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= 0001.1777.p (313 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311233|ref|YP_003775325.1| LysR family transcription regul... 576 e-165 gi|300309921|ref|YP_003774013.1| LysR family transcription regul... 177 1e-45 gi|300313922|ref|YP_003778014.1| LysR family transcription regul... 172 5e-44 gi|300311424|ref|YP_003775516.1| LysR family transcription regul... 166 2e-42 gi|300310802|ref|YP_003774894.1| LysR family transcription regul... 160 1e-40 >gi|300311233|ref|YP_003775325.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 315 Score = 576 bits (1484), Expect = e-165, Method: Compositional matrix adjust. Identities = 279/313 (89%), Positives = 298/313 (95%) Query: 1 MSTNQSIALLNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTR 60 MSTNQSIALLNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTR Sbjct: 1 MSTNQSIALLNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTR 60 Query: 61 KLRLSESGREIHERCRDMLHAAQAVLAVSGSFEAVPQGQVRVSVPKAVGRYLVHPHVPDF 120 KLRLSESG++IH RCRDML+AAQAVLAVSG+F+A PQGQVRVSVPKAVG LVHPHVPDF Sbjct: 61 KLRLSESGQDIHARCRDMLNAAQAVLAVSGAFDAEPQGQVRVSVPKAVGHALVHPHVPDF 120 Query: 121 LASYPEVDVLLRLEDRYMDLIDDQVDLAIRITDKPPPGLMGRRLMRIDHLLCATPAYLAA 180 LA++P+VDVLLRLEDRYMDLIDD+VDLAIRITD PPPGLMGRRLMRIDHLLCATP YLA Sbjct: 121 LAAHPKVDVLLRLEDRYMDLIDDEVDLAIRITDHPPPGLMGRRLMRIDHLLCATPHYLAT 180 Query: 181 HGTPTHPQALKAHSCIYLGEAPADAQWRFRRHGKAVHVEVRGRYAANHTGVRLDAVLRHI 240 HGTP HPQALK HSCIYLGE+PADA+WRFRR GK+V+VEVRGRYAANHTGVRLDAVLRH+ Sbjct: 181 HGTPAHPQALKEHSCIYLGESPADARWRFRRQGKSVNVEVRGRYAANHTGVRLDAVLRHL 240 Query: 241 GIGSLPYFIARPALEAGSIVQVLPQWTFRTHYCGDLWALYPATRHLPPRLGAFVNFLAQR 300 GI SLPYFIARPALE GS+VQVLPQW+FRTHYCG+LWALYPATRHLPPRLGAFV FLAQR Sbjct: 241 GIASLPYFIARPALEEGSLVQVLPQWSFRTHYCGELWALYPATRHLPPRLGAFVQFLAQR 300 Query: 301 LAEEPTLDGAGRA 313 LA+EPTL G G+A Sbjct: 301 LAQEPTLAGGGKA 313 >gi|300309921|ref|YP_003774013.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 177 bits (448), Expect = 1e-45, Method: Compositional matrix adjust. Identities = 103/294 (35%), Positives = 157/294 (53%), Gaps = 3/294 (1%) Query: 10 LNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLRLSESGR 69 L E+ F V + GSF +AA LG + +A+SR + LE LG++L+QRTTR+L L+E+G Sbjct: 4 LREIECFIAVADLGSFVKAAEALGISKAAVSRTVLELEARLGSRLMQRTTRRLSLTEAGA 63 Query: 70 EIHERCRDMLHAAQAVLAVSGSFEAVPQGQVRVSVPKAVGRYLVHPHVPDFLASYPEVDV 129 ERC+ ++ A + + S A P G +R++ P G + P P FL +PE+ + Sbjct: 64 