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= 0016.0127.p (326 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 669 0.0 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 225 3e-60 gi|300311458|ref|YP_003775550.1| LysR family transcription regul... 216 2e-57 gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 178 7e-46 gi|300311443|ref|YP_003775535.1| LysR family transcription regul... 176 2e-45 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 669 bits (1727), Expect = 0.0, Method: Compositional matrix adjust. Identities = 326/326 (100%), Positives = 326/326 (100%) Query: 1 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 60 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE Sbjct: 2 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 61 Query: 61 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 120 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD Sbjct: 62 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 121 Query: 121 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 180 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ Sbjct: 122 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 181 Query: 181 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 240 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV Sbjct: 182 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 241 Query: 241 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQE 300 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQE Sbjct: 242 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQE 301 Query: 301 DHQALERLGSLREEMQGLATRSGPQA 326 DHQALERLGSLREEMQGLATRSGPQA Sbjct: 302 DHQALERLGSLREEMQGLATRSGPQA 327 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 225 bits (574), Expect = 3e-60, Method: Compositional matrix adjust. Identities = 119/292 (40%), Positives = 185/292 (63%), Gaps = 2/292 (0%) Query: 1 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 60 M+ L+ + F V + GSF +AA+ +G++ A VSR V +LE L +RLM RTTRR++LTE Sbjct: 1 MNKLREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTE 60 Query: 61 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 120 AG YL RC+QI++ ++EA+ S+ KP+G LRI+A +FG ++ P + +R+P+ Sbjct: 61 AGALYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPE 120 Query: 121 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 180 +++++TL+ RI D+++EGYD+++ +AR L DS L++R+L ST +CASPAYLD +G P Sbjct: 121 ISLDITLSDRIVDIIDEGYDMAIRIAR-LSDSTLVHRKLTSTSLHVCASPAYLDAHGTPA 179 Query: 181 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 240 P +L H + S DEW GPEG V V S VN ++ + A G+GI Sbjct: 180 HPHELAQHQTISYSYNQSK-DEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITR 238 Query: 241 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHE 292 P + LR+G +V +L + +G+YA+YPSR +L AK+ +D++ E Sbjct: 239 QPTFMIDQYLRSGQLVSILGDYGAPELGIYAVYPSRAHLPAKMRAMLDFLTE 290 >gi|300311458|ref|YP_003775550.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 216 bits (549), Expect = 2e-57, Method: Compositional matrix adjust. Identities = 118/290 (40%), Positives = 178/290 (61%), Gaps = 1/290 (0%) Query: 1 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 60 MD LQ+MRVFA+VVE GSF +AA+ + ++ A +R +ADLE HL TRL+NR+TRR++LTE Sbjct: 1 MDRLQSMRVFAKVVEQGSFVRAAELLDISNAVATRFIADLEAHLGTRLLNRSTRRLSLTE 60 Query: 61 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 120 AG+ YL R + I++ VD+AEA S +P+G L I+ FGQ + +S Y + YP+ Sbjct: 61 AGQAYLERVRMILAEVDDAEALVSLETKRPAGTLAIYCNAGFGQSQLGEMLSAYSQAYPE 120 Query: 121 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 180 VA++++L++R D++EEG D+ + + D+ +I RQLG +LC SPAY+ + GAP+ Sbjct: 121 VALDISLSERSIDLVEEGIDIGFFSSMQKFDASMIVRQLGVARVILCTSPAYIARQGAPE 180 Query: 181 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 240 QP DL H CL S W + G V + S N + GMGI + Sbjct: 181 QPEDLSRHNCLNF-SHEYLRHHWHVNTNGGVLDVPIVSKVVSNSGVLLRDLALAGMGIVL 239 Query: 241 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWM 290 P YS D LR+G +V+VLP + + + +YPSR+ L AK+ ++ +++ Sbjct: 240 RPSYSLGDDLRSGRLVQVLPGFDMGQVIMSMVYPSRRLLSAKVRSFAEFI 289 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 178 bits (451), Expect = 7e-46, Method: Compositional matrix adjust. Identities = 107/303 (35%), Positives = 172/303 (56%), Gaps = 13/303 (4%) Query: 1 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 60 MD L M+VF VV++GS + AA+Q+ L+ VSR VA+LE + RL++RTTRR++LT Sbjct: 1 MDRLMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTP 60 Query: 61 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 120 AG L RC+Q++ Y ++ A P G LRI A TSF Q +I ++ Y +RYP Sbjct: 61 AGNELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPG 120 Query: 121 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 180 VAV+L R +++EE D+++ + L + LI R LG S++CA+P YL ++G P+ Sbjct: 121 VAVDLLALDRTVNLVEERIDLAIRMTNRL-EPNLIARPLGVCRSIICATPDYLARHGLPR 179 Query: 181 QPADLLNHACL------QLVSPISPLDEWILEGPEGGTV-----VAVKSNFQVNVAEAML 229 + DL H CL + + P + G G + VAV + N +L Sbjct: 180 KVEDLALHNCLTHSYVGRSLWQFDPKKKKARSG-RGASAAKPQSVAVGGSISANEVTVLL 238 Query: 230 TAIREGMGIGVLPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDW 289 A+ G+GIG +P Y+ + +G +V++LP + +G+Y +Y SR+++ A + T +D+ Sbjct: 239 QAVLAGVGIGHMPAYTVAPLVASGQLVQLLPDYEPLQLGMYGVYASRKHMPATLRTMLDF 298 Query: 290 MHE 292 + + Sbjct: 299 LAQ 301 >gi|300311443|ref|YP_003775535.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 324 Score = 176 bits (446), Expect = 2e-45, Method: Compositional matrix adjust. Identities = 104/308 (33%), Positives = 162/308 (52%), Gaps = 3/308 (0%) Query: 1 MDTLQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTE 60 M L ++ +F VV AGSF A +++ + +SR + LE + RL+ R+TR++ +T Sbjct: 1 MLDLNDIWLFVHVVRAGSFAAAGRRLSMPPNTISRRLQSLEAAMGVRLLQRSTRQLNMTA 60 Query: 61 AGERYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPD 120 AG + RC + ++ A A + + +P+G LR+ A F + I + + YP Sbjct: 61 AGREFFERCAPGLEDIEHASASLTESQGEPAGSLRVAAPVDFFDNFSIEWMHEFMHLYPK 120 Query: 121 VAVELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQ 180 V +E L D++ EG D++ LPDS L+ R+L + L ASP YL++ G PQ Sbjct: 121 VQLEFVLNDGRADLIAEGIDLAF-RGGVLPDSSLVARKLVQSHLALIASPRYLERQGTPQ 179 Query: 181 QPADLLNHACLQLVSPISPLDEWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGV 240 DL HACL S W LEGP G V V VN A+ L A R G+GI + Sbjct: 180 SLTDLTAHACLA-TSQAPQHTVWKLEGPHGPESVKVTPRLCVNTAQGQLRAARAGLGIAL 238 Query: 241 LPIYSAVDALRAGTIVRVLPQHRLQNMGVYALYPSRQYLDAKISTWVDWMHETVDRTLQE 300 LP A + LR GT+V +LP ++ MG YA+Y R+ L + +S +++ + ++R + + Sbjct: 239 LPTMLASEDLRNGTLVNILPDYQRDTMGFYAVYVHRRQLPSAVSALIEFFADKLERGIAD 298 Query: 301 D-HQALER 307 QA E+ Sbjct: 299 KGAQACEK 306 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 0.320 0.133 0.384 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: 992,750 Number of extensions: 41521 Number of successful extensions: 257 Number of sequences better than 1.0e-08: 57 Number of HSP's gapped: 202 Number of HSP's successfully gapped: 57 Length of query: 326 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 241 Effective length of database: 1,217,395 Effective search space: 293392195 Effective search space used: 293392195 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 (21.8 bits) S2: 131 (55.1 bits)