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= 0013.0268.p (339 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... 598 e-172 gi|300313746|ref|YP_003777838.1| LysR family transcription regul... 259 2e-70 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 243 1e-65 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 200 1e-52 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 181 9e-47 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 598 bits (1543), Expect = e-172, Method: Compositional matrix adjust. Identities = 277/339 (81%), Positives = 309/339 (91%), Gaps = 2/339 (0%) Query: 1 MDRFQAMQVFSAVVDANSFTRAADNLNLPRTTVTTIVQGLESLLQVRLLNRTTRRISLTP 60 MDRFQAMQVF+AVVDANSFTRAADNLNLPRTTVTT+VQGLES+LQVRLLNRTTRRISLTP Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 DGAAYYERCVRILAEVDETEASFRNVTRGPQGRLRIDVPASIGRLLLLPNLCDFYAKYPD 120 DGAAYYERCVRILA++DETE SFRNVTRGPQGRLRIDVPAS+GRL+LLPNLCDFY +YPD Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 IELVMGMSDRPVDMVQEAVDCVIRVGDLQDSSMVARRIGTFQAVTCGSPTYFERHGMPHT 180 IEL+MGM DRPVD+VQEAVDCVIR+G+LQDSSMVARRIGTFQ VTC +P Y ERHG+PHT Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 181 IEDLQNHKSVHYFSSRTGRTIDWDFMVDGVAREVKMAGKLSVNDGDAYVACALQGFGLVQ 240 IEDLQ HK+VHYFSSRTGRTIDWDF+V+GV REVKM GKL+VN+ DAYV CALQGFG+VQ Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 241 APLYMIQPFLEDGRLVEILSQWKPVPMAISVVYLHNRHLSPKVRAFVDWVAELFATCPLQ 300 APLYM+ +++GRLVE+LSQWKP PM ISVVYLHNRHLSPKVRAFVDWVAELFATCPL Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAELFATCPLH 300 Query: 301 KGCQMGIAADAKESHFTSKPESNTIRAVIEQHNIAESVF 339 K C MG+ + E F K E++T+R V+EQ+NIAESVF Sbjct: 301 KACTMGM--EESECRFVDKAETSTVRNVVEQYNIAESVF 337 >gi|300313746|ref|YP_003777838.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 259 bits (663), Expect = 2e-70, Method: Compositional matrix adjust. Identities = 134/292 (45%), Positives = 204/292 (69%), Gaps = 3/292 (1%) Query: 1 MDRFQAMQVFSAVVDANSFTRAADNLNLPRTTVTTIVQGLESLLQVRLLNRTTRRISLTP 60 MD+ A++ F+ VV+A +FTRAAD+L++P T++ +V+ LE+ L VRLL RTTRR+S+TP Sbjct: 1 MDQLLAIRAFARVVEAGNFTRAADSLDMPNATLSKLVRELEAHLGVRLLQRTTRRVSVTP 60 Query: 61 DGAAYYERCVRILAEVDETEASFRNVTRG-PQGRLRIDVPASIGRLLLLPNLCDFYAKYP 119 +G YYE+ R++ ++++ + SF N RG P+G+LRIDV S R +L+P L DF A+YP Sbjct: 61 EGLDYYEKTGRLVRDLEDIDTSF-NAARGNPRGKLRIDVGGSTARDVLIPALPDFLARYP 119 Query: 120 DIELVMGMSDRPVDMVQEAVDCVIRVGDLQDSSMVARRIGTFQAVTCGSPTYFERHGMPH 179 DI + +G+SDRPVD++ ++VDCVIR G L +SS+VAR+IG + VTC +P Y ++ G+P Sbjct: 120 DISIDLGVSDRPVDLIGDSVDCVIRGGPLDNSSLVARQIGQARMVTCATPAYLKQFGVPA 179 Query: 180 TIEDLQN-HKSVHYFSSRTGRTIDWDFMVDGVAREVKMAGKLSVNDGDAYVACALQGFGL 238 ++L+N H+ + Y S ++GR + F G E+K ++ VN+ +A++A AL G G+ Sbjct: 180 YPDELKNGHRLISYLSPQSGRAFPFRFERKGEKIEIKTEHRIGVNESNAHLAAALAGLGI 239 Query: 239 VQAPLYMIQPFLEDGRLVEILSQWKPVPMAISVVYLHNRHLSPKVRAFVDWV 290 VQ Y P L G LVEIL++W+P 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 (621), Expect = 1e-65, Method: Compositional matrix adjust. Identities = 118/296 (39%), Positives = 173/296 (58%), Gaps = 2/296 (0%) Query: 1 MDRFQAMQVFSAVVDANSFTRAADNLNLPRTTVTTIVQGLESLLQVRLLNRTTRRISLTP 60 M + +++F V + SF+ AA L LP +V+ +Q LE +L RLL RTTRR+ LT Sbjct: 1 MHQLDTLRIFQRVAELASFSGAARQLGLPNASVSLAIQQLEQMLGTRLLQRTTRRVQLTA 60 Query: 61 DGAAYYERCVRILAEVDETEASFRNVTRGPQGRLRIDVPASIGRLLLLPNLCDFYAKYPD 120 DG A+Y R +L E + F + + GRLR+D+ +++ R ++LP L F K+P Sbjct: 61 