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= 0025.0131.p (295 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... 310 6e-86 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 276 1e-75 gi|300313746|ref|YP_003777838.1| LysR family transcription regul... 233 1e-62 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 197 7e-52 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 191 5e-50 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 310 bits (795), Expect = 6e-86, Method: Compositional matrix adjust. Identities = 139/294 (47%), Positives = 205/294 (69%), Gaps = 2/294 (0%) Query: 1 MDRLQAMEVFVRVAELGSFSKTAEQMGLPAATVTNAIQAVEKRVGVRLLQRTTRKVTLTD 60 MDR QAM+VF V + SF++ A+ + LP TVT +Q +E + VRLL RTTR+++LT Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 DGAAYLERCQRLLAEFQDVENLFDN--EQPQGVVRVDLPERLAHRNVIPRLPEFFARYPD 118 DGAAY ERC R+LA+ + E F N PQG +R+D+P + ++P L +F+ RYPD Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 119 IRVKLNASDRFVDLIGEGVDCVVRVGILSDSTLIARGIGAMEQITCASKAYLDRHGRPRT 178 I + + DR VDL+ E VDCV+R+G L DS+++AR IG + +TCA+ AYL+RHG P T Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 179 LAELEQHTMINYFSSRTGRELPWEYMQNGELKTLKLRGQVSVASSEAYMACCLAGLGLVQ 238 + +L+QH ++YFSSRTGR + W+++ G + +K+ G+++V ++AY+ C L G G+VQ Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 239 APLLGAEDLLAQGVIEEVLPEFKPPPLPVAIVYSHNRHLSPRVRVFVDWLAEIL 292 APL + +G + EVL ++KP P+P+++VY HNRHLSP+VR FVDW+AE+ Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAELF 294 >gi|300311868|ref|YP_003775960.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 276 bits (706), Expect = 1e-75, Method: Compositional matrix adjust. Identities = 136/296 (45%), Positives = 198/296 (66%), Gaps = 4/296 (1%) Query: 1 MDRLQAMEVFVRVAELGSFSKTAEQMGLPAATVTNAIQAVEKRVGVRLLQRTTRKVTLTD 60 M +L + +F RVAEL SFS A Q+GLP A+V+ AIQ +E+ +G RLLQRTTR+V LT Sbjct: 1 MHQLDTLRIFQRVAELASFSGAARQLGLPNASVSLAIQQLEQMLGTRLLQRTTRRVQLTA 60 Query: 61 DGAAYLERCQRLLAEFQDVENLF-DNEQP-QGVVRVDLPERLAHRNVIPRLPEFFARYPD 118 DG A+ R + LL EF+ + +F D Q G +RVD+ +A V+P LP F ++P Sbjct: 61 DGEAFYRRSRELLDEFESLRGMFHDGAQALSGRLRVDMSSAMAREVVLPALPSFLDKHPQ 120 Query: 119 IRVKLNASDRFVDLIGEGVDCVVRVGILSDSTLIARGIGAMEQITCASKAYLDRHGRPRT 178 + ++L+ASDR VDL+ EG DCV+R G L DS+L+AR IG + QI CAS YL R+G P+T Sbjct: 121 LEIELSASDRRVDLVAEGFDCVLRTGTLDDSSLVARPIGHLVQINCASPEYLRRYGTPQT 180 Query: 179 LAELEQHTMINYFSSRTGRELPWEYMQNGELKTLKLRGQVSVASSEAYMACCLAGLGLVQ 238 L +L QH +++Y GR WE+ + ++L + G ++V S+E Y A CLAGLGL+Q Sbjct: 181 LEDLAQHRLVHYRQVLGGRSPGWEWFDGQQTRSLPMAGSITVNSTETYYAACLAGLGLIQ 240 Query: 239 APLLGAE--DLLAQGVIEEVLPEFKPPPLPVAIVYSHNRHLSPRVRVFVDWLAEIL 292 PL+GA+ +L G + EVLP+++P P+PV+++Y+ RH+ R+ F+DWL ++ Sbjct: 241 LPLVGAQKRQMLDGGHVVEVLPQYRPAPMPVSLLYASRRHVPARLAGFMDWLHALI 296 >gi|300313746|ref|YP_003777838.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 233 bits (595), Expect = 1e-62, Method: Compositional matrix adjust. Identities = 126/295 (42%), Positives = 192/295 (65%), Gaps = 3/295 (1%) Query: 1 MDRLQAMEVFVRVAELGSFSKTAEQMGLPAATVTNAIQAVEKRVGVRLLQRTTRKVTLTD 60 MD+L A+ F RV E G+F++ A+ + +P AT++ ++ +E +GVRLLQRTTR+V++T Sbjct: 1 MDQLLAIRAFARVVEAGNFTRAADSLDMPNATLSKLVRELEAHLGVRLLQRTTRRVSVTP 60 Query: 61 DGAAYLERCQRLLAEFQDVENLFDNEQ--PQGVVRVDLPERLAHRNVIPRLPEFFARYPD 118 +G Y E+ RL+ + +D++ F+ + P+G +R+D+ A +IP LP+F ARYPD Sbjct: 61 EGLDYYEKTGRLVRDLEDIDTSFNAARGNPRGKLRIDVGGSTARDVLIPALPDFLARYPD 120 Query: 119 