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= 0006.0004.p (401 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... 660 0.0 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 484 e-138 gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei... 326 2e-90 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 306 2e-84 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 284 8e-78 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 660 bits (1703), Expect = 0.0, Method: Compositional matrix adjust. Identities = 321/400 (80%), Positives = 350/400 (87%), Gaps = 13/400 (3%) Query: 1 MYVHSIPGGWINHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGRDIAPEHDIDDETD 60 MY+HSIPGGWI+HPF RKSFK+ETLEDLQTLR+CP++ +TI+TAKGRD+ E Sbjct: 14 MYIHSIPGGWISHPFRRKSFKVETLEDLQTLRDCPIDAITINTAKGRDVTRE-------- 65 Query: 61 AAEQDDAAPPAEIAIAHQGASATVAVRKPATRTETAVERERAARIISSSKSTVLNMFSEA 120 + A A A R PA+RT+TA+ERERA RIISSSKSTVL+MFSEA Sbjct: 66 -----ELEEDDADQDAPAAPPADAANRNPASRTDTAIERERAQRIISSSKSTVLHMFSEA 120 Query: 121 RMGKTVDVKDAAELVTEITSSVSRNADALISLARLKTTDDYTYMHSVAVCAMMISLANQL 180 RMGK +DVKDAAELVTEIT+SVSRNADALISLARLKTTDDYTY+HSVAVCAMMISLANQL Sbjct: 121 RMGKAIDVKDAAELVTEITASVSRNADALISLARLKTTDDYTYLHSVAVCAMMISLANQL 180 Query: 181 GMTQEQIKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRSHTVQGHSILKQIEGI 240 GMT +Q KQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVR HTVQGH IL+QIEGI Sbjct: 181 GMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRMHTVQGHGILQQIEGI 240 Query: 241 GEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARS 300 GEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARS Sbjct: 241 GEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARS 300 Query: 301 IRHMAASAGHFDPITMEAFVKAIGIYPTGSCVILQSGRLGIVVDQRPEHLLTPRIKLFYS 360 IRHMAASAGHFDPITM+AFVKAIGIYPTGSCV+LQSGRLG+VVDQRP+ LLTPR+K+FYS Sbjct: 301 IRHMAASAGHFDPITMQAFVKAIGIYPTGSCVMLQSGRLGVVVDQRPDQLLTPRVKVFYS 360 Query: 361 TTSRMPLKPEIIDLARGGDKIVAYADPAKWGIRSLPSIDL 400 T +RMPL+ EIIDLA DKI AYADPAKWGI +LP I+L Sbjct: 361 TANRMPLESEIIDLAHSSDKITAYADPAKWGIGNLPGIEL 400 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 484 bits (1245), Expect = e-138, Method: Compositional matrix adjust. Identities = 230/400 (57%), Positives = 296/400 (74%), Gaps = 20/400 (5%) Query: 1 MYVHSIPGGWINHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGRDIAPEHDIDDETD 60 MY+ S G W P WRK F +E +DL L+ P+ E+ ID AKG D+ +TD Sbjct: 14 MYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGADV--------QTD 65 Query: 61 AAEQDDA-----APPAEIAIAHQGASATVAVRKPATRTETAVERERAARIISSSKSTVLN 115 AEQ + AEI +A A+ + RT+ ERERAARIISSS+ TVL Sbjct: 66 EAEQGNGVESSLGKNAEIEVAQ-------ALPEAGKRTDIQAERERAARIISSSEKTVLT 118 Query: 116 MFSEARMGKTVDVKDAAELVTEITSSVSRNADALISLARLKTTDDYTYMHSVAVCAMMIS 175 MFS+ARMGKT+DVK+A++LV EI +SVSRNADA+ISL RLKT D+YTYMHSVAVCAMMIS Sbjct: 119 MFSQARMGKTIDVKEASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMIS 178 Query: 