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= 0014.0046.p (406 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 197 1e-51 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 194 1e-50 gi|300310408|ref|YP_003774500.1| LysR family transcription regul... 181 7e-47 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 164 1e-41 gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 164 1e-41 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 197 bits (502), Expect = 1e-51, Method: Compositional matrix adjust. Identities = 111/303 (36%), Positives = 158/303 (52%), Gaps = 3/303 (0%) Query: 1 MDRLNAMETFVNVVEAGSFSGAARRLEVGQPAVSKTIAQLEERLGVRLLLRSTRGLTPTE 60 MDR AM+ F VV+A SF+ AA L + + V+ + LE L VRLL R+TR ++ T Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 AGQRFYERALRAIEETDAAERSARNAGTGLSGPLRICAAVTFARLRILPYLQPFLDMHPQ 120 G +YER +R + + D E+S RN G G LRI + RL +LP L F +P Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 LSLDIVLDDRHIDMLEEGIDVALRIGSLTDSGMTARKISQSPRSVVGTPAYFARHGVPAT 180 + L + + DR +D+++E +D +RIG L DS M AR+I PAY RHGVP T Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 181 PADLSCHSAVIHGRVGGG---SWEFRRGSTEVSVAVNGRIRVNAAEGVRAAVLADMGLVI 237 DL H AV + G W+F V +NG++ VN A+ L G+V Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 238 SSEWMFEPELASGALQRVLTEWELPPVDLWAVYPGGRMASAKARAFIDYVEKXFPGCCRH 297 + +M + G L VL++W+ P+ + VY R S K RAF+D+V + F C H Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAELFATCPLH 300 Query: 298 RCC 300 + C Sbjct: 301 KAC 303 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 194 bits (492), Expect = 1e-50, Method: Compositional matrix adjust. Identities = 111/295 (37%), Positives = 166/295 (56%), Gaps = 7/295 (2%) Query: 1 MDRLNAMETFVNVVEAGSFSGAARRLEVGQPAVSKTIAQLEERLGVRLLLRSTRGLTPTE 60 M++L +E F+ V + GSF AA L + + AVS+T+ +LE RLG RL+ R+TR L+ TE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGQRFYERA---LRAIEETDAAERSARNAGTGLSGPLRICAAVTFARLRILPYLQPFLDM 117 AG + ER + A+EE D S TGL LRI A +TF L + P FL+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGL---LRINAPLTFGVLHLAPLWPMFLER 117 Query: 118 HPQLSLDIVLDDRHIDMLEEGIDVALRIGSLTDSGMTARKISQSPRSVVGTPAYFARHGV 177 HP++SLDI L DR +D+++EG D+A+RI L+DS + RK++ + V +PAY HG Sbjct: 118 HPEISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGT 177 Query: 178 PATPADLSCHSAVIHG-RVGGGSWEFRRGSTEVSVAVNGRIRVNAAEGVRAAVLADMGLV 236 PA P +L+ H + + W+F VSV V+ R+ VN + A L +G+ Sbjct: 178 PAHPHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGIT 237 Query: 237 ISSEWMFEPELASGALQRVLTEWELPPVDLWAVYPGGRMASAKARAFIDYVEKXF 291 +M + L SG L +L ++ P + ++AVYP AK RA +D++ + F Sbjct: 238 RQPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAF 292 >gi|300310408|ref|YP_003774500.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 296 Score = 181 bits (460), Expect = 7e-47, Method: Compositional matrix adjust. Identities = 114/286 (39%), Positives = 161/286 (56%), Gaps = 4/286 (1%) Query: 1 MDRLNAMETFVNVVEAGSFSGAARRLEVGQPAVSKTIAQLEERLGVRLLLRSTRGLTPTE 60 MDR AM FV V EA SF+ AAR++++ PAV++T+A LEE +G RLL+R+TR + TE Sbjct: 1 MDRWLAMRIFVQVAEAASFAKAARQMQLSAPAVTRTVATLEELVGARLLVRTTRSVKTTE 60 Query: 61 AGQRFYERALRAIEETDAAERSARNAGTGLSGPLRICAAVTFARLRILPYLQPFLDMHPQ 120 AG R+ E R + E AE +A SG L + AA+ F ++ +LP + +LD++P Sbjct: 61 AGARYLEDCRRILAEIAEAEAAAAGHYDQPSGTLSVTAALLFGQMHVLPIVTEYLDLYPG 120 Query: 121 LSLDIVLDDRHIDMLEEGIDVALRIGSLTDSGMTARKISQSPRSVVGTPAYFARHGVPAT 180 + DR ++++EEG+DVA+RIG L