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= 0001.4506.p (305 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 575 e-165 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 205 4e-54 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 204 5e-54 gi|300309660|ref|YP_003773752.1| LysR family transcription regul... 194 9e-51 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 182 3e-47 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 575 bits (1483), Expect = e-165, Method: Compositional matrix adjust. Identities = 282/308 (91%), Positives = 294/308 (95%), Gaps = 3/308 (0%) Query: 1 MDRLMAMQVFVAVVDGGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 MDRLMAMQVFV VVD GSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP Sbjct: 1 MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 Query: 61 AGNELLPRCRQMLEYSDDMRHALEAPDETPRGLLRITTSTSFAQTQLIQAVVDYGQRYPG 120 AGNELLPRCRQMLEYS+DMRHAL+APDETPRGLLRIT STSFAQTQLIQAVV+YG+RYPG Sbjct: 61 AGNELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPG 120 Query: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARQLGVCRSVICATPAYLARHGLPRK 180 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIAR LGVCRS+ICATP YLARHGLPRK Sbjct: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARPLGVCRSIICATPDYLARHGLPRK 180 Query: 181 VEDLALHNCLTHSYVGRSLWQFDPKRKTTKA---SQKAKTQTVAVGGSISANEVTVLLQA 237 VEDLALHNCLTHSYVGRSLWQFDPK+K ++ + AK Q+VAVGGSISANEVTVLLQA Sbjct: 181 VEDLALHNCLTHSYVGRSLWQFDPKKKKARSGRGASAAKPQSVAVGGSISANEVTVLLQA 240 Query: 238 VLAGVGIGHMPAYMVAPLVASGQLVRLLPEYEPLQLGMYGVYASRKHMPATLRTMLDFLA 297 VLAGVGIGHMPAY VAPLVASGQLV+LLP+YEPLQLGMYGVYASRKHMPATLRTMLDFLA Sbjct: 241 VLAGVGIGHMPAYTVAPLVASGQLVQLLPDYEPLQLGMYGVYASRKHMPATLRTMLDFLA 300 Query: 298 QRFAGQPF 305 QRFAGQPF Sbjct: 301 QRFAGQPF 308 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 205 bits (521), Expect = 4e-54, Method: Compositional matrix adjust. Identities = 118/305 (38%), Positives = 172/305 (56%), Gaps = 16/305 (5%) Query: 1 MDRLMAMQVFVAVVDGGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 M++L ++ F+AV D GS AAE L +S+ VSR V ELE +G+RL+ RTTRRLSLT Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGNELLPRCRQM---LEYSDDMRHALEAPDETPRGLLRITTSTSFAQTQLIQAVVDYGQR 117 AG L RC+Q+ LE +DD+ L + P GLLRI +F L + +R Sbjct: 61 AGALYLERCKQIVAALEEADDL---LSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLER 117 Query: 118 YPGVAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARQLGVCRSVICATPAYLARHGL 177 +P +++D+ DR V++++E D+AIR+ + L+ R+L +CA+PAYL HG Sbjct: 118 HPEISLDITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGT 177 Query: 178 PRKVEDLALHNCLTHSYV-GRSLWQFDPKRKTTKASQKAKTQTVAVGGSISANEVTVLLQ 236 P +LA H +++SY + WQF+ +V V + N +Q Sbjct: 178 PAHPHELAQHQTISYSYNQSKDEWQFNGPEGPV---------SVRVSSRLHVNNGDSCVQ 228 Query: 237 AVLAGVGIGHMPAYMVAPLVASGQLVRLLPEYEPLQLGMYGVYASRKHMPATLRTMLDFL 296 A L G+GI P +M+ + SGQLV +L +Y +LG+Y VY SR H+PA +R MLDFL Sbjct: 229 AALGGIGITRQPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFL 288 Query: 297 AQRFA 301 + FA Sbjct: 289 TEAFA 293 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 204 bits (520), Expect = 5e-54, Method: Compositional matrix adjust. Identities = 117/303 (38%), Positives = 177/303 (58%), Gaps = 13/303 (4%) Query: 1 MDRLMAMQVFVAVVDGGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 MDRL +M+VF VV+ GS AAE LD+S V +R++A+LE +G RLL+R+TRRLSLT Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 AGNELLPRCRQMLEYSDDMRHALEAPDETPRGLLRITTSTSFAQTQLIQAVVDYGQRYPG 120 AG L R R +L DD + + P G L I + F Q+QL + + Y Q YP Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 