176 LANQLGMTQEQIKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRSHTVQGHSILK 235 LA+QLG++ ++ +QAGMAGLLHD+GKM VP ILNKP+KLTEEEF SV+SH + GH +L+ Sbjct: 179 LADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQ 238 Query: 236 QIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGW 295 ++ GIG+ LDVSLHHHEK+DG+GYP+ L IS+ A+MGA+CDVYDAITS+RPYK+GW Sbjct: 239 ELPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDAITSDRPYKSGW 298 Query: 296 DPARSIRHMAASAGHFDPITMEAFVKAIGIYPTGSCVILQSGRLGIVVDQRPEHLLTPRI 355 DP+RSI+HMA S GHFD ++AFVKA+GIYP GSCV++Q+G L +V++QRP+ LL P + Sbjct: 299 DPSRSIQHMAQSKGHFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLV 358 Query: 356 KLFYSTTSRMPLKPEIIDLARGGDKIVAYADPAKWGIRSL 395 ++FYST ++ + P +IDL R +KIV DP KWG+ L Sbjct: 359 RIFYSTNKKIAVTPTLIDLRRSANKIVGAVDPEKWGVTRL 398 >gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 408 Score = 326 bits (836), Expect = 2e-90, Method: Compositional matrix adjust. Identities = 168/378 (44%), Positives = 228/378 (60%), Gaps = 24/378 (6%) Query: 1 MYVHSIPGGWINHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGRDIAPEHDIDDETD 60 MY G WI+ PFWR SF + ++ R IDT +G D+A Sbjct: 16 MYFSGFDGAWIDTPFWRTSFLVRKASEIARARAAGYTYCWIDTDQGIDLA---------- 65 Query: 61 AAEQDDAAPPAEIAIAHQGASATVAVRKPATRTETAVERERAARIISSSKSTVLNMFSEA 120 AE D E A +S + E + A R+ ++K T MF +A Sbjct: 66 GAEADRLPETEEPEAAGSSSSRS--------------ELDDALRLYENAKQTTQQMFKQA 111 Query: 121 RMGKTVDVKDAAELVTEITSSVSRNADALISLARLKTTDDYTYMHSVAVCAMMISLANQL 180 R+GKT+DV++ LV EI +SV+R+++AL+S+ RLK D+YTY+HS+AVC +M++LA L Sbjct: 112 RLGKTLDVENCKSLVEEIATSVARDSNALLSIIRLKRVDEYTYLHSIAVCTLMVALARTL 171 Query: 181 GMTQEQIKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRSHTVQGHSILKQIEGI 240 GM K+AG+AG LHDVGK +PL+ILNKP +L+E+E+ ++ H G+ LK G+ Sbjct: 172 GMDDIACKEAGLAGYLHDVGKAFIPLEILNKPDRLSEQEYKIIQRHPALGYDYLKGFSGV 231 Query: 241 GEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARS 300 + LDV LHHHEKIDGSGYP + + IS+ ++M AVCDVYDA+TS RPYK+GWDPA S Sbjct: 232 PDYVLDVCLHHHEKIDGSGYPSRHQGNQISVYSRMAAVCDVYDAVTSERPYKSGWDPAES 291 Query: 301 IRHMAASAGHFDPITMEAFVKAIGIYPTGSCVILQSGRLGIVVDQRPEHLLTPRIKLFYS 360 + MA+ GHFD AFVKA+GIYP GS V LQSGR +V+ Q L P +K F + Sbjct: 292 LSRMASWQGHFDRPIFLAFVKALGIYPIGSIVKLQSGRTALVIRQNHVDLTKPVVKAFVT 351 Query: 361 TTSRMPLKPEIIDLARGG 378 T S ++ EIIDL+ G Sbjct: 352 TPSIEVVESEIIDLSAPG 369 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 306 bits (783), Expect = 2e-84, Method: Compositional matrix adjust. Identities = 159/390 (40%), Positives = 226/390 (57%), Gaps = 26/390 (6%) Query: 1 MYVHSIPGGWINHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGRDIAPEHDIDDETD 60 MY W++HPFW+ F ++ +L+ + IDT +G D+A E + D Sbjct: 14 MYFCGFEAAWLDHPFWKNKFLLKNDSELRQAHASGIAYCWIDTERGLDVAQEEEAADSAA 73 Query: 61 AAEQDDAAPPAEIAIAHQGASATVAVRKPATRTETAVERERAARIISSSKSTVLNMFSEA 120 ++ + +P E H A AV A RE A K MFSEA Sbjct: 74 PLQETEPSPEPE----HAAAPPIDAVLLDAMAL-----RETA-------KKATKAMFSEA 