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= 0012.0161.p (312 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313281|ref|YP_003777373.1| LysR family transcription regul... 188 4e-49 gi|300310675|ref|YP_003774767.1| LysR family transcription regul... 179 2e-46 gi|300310448|ref|YP_003774540.1| transcription regulator protein... 165 4e-42 gi|300310812|ref|YP_003774904.1| LysR family transcription regul... 163 2e-41 gi|300310335|ref|YP_003774427.1| transcription regulator protein... 127 2e-30 >gi|300313281|ref|YP_003777373.1| LysR family transcription regulator [Herbaspirillum seropedicae SmR1] Length = 323 Score = 188 bits (478), Expect = 4e-49, Method: Compositional matrix adjust. Identities = 110/303 (36%), Positives = 169/303 (55%), Gaps = 8/303 (2%) Query: 1 MDNLDLRQLRIFLEIYKTQSISQAAASLDLGQPAVSMALAKLREHYGDPLFSRTSGGMLP 60 M N DL L I L +++ +S+S AA LD+ QPAVS+AL KLR GDPLF +T GM P Sbjct: 1 MANFDLNLLPIALAVFEERSVSAAARKLDMSQPAVSVALNKLRSALGDPLFVKTGRGMQP 60 Query: 61 TPLAEQIVGPMRLALSTLTSTLQHRVSFDPARSDRLFRLCITDIGQRVIIPRLLAHLKQA 120 TP A ++GP R L + + + F PA + + F L ++DIG+ +++PRLL ++ Sbjct: 61 TPRAVSLIGPTREILQRVHAEVLSSDQFTPATTTKRFVLALSDIGELMLLPRLLERIRDE 120 Query: 121 AP-AIRMELSYVSERTSKDLESGQIDLEERTALGYISGL-DAGFYQQALFTERFICMVSR 178 AP A + ++ LESG++DL A+GY L + F+QQ LF++ F+C++ Sbjct: 121 APHASVVTVTMAPAELVAALESGEVDL----AIGYFPDLRNRNFFQQRLFSQDFVCLLRA 176 Query: 179 DHPRIRRGRMSLRDFERERHLVISTQGTGHHMIDRKIEEELGIQRKVGLRIPNYLGVVSS 238 HP + ++SL ++ H+V+ +G M +R + I+R+V L +++ + Sbjct: 177 GHP-LPAQKISLEHYQAAGHIVVKAEGRDQPMCERFLLRR-KIRRRVVLSTAHFMAIPLL 234 Query: 239 IIDSDYLALVPERFGRIVSHHNPVRLVELPFRLEPYRVMQHWHGRYANDPGLRWLRQIIA 298 + SD +A VP FG V +RLVE F + + QHWH +Y D G WLR + A Sbjct: 235 VATSDLVATVPRAFGEFVVRFAGIRLVEPGFEMPMLDLKQHWHRKYHKDAGNAWLRGLAA 294 Query: 299 RLF 301 LF Sbjct: 295 ALF 297 >gi|300310675|ref|YP_003774767.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 179 bits (455), Expect = 2e-46, Method: Compositional matrix adjust. Identities = 101/308 (32%), Positives = 165/308 (53%), Gaps = 8/308 (2%) Query: 1 MDNLDLRQLRIFLEIYKTQSISQAAASLDLGQPAVSMALAKLREHYGDPLFSRTSGGMLP 60 +N+DL LR+F I +S++ A L L QPAVS AL +LR+ + DPLF RT GM P Sbjct: 4 FNNMDLNLLRVFQAIADERSLTLAGNRLHLSQPAVSYALGRLRQIFDDPLFIRTKEGMQP 63 Query: 61 TPLAEQIVGPMRLALSTLTSTLQHRVSFDPARSDRLFRLCITDIGQRVIIPRLLAHLKQA 120 TP A ++ P+ AL + L++ FDPA+S R+FR +TD+ + + +P L L Sbjct: 64 TPAALELAKPINRALQAVQDALRYTERFDPAQSTRVFRASMTDVAEMMFLPDLCEILTAQ 123 Query: 121 