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= 0022.0053.p (485 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313654|ref|YP_003777746.1| transcription regulator protein... 942 0.0 gi|300310565|ref|YP_003774657.1| response regulator containing a... 68 2e-12 gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protei... 63 4e-11 gi|300313980|ref|YP_003778072.1| two component response regulato... 63 6e-11 gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protei... 56 6e-09 >gi|300313654|ref|YP_003777746.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 485 Score = 942 bits (2435), Expect = 0.0, Method: Compositional matrix adjust. Identities = 481/485 (99%), Positives = 481/485 (99%) Query: 1 MPDAIHPAAPVSSPTVPAQVAVRALALAGDLSMGQPPDQSVRAARLAVRLAQLQGADESA 60 MPDAIHPAAPVSSPTVPAQVAVRALALAGDLSMGQPPDQSVRAARLAVRLAQLQGADES Sbjct: 1 MPDAIHPAAPVSSPTVPAQVAVRALALAGDLSMGQPPDQSVRAARLAVRLAQLQGADEST 60 Query: 61 ARHAALVSLLRWSGCTANAAGFATLLGDDVGGREAMLRQGLPEGHPLNFANIAPLAHIHC 120 ARHAALVSLLRWSGCTANAAGFATLLGDDVGGREAMLRQGLPEGHPLNFANIAPLAHIHC Sbjct: 61 ARHAALVSLLRWSGCTANAAGFATLLGDDVGGREAMLRQGLPEGHPLNFANIAPLAHIHC 120 Query: 121 EVAGEVAALLGLPGPVETGLRHVWEHYDGSGAPRQLTHEAIPPVVYLTSLAGDLEILSRT 180 EVAGEVAALLGLPGPVE GLRHVWEHYDGSGAPRQLTHEAIPPVVYLTSLAGDLEILSRT Sbjct: 121 EVAGEVAALLGLPGPVEIGLRHVWEHYDGSGAPRQLTHEAIPPVVYLTSLAGDLEILSRT 180 Query: 181 HPVAAACQMILQLGGVKYPNAMAQLAVAHAPALLAALEQGGDIDADLPAHPVALSIVAEL 240 HPVAAACQMILQLGGVKYPNAMAQLAVAHAPALLAALEQGGDIDADLPAHPVALSIVAEL Sbjct: 181 HPVAAACQMILQLGGVKYPNAMAQLAVAHAPALLAALEQGGDIDADLPAHPVALSIVAEL 240 Query: 241 IELKLPWLTGYSRRVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGR 300 IELKLPWLTGYSRRVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGR Sbjct: 241 IELKLPWLTGYSRRVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGR 300 Query: 301 PSAADWERIRLAPYWTARAGALIPALRDEAELASRLYERLDGSGYFRNLDRDSLAMPARL 360 PSAADWERIRLAPYWTARAGALIPALRDEAELASRLYERLDGSGYFRNLDRDSLAMPARL Sbjct: 301 PSAADWERIRLAPYWTARAGALIPALRDEAELASRLYERLDGSGYFRNLDRDSLAMPARL 360 Query: 361 LAAAAALAALCAPRPWRSAMSEPDACQQLQADAQAGLFDPQAVQWVVAAAAGQGGAAPSL 420 LAAAAALAALCAPRPWR AMSEPDACQQLQADAQAGLFDPQAVQWVVAAAAGQGGA PSL Sbjct: 361 LAAAAALAALCAPRPWRGAMSEPDACQQLQADAQAGLFDPQAVQWVVAAAAGQGGAMPSL 420 Query: 421 PRRLLSEREAEVLRRISLGESNKEAARAMQISPSTVRTHVESIFRKLQCSTRAAATLKGL 480 PRRLLSEREAEVLRRISLGESNKEAARAMQISPSTVRTHVESIFRKLQCSTRAAATLKGL Sbjct: 421 PRRLLSEREAEVLRRISLGESNKEAARAMQISPSTVRTHVESIFRKLQCSTRAAATLKGL 480 Query: 481 SLGLI 485 SLGLI Sbjct: 481 SLGLI 485 >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 = 67.8 bits (164), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 52/161 (32%), Positives = 82/161 (50%), Gaps = 11/161 (6%) Query: 254 RVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGRPSAADWERIRLAP 313 R+A A AA GLD +Q + L AA +H IG+ + + I +PGR + + +R+ Sbjct: 177 RMANYARIIAARMGLDSQQQELLLNAAPMHDIGKMGIPDHILLKPGRLDEEELKVMRMH- 235 Query: 314 YWTARAGALI------PALRDEAELASRLYERLDGSGYFRNLDRDSLAMPARLLAAAAAL 367 AR GA I P L+ +++A +E+ DGSGY L + + + R++A A Sbjct: 236 ---ARIGADILVASPSPLLQTASQIALTHHEKWDGSGYPNGLKGEQIPLYGRIVAVADVF 292 Query: 368 AALCAPRPWRSAMSEPDACQQLQADAQAGLFDPQAVQWVVA 408 AL + RP++ S A Q L+ + A FDP+ V+ A Sbjct: 293 DALTSSRPYKPGWSLERASQYLREQSGAH-FDPRCVEAFFA 332 >gi|300314021|ref|YP_003778113.