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= 0001.0041.p (276 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310375|ref|YP_003774467.1| LysR family transcription regul... 528 e-151 gi|300313164|ref|YP_003777256.1| LysR family transcription regul... 130 2e-31 gi|300310701|ref|YP_003774793.1| LysR family transcription regul... 124 6e-30 gi|300309487|ref|YP_003773579.1| LysR family transcription regul... 91 8e-20 >gi|300310375|ref|YP_003774467.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 528 bits (1359), Expect = e-151, Method: Compositional matrix adjust. Identities = 267/313 (85%), Positives = 271/313 (86%), Gaps = 37/313 (11%) Query: 1 MKNSDPNWFLRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAVSKX------------ 48 MKNSDPNWFLRARLKTRQLLLLIALDDTRNIHRAASELNMTQPA SK Sbjct: 1 MKNSDPNWFLRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVAL 60 Query: 49 -------------------------TSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLP 83 TSLSKAHEDIVALKSGLSGQVDVG ILSP MALLP Sbjct: 61 FERLPRGMRPTIYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVGGILSPAMALLP 120 Query: 84 PAIARVKEQAPMLRIGVEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPV 143 PAIARVKEQAPMLRIGVEVESSNILLSRLLHGELDFIIGRILD+EARGGLLYEELADEP+ Sbjct: 121 PAIARVKEQAPMLRIGVEVESSNILLSRLLHGELDFIIGRILDDEARGGLLYEELADEPI 180 Query: 144 CAVARVGHPFHTRTDLTLADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAI 203 CAVARVGHPFH RTDL+LADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAI Sbjct: 181 CAVARVGHPFHARTDLSLADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAI 240 Query: 204 LFITSLLQQTDFIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANL 263 LFITSLLQQTDFIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANL Sbjct: 241 LFITSLLQQTDFIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANL 300 Query: 264 VLQSIREVAKMIY 276 VLQ+IREVAKMIY Sbjct: 301 VLQAIREVAKMIY 313 >gi|300313164|ref|YP_003777256.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 130 bits (326), Expect = 2e-31, Method: Compositional matrix adjust. Identities = 82/296 (27%), Positives = 146/296 (49%), Gaps = 38/296 (12%) Query: 12 ARLKTRQLLLLIALDDTRNIHRAASELNMTQPAVSKX----------------------T 49 +RL+ RQ+ LL ALD+ ++H+AA ++MTQPA +K T Sbjct: 28 SRLRFRQVALLTALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEAT 87 Query: 50 SLSKA--------HEDIVALK-------SGLSGQVDVGVILSPGMALLPPAIARVKEQAP 94 L + D+ L+ SG G++ +G I+ + A++R++E P Sbjct: 88 ELGRCVIRYARLIQSDVANLRDELQNMISGRGGRLAIGTIMGAA-PFVTRALSRLREIQP 146 Query: 95 MLRIGVEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPVCAVARVGHPFH 154 + I + ++S L L G +D +IGR YE L EP+C V+ + HP Sbjct: 147 EVSIEISEDTSARQLLLLDQGRIDLMIGRSSVSSQPNLYHYEMLRGEPMCIVSGIDHPLA 206 Query: 155 TRTDLTLADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQTD 214 T + L +LA +WI+ +R + F+ +G+ P NV++T + +LL Q++ Sbjct: 207 TAQKVRLQELAEASWILYSSNMPMRIWIEHEFKLEGVKVPGNVIETASPFVTITLLAQSN 266 Query: 215 FIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANLVLQSIRE 270 + MP ++A ++ +++ ILP+ L R+ +GI+TR++ LS A + +Q +R+ Sbjct: 267 MVAVMPLDIAHFFAAKQMLGILPVNLKTRIEHYGIVTRKNTTLSSLAKMFIQILRQ 322 >gi|300310701|ref|YP_003774793.