APAIRMELSYV-SERTSKDLESGQIDLEERTALGYISGLDAGFYQQALFTERFICMVSRD 179 AP +R+++ V + L +GQ+D A G + L + LF E ++C++ + Sbjct: 124 APDVRLQVEQVPPAHLEEALRTGQLDF----AFGNLPALKPVTCHELLFRETYVCLMRQR 179 Query: 180 HPRIRRGRMSLRDFERERHLVISTQGTGHHMIDRKIEEELGIQRKVGLRIPNYLGVVSSI 239 +R ++ L +F H+++ + + HH ++ ++LG+QR++ L IP++ + + Sbjct: 180 DGLPQRAQLELDEFLAMSHVLVESAESSHHQVENSF-QKLGVQRRISLSIPHFTVLPRIL 238 Query: 240 IDSDYLALVPERFGRIVSHHNPVRLV--ELPFRLEPYRVMQHWHGRYANDPGLRWLRQII 297 SD +A VP R R+ +P V +LP + V HWH + +D G WLRQI+ Sbjct: 239 GKSDLVATVPARIARLFHSEHPGVFVSYQLPVNIPVVEVTLHWHQSFDHDAGNSWLRQIV 298 Query: 298 ARLFGDAG 305 L G Sbjct: 299 IDLLQQYG 306 >gi|300310448|ref|YP_003774540.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 165 bits (418), Expect = 4e-42, Method: Compositional matrix adjust. Identities = 98/304 (32%), Positives = 157/304 (51%), Gaps = 8/304 (2%) Query: 3 NLDLRQLRIFLEIYKTQSISQAAASLDLGQPAVSMALAKLREHYGDPLFSRTSGGMLPTP 62 ++DL L +F E+++ + IS A L L QPAVS ALA+LR + D LF RT+ GM PTP Sbjct: 8 DIDLNLLVVFQEVFQERQISSVARRLGLSQPAVSNALARLRRSFEDELFVRTAQGMQPTP 67 Query: 63 LAEQIVGPMRLALSTLTSTLQHRVSFDPARSDRLFRLCITDIGQRVIIPRLLAHLKQAAP 122 AEQ+ P+ AL + L + F P S R F + +TD+G+ +P L+ + AP Sbjct: 68 FAEQLAEPVAAALQQVARALNLQEGFAPQTSARRFTIAMTDVGEVYFMPALIEACARCAP 127 Query: 123 AIRMELSYVSERTSK-DLESGQIDLEERTALGYISGLDAGFYQQALFTERFICMVSRDHP 181 + + K ++ESG++DL A+G L YQ+ LF + ++ M H Sbjct: 128 GVSISTVRAGAIDLKSEMESGRVDL----AIGAFDNLSEALYQRRLFRQEYVSMFRIGHA 183 Query: 182 --RIRRGRMSLRDFERERHLVISTQGTGHHMIDRKIEEELGIQRKVGLRIPNYLGVVSSI 239 + RG +SL++F HL++S+Q + + I++ +E+ GI V R+P++ V + Sbjct: 184 LDKPGRGEVSLKEFLAAEHLMVSSQESPYDRINQNLEKA-GILPSVRFRVPHFTAVPYIV 242 Query: 240 IDSDYLALVPERFGRIVSHHNPVRLVELPFRLEPYRVMQHWHGRYANDPGLRWLRQIIAR 299 + + VP + + +R ++ P RL + WH RY D G WLR I+ Sbjct: 243 SSTALVVTVPRKLAESAAAPFGLRYIKPPLRLPSLQTNMFWHRRYNQDEGNVWLRGFISE 302 Query: 300 LFGD 303 F + Sbjct: 303 HFAE 306 >gi|300310812|ref|YP_003774904.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 311 Score = 163 bits (413), Expect = 2e-41, Method: Compositional matrix adjust. Identities = 93/299 (31%), Positives = 161/299 (53%), Gaps = 7/299 (2%) Query: 5 DLRQLRIFLEIYKTQSISQAAASLDLGQPAVSMALAKLREHYGDPLFSRTSGGMLPTPLA 64 DL L+ F+ I++ +S++ AA L L QPAVS AL +LRE + DPLF R++ M+PT A Sbjct: 10 DLNLLKTFIVIWELRSLTAAAERLHLTQPAVSHALRRLREMFDDPLFVRSTSAMVPTETA 69 Query: 65 EQIVGPMRLALSTLTSTLQHRVSFDPARSDRLFRLCITDIGQRVIIPRLLAHLKQAAPAI 124 ++ P+ AL L L FDPA + R F L ++D+ ++P L+ L AAP + Sbjct: 70 