DSG TA ++ R + P Y RHGVP + Sbjct: 121 MRARTFFIDRPVNIVEEGMDVAVRIGHLPDSGFTAIQVGSVRRVICAAPDYLRRHGVPTS 180 Query: 181 PADLSCHSAVIHGRVGGG-SWEFRRGSTEVSVAVNGRIRVNAAEGVRAAVLADMGLVISS 239 PADL H V W F G V V ++ N E A GL Sbjct: 181 PADLKQHRIVTSTSAWASPEWRFADGQ---RVLVEAALQTNTNEAAIATARQGWGLTRVL 237 Query: 240 EWMFEPELASGALQRVLTEWELPPVDLWAVYPGGRMASAKARAFID 285 + +L +G LQRV++E+E PP+ + +YP GR + AK RAFID Sbjct: 238 AYQVAADLQAGRLQRVMSEFEEPPLPIHVLYPEGRRSPAKVRAFID 283 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 164 bits (416), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 104/303 (34%), Positives = 154/303 (50%), Gaps = 8/303 (2%) Query: 1 MDRLNAMETFVNVVEAGSFSGAARRLEVGQPAVSKTIAQLEERLGVRLLLRSTRGLTPTE 60 MD+L AM+TFV VVE+GSF A +PAVS+ +++LE+ LG+RLL R+TR L+ T+ Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 61 AGQRFYERALRAIEETDAAERSARNAGTGLSGPLRICAAVTFARLRILPYLQPFLDMHPQ 120 G+ ++ R +E E G LRI A F ++ P F + HP Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 LSLDIVLDDRHIDMLEEGIDVALRIGSLTDSGMTARKISQSPRSVVGTPAYFARHGVPAT 180 ++L+I L DR ID+LEEG D+A+RI +L DS M AR ++ P + ARHG P T Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 PADLSCHSAVIHG-RVGGGSWEFR--RGSTEVSVAVNGRIRVNAAEGVRAAVLADMGLVI 237 PA+L + + + R GG W FR G T V V + VN RA +A G+ I Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRHVHGDT-CQVRVRSTVYVNNGATCRAMAIAGQGIAI 239 Query: 238 SSEWMFEPELASGALQRVLTEWEL-PPVDLWAVYPGGRMASAKARAFIDYVEKXF---PG 293 +++ + +G L + W + + +YP K + D++ + F P Sbjct: 240 QPDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPPW 299 Query: 294 CCR 296 C R Sbjct: 300 CPR 302 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 164 bits (415), Expect = 1e-41, Method: Compositional matrix adjust. Identities = 98/305 (32%), Positives = 167/305 (54%), Gaps = 12/305 (3%) Query: 1 MDRLNAMETFVNVVEAGSFSGAARRLEVGQPAVSKTIAQLEERLGVRLLLRSTRGLTPTE 60 MDRL AM+ FV VV++GS S AA +L++ +P VS+ +A+LE+ +G RLL R+TR L+ T Sbjct: 1 MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 Query: 61 AGQRFYERALRAIEETDAAERSARNAGTGLSGPLRICAAVTFARLRILPYLQPFLDMHPQ 120 AG R + +E ++ + G LRI A+ +FA+ +++ + + +P Sbjct: 61 AGNELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPG 120 Query: 121 LSLDIVLDDRHIDMLEEGIDVALRIGSLTDSGMTARKISQSPRSVVGTPAYFARHGVPAT 180 +++D++ DR ++++EE ID+A+R+ + + + AR + + TP Y ARHG+P Sbjct: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARPLGVCRSIICATPDYLARHGLPRK 180 Query: 181 PADLSCHSAVIHGRVGGGSWEFR---------RGSTEV---SVAVNGRIRVNAAEGVRAA 228 DL+ H+ + H VG W+F RG++ SVAV G I N + A Sbjct: 181 VEDLALHNCLTHSYVGRSLWQFDPKKKKARSGRGASAAKPQSVAVGGSISANEVTVLLQA 240 Query: 229 VLADMGLVISSEWMFEPELASGALQRVLTEWELPPVDLWAVYPGGRMASAKARAFIDYVE 288 VLA +G+ + P +ASG L ++L ++E + ++ VY + A R +D++ Sbjct: 241 VLAGVGIGHMPAYTVAPLVASGQLVQLLPDYEPLQLGMYGVYASRKHMPATLRTMLDFLA 300 Query: 289 KXFPG 293 + F G Sbjct: 301 QRFAG 305 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 0.320 0.133 0.389 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: 1,188,490 Number of extensions: 48514 Number of successful extensions: 313 Number of sequences better than 1.0e-08: 61 Number of HSP's gapped: 256 Number of HSP's successfully gapped: 61 Length of query: 406 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 319 Effective length of database: 1,207,925 Effective search space: 385328075 Effective search space used: 385328075 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 (21.8 bits) S2: 132 (55.5 bits)