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= 0003.0004.p (499 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310169|ref|YP_003774261.1| methyl-accepting chemotaxis tra... 157 2e-39 gi|300313938|ref|YP_003778030.1| methyl-accepting chemotaxis tra... 144 2e-35 gi|300312038|ref|YP_003776130.1| methyl-accepting chemotaxis tra... 140 2e-34 gi|300313024|ref|YP_003777116.1| methyl-accepting chemotaxis pro... 137 1e-33 gi|300310055|ref|YP_003774147.1| methyl-accepting chemotaxis tra... 137 2e-33 >gi|300310169|ref|YP_003774261.1| methyl-accepting chemotaxis transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 657 Score = 157 bits (396), Expect = 2e-39, Method: Compositional matrix adjust. Identities = 95/226 (42%), Positives = 134/226 (59%), Gaps = 5/226 (2%) Query: 96 GTLLDHAHAGYRDLLAGRSYTGFAQLFGRQYMTRYDPVRDAXAAVAALLLRYGAMALALL 155 G+L A G + +LA Y G+ + + D + +++ L + G + LA+L Sbjct: 289 GSLPYTAADGRKKILAFTYYPGWHWVIAGE--AAVDEITREVSSMRNLYIGLGLLFLAVL 346 Query: 156 ALGMGGLYLLAQRMVTRPLLDATAAAQRLAKGDLTTMIHVGRRDEIGQLTQAINGVAQGL 215 A L ++ RMV+RPL AA R+A GDLTT +HV DEIG+L A NG++ GL Sbjct: 347 A---AILTVMVNRMVSRPLDAVCQAADRIASGDLTTRLHVHSSDEIGRLMGAFNGISMGL 403 Query: 216 ATIVGAVRASAERINVAAHEIAAGNSDLSSRAEAQAGALEQVRATMDNFSAGIRNNAGHT 275 + +V +VRA E IN AA EIA+GN +LS R E QAGALE+ + M+ ++ ++ NA + Sbjct: 404 SEVVSSVRAGTEEINTAASEIASGNLNLSVRTEQQAGALEETASAMEELTSTVKQNAANA 463 Query: 276 QQAGSLVDNASAHAGEGGKVVGSVVATMGAIRASSHKVADIIGVID 321 +QA L AS A GG+VVG VV TM AI +SS ++ DII VID Sbjct: 464 EQADELSSAASEVASHGGEVVGQVVQTMDAINSSSQRIVDIISVID 509 Score = 142 bits (358), Expect = 6e-35, Method: Compositional matrix adjust. Identities = 68/135 (50%), Positives = 92/135 (68%), Gaps = 1/135 (0%) Query: 10 QIDKLARKLAGSFPGMFSIDERELLAVGTEATPVLRNGAEVLNLNFGAIDSFSAATGGSA 69 Q+D+ + F G S+DE + +G ATPVL+N LNL+F D F+A TG +A Sbjct: 78 QVDRFSTMFDSEF-GKLSLDETRTVQIGERATPVLQNDGHELNLDFSIPDRFTAKTGVTA 136 Query: 70 TIFVQRGKDFVRVSTSVKKENGERAIGTLLDHAHAGYRDLLAGRSYTGFAQLFGRQYMTR 129 TIF + G+DFVR+STSVKKENGERAIGTLLD +H GY L + ++Y+G A LFG+QY+T+ Sbjct: 137 TIFAKTGEDFVRISTSVKKENGERAIGTLLDRSHPGYAALKSDKAYSGLATLFGKQYITK 196 Query: 130 YDPVRDAXAAVAALL 144 Y PV++ + A L Sbjct: 197 YVPVKNNAGQIIAAL 211 >gi|300313938|ref|YP_003778030.1| methyl-accepting chemotaxis transducer transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 533 Score = 144 bits (362), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 86/180 (47%), Positives = 112/180 (62%), Gaps = 4/180 (2%) Query: 142 ALLLRYGAMALALLALGMGGLYLLAQRMVTRPLLDATAAAQRLAKGDLTTMIHVGRRDEI 201 ++LL GA+ + L A L L R +TRPL A A+ +A GDLT+ I RDE Sbjct: 188 SMLLALGAIEIVLGA----ALAWLLTRSITRPLNQAVTIAETVAAGDLTSRIDSSSRDET 243 Query: 202 GQLTQAINGVAQGLATIVGAVRASAERINVAAHEIAAGNSDLSSRAEAQAGALEQVRATM 261 G+L A+ + L IVG VR E IN A+ EIA GN DLS+R EAQAG+LE+ + M Sbjct: 244 GKLLAALKTMNGNLLDIVGRVRMGTETINTASREIATGNLDLSARTEAQAGSLEETASAM 303 Query: 262 DNFSAGIRNNAGHTQQAGSLVDNASAHAGEGGKVVGSVVATMGAIRASSHKVADIIGVID 321 + ++ ++ NA + +QA L +AS A +GG VV VVATMGAI ASS K+ADIIGVID Sbjct: 304 EQLTSTVKQNADNARQANELAASASQVATQGGAVVDQVVATMGAIHASSQKIADIIGVID 363 >gi|300312038|ref|YP_003776130.1| methyl-accepting