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= 0133.0001.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|300309921|ref|YP_003774013.1| LysR family transcription regul... 170 1e-43 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 145 3e-36 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 139 2e-34 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 134 5e-33 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 134 8e-33 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 170 bits (430), Expect = 1e-43, Method: Compositional matrix adjust. Identities = 96/250 (38%), Positives = 146/250 (58%), Gaps = 17/250 (6%) Query: 13 MNKYQELTAFVAVVEAGGFSAAARRIDDSQSSVSKAVGSLERRLGVRLFNRSTRRVTLTD 72 MNK +E+ F+AV + G F AA + S+++VS+ V LE RLG RL R+TRR++LT+ Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 73 HGRKYYERTKPLLEEMEQVDGELMNSTLETSGLVKIGNXKHRETSGLVKIATSSTFGRLH 132 G Y ER K ++ +E+ D +L++S G+ K +GL++I TFG LH Sbjct: 61 AGALYLERCKQIVAALEEAD-DLLSS----------GSAK---PTGLLRINAPLTFGVLH 106 Query: 133 VLPLVPKLLSLYPQIRLDLHLSDGVRDLLADGVDLAIRISPARHPDAVVKRVATTSLVCV 192 + PL P L +P+I LD+ LSD + D++ +G D+AIRI+ V +++ +TSL Sbjct: 107 LAPLWPMFLERHPEISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVC 166 Query: 193 GARSYFEQHGTPTSPADLAHHNCLIYN---EMNEWPFTGPQGPFSVPVSGNLSSNTLETI 249 + +Y + HGTP P +LA H + Y+ +EW F GP+GP SV VS L N ++ Sbjct: 167 ASPAYLDAHGTPAHPHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSC 226 Query: 250 LSAVSAGVGI 259 + A G+GI Sbjct: 227 VQAALGGIGI 236 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 145 bits (367), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 84/253 (33%), Positives = 132/253 (52%), Gaps = 17/253 (6%) Query: 13 MNKYQELTAFVAVVEAGGFSAAARRIDDSQSSVSKAVGSLERRLGVRLFNRSTRRVTLTD 72 M ++ FV VV AG F+AA RR+ +++S+ + SLE +GVRL RSTR++ +T Sbjct: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 Query: 73 HGRKYYERTKPLLEEMEQVDGELMNSTLETSGLVKIGNXKHRETSGLVKIATSSTFGRLH 132 GR+++ER P LE++E L S E +G +++A F Sbjct: 61 AGREFFERCAPGLEDIEHASASLTES--------------QGEPAGSLRVAAPVDFFDNF 106 Query: 133 VLPLVPKLLSLYPQIRLDLHLSDGVRDLLADGVDLAIRISPARHPDAVVKRVATTSLVCV 192 + + + + LYP+++L+ L+DG DL+A+G+DLA R V +++ + L + Sbjct: 107 SIEWMHEFMHLYPKVQLEFVLNDGRADLIAEGIDLAFRGGVLPDSSLVARKLVQSHLALI 166 Query: 193 GARSYFEQHGTPTSPADLAHHNCLIYNEMNE---WPFTGPQGPFSVPVSGNLSSNTLETI 249 + Y E+ GTP S DL H CL ++ + W GP GP SV V+ L NT + Sbjct: 167 ASPRYLERQGTPQSLTDLTAHACLATSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQ 226 Query: 250 LSAVSAGVGIGMF 262 L A AG+GI + Sbjct: 227 LRAARAGLGIALL 239 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 139 bits (351), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 85/247 (34%), Positives = 130/247 (52%), Gaps = 18/247 (7%) Query: 17 QELTAFVAVVEAGGFSAAARRIDDSQSSVSKAVGSLERRLGVRLFNRSTRRVTLTDHGRK 76 ++L F V F+ +AR + S + +SK + LE+ LGVRLF+R+TR V +T+ G Sbjct: 8 EDLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEGGN 67 Query: 77 YYERTKPLLEEMEQVDGELMNSTLETSGLVKIGNXKHRETSGLVKIATSSTFGRLHVLPL 136 +E + +L+++EQ+ +ET K R GL+KI+TS GR V PL Sbjct: 68 VHEWARRILDDVEQM--------METVSSAK------RVPRGLLKISTSFGLGRKVVSPL 