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= 0027.0024.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|300311571|ref|YP_003775663.1| LysR family transcription regul... 627 0.0 gi|300310637|ref|YP_003774729.1| LysR family transcription regul... 105 5e-24 gi|300309386|ref|YP_003773478.1| LysR family transcription regul... 102 4e-23 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 100 1e-22 gi|300310617|ref|YP_003774709.1| LysR family transcription regul... 99 5e-22 >gi|300311571|ref|YP_003775663.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 313 Score = 627 bits (1617), Expect = 0.0, Method: Compositional matrix adjust. Identities = 313/313 (100%), Positives = 313/313 (100%) Query: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA Sbjct: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 Query: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI Sbjct: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 Query: 121 TLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVAGR 180 TLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVAGR Sbjct: 121 TLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVAGR 180 Query: 181 KSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIGAT 240 KSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIGAT Sbjct: 181 KSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIGAT 240 Query: 241 ILPVAPLLADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLVLDVTDELCR 300 ILPVAPLLADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLVLDVTDELCR Sbjct: 241 ILPVAPLLADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLVLDVTDELCR 300 Query: 301 SGRWGHTELLERE 313 SGRWGHTELLERE Sbjct: 301 SGRWGHTELLERE 313 >gi|300310637|ref|YP_003774729.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 326 Score = 105 bits (262), Expect = 5e-24, Method: Compositional matrix adjust. Identities = 64/159 (40%), Positives = 96/159 (60%), Gaps = 6/159 (3%) Query: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 M++RQL+YFVA+ + + +RA+ LHIAQP L++QI+ LE+EL QLL R+++ + T+A Sbjct: 1 MDIRQLKYFVAVANTRNFTRASEQLHIAQPPLSRQIQLLEEELGVQLLLRNSRPLRLTEA 60 Query: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLL-NAVRSTYPE 119 G+VFYE AL IL ++ K A Q T+++G S LP+L +R YPE Sbjct: 61 GRVFYEQALQILNRLDQLKNATQQIGLNQRQTLSIGFVASTLYG-GLPMLVRKLRQHYPE 119 Query: 120 ITLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAAT 158 + +QL E + LKSGRI++ G++ S AT Sbjct: 120 VDIQLLELTSMQQFAALKSGRIDVGF----GRIRSNDAT 154 >gi|300309386|ref|YP_003773478.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 301 Score = 102 bits (254), Expect = 4e-23, Method: Compositional matrix adjust. Identities = 77/245 (31%), Positives = 120/245 (48%), Gaps = 6/245 (2%) Query: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 M++R LRYF V H S SRAA ALH+ Q +++ +RQLE+E+ A LL R + + TD Sbjct: 1 MDIRALRYFTETVRHSSFSRAADALHVTQSTVSKMVRQLEEEVDAPLLIRDGRRLQLTDT 60 Query: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 G+V YE IL +Q V + SG + +GIP + N L P+L A R +P+I Sbjct: 61 GRVVYEQGQQILAAMQRLHAEVRDTKALRSGRLEIGIPPMI-NILCTPVLKAFRERHPDI 119 Query: 121 TLQLTEELTGNLITQLKSG--RINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVA 178 + L E+ + ++ +G I + VL D +L P+ M + +A S Sbjct: 120 AVVLQEDTGPQIEQRVANGELEIGMTVLPADPEL-GLETLPVASYPMWAVAQAGSFQ--K 176 Query: 179 GRKSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIG 238 R S+ A+ PL+L G+ + + R G+ + V + L + LA +G Sbjct: 177 NRASLRCAQLDGMPLVLLNNEFGLTRSLRGVFREHGIKPEIVAQSAQWDWLVAMALAGMG 236 Query: 239 ATILP 243 +LP Sbjct: 237 TALLP 241 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 100 bits (250), Expect = 1e-22, Method: Compositional matrix adjust. Identities = 66/221 (29%), Positives = 107/221 (48%), Gaps = 17/221 (7%) Query: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 +ELR L YF + + RAA LHI+QP LT+QI LE EL AQL RS + + T A Sbjct: 2 IELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTAA 61 Query: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 GK FY I K ++ AK+ V S+ SG + +G S + + + + YPE+ Sbjct: 62 GKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPEV 121 Query: 121 TLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVAGR 180 ++LTE + L T ++ +I++ +++ + + E ++ + + +AGR Sbjct: 122 DMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVL--PRDHRLAGR 179 Query: 181 KSVPLARAIQAPLI-LPGLA--------------HGVRPRI 206 +S+ A + I +P + HG RPRI Sbjct: 180 QSISAAELAEDAFISIPRMIAPVVYDLIQQHCQLHGFRPRI 220 >gi|300310617|ref|YP_003774709.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 303 Score = 99.0 bits (245), Expect = 5e-22, Method: Compositional matrix adjust. Identities = 83/299 (27%), Positives = 142/299 (47%), Gaps = 6/299 (2%) Query: 1 MELRQLRYFVAIVDHGSLSRAARALHIAQPALTQQIRQLEDELAAQLLHRSAQGVIATDA 60 M + FV ++ GSLS+ A QP +++QI +LE + +L R+ +GVI T+ Sbjct: 1 MHYAAWKLFVEALELGSLSKVALLHGTTQPHISRQIAELEQQYGGRLFQRNGRGVIPTEL 60 Query: 61 GKVFYEHALAILKQVQDAKQAVGQSADKPSGTVALGIPQSVSNALALPLLNAVRSTYPEI 120 G A L + + +A P G V +GI S ++ L L ++ YP+I Sbjct: 61 GMRVAPRVRAWLATTEQLTNDIQSAAGTPIGRVRMGILPSAAHPLVSTLYQQIQQRYPQI 120 Query: 121 TLQLTEELTGNLITQLKSGRINLAVLFDDGQLSSFAATPMIEEEMMYITRAKSQYGVAGR 180 L + E L T L +G ++LA+LF G ++ I + Y+ A V G Sbjct: 121 QLSVREGQGAQLDTWLDNGYVDLALLFRHGA-NAKNGDLYITKTDTYLVGAPDDPLVQG- 178 Query: 181 KSVPLARAIQAPLILPGLAHGVRPRIENLVRSQGMSLDNVIEINSVAILKSAILADIGAT 240 +VP A + PL+ + R R+++L G++L+ IE +S++I + L + G Sbjct: 179 PTVPFASLDRLPLVSFCRPNSWRDRLDHLSIEHGITLNVQIEADSLSIQEH--LVENGGV 236 Query: 241 ILPVAP--LLADIERGEMVAHRIAGERISRTLALCASRNIPLTTAAAAVEQLVLDVTDE 297 + P + + + + + A RI I+R +AL SR+ LT A V QL+ ++ + Sbjct: 237 YALLGPYAIASAVRKNRLKAARIIAPEITRHIALAMSRHGELTLACRTVMQLIKELAQD 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 0.319 0.133 0.362 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: 924,250 Number of extensions: 36992 Number of successful extensions: 277 Number of sequences better than 1.0e-08: 77 Number of HSP's gapped: 262 Number of HSP's successfully gapped: 77 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 130 (54.7 bits)