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= 0007.0142.p (317 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 145 3e-36 gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 138 5e-34 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 135 4e-33 gi|300312196|ref|YP_003776288.1| LysR family transcription regul... 128 5e-31 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 126 3e-30 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 145 bits (367), Expect = 3e-36, Method: Compositional matrix adjust. Identities = 92/304 (30%), Positives = 148/304 (48%), Gaps = 9/304 (2%) Query: 1 MDRFLSIEAFVTVAKAESFAEAARQMRVSKSVITTRVQQLEDYVGAPLFHRNTRNVRLSE 60 MDR S+ F V + SF AA + +S +V T + LE ++G L +R+TR + L+E Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 IGQSFFEECSDLVCKTDELVDQMRVHKGTLAGQLKVHALPGFVLGHLAACLRDFQEQYQE 120 GQ++ E ++ + D+ + + AG L ++ GF L L + + Y E Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 IVLDLLVNDAVVDPIKAGVD----CSLQIFHPRTEELIARKIFPVRRVFCVSDDYIARHG 176 + LD+ +++ +D ++ G+D S+Q F +I R++ R + C S YIAR G Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDA---SMIVRQLGVARVILCTSPAYIARQG 177 Query: 177 MPTGPRDLHEHKMGLYSGYPTRDRWIFHQGGEKIVLDLKPSLRSNSVHLLKEYALEGAGI 236 P P DL H +S R W + G + + + + SNS LL++ AL G GI Sbjct: 178 APEQPEDLSRHNCLNFSHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGI 237 Query: 237 VCIPTLVASESILRGDLRLVLPDWQLSSFWLSIVYPRSHRGGAKLNVFAQALQARF--AG 294 V P+ + + G L VLP + + +S+VYP AK+ FA+ + ARF Sbjct: 238 VLRPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFISARFPHPE 297 Query: 295 EPPW 298 PW Sbjct: 298 NDPW 301 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 138 bits (348), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 89/308 (28%), Positives = 146/308 (47%), Gaps = 13/308 (4%) Query: 1 MDRFLSIEAFVTVAKAESFAEAARQMRVSKSVITTRVQQLEDYVGAPLFHRNTRNVRLSE 60 MDR ++++ FVTV + S + AA Q+ +S+ V++ V +LED+VGA L HR TR + L+ Sbjct: 1 MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 Query: 61 IGQSFFEECSDLVCKTDELVDQMRVHKGTLAGQLKVHALPGFVLGHLAACLRDFQEQYQE 120 G C ++ ++++ + T G L++ A F L + ++ +Y Sbjct: 61 AGNELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPG 120 Query: 121 IVLDLLVNDAVVDPIKAGVDCSLQIFHPRTEELIARKIFPVRRVFCVSDDYIARHGMPTG 180 + +DLL D V+ ++ +D ++++ + LIAR + R + C + DY+ARHG+P Sbjct: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARPLGVCRSIICATPDYLARHGLPRK 180 Query: 181 PRDLHEHKMGLYSGYPTRDRWIFHQGGEKI-----VLDLKP-------SLRSNSVHLLKE 228 DL H L Y R W F +K KP S+ +N V +L + Sbjct: 181 VEDLALHNC-LTHSYVGRSLWQFDPKKKKARSGRGASAAKPQSVAVGGSISANEVTVLLQ 239 Query: 229 YALEGAGIVCIPTLVASESILRGDLRLVLPDWQLSSFWLSIVYPRSHRGGAKLNVFAQAL 288 L G GI +P + + G L +LPD++ + VY A L L Sbjct: 240 AVLAGVGIGHMPAYTVAPLVASGQLVQLLPDYEPLQLGMYGVYASRKHMPATLRTMLDFL 299 Query: 289 QARFAGEP 296 RFAG+P Sbjct: 300 AQRFAGQP 307 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 135 bits (340), Expect = 4e-33, Method: Compositional matrix adjust. Identities = 86/293 (29%), Positives = 138/293 (47%) Query: 1 MDRFLSIEAFVTVAKAESFAEAARQMRVSKSVITTRVQQLEDYVGAPLFHRNTRNVRLSE 60 M++ IE F+ VA SF +AA + +SK+ ++ V +LE +G+ L R TR + L+E Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 IGQSFFEECSDLVCKTDELVDQMRVHKGTLAGQLKVHALPGFVLGHLAACLRDFQEQYQE 120 G + E C +V +E D + G L+++A F + HLA F E++ E Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 IVLDLLVNDAVVDPIKAGVDCSLQIFHPRTEELIARKIFPVRRVFCVSDDYIARHGMPTG 180 I LD+ ++D +VD I G D +++I L+ RK+ C S Y+ HG P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAH 180 Query: 181 PRDLHEHKMGLYSGYPTRDRWIFHQGGEKIVLDLKPSLRSNSVHLLKEYALEGAGIVCIP 240 P +L +H+ YS ++D W F+ + + + L N+ + AL G GI P Sbjct: 181 PHELAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQP 240 Query: 241 TLVASESILRGDLRLVLPDWQLSSFWLSIVYPRSHRGGAKLNVFAQALQARFA 293 T + + + G L +L D+ + VYP AK+ L FA Sbjct: 241 TFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTEAFA 293 >gi|300312196|ref|YP_003776288.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 128 bits (322), Expect = 5e-31, Method: Compositional matrix adjust. Identities = 78/300 (26%), Positives = 146/300 (48%), Gaps = 3/300 (1%) Query: 1 MDRFLSIEAFVTVAKAESFAEAARQMRVSKSVITTRVQQLEDYVGAPLFHRNTRNVRLSE 60 MD+ +++ FV V ++ SF A SK ++ +V +LE ++G L HR TR + L++ Sbjct: 1 MDKLQAMQTFVAVVESGSFVAAVDVTGQSKPAVSRQVSELEQFLGIRLLHRTTRRLSLTD 60 Query: 61 IGQSFFEECSDLVCKTDELVDQMRVHKGTLAGQLKVHALPGFVLGHLAACLRDFQEQYQE 120 G+ +F C +L+ ++ ++ ++ G+L++ A F + LA F EQ+ Sbjct: 61 EGRVYFARCKELLETIQDVESEVGLNSDQACGRLRIGAPQDFGVEQLAPLWGKFTEQHPL 120 Query: 121 IVLDLLVNDAVVDPIKAGVDCSLQIFHPRTEELIARKIFPVRRVFCVSDDYIARHGMPTG 180 I L++ ++D +D ++ G D +++I ++AR + PVR + C + +++ARHG P Sbjct: 121 ITLNITLSDRTIDLLEEGFDMAIRISALGDSRMVARPLAPVRMIACAAPEFLARHGTPGT 180 Query: 181 PRDLHEHKMGLYSGYPTRDRWIF-HQGGEKIVLDLKPSLRSNSVHLLKEYALEGAGIVCI 239 P +L ++ YS D W F H G+ + ++ ++ N+ + A+ G GI Sbjct: 181 PAELRDYPFISYSYRAGGDDWSFRHVHGDTCQVRVRSTVYVNNGATCRAMAIAGQGIAIQ 240 Query: 240 PTLVASESILRGDLRLVLPDWQLS-SFWLSIVYPRSHRGGAKLNVFAQALQARFAGEPPW 298 P + + +I G L + W + +YP K+ L +F PPW Sbjct: 241 PDFIVNAAIQAGQLVELFEGWSTGEQLVVHTLYPTRTHLPPKVQRMRDFLIEQFR-VPPW 299 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 126 bits (316), Expect = 3e-30, Method: Compositional matrix adjust. Identities = 86/298 (28%), Positives = 136/298 (45%), Gaps = 2/298 (0%) Query: 1 MDRFLSIEAFVTVAKAESFAEAARQMRVSKSVITTRVQQLEDYVGAPLFHRNTRNVRLSE 60 MDRF +++ F V A SF AA + + ++ +TT VQ LE + L +R TR + L+ Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 IGQSFFEECSDLVCKTDELVDQMRVHKGTLAGQLKVHALPGFVLGHLAACLRDFQEQYQE 120 G +++E C ++ DE R G+L++ L L DF +Y + Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 IVLDLLVNDAVVDPIKAGVDCSLQIFHPRTEELIARKIFPVRRVFCVSDDYIARHGMPTG 180 I L + + D VD ++ VDC ++I + ++AR+I + V C + Y+ RHG+P Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 181 PRDLHEHKMGLYSGYPTRDR--WIFHQGGEKIVLDLKPSLRSNSVHLLKEYALEGAGIVC 238 DL +HK Y T W F G + + L N E AL+G G+V Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDFVVEGVTREVKMNGKLAVNEADAYVECALQGFGMVQ 240 Query: 239 IPTLVASESILRGDLRLVLPDWQLSSFWLSIVYPRSHRGGAKLNVFAQALQARFAGEP 296 P + + I G L VL W+ + +S+VY + K+ F + FA P Sbjct: 241 APLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVAELFATCP 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 0.138 0.416 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: 932,302 Number of extensions: 37640 Number of successful extensions: 220 Number of sequences better than 1.0e-08: 46 Number of HSP's gapped: 183 Number of HSP's successfully gapped: 46 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 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: 130 (54.7 bits)