113 Query: 137 VPKLLSLYPQIRLDLHLSDGVRDLLADGVDLAIRISPARHPDAVVKRVATTSLVCVGARS 196 + + S +P++++ L L D DL+ +G+DL IR+ P KR+ + V + + Sbjct: 114 LSRFASEHPELKIQLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLCASPA 173 Query: 197 YFEQHGTPTSPADLAHHNCLIYNEMNE----WPFTGPQGPFSVPVSGNLSSNTLETILSA 252 Y ++HG P A L H CL+ E N+ W GP+G +V VSG L+SN E I Sbjct: 174 YLKKHGLPADLAALRQHQCLVIRERNQSFGIWRMMGPKGVETVKVSGMLASNHGEIIHQW 233 Query: 253 VSAGVGI 259 G GI Sbjct: 234 AVDGHGI 240 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 134 bits (338), Expect = 5e-33, Method: Compositional matrix adjust. Identities = 89/267 (33%), Positives = 136/267 (50%), Gaps = 22/267 (8%) Query: 13 MNKYQELTAFVAVVEAGGFSAAARRIDDSQSSVSKAVGSLERRLGVRLFNRSTRRVTLTD 72 M+K Q + FVAVVE+G F AA S+ +VS+ V LE+ LG+RL +R+TRR++LTD Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 73 HGRKYYERTKPLLEEMEQVDGEL-MNSTLETSGLVKIGNXKHRETSGLVKIATSSTFGRL 131 GR Y+ R K LLE ++ V+ E+ +NS + G ++I FG Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSD---------------QACGRLRIGAPQDFGVE 105 Query: 132 HVLPLVPKLLSLYPQIRLDLHLSDGVRDLLADGVDLAIRISPARHPDAVVKRVATTSLVC 191 + PL K +P I L++ LSD DLL +G D+AIRIS V + +A ++ Sbjct: 106 QLAPLWGKFTEQHPLITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIA 165 Query: 192 VGARSYFEQHGTPTSPADLAHHNCLIYNEM---NEWPFTGPQG-PFSVPVSGNLSSNTLE 247 A + +HGTP +PA+L + + Y+ ++W F G V V + N Sbjct: 166 CAAPEFLARHGTPGTPAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGA 225 Query: 248 TILSAVSAGVGIGMFNRASLVANCSIR 274 T + AG GI + + + N +I+ Sbjct: 226 TCRAMAIAGQGIAI--QPDFIVNAAIQ 250 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 134 bits (337), Expect = 8e-33, Method: Compositional matrix adjust. Identities = 81/258 (31%), Positives = 144/258 (55%), Gaps = 23/258 (8%) Query: 12 VMNKYQELTAFVAVVEAGGFSAAARRIDDSQSSVSKAVGSLERRLGVRLFNRSTRRVTLT 71 +M+ Q + F VVEAG F+ AA+++ + + VS+AV LER L RL NR+TRR+ LT Sbjct: 1 MMDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALT 60 Query: 72 DHGRKYYERTKPLLEEMEQVDGELMNSTLETSGLVKIGNXKHRETSGLVKIATSSTFGRL 131 + G +Y R + ++ +++ + E + ++ SG ++I H TS FG+ Sbjct: 61 EAGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRI----HAMTS----------FGQR 106 Query: 132 HVLPLVPKLLSLYPQIRLDLHLSDGVRDLLADGVDLAIRISPARH-PDA--VVKRVATTS 188 +V+P + YP + ++L L+ + D+L +G D+++ + AR PD+ + +++ +T Sbjct: 107 YVIPSISGYHKRYPDVAVELTLAQRIPDMLEEGYDVSLVL--ARELPDSGLIYRQLGSTF 164 Query: 189 LVCVGARSYFEQHGTPTSPADLAHHNCLIY----NEMNEWPFTGPQGPFSVPVSGNLSSN 244 + + +Y +++G P PADL +H CL + ++EW GP+G V V N N Sbjct: 165 SMLCASPAYLDKYGAPQQPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVN 224 Query: 245 TLETILSAVSAGVGIGMF 262 E +L+A+ G+GIG+ Sbjct: 225 VAEAMLTAIREGMGIGVL 242 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 0.318 0.133 0.381 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: 838,979 Number of extensions: 34861 Number of successful extensions: 249 Number of sequences better than 1.0e-08: 54 Number of HSP's gapped: 200 Number of HSP's successfully gapped: 54 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 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)