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= 0335.0018.p (534 letters) Database: COG 115,334 sequences; 38,378,431 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value CAC0120 [NT] COG0840 Methyl-accepting chemotaxis protein 116 1e-25 PA0411 [NT] COG0840 Methyl-accepting chemotaxis protein 72 2e-12 RSc1234 [NT] COG0840 Methyl-accepting chemotaxis protein 69 3e-11 RSc0671 [NT] COG0840 Methyl-accepting chemotaxis protein 64 9e-10 PA1608 [NT] COG0840 Methyl-accepting chemotaxis protein 63 1e-09 >CAC0120 [NT] COG0840 Methyl-accepting chemotaxis protein Length = 555 Score = 116 bits (290), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 106/469 (22%), Positives = 195/469 (41%), Gaps = 19/469 (4%) Query: 1 MKWFGNLKTATKIISAFLIVSLILAGLGVFSISTLRNANGNMKAMYGNNLISVRDLSAAQ 60 M+W+ ++K ++KI+ F+++ I A GVF I L N + Y L+ +L + Sbjct: 1 MRWYDDMKISSKILVGFVVIIFISAVSGVFGILNLNKVNNSNTETYEKMLVPTGELVSIS 60 Query: 61 INYQTMRVYLRDMSTTTVSGEVSGYKEKIETTRQEINKLVDRYRPLATTLKEQELLRGFD 120 ++ TMR +RD+ T ++ + + +K+++ + T + +L Sbjct: 61 NDFGTMRARVRDVVIETQMDKMDKFSSDFNAASSDFDKVLESFSQTILTADGKTILSEIK 120 Query: 121 TEYGEYQKLFDQALILAEQDDPTEFNAFLRSQLTPQGEKVVVNLKGLIDVNVDLAXXXXA 180 EY + QA+ L++Q+ E A +R+QLT +K+ ++K + D+ +LA Sbjct: 121 DAKKEYVQYAQQAMELSKQNKNVEAMAIVRNQLTVAHDKLATSIKNVTDMKKELAK---- 176 Query: 181 DEATSHSQSTYSSALILTXXXXXXXXXXXXXXXYIIARSISKPLMRMLGLATEVASGNLT 240 E+T + +T +++I T + +RSI P+ ++ ++ ++A G L Sbjct: 177 -ESTDQNSATAKTSIIETIILVILGAGLGVAMAVLTSRSIGNPMKKITEVSEKIADGELD 235 Query: 241 QRADISTKDEVGQLASALNRMVDNLKDLINGIVMNXXXXXXXXXXXXXXXXXXXXXXXXX 300 KDE+G L + N+MV NL +++ + Sbjct: 236 VELKTDRKDEIGVLMNTFNKMVSNLNLVMSSMNTAADQVAIGSKQVSDSSIMLSQGSSDQ 295 Query: 301 XXXXXNITELFKEXXXXXXXXXXXXXXXXXXXXXTVRTAREGGNVVETSLQGMQAVNYQM 360 +T +E A +G N ++ L M +N Sbjct: 296 ASAVEELTSSMEEIASQTKVNANNATEASELGNEVKSNAEKGNNQMKQMLNSMDDINAA- 354 Query: 361 TQLEEDSSKIGDIIEVIDDIAEQTXXXXXXXXXXXXXXXXXXXXXXVVADEVRKLAERSS 420 S I II+VIDDIA QT VVA+EVR LA +S+ Sbjct: 355 ------SKNISKIIKVIDDIAFQTNILSLNAAVEAARAGQYGKGFAVVAEEVRNLAAKSA 408 Query: 421 DATKEITKIIKAMQENTKQSVRAVAESVEQSSMTSQAFEQIISMVNSSS 469 +A +E T++I + S+R V E + T+ A ++I+ ++ S+ Sbjct: 409 NAARETTEMI-------ENSIRKVETGTEFAKETAAALDEIVQGISKSA 450 >PA0411 [NT] COG0840 Methyl-accepting chemotaxis protein Length = 682 Score = 72.0 bits (175), Expect = 2e-12, Method: Compositional