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= 0037.0100.p (345 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310565|ref|YP_003774657.1| response regulator containing a... 597 e-172 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 117 1e-27 gi|300313980|ref|YP_003778072.1| two component response regulato... 115 7e-27 gi|300313028|ref|YP_003777120.1| two component response regulato... 108 6e-25 gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protei... 107 1e-24 >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 = 597 bits (1539), Expect = e-172, Method: Compositional matrix adjust. Identities = 282/345 (81%), Positives = 315/345 (91%) Query: 1 MKILIVDDDKTNLSLFTHMLAQLPDTSISTCPDAYEALDWCGSHDPDLILLDYMMPGMDG 60 M ILIVDDDKTNLSLF+HML Q+P T I TC DA +ALDWC H PDLILLDYMMPGMDG Sbjct: 4 MNILIVDDDKTNLSLFSHMLGQVPQTRIDTCADARQALDWCQEHAPDLILLDYMMPGMDG 63 Query: 61 LDFLSRFRAMPGQEMTPVIMITADMGLQVRHKALQMSANDFLSKPVNRVELLARVKNMLA 120 LDFLSRFRAMPGQEMTPVIMITADMGLQVRH ALQMSANDFLSKPVNRVELLARVKNMLA Sbjct: 64 LDFLSRFRAMPGQEMTPVIMITADMGLQVRHTALQMSANDFLSKPVNRVELLARVKNMLA 123 Query: 121 MRKSQLAMSRKIEDLSEEVEQKAQQSTSLALNSVDLLSRAAGYRDPETGEHLVRMSNYTR 180 MR+SQLAMS+KI+ LSE+V+Q+ + S +LAL+SVDLL+RAAGYRDPETGEHL RM+NY R Sbjct: 124 MRRSQLAMSQKIDTLSEQVDQQVRHSDTLALDSVDLLARAAGYRDPETGEHLTRMANYAR 183 Query: 181 IIAAHLGLPKEEQDLLLAASPMHDIGKMGIPDHILLKPGRLDEEELKVMRLHAQIGADIL 240 IIAA +GL ++Q+LLL A+PMHDIGKMGIPDHILLKPGRLDEEELKVMR+HA+IGADIL Sbjct: 184 IIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMHARIGADIL 243 Query: 241 RGSPSSLLQTASRIAETHHEKWDGSGYPNGIKGDDIPLYGRIVAVADVFDALTSSRPYKK 300 SPS LLQTAS+IA THHEKWDGSGYPNG+KG+ IPLYGRIVAVADVFDALTSSRPYK Sbjct: 244 VASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVFDALTSSRPYKP 303 Query: 301 GWSLEDAARYLRDNAGSHFDPRCVEAFFAGWEEVVDIYNRNQDGK 345 GWSLE A++YLR+ +G+HFDPRCVEAFFAGWEEV++I+NR Q+GK Sbjct: 304 GWSLERASQYLREQSGAHFDPRCVEAFFAGWEEVLEIFNRYQEGK 348 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust. Identities = 74/206 (35%), Positives = 113/206 (54%), Gaps = 4/206 (1%) Query: 124 SQLAMSRKIEDLSEEVEQKAQQSTSLALNSVDLLSRAA-GYRDPETGEHLVRMSNYTRII 182 S+ M + I D+ + E + + S++ N+ L+S A D T H V + + Sbjct: 118 SEARMGKAI-DVKDAAELVTEITASVSRNADALISLARLKTTDDYTYLHSVAVCAMMISL 176 Query: 183 AAHLGLPKEEQDLLLAASPMHDIGKMGIPDHILLKPGRLDEEELKVMRLHAQIGADILRG 242 A LG+ ++ A +HD+GKM +P IL KP +L EEE +R+H G IL+ Sbjct: 177 ANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVRMHTVQGHGILQ- 235 Query: 243 SPSSLLQTASRIAETHHEKWDGSGYPNGIKGDDIPLYGRIVAVADVFDALTSSRPYKKGW 302 + + A ++ HHEK DGSGYP +K D I + ++ AV DV+DA+TS+RPYK GW Sbjct: 236 QIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDVYDAITSNRPYKAGW 295 Query: 303 SLEDAARYLRDNAGSHFDPRCVEAFF 328 + R++ +AG HFDP ++AF Sbjct: 296 DPARSIRHMAASAG-HFDPITMQAFV 320 >gi|300313980|ref|YP_003778072.