAVELSLDHHGAPTTVAVPKPATRTETTIERERAARIISASKSTVLN 120 D+A + + A AT +R A + ++ Sbjct: 61 DVAGAAPAKAEAAAA-----------PASPDQSAATHAGADADRASAVALREHAREVTRQ 109 Query: 121 MFSEARMGKTVDVKDAAELVTEITSSVARNADALISLARLKTTDDYTYMHSVAVCAMMIS 180 MF+ ARMGK V++ LV EI SV R+ + L+S+ RLK D+YTY+HSV+VCA++I Sbjct: 110 MFNAARMGKMVELPQCVALVEEIACSVLRDPNGLLSVLRLKLNDEYTYLHSVSVCALVIG 169 Query: 181 LANQLGMTPEQTKQAGMAGLLHDVGKMAVPLEILNKPAKLTEEEFASVRAHTVHGHGILQ 240 L LG++ ++AG++G LHDVGK + EILNKP KLT EEFA ++ H G+ L Sbjct: 170 LGRTLGLSEAACREAGLSGYLHDVGKAFIDDEILNKPGKLTAEEFALIKRHPELGYQYLI 229 Query: 241 QIEGIGEAALDVSLHHHEKIDGSGYPFNLKADAISVMAKMGAVCDVYDAITSNRPYKAGW 300 Q + A DV HHHE++DG GYP L A++I++ A+M AVCDVYDA+TS RPYK GW Sbjct: 230 QTPDMPAYASDVCRHHHERLDGRGYPDALPAESITLYARMTAVCDVYDALTSERPYKHGW 289 Query: 301 DPARSIRHMAASAGHFDPVTMEAFVKAIGIYPTGSCVILQSGRLGVVVDQRPDHLLTPRV 360 DPA +I MA GHFD + AFVK +GIYP GS V L+SG GVV+ Q P L P + Sbjct: 290 DPAEAISQMARWEGHFDRRLLLAFVKTLGIYPVGSLVRLESGVSGVVIRQNPADLTRPVL 349 Query: 361 KLFY 364 K+ + Sbjct: 350 KVLH 353 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 0.132 0.384 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: 1,218,326 Number of extensions: 48848 Number of successful extensions: 193 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 11 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)