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= 0028.0180.p (311 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311165|ref|YP_003775257.1| transcription regulator protein... 599 e-173 gi|300312614|ref|YP_003776706.1| LysR family transcription regul... 160 9e-41 gi|300313217|ref|YP_003777309.1| LysR family transcription regul... 85 8e-18 gi|300311542|ref|YP_003775634.1| LysR family transcription regul... 81 9e-17 gi|300314076|ref|YP_003778168.1| LysR family transcription regul... 75 7e-15 >gi|300311165|ref|YP_003775257.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 599 bits (1545), Expect = e-173, Method: Compositional matrix adjust. Identities = 295/311 (94%), Positives = 301/311 (96%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD Sbjct: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 Query: 61 GSKALVYAERMVKLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGRLHKAFPRLQ 120 GSKALV+AERMVKLMREMK+DMSDREV+AGVIRIGVIESIVHSWFPDFLGRLHK FPRLQ Sbjct: 61 GSKALVHAERMVKLMREMKEDMSDREVYAGVIRIGVIESIVHSWFPDFLGRLHKTFPRLQ 120 Query: 121 IEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQVSNIALCEFPMRWVGSPKLDIGSETLS 180 IEIVSDTTIHLHEQFSK NLDLVLQAE VIGPQVSN+ALCEFPMRWVGSPKLDIGSETLS Sbjct: 121 IEIVSDTTIHLHEQFSKGNLDLVLQAEAVIGPQVSNLALCEFPMRWVGSPKLDIGSETLS 180 Query: 181 LADLAAFPIISFARNSGPHAVIERLFSGSERGERTLHINCIASVATMIRLATDGFGITAV 240 LADLAAFPIISFARNSGPHAVIERLFS S+R ERTLHINCIASVATMIRLATDGFGITAV Sbjct: 181 LADLAAFPIISFARNSGPHAVIERLFSDSQRSERTLHINCIASVATMIRLATDGFGITAV 240 Query: 241 PPAIIQRELNEESLHLLRVDTEFPALALIACFRSDHENPLTETVARIAQETASDFALNWG 300 PPAIIQRELNEESLHLLRVDTEFPAL LIA FRSDHENPLTETVARIAQETA+DFALNWG Sbjct: 241 PPAIIQRELNEESLHLLRVDTEFPALVLIASFRSDHENPLTETVARIAQETAADFALNWG 300 Query: 301 QEIARLPAPLG 311 EIARLPA L Sbjct: 301 HEIARLPASLN 311 >gi|300312614|ref|YP_003776706.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 160 bits (406), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 97/292 (33%), Positives = 157/292 (53%), Gaps = 3/292 (1%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 MN+RF+E F W A L++ AE+LH TQ+ +SSRIASLE++ GV L DR ++ LT Sbjct: 1 MNLRFVEAFHWAASLKSITRAAEKLHITQSTMSSRIASLEEELGVVLLDRREKQFRLTVA 60 Query: 61 GSKALVYAERMVKLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGRLHKAFPRLQ 120 G + A +++ + R+++ ++ +RIG IES+VHSW P +L + +P Sbjct: 61 GQRFQRLAVKLLDMQRQIRQELGGHSAGPLALRIGSIESVVHSWLPAWLQEIRCRYPDFA 120 Query: 121 IEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQVSNIALCEFPMRWVGSPKLDIGSETLS 180 +E+ +T+ L EQ + DLV + V + + M +VG + G+ + + Sbjct: 121 LELTVETSPVLTEQIRRGAQDLVFTSTVGSDTAVRSRLMTPMEMVFVGH-RERFGTRSHT 179 Query: 181 LADLAAFPIISFARNSGPHAVIERLFSGSERGERTLHINCIASVATMIRLATDGFGITAV 240 L +LAA +I+F R S PH + +L E G I+ I+S++ M++L GFG+ + Sbjct: 180 LEELAAHDLITFQRGSQPHQGLLQLC--QEWGVANPRIHAISSISAMVQLVEGGFGVATL 237 Query: 241 PPAIIQRELNEESLHLLRVDTEFPALALIACFRSDHENPLTETVARIAQETA 292 P A +++ L +LR + PAL + A +R D + L E V A E A Sbjct: 238 PRASVRQLTRRLPLRILRCQAQLPALQIHASYREDPSSSLAELVLDSALEHA 289 >gi|300313217|ref|YP_003777309.