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 321 Score = 124 bits (312), Expect = 6e-30, Method: Compositional matrix adjust. Identities = 88/299 (29%), Positives = 140/299 (46%), Gaps = 38/299 (12%) Query: 10 LRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAVSKX--------------------- 48 L +RL+ +QL LLIALD+ +++H+A+S L MTQ A SK Sbjct: 20 LLSRLRMKQLQLLIALDEHKSLHKASSALAMTQSAASKSLAELESMLDAQLFERTKSGLI 79 Query: 49 ----------------TSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLPPAIARVKEQ 92 T L E++ ++SG G++ +G ++ AL+ PA+ ++ + Sbjct: 80 ANPFGHCVIRYARLMATDLGSLCEEMAQIRSGQGGRLAIGAVMGAVPALIVPAVDALQRR 139 Query: 93 APMLRIGVEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPVCAVARVGHP 152 P L I + ++S +L L G LD ++ R G Y+ L++EP+ V HP Sbjct: 140 HPALSIEIVEDTSLHMLDLLDEGHLDLLVARASVSAHPGKYHYQSLSEEPLSVVVSAEHP 199 Query: 153 FHTRTDLTLADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQ 212 +L LA LA WI P L A ++ GL+ P+N + T + +LLQQ Sbjct: 200 RPRGKELQLAALAGYRWITYPSHMPLHAVLEREMDLAGLSMPANTIATASTFVTVALLQQ 259 Query: 213 -TDFIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANLVLQSIRE 270 D + +PT VA + Q ++ ILP++L GI+TR+ LS +Q +RE Sbjct: 260 GADMVSILPTAVAEMFVQRGMLRILPVKLRSMSQTIGIVTRKGGQLSGAGQAFVQLLRE 318 >gi|300309487|ref|YP_003773579.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 314 Score = 91.3 bits (225), Expect = 8e-20, Method: Compositional matrix adjust. Identities = 81/291 (27%), Positives = 132/291 (45%), Gaps = 44/291 (15%) Query: 23 IALDDTRNIHRAASELNMTQPAVSKX---------------------------------- 48 IAL D ++ +AA ++ +TQP SK Sbjct: 24 IALSDHGSLLKAAEQVALTQPGASKALQEIESTLGVQLFTRTNRGLEPTELGHCVIRYAR 83 Query: 49 ---TSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLPPAIARVKEQAPMLRIGVEVESS 105 T L+ E+++A+ G G++ VG I+ + LL A+ R+ E P L + + ++S Sbjct: 84 LIQTDLTHLREEMLAIMQGHGGRLAVGTIMG-AVPLLTDALTRLLEAHPALSVEIVEDTS 142 Query: 106 NILLSRLLHGELDFIIGRILDEEARGGLLYE--ELADEPVCAVARVGHPFHTRTDLTLAD 163 LL L G LD I R + LY+ + +E + VA V HP L LAD Sbjct: 143 ARLLRLLDQGRLDLAICRTSISQRPD--LYDAFNIHEEELAVVASVQHPLADAPSLQLAD 200 Query: 164 LASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQT-DFIYAMPTE 222 LA W++ +R ++ F + L P ++++TT+ SLLQ+ F+ + + Sbjct: 201 LADSRWVVYSANMPMRLTLEREFHDADLRFPLHLMETTSAFTTLSLLQKNPHFVALLSVD 260 Query: 223 VARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANLVLQSI-REVA 272 VA++ T+ + ILP+ L R + ++TR+ +LSP A L L R VA Sbjct: 261 VAQFCTRFGMTRILPLRLHTRSEPYQLVTRRGTMLSPVARLFLDDFARTVA 311 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 0.322 0.137 0.391 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: 814,495 Number of extensions: 31986 Number of successful extensions: 164 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 165 Number of HSP's successfully gapped: 7 Length of query: 276 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 192 Effective length of database: 1,222,130 Effective search space: 234648960 Effective search space used: 234648960 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: 130 (54.7 bits)