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= 0001.0291.p (337 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... 675 0.0 gi|300313746|ref|YP_003777838.1| LysR family transcription regul... 266 2e-72 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 243 1e-65 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 199 3e-52 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 179 3e-46 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 675 bits (1741), Expect = 0.0, Method: Compositional matrix adjust. Identities = 316/337 (93%), Positives = 335/337 (99%) Query: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLIQGLESLLQVRLLNRTTRRISLTP 60 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTL+QGLES+LQVRLLNRTTRRISLTP Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 DGAAYYERCVRILADVDETEQSFRNVTRGPQGRLRIDVPGSIGRLMLLPNLCDFYTKYPD 120 DGAAYYERCVRILAD+DETEQSFRNVTRGPQGRLRIDVP S+GRLMLLPNLCDFYT+YPD Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 IELLMGMGDRPVDLVQEAVDCVIRIGQLQDSSMVARRIGTFQTVTCAAPSYLERHGVPHT 180 IEL+MGMGDRPVDLVQEAVDCVIRIG+LQDSSMVARRIGTFQTVTCAAP+YLERHGVPHT Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 181 LDDLQQHKAVHYFSSRTGRTIDWDFVVDGVSREVKMDGKLSVNDADAYVECALQGFGMVQ 240 ++DLQQHKAVHYFSSRTGRTIDWDFVV+GV+REVKM+GKL+VN+ADAYVECALQGFGMVQ Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 241 APLYMVTRHIDEGRLVEVLSQWKPAPLPISVVYLHNRHLSPKVRAFVDWVAELFATCPLH 300 APLYMVTRHIDEGRLVEVLSQWKPAP+PISVVYLHNRHLSPKVRAFVDWVAELFATCPLH Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAELFATCPLH 300 Query: 301 KACTMGMEESECRFVDKPESTTVRNVVEQYNMAESVF 337 KACTMGMEESECRFVDK E++TVRNVVEQYN+AESVF Sbjct: 301 KACTMGMEESECRFVDKAETSTVRNVVEQYNIAESVF 337 >gi|300313746|ref|YP_003777838.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 266 bits (679), Expect = 2e-72, Method: Compositional matrix adjust. Identities = 136/292 (46%), Positives = 205/292 (70%), Gaps = 3/292 (1%) Query: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLIQGLESLLQVRLLNRTTRRISLTP 60 MD+ A++ F VV+A +FTRAAD+L++P T++ L++ LE+ L VRLL RTTRR+S+TP Sbjct: 1 MDQLLAIRAFARVVEAGNFTRAADSLDMPNATLSKLVRELEAHLGVRLLQRTTRRVSVTP 60 Query: 61 DGAAYYERCVRILADVDETEQSFRNVTRG-PQGRLRIDVPGSIGRLMLLPNLCDFYTKYP 119 +G YYE+ R++ D+++ + SF N RG P+G+LRIDV GS R +L+P L DF +YP Sbjct: 61 EGLDYYEKTGRLVRDLEDIDTSF-NAARGNPRGKLRIDVGGSTARDVLIPALPDFLARYP 119 Query: 120 DIELLMGMGDRPVDLVQEAVDCVIRIGQLQDSSMVARRIGTFQTVTCAAPSYLERHGVPH 179 DI + +G+ DRPVDL+ ++VDCVIR G L +SS+VAR+IG + VTCA P+YL++ GVP Sbjct: 120 DISIDLGVSDRPVDLIGDSVDCVIRGGPLDNSSLVARQIGQARMVTCATPAYLKQFGVPA 179 Query: 180 TLDDLQQ-HKAVHYFSSRTGRTIDWDFVVDGVSREVKMDGKLSVNDADAYVECALQGFGM 238 D+L+ H+ + Y S ++GR + F G E+K + ++ VN+++A++ AL G G+ Sbjct: 180 YPDELKNGHRLISYLSPQSGRAFPFRFERKGEKIEIKTEHRIGVNESNAHLAAALAGLGI 239 Query: 239 VQAPLYMVTRHIDEGRLVEVLSQWKPAPLPISVVYLHNRHLSPKVRAFVDWV 290 VQ Y + G LVE+L++W+PAP P VVY +NRH+S ++R F+DW+ Sbjct: 240 VQTFRYAAGPALARGELVEILTKWRPAPYPFHVVYPNNRHVSHRLRVFIDWL 291 >gi|300311868|ref|YP_003775960.