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= 0001.0058.p (308 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... 187 1e-48 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 184 1e-47 gi|300311868|ref|YP_003775960.1| LysR family transcription regul... 166 2e-42 gi|300312334|ref|YP_003776426.1| transcription regulator protein... 162 3e-41 gi|300311929|ref|YP_003776021.1| LysR family transcription regul... 161 5e-41 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 187 bits (474), Expect = 1e-48, Method: Compositional matrix adjust. Identities = 99/294 (33%), Positives = 167/294 (56%), Gaps = 5/294 (1%) Query: 1 MDSFNGIAVFIQAVEAGSFIRAAQRLHLSRSAVGKSIARLEERLGVRLFLRNTRSQSLTE 60 M+ I FI + GSF++AA+ L +S++AV +++ LE RLG RL R TR SLTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 EGRAYYQRCLRALEELESGQALVAEGRCEPTGRVHISSPVLFGRMCVAPVLVELARRWPQ 120 G Y +RC + + LE L++ G +PTG + I++P+ FG + +AP+ R P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 LDITASFTDRRVDLVEEGVDLVLRSGPLPDTSHLVARKMGVQTMMLCASPQYLADHGRPR 180 + + + +DR VD+++EG D+ +R L D++ LV RK+ ++ +CASP YL HG P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDST-LVHRKLTSTSLHVCASPAYLDAHGTPA 179 Query: 181 HFSDLARHHAILYGKTTG---WPIRDEEGKVRMAPVTSRLHFDDLEAIAAATVAGAGLAH 237 H +LA+H I Y W EG V + V+SRLH ++ ++ A + G G+ Sbjct: 180 HPHELAQHQTISYSYNQSKDEWQFNGPEGPVSVR-VSSRLHVNNGDSCVQAALGGIGITR 238 Query: 238 LPCWLISTHVKAGRLVKLMPEESFATIDMHLAWSPTRHLPLRIRTVIDALAAAL 291 P ++I ++++G+LV ++ + + ++ + HLP ++R ++D L A Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAF 292 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 184 bits (466), Expect = 1e-47, Method: Compositional matrix adjust. Identities = 103/293 (35%), Positives = 157/293 (53%), Gaps = 7/293 (2%) Query: 1 MDSFNGIAVFIQAVEAGSFIRAAQRLHLSRSAVGKSIARLEERLGVRLFLRNTRSQSLTE 60 MD F + VF V+A SF RAA L+L R+ V + LE L VRL R TR SLT Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 EGRAYYQRCLRALEELESGQALVAEGRCEPTGRVHISSPVLFGRMCVAPVLVELARRWPQ 120 +G AYY+RC+R L +L+ + P GR+ I P GR+ + P L + R+P Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 LDITASFTDRRVDLVEEGVDLVLRSGPLPDTSHLVARKMGVQTMMLCASPQYLADHGRPR 180 +++ DR VDLV+E VD V+R G L D+S +VAR++G + CA+P YL HG P Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSS-MVARRIGTFQTVTCAAPAYLERHGVPH 179 Query: 181 HFSDLARHHAILY-----GKTTGWPIRDEEGKVRMAPVTSRLHFDDLEAIAAATVAGAGL 235 DL +H A+ Y G+T W EG R + +L ++ +A + G G+ Sbjct: 180 TIEDLQQHKAVHYFSSRTGRTIDWDFV-VEGVTREVKMNGKLAVNEADAYVECALQGFGM 238 Query: 236 AHLPCWLISTHVKAGRLVKLMPEESFATIDMHLAWSPTRHLPLRIRTVIDALA 288 P ++++ H+ GRLV+++ + A + + + + RHL ++R +D +A Sbjct: 239 VQAPLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVA 291 >gi|300311868|ref|YP_003775960.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 307 Score = 166 bits (421), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 108/307 (35%), Positives = 164/307 (53%), Gaps = 13/307 (4%) Query: 1 MDSFNGIAVFIQAVEAGSFIRAAQRLHLSRSAVGKSIARLEERLGVRLFLRNTRSQSLTE 60 M + + +F + E SF AA++L L ++V +I +LE+ LG RL R TR LT Sbjct: 1 MHQLDTLRIFQRVAELASFSGAARQLGLPNASVSLAIQQLEQMLGTRLLQRTTRRVQLTA 60 Query: 61 EGRAYYQRCLRALEELESGQALVAEGRCEPTGRVHISSPVLFGRMCVAPVLVELARRWPQ 120 +G A+Y+R L+E ES + + +G +GR+ + R V P L + PQ Sbjct: 61 DGEAFYRRSRELLDEFESLRGMFHDGAQALSGRLRVDMSSAMAREVVLPALPSFLDKHPQ 120 Query: 121 LDITASFTDRRVDLVEEGVDLVLRSGPLPDTSHLVARKMGVQTMMLCASPQYLADHGRPR 180 L+I S +DRRVDLV EG D VLR+G L D+S LVAR +G + CASP+YL +G P+ Sbjct: 121 LEIELSASDRRVDLVAEGFDCVLRTGTLDDSS-LVARPIGHLVQINCASPEYLRRYGTPQ 179 Query: 181 HFSDLARHHAILY-----GKTTGWPIRDEEGKVRMAPVTSRLHFDDLEAIAAATVAGAGL 235 DLA+H + Y G++ GW D + + R P+ + + E AA +AG GL Sbjct: 180 TLEDLAQHRLVHYRQVLGGRSPGWEWFDGQ-QTRSLPMAGSITVNSTETYYAACLAGLGL 238 Query: 236 AHLPCWLISTH----VKAGRLVKLMPEESFATIDMHLAWSPTRHLPLRIRTVIDALAAAL 291 LP L+ + G +V+++P+ A + + L ++ RH+P R+ +D L A + Sbjct: 239 IQLP--LVGAQKRQMLDGGHVVEVLPQYRPAPMPVSLLYASRRHVPARLAGFMDWLHALI 296 Query: 292 PPLLGVG 298 PL G Sbjct: 297 FPLTQEG 303 >gi|300312334|ref|YP_003776426.