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= 0001.0741.p (418 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei... 543 e-155 gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent p... 432 e-122 gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protei... 369 e-103 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 310 1e-85 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 302 4e-83 >gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 408 Score = 543 bits (1398), Expect = e-155, Method: Compositional matrix adjust. Identities = 258/388 (66%), Positives = 311/388 (80%), Gaps = 7/388 (1%) Query: 1 MYFSGFDGAWIASPFWRASFLIRTEAEVRQAQQAGLGHCWIDVHKG--LAPSTELQAPDS 58 MYFSGFDGAWI +PFWR SFL+R +E+ +A+ AG +CWID +G LA + + P++ Sbjct: 16 MYFSGFDGAWIDTPFWRTSFLVRKASEIARARAAGYTYCWIDTDQGIDLAGAEADRLPET 75 Query: 59 TSDDSSMPPATQQDVLNPDLLEALRLYEMGQQTAQEVFNQARLGKSLHVAKCKELVEQIA 118 P A +L +ALRLYE +QT Q++F QARLGK+L V CK LVE+IA Sbjct: 76 EE-----PEAAGSSSSRSELDDALRLYENAKQTTQQMFKQARLGKTLDVENCKSLVEEIA 130 Query: 119 ASLAHNADALLSIIRLKRADEYTYLHSIAVCTMMVALARTLGLDDTACQQAGLAGFLHDV 178 S+A +++ALLSIIRLKR DEYTYLHSIAVCT+MVALARTLG+DD AC++AGLAG+LHDV Sbjct: 131 TSVARDSNALLSIIRLKRVDEYTYLHSIAVCTLMVALARTLGMDDIACKEAGLAGYLHDV 190 Query: 179 GKAFIPLEVLNKPGLLTEQEYKIVQRHPVLGHAYLSGLVGVPDEVLDVCLHHHQKMDGSG 238 GKAFIPLE+LNKP L+EQEYKI+QRHP LG+ YL G GVPD VLDVCLHHH+K+DGSG Sbjct: 191 GKAFIPLEILNKPDRLSEQEYKIIQRHPALGYDYLKGFSGVPDYVLDVCLHHHEKIDGSG 250 Query: 239 YPARQQDQKISLFSRMAAVCDVYDAVTSHRVYKEAWDPAESLSRMASWQGHFDRTIFLAF 298 YP+R Q +IS++SRMAAVCDVYDAVTS R YK WDPAESLSRMASWQGHFDR IFLAF Sbjct: 251 YPSRHQGNQISVYSRMAAVCDVYDAVTSERPYKSGWDPAESLSRMASWQGHFDRPIFLAF 310 Query: 299 VKMLGIYPLGSIVTLRSGRTALVIQQNRKDLTRPLVKAFTTSAAMEVMEHEIVDLAAAGQ 358 VK LGIYP+GSIV L+SGRTALVI+QN DLT+P+VKAF T+ ++EV+E EI+DL+A GQ Sbjct: 311 VKALGIYPIGSIVKLQSGRTALVIRQNHVDLTKPVVKAFVTTPSIEVVESEIIDLSAPGQ 370 Query: 359 TDAIVERSGQDWLRSHELVTGSWPVMLK 386 TDAI ERSGQDWL+S+ LV S M++ Sbjct: 371 TDAIAERSGQDWLKSNGLVIDSLKAMME 398 >gi|300310307|ref|YP_003774399.1| HD-GYP domain metal-dependent phosphohydrolase [Herbaspirillum seropedicae SmR1] Length = 406 Score = 432 bits (1110), Expect = e-122, Method: Compositional matrix adjust. Identities = 200/377 (53%), Positives = 273/377 (72%), Gaps = 5/377 (1%) Query: 1 MYFSGFDGAWIASPFWRASFLIRTEAEVRQAQQAGLGHCWIDVHKGLAPSTELQAPDST- 59 MYF GF+ AW+ PFW+ FL++ ++E+RQA +G+ +CWID +GL + E +A DS Sbjct: 14 MYFCGFEAAWLDHPFWKNKFLLKNDSELRQAHASGIAYCWIDTERGLDVAQEEEAADSAA 73 Query: 60 ----SDDSSMPPATQQDVLNPDLLEALRLYEMGQQTAQEVFNQARLGKSLHVAKCKELVE 115 ++ S P ++ LL+A+ L E ++ + +F++AR+GK L + +C +VE Sbjct: 74 PLQETEPSPEPEHAAAPPIDAVLLDAMALRETAKKATKAMFSEARMGKVLDMERCVSVVE 133 Query: 116 QIAASLAHNADALLSIIRLKRADEYTYLHSIAVCTMMVALARTLGLDDTACQQAGLAGFL 175 +IA S+ + + LS++RLK ADEYTYLHS+AVC +MVAL RTLGLD+TAC++AGL GFL Sbjct: 134 EIAGSVIKSPNGALSVLRLKLADEYTYLHSVAVCALMVALGRTLGLDETACREAGLGGFL 