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 296 Score = 85.1 bits (209), Expect = 8e-18, Method: Compositional matrix adjust. Identities = 78/267 (29%), Positives = 118/267 (44%), Gaps = 29/267 (10%) Query: 1 MNIRFLETFVWLARLRNFRLT---------AERLHTTQAAVSSRIASLEQDFGVRLFDRS 51 MN LE + LA L FR AERL+ Q+ V++RI LEQ GV LF R Sbjct: 1 MNPSLLEIDMELAELEIFRTVVAEGGVTRAAERLNRVQSNVTTRIKQLEQSMGVPLFVRD 60 Query: 52 AREVALTADGSKALVYAERMVKLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGR 111 R + LTA G L YAER++ L +E + ++ + G +RIG +ES S P L Sbjct: 61 RRRMVLTAAGEALLDYAERILDLAQEARQAVAPQSP-RGRLRIGSMESAAASRLPGPLAE 119 Query: 112 LHKAFPRLQIEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQVSNIALCEFPM------- 164 H+ +P +++E+ + T L Q LD L A PV P L + Sbjct: 120 FHQRWPEVRLELSTAPTDVLMAQVRACKLDAALVAGPVSDPAFDATPLFREELLLVTPRS 179 Query: 165 -RWVGSPKLDIGSETLSLADLAAFPIISFARNSGPHAVIERLFSGSERGERTLHINCIAS 223 R V +P+ ++ +TL I F + E F+G G + +AS Sbjct: 180 HRRVRAPE-EVMLDTL----------IVFEQGCAYRRHAEAWFAGHGAGRQLPRTLELAS 228 Query: 224 VATMIRLATDGFGITAVPPAIIQRELN 250 ++ + G G+ VP ++I ++ Sbjct: 229 YHAILACVSAGAGVAVVPRSVIAMQME 255 >gi|300311542|ref|YP_003775634.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 81.3 bits (199), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 63/246 (25%), Positives = 108/246 (43%), Gaps = 11/246 (4%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 ++ R L+ F+ LA R+F A+R H +Q+A S+ I +E G RLF+R R V LT + Sbjct: 5 ISTRLLQAFLALADCRHFGHAAQRCHVSQSAFSAMIQKIEAAAGARLFERDTRNVTLTPE 64 Query: 61 GSKALVYAERMVKLMREMKDDMSDREV-FAGVIRIGVIESIVHSWFPDFLGRLHKAFPRL 119 G + A ++V + DMSD G + I + S+ W P L + +P + Sbjct: 65 GELFVQVARQLVSDIEAAFSDMSDYVARRKGRVAIAALPSLAAGWLPPVLADYRQRYPGV 124 Query: 120 QIEIVSDTTIHLHEQFSKSNLDLVLQAEPVIGPQV---SNIALCEFPMRWVGSPKLDIGS 176 +E+ + + +D+ L A GP + LC P V + S Sbjct: 125 TVELFDAISDQCLDLLRHGKVDIALTAP---GPNLLEFDTRPLCSDPFYLVCRKDHKLAS 181 Query: 177 E-TLSLADLAAFPIISFARNSGPHAVIERLFSGSERGERTLHINCIASVATMIRLATDGF 235 + + + LA +I AR++ ++ + L + +A+VA +I G Sbjct: 182 KRRIKVPQLAGCEMIHLARSTSVRQHLDAVLRPGGVIHTGLEVEHLATVAALIE---SGL 238 Query: 236 GITAVP 241 G++ VP Sbjct: 239 GVSVVP 244 >gi|300314076|ref|YP_003778168.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 75.1 bits (183), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 74/297 (24%), Positives = 127/297 (42%), Gaps = 14/297 (4%) Query: 1 MNIRFLETFVWLARLRNFRLTAERLHTTQAAVSSRIASLEQDFGVRLFDRSAREVALTAD 60 M++ L F+ +A N A++LH TQ AVS +I L++ G++LF+RSA + LTA+ Sbjct: 1 MDLTQLRAFISVAHEGNLTRAADKLHLTQPAVSLQIKGLQESLGLQLFNRSAAGMVLTAE 60 Query: 61 GSKALVYAERMV----KLMREMKDDMSDREVFAGVIRIGVIESIVHSWFPDFLGRLHKAF 116 G+K L AER++ +L R D S +G + IG I FL L + Sbjct: 61 GNKLLPLAERVLADVQELRRHAADFRSSTGELSGSLAIGTILDPEFIRLGGFLKLLVERH 120 Query: 117 PRLQIEIVSDTTIHLHEQFSKSNLDL-VLQAEPVIGPQVSNIALCEFPMRWVGSPKLDIG 175 P+L ++ + + + LD+ P G Q ++ L F + + Sbjct: 121 PQLSTQLAHHMSGSVLNEIRAGKLDVGFFLGAPGQGFQ--SMELTSFTYKVIAPAGWKNR 178 Query: 176 SETLSLADLAAFPIISFARNSGPHAVIERLFSGSERGERTLHINCIASVATMIRLATDGF 235 +L+ P I S H ++ R+F+ + T + + ++M+ L G Sbjct: 179 VSGKGWKELSRLPWIWTPPESAHHRLLSRIFAQHQVKPHT--VALVDQESSMLDLVKSGV 236 Query: 236 GITAVPPAIIQRELNEESLHLLRV--DTEFPALALIACFRSDHENPLTETVARIAQE 290 G++ +I LN+ H L + E C +P+ + V R+ QE Sbjct: 237 GLSLARASI---ALNQAHAHGLVIADAVELSTQLSFICLEKWQHDPVIQAVFRLLQE 290 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 0.398 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: 903,700 Number of extensions: 35669 Number of successful extensions: 260 Number of sequences better than 1.0e-08: 35 Number of HSP's gapped: 260 Number of HSP's successfully gapped: 35 Length of query: 311 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 226 Effective length of database: 1,217,395 Effective search space: 275131270 Effective search space used: 275131270 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: 40 (21.5 bits) S2: 130 (54.7 bits)