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= 0001.0836.p (313 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... 620 e-179 gi|300313164|ref|YP_003777256.1| LysR family transcription regul... 187 1e-48 gi|300310701|ref|YP_003774793.1| LysR family transcription regul... 170 2e-43 gi|300309487|ref|YP_003773579.1| LysR family transcription regul... 142 4e-35 gi|300310484|ref|YP_003774576.1| LysR family transcription regul... 98 8e-22 >gi|300310375|ref|YP_003774467.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 620 bits (1599), Expect = e-179, Method: Compositional matrix adjust. Identities = 303/313 (96%), Positives = 310/313 (99%) Query: 1 MKNSDPNWFLRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVSL 60 MKNSDPNWFLRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGV+L Sbjct: 1 MKNSDPNWFLRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVAL 60 Query: 61 FERLPRGMRPTIYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLP 120 FERLPRGMRPTIYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVG ILSP MALLP Sbjct: 61 FERLPRGMRPTIYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVGGILSPAMALLP 120 Query: 121 PAIARVKEQAPMLRIGVEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPV 180 PAIARVKEQAPMLRIGVEVESSNILLSRLLHGELDFIIGRILD+EARGGLLYEELADEP+ Sbjct: 121 PAIARVKEQAPMLRIGVEVESSNILLSRLLHGELDFIIGRILDDEARGGLLYEELADEPI 180 Query: 181 CAVARVGHPFHTRTDLTLSDLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAI 240 CAVARVGHPFH RTDL+L+DLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAI Sbjct: 181 CAVARVGHPFHARTDLSLADLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAI 240 Query: 241 LFITSLLQQTDFIYAMPTEVARYYTQARLMDILPIDLPCRMAGFGIITRQDSLLSPGANL 300 LFITSLLQQTDFIYAMPTEVARYYTQARLMDILPI+LPCRMAGFGIITRQD+LLSPGANL Sbjct: 241 LFITSLLQQTDFIYAMPTEVARYYTQARLMDILPIELPCRMAGFGIITRQDNLLSPGANL 300 Query: 301 VLQAIREVAKMIY 313 VLQAIREVAKMIY Sbjct: 301 VLQAIREVAKMIY 313 >gi|300313164|ref|YP_003777256.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 187 bits (474), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 97/296 (32%), Positives = 175/296 (59%), Gaps = 1/296 (0%) Query: 12 ARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVSLFERLPRGMRPT 71 +RL+ RQ+ LL ALD+ ++H+AA ++MTQPAA+K L ++ED LGV+LF+R PRG+ T Sbjct: 28 SRLRFRQVALLTALDEQGSLHKAAEVMHMTQPAATKALHEMEDALGVTLFDRSPRGIEAT 87 Query: 72 IYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLPPAIARVKEQAP 131 G +IR+AR+ + ++ +++ + SG G++ +G I+ + A++R++E P Sbjct: 88 ELGRCVIRYARLIQSDVANLRDELQNMISGRGGRLAIGTIMGAA-PFVTRALSRLREIQP 146 Query: 132 MLRIGVEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPVCAVARVGHPFH 191 + I + ++S L L G +D +IGR YE L EP+C V+ + HP Sbjct: 147 EVSIEISEDTSARQLLLLDQGRIDLMIGRSSVSSQPNLYHYEMLRGEPMCIVSGIDHPLA 206 Query: 192 TRTDLTLSDLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQTD 251 T + L +LA +WI+ +R + F+ +G+ P NV++T + +LL Q++ Sbjct: 207 TAQKVRLQELAEASWILYSSNMPMRIWIEHEFKLEGVKVPGNVIETASPFVTITLLAQSN 266 Query: 252 FIYAMPTEVARYYTQARLMDILPIDLPCRMAGFGIITRQDSLLSPGANLVLQAIRE 307 + 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 = 170 bits (430), Expect = 2e-43, Method: Compositional matrix adjust. Identities = 103/299 (34%), Positives = 161/299 (53%), Gaps = 1/299 (0%) Query: 10 LRARLKTRQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVSLFERLPRGMR 69 L +RL+ +QL LLIALD+ +++H+A+S L MTQ AASK L +LE ML LFER G+ Sbjct: 20 LLSRLRMKQLQLLIALDEHKSLHKASSALAMTQSAASKSLAELESMLDAQLFERTKSGLI 79 Query: 70 PTIYGEAMIRHARMALTSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLPPAIARVKEQ 129 +G +IR+AR+ T L E++ ++SG G++ +G ++ AL+ PA+ ++ + Sbjct: 80 ANPFGHCVIRYARLMATDLGSLCEEMAQIRSGQGGRLAIGAVMGAVPALIVPAVDALQRR 139 Query: 130 APMLRIGVEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPVCAVARVGHP 189 P L I + ++S +L L G LD ++ R G Y+ L++EP+ V HP Sbjct: 140 HPALSIEIVEDTSLHMLDLLDEGHLDLLVARASVSAHPGKYHYQSLSEEPLSVVVSAEHP 199 Query: 190 FHTRTDLTLSDLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQ 249 +L L+ LA WI P L A ++ GL+ P+N + T + +LLQQ Sbjct: 200 RPRGKELQLAALAGYRWITYPSHMPLHAVLEREMDLAGLSMPANTIATASTFVTVALLQQ 259 Query: 250 -TDFIYAMPTEVARYYTQARLMDILPIDLPCRMAGFGIITRQDSLLSPGANLVLQAIRE 307 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 = 142 bits (357), Expect = 4e-35, Method: Compositional matrix adjust. Identities = 95/283 (33%), Positives = 155/283 (54%), Gaps = 6/283 (2%) Query: 23 IALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVSLFERLPRGMRPTIYGEAMIRHAR 82 IAL D ++ +AA ++ +TQP ASK L+++E LGV LF R RG+ PT G +IR+AR Sbjct: 24 IALSDHGSLLKAAEQVALTQPGASKALQEIESTLGVQLFTRTNRGLEPTELGHCVIRYAR 83 Query: 83 MALTSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLPPAIARVKEQAPMLRIGVEVESS 142 + T L+ E+++A+ G G++ VG I+ + LL A+ R+ E P L + + ++S Sbjct: 84 LIQTDLTHLREEMLAIMQGHGGRLAVGTIMG-AVPLLTDALTRLLEAHPALSVEIVEDTS 142 Query: 143 NILLSRLLHGELDFIIGRILDEEARGGLLYE--ELADEPVCAVARVGHPFHTRTDLTLSD 200 LL L G LD I R + LY+ + +E + VA V HP L L+D Sbjct: 143 ARLLRLLDQGRLDLAICRTSISQRPD--LYDAFNIHEEELAVVASVQHPLADAPSLQLAD 200 Query: 201 LASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQT-DFIYAMPTE 259 LA W++ +R ++ F + L P ++++TT+ SLLQ+ F+ + + Sbjct: 201 LADSRWVVYSANMPMRLTLEREFHDADLRFPLHLMETTSAFTTLSLLQKNPHFVALLSVD 260 Query: 260 VARYYTQARLMDILPIDLPCRMAGFGIITRQDSLLSPGANLVL 302 VA++ T+ + ILP+ L R + ++TR+ ++LSP A L L Sbjct: 261 VAQFCTRFGMTRILPLRLHTRSEPYQLVTRRGTMLSPVARLFL 303 >gi|300310484|ref|YP_003774576.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 98.2 bits (243), Expect = 8e-22, Method: Compositional matrix adjust. Identities = 81/294 (27%), Positives = 137/294 (46%), Gaps = 17/294 (5%) Query: 17 RQLLLLIALDDTRNIHRAASELNMTQPAASKQLKDLEDMLGVSLFERLPRGMRPTIYGEA 76 +QL + A+ ++ RAA+ LN+TQPA S+ +K LE+ +G +LFER +GM T+ G+A Sbjct: 6 QQLEMFNAIVSAGSLGRAAALLNLTQPALSRAIKRLEESVGGALFERHTKGMHLTVLGQA 65 Query: 77 MIRHARMALTSLSKAHEDIVALKSGLSGQVDVGVILSPGMALLPPAIARVKEQAPMLRIG 136 ++ HA +A E++ A++ G + VG + S +LP A+ V ++ P LR+ Sbjct: 66 LLPHAMSLQREAQQAREELDAIRGLAKGVIKVGAVGSIASLVLPLAVRGVLDKWPNLRVE 125 Query: 137 VEVESSNILLSRLLHGELDFIIGRILDEEARGGLLYEELADEPVC------AVARVGHPF 190 + + L+ LL E+D + GG A C VA HP Sbjct: 126 IIEGVWDRLVEGLLTHEIDLAL------STSGGQTEGVAAIADCCWTDLSYVVAAPDHPL 179 Query: 191 HTRTDLTLSDLASEAWIMAPKGSILRARCDQMFREQGLAPPSNVVDTTAILFITSLLQQT 250 + + L + W + PKG+ + F GL P V++ ++ + SL+ + Sbjct: 180 RQQGRIALEQTLGQRWALTPKGTGPYLHVQETFARHGLPMPEIAVESRSVTVLKSLVARC 239 Query: 251 DFIYAMPTEVARYYTQARL---MDILPIDLPCRMAGFGIITRQDSLLSPGANLV 301 FI M + QA + +++ +D P + F RQ L +P A L+ Sbjct: 240 GFIGWMSGPMFDTERQAGVIVALEVAGLDAPRTLTAF--RRRQGILPAPAARLL 291 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 0.323 0.137 0.393 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: 939,268 Number of extensions: 37954 Number of successful extensions: 218 Number of sequences better than 1.0e-08: 39 Number of HSP's gapped: 209 Number of HSP's successfully gapped: 39 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 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 (22.0 bits) S2: 130 (54.7 bits)