193 Query: 176 HDVGKAFIPLEVLNKPGLLTEQEYKIVQRHPVLGHAYLSGLVGVPDEVLDVCLHHHQKMD 235 HDVGKAFIP E+LNKPG L+++E+ +++HP LG+ YLS VPD DVCLHHH+K+D Sbjct: 194 HDVGKAFIPHELLNKPGKLSDEEFSQIKKHPELGYKYLSQDPNVPDYARDVCLHHHEKID 253 Query: 236 GSGYPARQQDQKISLFSRMAAVCDVYDAVTSHRVYKEAWDPAESLSRMASWQGHFDRTIF 295 G+GYP + I+L+SRMAA+CDVYDA+TS R YK AWDPAE++S MASW GHFDR +F Sbjct: 254 GNGYPEGLRAGAITLYSRMAAICDVYDALTSDRPYKRAWDPAEAISAMASWTGHFDRAMF 313 Query: 296 LAFVKMLGIYPLGSIVTLRSGRTALVIQQNRKDLTRPLVKAFTTSAAMEVMEHEIVDLAA 355 LAFVK LGIYP+GSIV L SGR+ VI+QN +DLTRP++K F +M V + EI+DL A Sbjct: 314 LAFVKTLGIYPVGSIVKLESGRSGFVIRQNAQDLTRPVLKVFHYDDSMTVTDTEILDLLA 373 Query: 356 AGQTDAIVERSGQDWLR 372 + D IV R G++W R Sbjct: 374 NPEADTIVARGGEEWAR 390 >gi|300313282|ref|YP_003777374.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 410 Score = 369 bits (946), Expect = e-103, Method: Compositional matrix adjust. Identities = 175/374 (46%), Positives = 255/374 (68%), Gaps = 2/374 (0%) Query: 1 MYFSGFDGAWIASPFWRASFLIRTEAEVRQAQQAGLGHCWIDVHKG--LAPSTELQAPDS 58 MYF GF+ +W+A PFW+ FL+ E++++QA+ +G+ +CWIDV +G +A + +A + Sbjct: 14 MYFCGFEASWLAHPFWKTRFLLSRESDLQQARASGIAYCWIDVSRGRDVAGAAPAKAEAA 73 Query: 59 TSDDSSMPPATQQDVLNPDLLEALRLYEMGQQTAQEVFNQARLGKSLHVAKCKELVEQIA 118 + S A + D A+ L E ++ +++FN AR+GK + + +C LVE+IA Sbjct: 74 AAPASPDQSAATHAGADADRASAVALREHAREVTRQMFNAARMGKMVELPQCVALVEEIA 133 Query: 119 ASLAHNADALLSIIRLKRADEYTYLHSIAVCTMMVALARTLGLDDTACQQAGLAGFLHDV 178 S+ + + LLS++RLK DEYTYLHS++VC +++ L RTLGL + AC++AGL+G+LHDV Sbjct: 134 CSVLRDPNGLLSVLRLKLNDEYTYLHSVSVCALVIGLGRTLGLSEAACREAGLSGYLHDV 193 Query: 179 GKAFIPLEVLNKPGLLTEQEYKIVQRHPVLGHAYLSGLVGVPDEVLDVCLHHHQKMDGSG 238 GKAFI E+LNKPG LT +E+ +++RHP LG+ YL +P DVC HHH+++DG G Sbjct: 194 GKAFIDDEILNKPGKLTAEEFALIKRHPELGYQYLIQTPDMPAYASDVCRHHHERLDGRG 253 Query: 239 YPARQQDQKISLFSRMAAVCDVYDAVTSHRVYKEAWDPAESLSRMASWQGHFDRTIFLAF 298 YP + I+L++RM AVCDVYDA+TS R YK WDPAE++S+MA W+GHFDR + LAF Sbjct: 254 YPDALPAESITLYARMTAVCDVYDALTSERPYKHGWDPAEAISQMARWEGHFDRRLLLAF 313 Query: 299 VKMLGIYPLGSIVTLRSGRTALVIQQNRKDLTRPLVKAFTTSAAMEVMEHEIVDLAAAGQ 358 VK LGIYP+GS+V L SG + +VI+QN DLTRP++K E ++DL A + Sbjct: 314 VKTLGIYPVGSLVRLESGVSGVVIRQNPADLTRPVLKVLHLQGPHETTIGGVLDLMAWPR 373 Query: 359 TDAIVERSGQDWLR 372 TD I+ R ++W R Sbjct: 374 TDTIIGRGDEEWTR 387 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 310 bits (795), Expect = 1e-85, Method: Compositional matrix adjust. Identities = 154/365 (42%), Positives = 224/365 (61%), Gaps = 13/365 (3%) Query: 1 MYFSGFDGAWIASPFWRASFLIRTEAEVRQAQQAGLGHCWIDVHKGLAPSTELQAPDSTS 60 MY F GAW P WR FL+ + ++ Q + + ID+ KG T+ +A Sbjct: 14 MYIQSFSGAWRRPPAWRKPFLLEKDKDLLALQASPIREIVIDIAKGADVQTD-EAEQGNG 72 Query: 61 DDSSM------------PPATQQDVLNPDLLEALRLYEMGQQTAQEVFNQARLGKSLHVA 108 +SS+ P A ++ + + A R+ ++T +F+QAR+GK++ V Sbjct: 73 VESSLGKNAEIEVAQALPEAGKRTDIQAERERAARIISSSEKTVLTMFSQARMGKTIDVK 132 Query: 109 KCKELVEQIAASLAHNADALLSIIRLKRADEYTYLHSIAVCTMMVALARTLGLDDTACQQ 