DGEAFYRRSRELLDEFESLRGMFHDGAQALSGRLRVDMSSAMAREVVLPALPSFLDKHPQ 120 Query: 121 IELVMGMSDRPVDMVQEAVDCVIRVGDLQDSSMVARRIGTFQAVTCGSPTYFERHGMPHT 180 +E+ + SDR VD+V E DCV+R G L DSS+VAR IG + C SP Y R+G P T Sbjct: 121 LEIELSASDRRVDLVAEGFDCVLRTGTLDDSSLVARPIGHLVQINCASPEYLRRYGTPQT 180 Query: 181 IEDLQNHKSVHYFSSRTGRTIDWDFMVDGVAREVKMAGKLSVNDGDAYVACALQGFGLVQ 240 +EDL H+ VHY GR+ W++ R + MAG ++VN + Y A L G GL+Q Sbjct: 181 LEDLAQHRLVHYRQVLGGRSPGWEWFDGQQTRSLPMAGSITVNSTETYYAACLAGLGLIQ 240 Query: 241 APLYMIQP--FLEDGRLVEILSQWKPVPMAISVVYLHNRHLSPKVRAFVDWVAELF 294 PL Q L+ G +VE+L Q++P PM +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 = 200 bits (508), Expect = 1e-52, Method: Compositional matrix adjust. Identities = 106/295 (35%), Positives = 167/295 (56%), Gaps = 2/295 (0%) Query: 1 MDRFQAMQVFSAVVDANSFTRAADNLNLPRTTVTTIVQGLESLLQVRLLNRTTRRISLTP 60 M++ + ++ F AV D SF +AA+ L + + V+ V LE+ L RL+ RTTRR+SLT Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 DGAAYYERCVRILAEVDETEASFRNVTRGPQGRLRIDVPASIGRLLLLPNLCDFYAKYPD 120 GA Y ERC +I+A ++E + + + P G LRI+ P + G L L P F ++P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 IELVMGMSDRPVDMVQEAVDCVIRVGDLQDSSMVARRIGTFQAVTCGSPTYFERHGMPHT 180 I L + +SDR VD++ E D IR+ L DS++V R++ + C SP Y + HG P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 IEDLQNHKSVHYFSSRTGRTIDWDFMVDGVAREVKMAGKLSVNDGDAYVACALQGFGLVQ 240 +L H+++ Y +++ +W F V+++ +L VN+GD+ V AL G G+ + Sbjct: 181 PHELAQHQTISYSYNQSKD--EWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITR 238 Query: 241 APLYMIQPFLEDGRLVEILSQWKPVPMAISVVYLHNRHLSPKVRAFVDWVAELFA 295 P +MI +L G+LV IL + + I VY HL K+RA +D++ E FA Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFA 293 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 181 bits (458), Expect = 9e-47, Method: Compositional matrix adjust. Identities = 111/296 (37%), Positives = 161/296 (54%), Gaps = 5/296 (1%) Query: 1 MDRFQAMQVFSAVVDANSFTRAADNLNLPRTTVTTIVQGLESLLQVRLLNRTTRRISLTP 60 MDR Q+M+VF+ VV+ SF RAA+ L++ T + LE+ L RLLNR+TRR+SLT Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 DGAAYYERCVRILAEVDETEASFRNVTRGPQGRLRIDVPASIGRLLLLPNLCDFYAKYPD 120 G AY ER ILAEVD+ EA T+ P G L I A G+ L L + YP+ Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 IELVMGMSDRPVDMVQEAVDCVIRVGDLQ--DSSMVARRIGTFQAVTCGSPTYFERHGMP 178 + L + +S+R +D+V+E +D +Q D+SM+ R++G + + C SP Y R G P Sbjct: 121 VALDISLSERSIDLVEEGIDIGF-FSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAP 179 Query: 179 HTIEDLQNHKSVHYFSSRTGRTIDWDFMVDGVAREVKMAGKLSVNDGDAYVACALQGFGL 238 EDL H ++ FS R W +G +V + K+ N G AL G G+ Sbjct: 180 EQPEDLSRHNCLN-FSHEYLRH-HWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGI 237 Query: 239 VQAPLYMIQPFLEDGRLVEILSQWKPVPMAISVVYLHNRHLSPKVRAFVDWVAELF 294 V P Y + L GRLV++L + + +S+VY R LS KVR+F ++++ F Sbjct: 238 VLRPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFISARF 293 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 0.136 0.406 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: 986,301 Number of extensions: 39501 Number of successful extensions: 241 Number of sequences better than 1.0e-08: 49 Number of HSP's gapped: 189 Number of HSP's successfully gapped: 49 Length of query: 339 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 253 Effective length of database: 1,212,660 Effective search space: 306802980 Effective search space used: 306802980 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)