matrix adjust. Identities = 58/225 (25%), Positives = 95/225 (42%), Gaps = 8/225 (3%) Query: 224 LMRMLGLATEVASGNLTQRADISTKDEVGQLASALNRMVDNLKDLINGIVMNXXXXXXXX 283 ++R+L ++A G+LT A + T+D G +A ++N +D L++L+ I Sbjct: 353 ILRLLDEIADLADGDLTVAATV-TEDFTGAIADSINYSIDQLRELVETINQTAVQVAAAA 411 Query: 284 XXXXXXXXXXXXXXXXXXXXXXNITELFKEXXXXXXXXXXXXXXXXXXXXXTVRTAREGG 343 + E +V A +G Sbjct: 412 QETQSTAMHLAEASEHQAQEIAGASAAINEMAVSIDQVSANASESSAVAERSVAIANKGN 471 Query: 344 NVVETSLQGMQAVNYQM-------TQLEEDSSKIGDIIEVIDDIAEQTXXXXXXXXXXXX 396 VV ++ GM + Q+ +L E S +IGDI+ +I+DIA+QT Sbjct: 472 EVVHNTITGMDNIREQIQDTSKRIKRLGESSQEIGDIVSLINDIADQTNILALNAAIQAS 531 Query: 397 XXXXXXXXXXVVADEVRKLAERSSDATKEITKIIKAMQENTKQSV 441 VVADEV++LAERSS ATK+I ++K +Q +T ++V Sbjct: 532 MAGDAGRGFAVVADEVQRLAERSSAATKQIEALVKTIQTDTNEAV 576 >RSc1234 [NT] COG0840 Methyl-accepting chemotaxis protein Length = 514 Score = 68.6 bits (166), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 66/259 (25%), Positives = 102/259 (39%), Gaps = 10/259 (3%) Query: 214 YIIARSISKPLMRMLGLATEVASGNLTQRADISTKDEVGQLASALNRMVDNLKDLINGIV 273 ++ +RSI++PL R + +A VA G+L + DE+ QL AL M +L +++ + Sbjct: 202 FLFSRSITRPLSRAVEVARTVAQGDLGSAFEARGSDEIAQLLIALREMQGSLAKVVSEVR 261 Query: 274 MNXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXNITELFKEXXXXXXXXXXXXXXXXXXXX 333 N E Sbjct: 262 RNAEGVASASAQIASGNLNLSSRTEEQAASLEETAANMGELTSTVRLNSENAVQASTLAG 321 Query: 334 XTVRTAREGGNVVETSLQGMQAVNYQMTQLEEDSSKIGDIIEVIDDIAEQTXXXXXXXXX 393 TA GG V+ ++ MQ ++ E S+K+G+II VID IA QT Sbjct: 322 HASDTAARGGKVMTDVVETMQGIS-------ESSAKVGEIIGVIDSIAFQTNILALNAAV 374 Query: 394 XXXXXXXXXXXXXVVADEVRKLAERSSDATKEITKIIKAMQENTKQSVRAVAES---VEQ 450 VVA EVR LA+RS+ A KEI +I E + R V E+ +++ Sbjct: 375 EAARAGEQGRGFAVVAGEVRTLAQRSASAAKEIKGLIGQSAERVEAGARLVQEAGGIIDE 434 Query: 451 SSMTSQAFEQIISMVNSSS 469 + Q QI+S ++S+S Sbjct: 435 IVASVQRVTQIVSEISSAS 453 >RSc0671 [NT] COG0840 Methyl-accepting chemotaxis protein Length = 743 Score = 63.5 bits (153), Expect = 9e-10, Method: Compositional matrix adjust. Identities = 53/231 (22%), Positives = 100/231 (43%), Gaps = 8/231 (3%) Query: 224 LMRMLGLATEVASGNLTQRADISTKDEVGQLASALNRMVDNLKDLINGIVMNXXXXXXXX 283 ++R++ ++A G+LT++A +S +D G +A ++N V+ L++L+ + Sbjct: 420 ILRLMNELQDIADGDLTKQATVS-EDITGAIADSVNYTVEELRELVGRVQQTAEQVTQAS 478 Query: 284 XXXXXXXXXXXXXXXXXXXXXXNITELFKEXXXXXXXXXXXXXXXXXXXXXTVRTAREGG 