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 401 Score = 63.2 bits (152), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 42/163 (25%), Positives = 82/163 (50%), Gaps = 9/163 (5%) Query: 251 YSRRVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGRPSAADWERIR 310 +S V + + A G+ P+Q ++ A LLH +G+ +V I +P + + ++ +R Sbjct: 165 HSVAVCAMMISLANQLGMTPQQTKQAGMAGLLHDVGKMAVPLDILNKPAKLTEEEFASVR 224 Query: 311 LAPYWTARAGALIPALRDEAELASRL----YERLDGSGYFRNLDRDSLAMPARLLAAAAA 366 + T + ++ + E+A + +E++DGSGY NL DS+++ A++ A Sbjct: 225 M---HTVQGHGILQQIEGIGEVALDVSLHHHEKIDGSGYPFNLKADSISIMAKMGAVCDV 281 Query: 367 LAALCAPRPWRSAMSEPDACQQLQADAQAGLFDPQAVQWVVAA 409 A+ + RP+++ + + + A AG FDP +Q V A Sbjct: 282 YDAITSNRPYKAGWDPARSIRHMA--ASAGHFDPITMQAFVKA 322 >gi|300313980|ref|YP_003778072.1| two component response regulator protein [Herbaspirillum seropedicae SmR1] Length = 199 Score = 62.8 bits (151), Expect = 6e-11, Method: Compositional matrix adjust. Identities = 39/144 (27%), Positives = 70/144 (48%) Query: 247 WLTGYSRRVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGRPSAADW 306 + + + AELAV L E+ L A+ +H IG+A + + +PGR S ++ Sbjct: 27 YTPNHEDQTAELAVMIGRHLDLATERIDALHMASQVHDIGKARIPLALLTKPGRISVEEY 86 Query: 307 ERIRLAPYWTARAGALIPALRDEAELASRLYERLDGSGYFRNLDRDSLAMPARLLAAAAA 366 + ++ + I + AE+ +E LDGSGY R + D + + AR+L A Sbjct: 87 DVLKTHVQFGYEILNKISFPFNLAEIVHCHHEYLDGSGYPRGISGDEIPLEARILTVADI 146 Query: 367 LAALCAPRPWRSAMSEPDACQQLQ 390 + ++ A RP+R ++ A ++Q Sbjct: 147 VESMSADRPYRKSLGMSAALDEIQ 170 >gi|300311984|ref|YP_003776076.1| HD-GYP domain-containing protein [Herbaspirillum seropedicae SmR1] Length = 406 Score = 56.2 bits (134), Expect = 6e-09, Method: Compositional matrix adjust. Identities = 43/161 (26%), Positives = 79/161 (49%), Gaps = 5/161 (3%) Query: 251 YSRRVAELAVRAAALAGLDPEQGQRLERAALLHGIGRASVSNTIWERPGRPSAADWERIR 310 +S V + + A GL ++ Q+ A LLH IG+ +V +I +P + + ++ ++ Sbjct: 168 HSVAVCAMMISLADQLGLSAQERQQAGMAGLLHDIGKMTVPPSILNKPSKLTEEEFVSVQ 227 Query: 311 LAPYWTARAGALIPALRDE-AELASRLYERLDGSGYFRNLDRDSLAMPARLLAAAAALAA 369 P R +P + D +++ +E++DG+GY L ++M AR+ A A Sbjct: 228 SHPLAGHRLLQELPGIGDAPLDVSLHHHEKMDGTGYPYKLSGRDISMTARMGAICDVYDA 287 Query: 370 LCAPRPWRSAMSEPDACQQLQADAQA-GLFDPQAVQWVVAA 409 + + RP++S D + +Q AQ+ G FD +Q V A Sbjct: 288 ITSDRPYKSGW---DPSRSIQHMAQSKGHFDFDVLQAFVKA 325 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 0.132 0.392 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: 1,297,311 Number of extensions: 50869 Number of successful extensions: 246 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 246 Number of HSP's successfully gapped: 7 Length of query: 485 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 396 Effective length of database: 1,198,455 Effective search space: 474588180 Effective search space used: 474588180 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)