168 + +LV +I AS++ NADA++S++RLK AD YTY+HS+AVC MM++LA LGL QQ Sbjct: 133 EASDLVREINASVSRNADAMISLVRLKTADNYTYMHSVAVCAMMISLADQLGLSAQERQQ 192 Query: 169 AGLAGFLHDVGKAFIPLEVLNKPGLLTEQEYKIVQRHPVLGHAYLSGLVGVPDEVLDVCL 228 AG+AG LHD+GK +P +LNKP LTE+E+ VQ HP+ GH L L G+ D LDV L Sbjct: 193 AGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQSHPLAGHRLLQELPGIGDAPLDVSL 252 Query: 229 HHHQKMDGSGYPARQQDQKISLFSRMAAVCDVYDAVTSHRVYKEAWDPAESLSRMASWQG 288 HHH+KMDG+GYP + + IS+ +RM A+CDVYDA+TS R YK WDP+ S+ MA +G Sbjct: 253 HHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDAITSDRPYKSGWDPSRSIQHMAQSKG 312 Query: 289 HFDRTIFLAFVKMLGIYPLGSIVTLRSGRTALVIQQNRKDLTRPLVKAFTTSAAMEVMEH 348 HFD + AFVK +GIYP+GS V +++G A+V++Q L PLV+ F ++ + Sbjct: 313 HFDFDVLQAFVKAVGIYPVGSCVLMQTGHLAMVLEQRPDSLLAPLVRIFYSTNKKIAVTP 372 Query: 349 EIVDL 353 ++DL Sbjct: 373 TLIDL 377 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 302 bits (773), Expect = 4e-83, Method: Compositional matrix adjust. Identities = 157/363 (43%), Positives = 219/363 (60%), Gaps = 10/363 (2%) Query: 1 MYFSGFDGAWIASPFWRASFLIRTEAEVRQAQQAGLGHCWIDVHKGLAPSTE-------- 52 MY G WI+ PF R SF + T +++ + + I+ KG + E Sbjct: 14 MYIHSIPGGWISHPFRRKSFKVETLEDLQTLRDCPIDAITINTAKGRDVTREELEEDDAD 73 Query: 53 -LQAPDSTSDDSSMPPATQQDVLNPDLLEALRLYEMGQQTAQEVFNQARLGKSLHVAKCK 111 +D ++ PA++ D + A R+ + T +F++AR+GK++ V Sbjct: 74 QDAPAAPPADAANRNPASRTDT-AIERERAQRIISSSKSTVLHMFSEARMGKAIDVKDAA 132 Query: 112 ELVEQIAASLAHNADALLSIIRLKRADEYTYLHSIAVCTMMVALARTLGLDDTACQQAGL 171 ELV +I AS++ NADAL+S+ RLK D+YTYLHS+AVC MM++LA LG+ +QAG+ Sbjct: 133 ELVTEITASVSRNADALISLARLKTTDDYTYLHSVAVCAMMISLANQLGMTPQQTKQAGM 192 Query: 172 AGFLHDVGKAFIPLEVLNKPGLLTEQEYKIVQRHPVLGHAYLSGLVGVPDEVLDVCLHHH 231 AG LHDVGK +PL++LNKP LTE+E+ V+ H V GH L + G+ + LDV LHHH Sbjct: 193 AGLLHDVGKMAVPLDILNKPAKLTEEEFASVRMHTVQGHGILQQIEGIGEVALDVSLHHH 252 Query: 232 QKMDGSGYPARQQDQKISLFSRMAAVCDVYDAVTSHRVYKEAWDPAESLSRMASWQGHFD 291 +K+DGSGYP + IS+ ++M AVCDVYDA+TS+R YK WDPA S+ MA+ GHFD Sbjct: 253 EKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGWDPARSIRHMAASAGHFD 312 Query: 292 RTIFLAFVKMLGIYPLGSIVTLRSGRTALVIQQNRKDLTRPLVKAFTTSAAMEVMEHEIV 351 AFVK +GIYP GS V L+SGR +V+ Q L P VK F ++A +E EI+ Sbjct: 313 PITMQAFVKAIGIYPTGSCVMLQSGRLGVVVDQRPDQLLTPRVKVFYSTANRMPLESEII 372 Query: 352 DLA 354 DLA Sbjct: 373 DLA 375 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 0.133 0.402 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: 1,305,786 Number of extensions: 52481 Number of successful extensions: 188 Number of sequences better than 1.0e-08: 9 Number of HSP's gapped: 182 Number of HSP's successfully gapped: 9 Length of query: 418 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 330 Effective length of database: 1,203,190 Effective search space: 397052700 Effective search space used: 397052700 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)