117 Query: 121 RMGKTVDVKDAAELVTEITSSVSRNADALISLARLKTTDDYTYMHSVAVCAMMISLANQL 180 RMGK +D++ +V EI SV ++ + +S+ RLK D+YTY+HSVAVCA+M++L L Sbjct: 118 RMGKVLDMERCVSVVEEIAGSVIKSPNGALSVLRLKLADEYTYLHSVAVCALMVALGRTL 177 Query: 181 GMTQEQIKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRSHTVQGHSILKQIEGI 240 G+ + ++AG+ G LHDVGK +P ++LNKP KL++EEF+ ++ H G+ L Q + Sbjct: 178 GLDETACREAGLGGFLHDVGKAFIPHELLNKPGKLSDEEFSQIKKHPELGYKYLSQDPNV 237 Query: 241 GEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARS 300 + A DV LHHHEKIDG+GYP L+A +I++ ++M A+CDVYDA+TS+RPYK WDPA + Sbjct: 238 PDYARDVCLHHHEKIDGNGYPEGLRAGAITLYSRMAAICDVYDALTSDRPYKRAWDPAEA 297 Query: 301 IRHMAASAGHFDPITMEAFVKAIGIYPTGSCVILQSGRLGIVVDQRPEHLLTPRIKLFYS 360 I MA+ GHFD AFVK +GIYP GS V L+SGR G V+ Q + L P +K+F+ Sbjct: 298 ISAMASWTGHFDRAMFLAFVKTLGIYPVGSIVKLESGRSGFVIRQNAQDLTRPVLKVFHY 357 Query: 361 TTSRMPLKPEIIDL----------ARGGDK 380 S EI+DL ARGG++ Sbjct: 358 DDSMTVTDTEILDLLANPEADTIVARGGEE 387 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 284 bits (727), Expect = 8e-78, Method: Compositional matrix adjust. Identities = 152/359 (42%), Positives = 205/359 (57%), Gaps = 19/359 (5%) Query: 1 MYVHSIPGGWINHPFWRKSFKIETLEDLQTLRECPVEEVTIDTAKGRDIAPEHDIDDETD 60 MY W+ HPFW+ F + DLQ R + ID ++GRD+A Sbjct: 14 MYFCGFEASWLAHPFWKTRFLLSRESDLQQARASGIAYCWIDVSRGRDVAGA----APAK 69 Query: 61 AAEQDDAAPPAEIAIAHQGASATVAVRKPATRTETAVERERAARIISSSKSTVLNMFSEA 120 A A P + A H GA A +R A + ++ MF+ A Sbjct: 70 AEAAAAPASPDQSAATHAGADA---------------DRASAVALREHAREVTRQMFNAA 114 Query: 121 RMGKTVDVKDAAELVTEITSSVSRNADALISLARLKTTDDYTYMHSVAVCAMMISLANQL 180 RMGK V++ LV EI SV R+ + L+S+ RLK D+YTY+HSV+VCA++I L L Sbjct: 115 RMGKMVELPQCVALVEEIACSVLRDPNGLLSVLRLKLNDEYTYLHSVSVCALVIGLGRTL 174 Query: 181 GMTQEQIKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRSHTVQGHSILKQIEGI 240 G+++ ++AG++G LHDVGK + +ILNKP KLT EEFA ++ H G+ L Q + Sbjct: 175 GLSEAACREAGLSGYLHDVGKAFIDDEILNKPGKLTAEEFALIKRHPELGYQYLIQTPDM 234 Query: 241 GEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARS 300 A DV HHHE++DG GYP L A+SI++ A+M AVCDVYDA+TS RPYK GWDPA + Sbjct: 235 PAYASDVCRHHHERLDGRGYPDALPAESITLYARMTAVCDVYDALTSERPYKHGWDPAEA 294 Query: 301 IRHMAASAGHFDPITMEAFVKAIGIYPTGSCVILQSGRLGIVVDQRPEHLLTPRIKLFY 359 I MA GHFD + AFVK +GIYP GS V L+SG G+V+ Q P L P +K+ + Sbjct: 295 ISQMARWEGHFDRRLLLAFVKTLGIYPVGSLVRLESGVSGVVIRQNPADLTRPVLKVLH 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 0.317 0.132 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: 1,121,482 Number of extensions: 42886 Number of successful extensions: 176 Number of sequences better than 1.0e-08: 11 Number of HSP's gapped: 167 Number of HSP's successfully gapped: 11 Length of query: 401 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 314 Effective length of database: 1,207,925 Effective search space: 379288450 Effective search space used: 379288450 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)