chemotaxis transmembrane I protein [Herbaspirillum seropedicae SmR1] Length = 579 Score = 140 bits (353), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 76/160 (47%), Positives = 102/160 (63%) Query: 162 LYLLAQRMVTRPLLDATAAAQRLAKGDLTTMIHVGRRDEIGQLTQAINGVAQGLATIVGA 221 L + R++ RPL +A + AQR+A GDLTT I +DE GQL A+ + L IVG Sbjct: 207 LAVWVSRLIARPLEEAVSVAQRVAGGDLTTRIEPAGKDETGQLLVALKSMNDSLVGIVGQ 266 Query: 222 VRASAERINVAAHEIAAGNSDLSSRAEAQAGALEQVRATMDNFSAGIRNNAGHTQQAGSL 281 VR + I A+ EIA+GN DLSSR E QA +LE+ + M+ ++ ++ NA + +QA L Sbjct: 267 VRMGTQTITTASTEIASGNLDLSSRTEEQASSLEETASAMEELTSTVKQNADNARQANQL 326 Query: 282 VDNASAHAGEGGKVVGSVVATMGAIRASSHKVADIIGVID 321 +AS A +GG VV VV TMG+I ASS K+ADIIGVID Sbjct: 327 AVSASEVASQGGAVVNQVVDTMGSINASSRKIADIIGVID 366 >gi|300313024|ref|YP_003777116.1| methyl-accepting chemotaxis protein [Herbaspirillum seropedicae SmR1] Length = 571 Score = 137 bits (346), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 84/182 (46%), Positives = 108/182 (59%), Gaps = 8/182 (4%) Query: 147 YGAMALALLAL-------GMGGLYLLAQRMVTRPLLDATAAAQRLAKGDLTTMIHVGRRD 199 YG +A+LAL M + +A R+V RPL +A A+++A GDLT I RD Sbjct: 186 YGQANMAILALVTTCVVLAMALSWWIA-RLVARPLANAVDIARQVAAGDLTADIPTAHRD 244 Query: 200 EIGQLTQAINGVAQGLATIVGAVRASAERINVAAHEIAAGNSDLSSRAEAQAGALEQVRA 259 E GQL +A+ + L IV VR + I A+ EIA GN DLSSR E QAGALE+ + Sbjct: 245 ETGQLLEALRQMNGNLLNIVREVRQGTDTITTASAEIATGNMDLSSRTEQQAGALEETAS 304 Query: 260 TMDNFSAGIRNNAGHTQQAGSLVDNASAHAGEGGKVVGSVVATMGAIRASSHKVADIIGV 319 M+ ++ +R N+ + +QA L NAS A GG VVG VVATM AI SS K+ DIIGV Sbjct: 305 AMEELTSTVRQNSDNARQANQLAVNASEVAQAGGTVVGKVVATMSAINDSSRKIVDIIGV 364 Query: 320 ID 321 ID Sbjct: 365 ID 366 >gi|300310055|ref|YP_003774147.1| methyl-accepting chemotaxis transducer transmembrane protein I [Herbaspirillum seropedicae SmR1] Length = 547 Score = 137 bits (345), Expect = 2e-33, Method: Compositional matrix adjust. Identities = 74/162 (45%), Positives = 100/162 (61%) Query: 160 GGLYLLAQRMVTRPLLDATAAAQRLAKGDLTTMIHVGRRDEIGQLTQAINGVAQGLATIV 219 G + L R ++RPL A + AQ + GDL + I V +DE+GQL A+ G+ L IV Sbjct: 206 GMVAWLLTRSISRPLAQAVSVAQSVQSGDLGSRIEVTSKDELGQLMSALKGMNDSLVNIV 265 Query: 220 GAVRASAERINVAAHEIAAGNSDLSSRAEAQAGALEQVRATMDNFSAGIRNNAGHTQQAG 279 G VR + I VA+ EI GN DLS+R E QAG+L++ + M+ +A ++ NA + ++A Sbjct: 266 GEVRQGTDTIAVASDEIKQGNMDLSNRTEQQAGSLQETASAMEQLTATVKQNADNAREAN 325 Query: 280 SLVDNASAHAGEGGKVVGSVVATMGAIRASSHKVADIIGVID 321 L DNAS A GG VG VV TM +I ASSHK+ DII VID Sbjct: 326 RLADNASQVAARGGAAVGRVVDTMNSISASSHKIVDIISVID 367 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 0.321 0.134 0.390 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: 1,460,269 Number of extensions: 59917 Number of successful extensions: 508 Number of sequences better than 1.0e-08: 63 Number of HSP's gapped: 489 Number of HSP's successfully gapped: 64 Length of query: 499 Length of database: 1,619,870 Length adjustment: 89 Effective length of query: 410 Effective length of database: 1,198,455 Effective search space: 491366550 Effective search space used: 491366550 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 (21.9 bits) S2: 132 (55.5 bits)