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 199 Score = 115 bits (287), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 66/184 (35%), Positives = 95/184 (51%), Gaps = 2/184 (1%) Query: 145 QSTSLALNSVDLLSRAAGYRDPETGEHLVRMSNYTRIIAAHLGLPKEEQDLLLAASPMHD 204 +S + +D + D T H + + +I HL L E D L AS +HD Sbjct: 5 ESNKIYQEVIDAMIAVHRLTDGYTPNHEDQTAELAVMIGRHLDLATERIDALHMASQVHD 64 Query: 205 IGKMGIPDHILLKPGRLDEEELKVMRLHAQIGADILRGSPSSLLQTASRIAETHHEKWDG 264 IGK IP +L KPGR+ EE V++ H Q G +IL + S + I HHE DG Sbjct: 65 IGKARIPLALLTKPGRISVEEYDVLKTHVQFGYEIL--NKISFPFNLAEIVHCHHEYLDG 122 Query: 265 SGYPNGIKGDDIPLYGRIVAVADVFDALTSSRPYKKGWSLEDAARYLRDNAGSHFDPRCV 324 SGYP GI GD+IPL RI+ VAD+ +++++ RPY+K + A ++ +G D V Sbjct: 123 SGYPRGISGDEIPLEARILTVADIVESMSADRPYRKSLGMSAALDEIQRQSGVRLDAVVV 182 Query: 325 EAFF 328 +A Sbjct: 183 DACL 186 >gi|300313028|ref|YP_003777120.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 448 Score = 108 bits (270), Expect = 6e-25, Method: Compositional matrix adjust. Identities = 90/318 (28%), Positives = 146/318 (45%), Gaps = 36/318 (11%) Query: 47 DLILLDYMMPGMDGLDFLSRFRAMPGQEMTPVIMITADMGLQVRHKALQMSA-NDFLSKP 105 DL++ D MPGM+G FL++ R M ++ +++G + A+ N +LSKP Sbjct: 68 DLVISDMRMPGMNGAQFLAKVRQQWPSTMRILLTGYSEIGSTI--SAINDGGINHYLSKP 125 Query: 106 VNRVELLARVKNML---AMRKSQLAMSRKIE-------DLSEEVEQKAQQSTSLALNSVD 155 + ELL V + L +RK ++A+ RK+ D + ++E++ Q T +V Sbjct: 126 WDDRELLLIVAHALEEQQLRKQKMALERKVREQNLQLADFNRQLERQVQSRTEELRQTVM 185 Query: 156 LLSRAAGYRDPE-------------------TGEHLVRMSNYTRIIAAHLGLPKEEQDLL 196 L A TG+ R++ + +A +G+ Sbjct: 186 FLESAQEEEQKSFLSMLRVFSDISELRAGLATGQS-ARVARWCEQLALRMGMTTHHARDT 244 Query: 197 LAASPMHDIGKMGIPDHILLKP-GRLDEEELKVMRLHAQIGADILRGSPSSLLQTASRIA 255 + A +H IGK+ +PD ++ KP +++ +E++ H G +L PS L + I Sbjct: 245 MMAGMLHGIGKLELPDELVRKPIEKMNSDEVQRFLWHPVRGQMLLTPIPS--LAESGEII 302 Query: 256 ETHHEKWDGSGYPNGIKGDDIPLYGRIVAVADVFDALTSSRPYKKGWSLEDAARYLRDNA 315 HE++DG G P + GD IPL RI+AV F+ L + S E A LR +A Sbjct: 303 RHQHERYDGRGVPESLSGDAIPLGARILAVVRDFEGLCNGGITSLNASPEKALSMLRAHA 362 Query: 316 GSHFDPRCVEAFFAGWEE 333 G +DP VE+F A EE Sbjct: 363 GHRYDPLVVESFIAMMEE 380 >gi|300310279|ref|YP_003774371.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 408 Score = 107 bits (268), Expect = 1e-24, Method: Compositional matrix adjust. Identities = 75/208 (36%), Positives = 109/208 (52%), Gaps = 6/208 (2%) Query: 121 MRKSQLAMSRKIEDLSEEVEQKAQQSTSLALNSVDLLSRAAGYR-DPETGEHLVRMSNYT 179 ++++L + +E+ VE+ A TS+A +S LLS R D T H + + Sbjct: 108 FKQARLGKTLDVENCKSLVEEIA---TSVARDSNALLSIIRLKRVDEYTYLHSIAVCTLM 164 Query: 180 RIIAAHLGLPKEEQDLLLAASPMHDIGKMGIPDHILLKPGRLDEEELKVMRLHAQIGADI 239 +A LG+ A +HD+GK IP IL KP RL E+E K+++ H +G D Sbjct: 165 VALARTLGMDDIACKEAGLAGYLHDVGKAFIPLEILNKPDRLSEQEYKIIQRHPALGYDY 224 Query: 240 LRGSPSSLLQTASRIAETHHEKWDGSGYPNGIKGDDIPLYGRIVAVADVFDALTSSRPYK 299 L+G S + + HHEK DGSGYP+ +G+ I +Y R+ AV DV+DA+TS RPYK Sbjct: 225 LKGF-SGVPDYVLDVCLHHHEKIDGSGYPSRHQGNQISVYSRMAAVCDVYDAVTSERPYK 283 Query: 300 KGWSLEDAARYLRDNAGSHFDPRCVEAF 327 GW ++ + G HFD AF Sbjct: 284 SGWDPAESLSRMASWQG-HFDRPIFLAF 310 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 0.396 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: 1,076,264 Number of extensions: 44792 Number of successful extensions: 323 Number of sequences better than 1.0e-08: 40 Number of HSP's gapped: 323 Number of HSP's successfully gapped: 40 Length of query: 345 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 259 Effective length of database: 1,212,660 Effective search space: 314078940 Effective search space used: 314078940 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 (21.7 bits) S2: 131 (55.1 bits)