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 243 bits (620), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 118/296 (39%), Positives = 175/296 (59%), Gaps = 2/296 (0%) Query: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLIQGLESLLQVRLLNRTTRRISLTP 60 M + +++F V + SF+ AA L LP +V+ IQ LE +L RLL RTTRR+ LT Sbjct: 1 MHQLDTLRIFQRVAELASFSGAARQLGLPNASVSLAIQQLEQMLGTRLLQRTTRRVQLTA 60 Query: 61 DGAAYYERCVRILADVDETEQSFRNVTRGPQGRLRIDVPGSIGRLMLLPNLCDFYTKYPD 120 DG A+Y R +L + + F + + GRLR+D+ ++ R ++LP L F K+P Sbjct: 61 DGEAFYRRSRELLDEFESLRGMFHDGAQALSGRLRVDMSSAMAREVVLPALPSFLDKHPQ 120 Query: 121 IELLMGMGDRPVDLVQEAVDCVIRIGQLQDSSMVARRIGTFQTVTCAAPSYLERHGVPHT 180 +E+ + DR VDLV E DCV+R G L DSS+VAR IG + CA+P YL R+G P T Sbjct: 121 LEIELSASDRRVDLVAEGFDCVLRTGTLDDSSLVARPIGHLVQINCASPEYLRRYGTPQT 180 Query: 181 LDDLQQHKAVHYFSSRTGRTIDWDFVVDGVSREVKMDGKLSVNDADAYVECALQGFGMVQ 240 L+DL QH+ VHY GR+ W++ +R + M G ++VN + Y L G G++Q Sbjct: 181 LEDLAQHRLVHYRQVLGGRSPGWEWFDGQQTRSLPMAGSITVNSTETYYAACLAGLGLIQ 240 Query: 241 APLYMVTRH--IDEGRLVEVLSQWKPAPLPISVVYLHNRHLSPKVRAFVDWVAELF 294 PL + +D G +VEVL Q++PAP+P+S++Y RH+ ++ F+DW+ L Sbjct: 241 LPLVGAQKRQMLDGGHVVEVLPQYRPAPMPVSLLYASRRHVPARLAGFMDWLHALI 296 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 199 bits (506), Expect = 3e-52, Method: Compositional matrix adjust. Identities = 104/295 (35%), Positives = 170/295 (57%), Gaps = 2/295 (0%) Query: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLIQGLESLLQVRLLNRTTRRISLTP 60 M++ + ++ F AV D SF +AA+ L + + V+ + LE+ L RL+ RTTRR+SLT Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 DGAAYYERCVRILADVDETEQSFRNVTRGPQGRLRIDVPGSIGRLMLLPNLCDFYTKYPD 120 GA Y ERC +I+A ++E + + + P G LRI+ P + G L L P F ++P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 IELLMGMGDRPVDLVQEAVDCVIRIGQLQDSSMVARRIGTFQTVTCAAPSYLERHGVPHT 180 I L + + DR VD++ E D IRI +L DS++V R++ + CA+P+YL+ HG P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 LDDLQQHKAVHYFSSRTGRTIDWDFVVDGVSREVKMDGKLSVNDADAYVECALQGFGMVQ 240 +L QH+ + Y +++ +W F V++ +L VN+ D+ V+ AL G G+ + Sbjct: 181 PHELAQHQTISYSYNQSKD--EWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITR 238 Query: 241 APLYMVTRHIDEGRLVEVLSQWKPAPLPISVVYLHNRHLSPKVRAFVDWVAELFA 295 P +M+ +++ G+LV +L + L I VY HL K+RA +D++ E FA Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFA 293 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 179 bits (453), Expect = 3e-46, Method: Compositional matrix adjust. Identities = 109/300 (36%), Positives = 156/300 (52%), Gaps = 4/300 (1%) Query: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLIQGLESLLQVRLLNRTTRRISLTP 60 MD+ QAMQ F AVV++ SF A D + V+ + LE L +RLL+RTTRR+SLT Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 61 DGAAYYERCVRILADVDETEQSFRNVTRGPQGRLRIDVPGSIGRLMLLPNLCDFYTKYPD 120 +G Y+ RC +L + + E + GRLRI P G L P F ++P Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 IELLMGMGDRPVDLVQEAVDCVIRIGQLQDSSMVARRIGTFQTVTCAAPSYLERHGVPHT 180 I L + + DR +DL++E D IRI L DS MVAR + + + CAAP +L RHG P T Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 LDDLQQHKAVHYFSSRTGRTIDWDFV-VDGVSREVKMDGKLSVNDADAYVECALQGFGMV 239 +L+ + + Y S R G DW F V G + +V++ + VN+ A+ G G+ Sbjct: 181 PAELRDYPFISY-SYRAGGD-DWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIA 238 Query: 240 QAPLYMVTRHIDEGRLVEVLSQWKPAP-LPISVVYLHNRHLSPKVRAFVDWVAELFATCP 298 P ++V I G+LVE+ W L + +Y HL PKV+ D++ E F P Sbjct: 239 IQPDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFRVPP 298 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 0.410 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: 996,316 Number of extensions: 40383 Number of successful extensions: 232 Number of sequences better than 1.0e-08: 52 Number of HSP's gapped: 175 Number of HSP's successfully gapped: 52 Length of query: 337 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 251 Effective length of database: 1,212,660 Effective search space: 304377660 Effective search space used: 304377660 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 131 (55.1 bits)