VAVDLLALDRTVNLVEERIDLAIRMT-NRLEPNLIARQLGVCRSVICATPAYLARHGLPR 179 VA+D+ +R+++LVEE ID+ + + + ++I RQLGV R ++C +PAY+AR G P Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPE 180 Query: 180 KVEDLALHNCL--THSYVGRSLWQFDPKRKTTKASQKAKTQTVAVGGSISANEVTVLLQA 237 + EDL+ HNCL +H Y+ R W + V + + +N +L Sbjct: 181 QPEDLSRHNCLNFSHEYL-RHHWHVN---------TNGGVLDVPIVSKVVSNSGVLLRDL 230 Query: 238 VLAGVGIGHMPAYMVAPLVASGQLVRLLPEYEPLQLGMYGVYASRKHMPATLRTMLDFLA 297 LAG+GI P+Y + + SG+LV++LP ++ Q+ M VY SR+ + A +R+ +F++ Sbjct: 231 ALAGMGIVLRPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFIS 290 Query: 298 QRF 300 RF Sbjct: 291 ARF 293 >gi|300309660|ref|YP_003773752.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 337 Score = 194 bits (492), Expect = 9e-51, Method: Compositional matrix adjust. Identities = 108/308 (35%), Positives = 168/308 (54%), Gaps = 12/308 (3%) Query: 1 MDRLMAMQVFVAVVDGGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 MDR AMQVF AVVD S + AA+ L+L R V+ V LE + RLL+RTTRR+SLTP Sbjct: 1 MDRFQAMQVFTAVVDANSFTRAADNLNLPRTTVTTLVQGLESMLQVRLLNRTTRRISLTP 60 Query: 61 AGNELLPRCRQMLEYSDDMRHALEAPDETPRGLLRITTSTSFAQTQLIQAVVDYGQRYPG 120 G RC ++L D+ + P+G LRI S + L+ + D+ RYP Sbjct: 61 DGAAYYERCVRILADLDETEQSFRNVTRGPQGRLRIDVPASVGRLMLLPNLCDFYTRYPD 120 Query: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRLEPNLIARQLGVCRSVICATPAYLARHGLPRK 180 + + + DR V+LV+E +D IR+ + +++AR++G ++V CA PAYL RHG+P Sbjct: 121 IELMMGMGDRPVDLVQEAVDCVIRIGELQDSSMVARRIGTFQTVTCAAPAYLERHGVPHT 180 Query: 181 VEDLALHNCLTH--SYVGRSL-WQFDPKRKTTKASQKAKTQTVAVGGSISANEVTVLLQA 237 +EDL H + + S GR++ W F + T+ V + G ++ NE ++ Sbjct: 181 IEDLQQHKAVHYFSSRTGRTIDWDF---------VVEGVTREVKMNGKLAVNEADAYVEC 231 Query: 238 VLAGVGIGHMPAYMVAPLVASGQLVRLLPEYEPLQLGMYGVYASRKHMPATLRTMLDFLA 297 L G G+ P YMV + G+LV +L +++P + + VY +H+ +R +D++A Sbjct: 232 ALQGFGMVQAPLYMVTRHIDEGRLVEVLSQWKPAPMPISVVYLHNRHLSPKVRAFVDWVA 291 Query: 298 QRFAGQPF 305 + FA P Sbjct: 292 ELFATCPL 299 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 182 bits (462), Expect = 3e-47, Method: Compositional matrix adjust. Identities = 109/299 (36%), Positives = 171/299 (57%), Gaps = 8/299 (2%) Query: 1 MDRLMAMQVFVAVVDGGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 MD L M+VF VV+ GS + AA+Q+ L+ VSR VA+LE + RL++RTTRR++LT Sbjct: 2 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 61 Query: 61 AGNELLPRCRQMLEYSDDMRHALEAPDETPRGLLRITTSTSFAQTQLIQAVVDYGQRYPG 120 AG L RC+Q++ Y D+ A P G LRI TSF Q +I ++ Y +RYP Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRL-EPNLIARQLGVCRSVICATPAYLARHGLPR 179 VAV+L R +++EE D+++ + L + LI RQLG S++CA+PAYL ++G P+ Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 180 KVEDLALHNCLTHSYVGRSLWQFDPKRKTTKASQKAKTQTVAVGGSISANEVTVLLQAVL 239 + DL H CL + + P + + T VAV + N +L A+ Sbjct: 182 QPADLLNHACL------QLVSPISPLDEWILEGPEGGT-VVAVKSNFQVNVAEAMLTAIR 234 Query: 240 AGVGIGHMPAYMVAPLVASGQLVRLLPEYEPLQLGMYGVYASRKHMPATLRTMLDFLAQ 298 G+GIG +P Y + +G +VR+LP++ +G+Y +Y SR+++ A + T +D++ + Sbjct: 235 EGMGIGVLPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHE 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 0.322 0.135 0.392 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: 891,369 Number of extensions: 34500 Number of successful extensions: 289 Number of sequences better than 1.0e-08: 63 Number of HSP's gapped: 233 Number of HSP's successfully gapped: 63 Length of query: 305 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 220 Effective length of database: 1,217,395 Effective search space: 267826900 Effective search space used: 267826900 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 130 (54.7 bits)