IRLHEPIARALDILQEALHTHAQFDPATATRTFHLVMSDMSCSHVLPLLMEELAHAAPHV 129 Query: 125 RMELSYVS-ERTSKDLESGQIDLEERTALGYISGLDAGFYQQALFTERFICMVSRDHPRI 183 +E+ ++ E + +G +DL A GY+ GL Q + + +ICM+ R+HP + Sbjct: 130 SIEVQQMAMENLGAAMRNGDVDL----AFGYLPGLPEDCQSQLVLYDDYICMLRREHP-L 184 Query: 184 RRGRMSLRDFERERHLVISTQGTGHHMIDRKIEEELGIQRKVGLRIPNYLGVVSSIIDSD 243 +G ++L + + R++ T TGH + + + G++R V LR+P++ + +D Sbjct: 185 AQGPLTLENLLQLRYVYTVTNTTGHQLAE-DVLRNAGVKRDVALRMPHFTVAPQIVRITD 243 Query: 244 YLALVPERFGRIVSHHNPVRLVELPFRLEPYRVMQHWHGRYANDPGLRWLRQIIARLFG 302 +P + + L++LP + V + H R++ D G++WLR ++ +FG Sbjct: 244 LALFLPRSIAERNNLDHAFVLLDLPLEMPRIPVSIYTHTRFSGDTGIQWLRSLLIEMFG 302 >gi|300310335|ref|YP_003774427.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 309 Score = 127 bits (318), Expect = 2e-30, Method: Compositional matrix adjust. Identities = 87/312 (27%), Positives = 151/312 (48%), Gaps = 13/312 (4%) Query: 2 DNLDLRQLRIFLEIYKTQSISQAAASLDLGQPAVSMALAKLREHYGDPLFSRTSGGMLPT 61 + LDL L + SIS+AA + L Q A+S ALA+LRE++ D L + M PT Sbjct: 4 NKLDLNLLVALDALLTEMSISRAAEKIHLSQSAMSNALARLREYFDDELLIQVGRRMEPT 63 Query: 62 PLAEQIVGPMRLALSTLTSTLQHRVSFDPARSDRLFRLCITDIGQRVIIPRLLAHLKQAA 121 P AE + + L + ++ +F PA S R FR+ ++D V+IPR+LA Sbjct: 64 PRAEVLKDAVHDVLRRIDGSIAALPAFVPAESTREFRISVSDFTLSVLIPRVLARAHAEG 123 Query: 122 PAIRMELSYVSERTSKDLESGQIDL----EERTALGYISGLDAGFYQQALFTERFICMVS 177 IR L + ++ L+ ++DL +E + + + +F ER +C+V Sbjct: 124 KHIRFALMPQVQDPTRSLDRAEVDLLVLPQEFCTPDHPA--------EEVFRERHVCVVW 175 Query: 178 RDHPRIRRGRMSLRDFERERHLVISTQGTGHHMIDRKIEEELGIQRKVGLRIPNYLGVVS 237 RD + +G ++L + H+V+ G ++ + +LG R+V + ++ ++ Sbjct: 176 RDSA-LAQGELTLERYMASGHVVMVPPGANASSVEAWMARKLGFARRVEVTSFSFASALA 234 Query: 238 SIIDSDYLALVPERFGRIVSHHNPVRLVELPFRLEPYRVMQHWHGRYANDPGLRWLRQII 297 + +D +A V R ++++ PV + E P L R M WH +NDPG++WLR++ Sbjct: 235 LVQGTDRIATVHARLAQLLAPQWPVVIKESPLSLGEMRQMMQWHRYRSNDPGIQWLRRVF 294 Query: 298 ARLFGDAGGAGP 309 + A P Sbjct: 295 LESAQEMDAALP 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 0.324 0.140 0.414 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: 1,032,610 Number of extensions: 44784 Number of successful extensions: 251 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 239 Number of HSP's successfully gapped: 19 Length of query: 312 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 227 Effective length of database: 1,217,395 Effective search space: 276348665 Effective search space used: 276348665 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 130 (54.7 bits)