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 302 Score = 162 bits (411), Expect = 3e-41, Method: Compositional matrix adjust. Identities = 98/290 (33%), Positives = 156/290 (53%), Gaps = 5/290 (1%) Query: 1 MDSFNGIAVFIQAVEAGSFIRAAQRLHLSRSAVGKSIARLEERLGVRLFLRNTRSQSLTE 60 MD F I+ F + GS AA+ ++ + +G+ + LEERLGV+L R TR LT Sbjct: 1 MDQFKQISTFAEVAARGSLSAAARAEGIAPAMIGRRLDALEERLGVKLLQRTTRKIVLTN 60 Query: 61 EGRAYYQRCLRALEELESGQALVAEGRCEPTGRVHISSPVLFGRMCVAPVLVELARRWPQ 120 EG A+ + C R L +LE ++ V+E +G++ IS+P FGR VAP+L Sbjct: 61 EGAAFLEDCQRILADLEDAESAVSERSARASGQLLISAPAGFGRQHVAPLLPSFLAEHRD 120 Query: 121 LDITASFTDRRVDLVEEGVDLVLRSGPLPDTSHLVARKMGVQTMMLCASPQYLADHGRPR 180 + +T + DR D++ EG+D+ +R L D S+LV+ K+ ++ A+P YL HG P+ Sbjct: 121 VTLTLNLNDRIADVIGEGIDVAIRIATLTD-SNLVSVKLAENHRVIVAAPAYLRRHGTPQ 179 Query: 181 HFSDLARHHAILY---GKTTGWPIRDEEGKVRMAPVTSRLHFDDLEAIAAATVAGAGLAH 237 +L RH+ + G GW +R + GKV + V + +D E + +AG GLA Sbjct: 180 SPDELMRHNCLAMSSEGSQRGWTLR-QSGKVSVYKVGGNMVCNDGEVLHNWALAGRGLAW 238 Query: 238 LPCWLISTHVKAGRLVKLMPEESFATIDMHLAWSPTRHLPLRIRTVIDAL 287 W + ++AG LV ++ + + ++ ++ RHLPLRIR +D L Sbjct: 239 RSMWEVGAAIEAGELVTVLDKFAAPAPSIYAVFAQRRHLPLRIRAFVDFL 288 >gi|300311929|ref|YP_003776021.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 161 bits (408), Expect = 5e-41, Method: Compositional matrix adjust. Identities = 101/302 (33%), Positives = 160/302 (52%), Gaps = 12/302 (3%) Query: 1 MDSFN-----GIAVFIQAVEAGSFIRAAQRLHLSRSAVGKSIARLEERLGVRLFLRNTRS 55 M SF+ I +F +A E GSF AA+ L L+ ++V +SI+RLE RLGVRLF R TR Sbjct: 1 MRSFDPVQLGSIELFCKAAELGSFTAAAEALGLTPASVSRSISRLESRLGVRLFARTTRQ 60 Query: 56 QSLTEEGRAYYQRCLRALEELESGQALVAEGRCEPTGRVHISSPVLFGRMCVAPVLVELA 115 LT EG Y +C +ALE++ + ++ + P+G + IS + + P+L Sbjct: 61 IRLTREGELYRDQCQQALEQIADAERILTGQQKVPSGLLRISVGTPYAHYRLLPLLPRFQ 120 Query: 116 RRWPQLDITASFTDRRVDLVEEGVDLVLRSGPLPDTSHLVARKMGVQTMMLCASPQYLAD 175 + +PQ+++ S +R VD VEEG DL +R G PD S L+A + T+ L A+P YLA Sbjct: 121 QAYPQIEVELSIANRVVDFVEEGYDLAIRLGVPPD-SRLIAHTLEEATLGLFAAPAYLAR 179 Query: 176 HGRPRHFSDLARHHAILY-----GKTTGWPIRDEEGKVRMAPVTSRLHF-DDLEAIAAAT 229 G+PR ++L +H I + G+ W +D +G+ SR DD+ Sbjct: 180 RGQPRSIAELEQHDCIQFILPSSGRAMPWIFKDAQGRDMDFHFKSRQRIHDDVLGCVNWA 239 Query: 230 VAGAGLAHLPCWLISTHVKAGRLVKLMPEESFATIDMHLAWSPTRHLPLRIRTVIDALAA 289 +AG GL + ++ V+ G LV+++ + + T + + RHL R+R ++ L Sbjct: 240 IAGGGLFQIYHFIADAAVRRGELVEVLQQAGYRTRRFSILYPHNRHLSARVRAFVEFLRQ 299 Query: 290 AL 291 A+ Sbjct: 300 AV 301 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 0.324 0.137 0.414 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: 823,000 Number of extensions: 31466 Number of successful extensions: 304 Number of sequences better than 1.0e-08: 55 Number of HSP's gapped: 247 Number of HSP's successfully gapped: 55 Length of query: 308 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 223 Effective length of database: 1,217,395 Effective search space: 271479085 Effective search space used: 271479085 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)