IRVKLNASDRFVDLIGEGVDCVVRVGILSDSTLIARGIGAMEQITCASKAYLDRHGRPRT 178 I + L SDR VDLIG+ VDCV+R G L +S+L+AR IG +TCA+ AYL + G P Sbjct: 121 ISIDLGVSDRPVDLIGDSVDCVIRGGPLDNSSLVARQIGQARMVTCATPAYLKQFGVPAY 180 Query: 179 LAELEQ-HTMINYFSSRTGRELPWEYMQNGELKTLKLRGQVSVASSEAYMACCLAGLGLV 237 EL+ H +I+Y S ++GR P+ + + GE +K ++ V S A++A LAGLG+V Sbjct: 181 PDELKNGHRLISYLSPQSGRAFPFRFERKGEKIEIKTEHRIGVNESNAHLAAALAGLGIV 240 Query: 238 QAPLLGAEDLLAQGVIEEVLPEFKPPPLPVAIVYSHNRHLSPRVRVFVDWLAEIL 292 Q A LA+G + E+L +++P P P +VY +NRH+S R+RVF+DWL L Sbjct: 241 QTFRYAAGPALARGELVEILTKWRPAPYPFHVVYPNNRHVSHRLRVFIDWLMAYL 295 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 197 bits (502), Expect = 7e-52, Method: Compositional matrix adjust. Identities = 100/292 (34%), Positives = 172/292 (58%), Gaps = 4/292 (1%) Query: 1 MDRLQAMEVFVRVAELGSFSKTAEQMGLPAATVTNAIQAVEKRVGVRLLQRTTRKVTLTD 60 M++L+ +E F+ VA+LGSF K AE +G+ A V+ + +E R+G RL+QRTTR+++LT+ Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 DGAAYLERCQRLLAEFQDVENLFDN--EQPQGVVRVDLPERLAHRNVIPRLPEFFARYPD 118 GA YLERC++++A ++ ++L + +P G++R++ P ++ P P F R+P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 119 IRVKLNASDRFVDLIGEGVDCVVRVGILSDSTLIARGIGAMEQITCASKAYLDRHGRPRT 178 I + + SDR VD+I EG D +R+ LSDSTL+ R + + CAS AYLD HG P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 179 LAELEQHTMINYFSSRTGRELPWEYMQNGELKTLKLRGQVSVASSEAYMACCLAGLGLVQ 238 EL QH I+Y +++ E W++ ++++ ++ V + ++ + L G+G+ + Sbjct: 181 PHELAQHQTISYSYNQSKDE--WQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITR 238 Query: 239 APLLGAEDLLAQGVIEEVLPEFKPPPLPVAIVYSHNRHLSPRVRVFVDWLAE 290 P + L G + +L ++ P L + VY HL ++R +D+L E Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTE 290 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 191 bits (486), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 107/291 (36%), Positives = 169/291 (58%), Gaps = 6/291 (2%) Query: 3 RLQAMEVFVRVAELGSFSKTAEQMGLPAATVTNAIQAVEKRVGVRLLQRTTRKVTLTDDG 62 +L ++E+F + AELGSF+ AE +GL A+V+ +I +E R+GVRL RTTR++ LT +G Sbjct: 8 QLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQIRLTREG 67 Query: 63 AAYLERCQRLLAEFQDVENLFDNEQ--PQGVVRVDLPERLAHRNVIPRLPEFFARYPDIR 120 Y ++CQ+ L + D E + +Q P G++R+ + AH ++P LP F YP I Sbjct: 68 ELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQQAYPQIE 127 Query: 121 VKLNASDRFVDLIGEGVDCVVRVGILSDSTLIARGIGAMEQITCASKAYLDRHGRPRTLA 180 V+L+ ++R VD + EG D +R+G+ DS LIA + A+ AYL R G+PR++A Sbjct: 128 VELSIANRVVDFVEEGYDLAIRLGVPPDSRLIAHTLEEATLGLFAAPAYLARRGQPRSIA 187 Query: 181 ELEQHTMINYFSSRTGRELPWEYMQNGELKTLKLRGQVSVASSEAYMAC---CLAGLGLV 237 ELEQH I + +GR +PW + ++ + + + + + + C +AG GL Sbjct: 188 ELEQHDCIQFILPSSGRAMPWIF-KDAQGRDMDFHFKSRQRIHDDVLGCVNWAIAGGGLF 246 Query: 238 QAPLLGAEDLLAQGVIEEVLPEFKPPPLPVAIVYSHNRHLSPRVRVFVDWL 288 Q A+ + +G + EVL + +I+Y HNRHLS RVR FV++L Sbjct: 247 QIYHFIADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFL 297 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 0.138 0.400 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: 913,535 Number of extensions: 39148 Number of successful extensions: 260 Number of sequences better than 1.0e-08: 52 Number of HSP's gapped: 194 Number of HSP's successfully gapped: 52 Length of query: 295 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 210 Effective length of database: 1,217,395 Effective search space: 255652950 Effective search space used: 255652950 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)