LYLERCKQIVAALEEADDLLSSGSAKPTGLLRINAPLTFGVLHLAPLWPMFLERHPEISL 123 Query: 130 LLRLEDRYMDLIDDQVDLAIRITDKPPPGLMGRRLMRIDHLLCATPAYLAAHGTPTHPQA 189 + L DR +D+ID+ D+AIRI L+ R+L +CA+PAYL AHGTP HP Sbjct: 124 DITLSDRIVDIIDEGYDMAIRIARLSDSTLVHRKLTSTSLHVCASPAYLDAHGTPAHPHE 183 Query: 190 LKAHSCIYLGEAPADAQWRFRRHGKAVHVEVRGRYAANHTGVRLDAVLRHIGIGSLPYFI 249 L H I + +W+F V V V R N+ + A L IGI P F+ Sbjct: 184 LAQHQTISYSYNQSKDEWQFNGPEGPVSVRVSSRLHVNNGDSCVQAALGGIGITRQPTFM 243 Query: 250 ARPALEAGSIVQVLPQWTFRTHYCGDLWALYPATRHLPPRLGAFVNFLAQRLAE 303 L +G +V +L + ++A+YP+ HLP ++ A ++FL + A+ Sbjct: 244 IDQYLRSGQLVSILGDYGAPEL---GIYAVYPSRAHLPAKMRAMLDFLTEAFAQ 294 >gi|300313922|ref|YP_003778014.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 308 Score = 172 bits (435), Expect = 5e-44, Method: Compositional matrix adjust. Identities = 107/307 (34%), Positives = 169/307 (55%), Gaps = 14/307 (4%) Query: 10 LNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLRLSESGR 69 L M VF VV++GS S AA QL + +SR +A LE +G +LL RTTR+L L+ +G Sbjct: 4 LMAMQVFVTVVDSGSLSAAAEQLDLSRPVVSRYVAELEDWVGARLLHRTTRRLSLTPAGN 63 Query: 70 EIHERCRDMLHAAQAVLAVSGSFEAVPQGQVRVSVPKAVGRYLVHPHVPDFLASYPEVDV 129 E+ RCR ML ++ + + + P+G +R++ + + + V ++ YP V V Sbjct: 64 ELLPRCRQMLEYSEDMRHALDAPDETPRGLLRITASTSFAQTQLIQAVVEYGRRYPGVAV 123 Query: 130 LLRLEDRYMDLIDDQVDLAIRITDKPPPGLMGRRLMRIDHLLCATPAYLAAHGTPTHPQA 189 L DR ++L+++++DLAIR+T++ P L+ R L ++CATP YLA HG P + Sbjct: 124 DLLALDRTVNLVEERIDLAIRMTNRLEPNLIARPLGVCRSIICATPDYLARHGLPRKVED 183 Query: 190 LKAHSCI---YLGEA-----PADAQWRFRRHGKAVH---VEVRGRYAANHTGVRLDAVLR 238 L H+C+ Y+G + P + R R A V V G +AN V L AVL Sbjct: 184 LALHNCLTHSYVGRSLWQFDPKKKKARSGRGASAAKPQSVAVGGSISANEVTVLLQAVLA 243 Query: 239 HIGIGSLPYFIARPALEAGSIVQVLPQWTFRTHYCGDLWALYPATRHLPPRLGAFVNFLA 298 +GIG +P + P + +G +VQ+LP + G ++ +Y + +H+P L ++FLA Sbjct: 244 GVGIGHMPAYTVAPLVASGQLVQLLPD--YEPLQLG-MYGVYASRKHMPATLRTMLDFLA 300 Query: 299 QRLAEEP 305 QR A +P Sbjct: 301 QRFAGQP 307 >gi|300311424|ref|YP_003775516.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 327 Score = 166 bits (420), Expect = 2e-42, Method: Compositional matrix adjust. Identities = 101/291 (34%), Positives = 165/291 (56%), Gaps = 7/291 (2%) Query: 10 LNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLRLSESGR 69 L M VFA+VVE GSF++AA+Q+G T + +SRA+A LE+ L T+L+ RTTR++ L+E+G Sbjct: 5 LQNMRVFARVVEAGSFTQAAQQMGLTTAHVSRAVADLERHLRTRLMNRTTRRIALTEAGE 64 Query: 70 EIHERCRDMLHAAQAVLAVSGSFEAVPQGQVRVSVPKAVGRYLVHPHVPDFLASYPEVDV 