343 + E ++ A +G Sbjct: 479 SAVQTTSDKLVLASEEQSRQIRQTGQSVVEMADRITQVSRGAAESANVARASLAAAEQGQ 538 Query: 344 NVVETSLQGM-------QAVNYQMTQLEEDSSKIGDIIEVIDDIAEQTXXXXXXXXXXXX 396 V+ ++ GM Q + ++ +L E S +IG+I+E+I DI EQT Sbjct: 539 VAVQNAITGMNDIRDQIQDTSKRIKRLGESSQEIGEIVELISDITEQTNVLALNAAIQAA 598 Query: 397 XXXXXXXXXXVVADEVRKLAERSSDATKEITKIIKAMQENTKQSVRAVAES 447 VVA+EV++LAERS++A K+I +I+ +Q +T+ +V A+ S Sbjct: 599 SAGEAGRGFSVVAEEVQRLAERSAEAAKQIGALIRTIQTDTQDAVHAMERS 649 >PA1608 [NT] COG0840 Methyl-accepting chemotaxis protein Length = 541 Score = 62.8 bits (151), Expect = 1e-09, Method: Compositional matrix adjust. Identities = 73/274 (26%), Positives = 118/274 (43%), Gaps = 19/274 (6%) Query: 6 NLKTATKIISAFLIVSLILAGLGVFSISTLRNANGNMKAMYGNNLISVRDLSAAQINYQT 65 ++ AT+ +F +++ +L G+FS++ + + N + N L SVR+ +A++N Sbjct: 5 SMPIATRAALSFALITALLVITGIFSLNRMGSLNEASSDISDNWLPSVRE--SAELN--V 60 Query: 66 MRVYLRDMSTTTVSGEVSGYKEKIETTRQEINK-LVDR---YRPLATTLKEQELLRGFDT 121 + LR + V K +E+ EI K L DR Y+ L + E+ + ++ Sbjct: 61 LLAELRQVQLAHVLAADDSSKRFLESRMTEIGKELTDREGAYQRLISGADERSI---YER 117 Query: 122 EYGEYQKLFD--QALILAEQDDP-TEFNAFLRSQLTPQGEKVVVNLKGLIDVNVDLAXXX 178 Q L Q L+ + P E + S L Q L+ LID NV Sbjct: 118 YLATRQTLLQSQQTLVQMSRSKPLEETRQYTESTLLDQYRATQQQLQALIDFNVK----- 172 Query: 179 XADEATSHSQSTYSSALILTXXXXXXXXXXXXXXXYIIARSISKPLMRMLGLATEVASGN 238 A +A+ + Y SA ++ RSI++PL L +A +ASG+ Sbjct: 173 GASQASHTADEVYHSAFAAVIGVLLVAGLATVVLAWLFTRSITQPLGEALRVAEVIASGD 232 Query: 239 LTQRADISTKDEVGQLASALNRMVDNLKDLINGI 272 LT R D S +DE +L AL M L+ I I Sbjct: 233 LTSRIDTSGRDEPAKLLVALQGMQAQLRQTIQQI 266 Database: COG Posted date: Aug 3, 2010 9:58 AM Number of letters in database: 38,378,431 Number of sequences in database: 115,334 Lambda K H 0.313 0.128 0.332 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 115334 Number of Hits to DB: 22,051,307 Number of extensions: 706994 Number of successful extensions: 3841 Number of sequences better than 1.0e-05: 736 Number of HSP's gapped: 3185 Number of HSP's successfully gapped: 739 Length of query: 534 Length of database: 38,378,431 Length adjustment: 111 Effective length of query: 423 Effective length of database: 25,576,357 Effective search space: 10818799011 Effective search space used: 10818799011 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 42 (22.0 bits) S2: 118 (50.1 bits)