129 RC+ ++ A + + P G++R+ + G+ V P + + YP+V V Sbjct: 65 RYLLRCQQIMSYVDEAEAEASAAYVKPSGRLRIHAMTSFGQRYVIPSISGYHKRYPDVAV 124 Query: 130 LLRLEDRYMDLIDDQVDLAIRIT-DKPPPGLMGRRLMRIDHLLCATPAYLAAHGTPTHPQ 188 L L R D++++ D+++ + + P GL+ R+L +LCA+PAYL +G P P Sbjct: 125 ELTLAQRIPDMLEEGYDVSLVLARELPDSGLIYRQLGSTFSMLCASPAYLDKYGAPQQPA 184 Query: 189 ALKAHSCIYLGE--APADAQWRFRRHGKAVHVEVRGRYAANHTGVRLDAVLRHIGIGSLP 246 L H+C+ L +P D +W V V+ + N L A+ +GIG LP Sbjct: 185 DLLNHACLQLVSPISPLD-EWILEGPEGGTVVAVKSNFQVNVAEAMLTAIREGMGIGVLP 243 Query: 247 YFIARPALEAGSIVQVLPQWTFRTHYCGDLWALYPATRHLPPRLGAFVNFL 297 + A AL AG+IV+VLPQ R G ++ALYP+ ++L ++ +V+++ Sbjct: 244 IYSAVDALRAGTIVRVLPQ--HRLQNMG-VYALYPSRQYLDAKISTWVDWM 291 >gi|300310802|ref|YP_003774894.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 160 bits (406), Expect = 1e-40, Method: Compositional matrix adjust. Identities = 97/294 (32%), Positives = 159/294 (54%), Gaps = 5/294 (1%) Query: 9 LLNEMAVFAKVVETGSFSEAARQLGATPSAISRAIARLEKALGTQLLQRTTRKLRLSESG 68 LL ++ +F V SF+ +AR++GA+P+ IS+ IA LE+ALG +L RTTR + ++E G Sbjct: 6 LLEDLRLFCVVARHSSFAGSAREVGASPAYISKRIALLEQALGVRLFHRTTRSVVMTEEG 65 Query: 69 REIHERCRDMLHAAQAVLAVSGSFEAVPQGQVRVSVPKAVGRYLVHPHVPDFLASYPEVD 128 +HE R +L + ++ S + VP+G +++S +GR +V P + F + +PE+ Sbjct: 66 GNVHEWARRILDDVEQMMETVSSAKRVPRGLLKISTSFGLGRKVVSPLLSRFASEHPELK 125 Query: 129 VLLRLEDRYMDLIDDQVDLAIRITDKPPPGLMGRRLMRIDHLLCATPAYLAAHGTPTHPQ 188 + L L DR +DL+++ +DL IR+ P L +R++ +LCA+PAYL HG P Sbjct: 126 IQLELVDRQIDLVNEGIDLDIRVGAGHEPHLFSKRILPSQRVLCASPAYLKKHGLPADLA 185 Query: 189 ALKAHSCIYLGE-APADAQWRFRRHGKAVHVEVRGRYAANHTGVRLDAVLRHIGIGSLPY 247 AL+ H C+ + E + WR V+V G A+NH + + GI Sbjct: 186 ALRQHQCLVIRERNQSFGIWRMMGPKGVETVKVSGMLASNHGEIIHQWAVDGHGIILRSA 245 Query: 248 FIARPALEAGSIVQVLPQWTFRTHYCGDLWALYPATRHLPPRLGAFVNFLAQRL 301 + +L+ G +V+VLPQ+ + DL A+YP ++ V FL + L Sbjct: 246 WDVADSLKRGRLVRVLPQY----YQEADLCAVYPLQLKNSAKVRECVRFLQKHL 295 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 0.137 0.413 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: 1,027,801 Number of extensions: 45314 Number of successful extensions: 275 Number of sequences better than 1.0e-08: 55 Number of HSP's gapped: 227 Number of HSP's successfully gapped: 55 Length of query: 313 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 228 Effective length of database: 1,217,395 Effective search space: 277566060 Effective search space used: 277566060 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)