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= 0001.4437.p (295 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313839|ref|YP_003777931.1| MetE/MetH family transcription ... 583 e-168 gi|300313102|ref|YP_003777194.1| LysR family transcription regul... 85 9e-18 gi|300312750|ref|YP_003776842.1| LysR family transcription regul... 79 3e-16 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 78 7e-16 gi|300309864|ref|YP_003773956.1| LysR family transcription regul... 77 1e-15 >gi|300313839|ref|YP_003777931.1| MetE/MetH family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 583 bits (1504), Expect = e-168, Method: Compositional matrix adjust. Identities = 287/295 (97%), Positives = 291/295 (98%) Query: 1 MLDRIHLSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQ 60 MLDRIHLSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQ Sbjct: 1 MLDRIHLSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQ 60 Query: 61 AGQYLLAVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPD 120 AGQYLLAVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPD Sbjct: 61 AGQYLLAVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPD 120 Query: 121 VDVDVKQKFQFGGIGALFGYEIDLLVTPDPLDKPGLVFEPVFDYEQVLVVAADHRLADAD 180 VDVDVKQKFQFGGIGALFGYEIDLLVTPDPLDKPGLVFEPVFDYEQVLVVA+DH LAD D Sbjct: 121 VDVDVKQKFQFGGIGALFGYEIDLLVTPDPLDKPGLVFEPVFDYEQVLVVASDHPLADVD 180 Query: 181 YVKPKQLSNEVLVSYPVPVDRLDIYTQFLAPAGIVPRRHKTIETTDIMLQMVASGRGVAA 240 YVKP+QLSNEVLV+YPVPVDRLDIYTQFLAPAGIVPRRHKTIETTDIMLQMVASGRGVAA Sbjct: 181 YVKPRQLSNEVLVTYPVPVDRLDIYTQFLAPAGIVPRRHKTIETTDIMLQMVASGRGVAA 240 Query: 241 LPRWLVLEYAQQMAVVPVRLGKHGIAKHIYLGARESDVEIDYLRAFIDEARQAQA 295 LPRWLVLEYA+QM VVPVRLGK GIAKHIYLGARESDVEIDYLRAFIDEARQAQA Sbjct: 241 LPRWLVLEYAEQMEVVPVRLGKQGIAKHIYLGARESDVEIDYLRAFIDEARQAQA 295 >gi|300313102|ref|YP_003777194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 84.7 bits (208), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 64/245 (26%), Positives = 110/245 (44%), Gaps = 4/245 (1%) Query: 1 MLDRIHLSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQ 60 M++ HL+ + V AA +LH++Q L+ + LE++LG ++ R R ++LT Sbjct: 1 MIELRHLTYFRTVAETLHFGRAAELLHISQPPLTRQIAALEKELGAQLFDRSKRAIQLTA 60 Query: 61 AGQYLLAVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPD 120 AG+Y + L A+ + + G+ GAL++G Y L V Y AA+P+ Sbjct: 61 AGKYFYRDTTEIFKALERAKRNVSSSSTGKSGALKVGFMMSTAYNILPSVTRHYSAAYPE 120 Query: 121 VDVDVKQKFQFGGIGALFGYEIDLLVTPDPLDKPGLVFEPVFDYEQVLVVAADHRLADAD 180 VD+ + + + +ID+ + P D L ++ + V+ DHRLA Sbjct: 121 VDMRLTEYVPNLLATDIEDEKIDVGIMYRPEDCRRLDSHTIYAEPLLAVLPRDHRLAGRQ 180 Query: 181 YVKPKQLSNEVLVSYP---VPVDRLDIYTQFLAPAGIVPRRHKTIETTDIMLQMVASGRG 237 + +L+ + +S P PV D+ Q G PR ++ +V G G Sbjct: 181 SISAAELAEDAFISIPRMIAPV-VYDLIQQHCQLHGFRPRIVLETNLQQTIVNLVGEGLG 239 Query: 238 VAALP 242 VA +P Sbjct: 240 VALVP 244 >gi|300312750|ref|YP_003776842.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 79.3 bits (194), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 69/238 (28%), Positives = 110/238 (46%), Gaps = 9/238 (3%) Query: 13 VERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQAGQYLLAVANRV 72 V +G LT AA + + Q LS ++ LE++LG ++ R R + LT +G LL A + Sbjct: 30 VAEEGHLTKAAERIGIQQPPLSQQIRVLERELGVTLFNRLPRGMELTDSGAALLIDARAL 89 Query: 73 LPQLSLAEERLRQFAQGERGALRIGM-ECHPCYQWLLKVVSPYLAAWPDVDVDVKQKFQF 131 L QL +R+ AQG+ G + +G E + ++ V+ + A PDV + V++ Sbjct: 90 LAQLDTTVASVRRIAQGKMGRIAVGFTESASLHPFVHSVIRAFRADAPDVAMTVEESNTN 149 Query: 132 GGIGALFGYEIDLLVTPDPL-DKPGLVFEPVFDYEQVLVVAADHRLADADYVKP---KQL 187 I AL G +DL P+ D GL E + + + V + DH L D K L Sbjct: 150 ELIEALRGKRLDLAFVRSPVGDSGGLTIETMLEEDMVAALPIDHPLVDGGKRKSIALHAL 209 Query: 188 SNEVLVSYPVPVDRLDIYTQFLA---PAGIVPRRHKTIETTDIMLQMVASGRGVAALP 242 + E + P + +Y +A AG P+ + L +VA+G GV +P Sbjct: 210 AEESFIMTRRP-NGPGLYDTIIAACHAAGFSPQVIQEARKNLSTLSLVAAGVGVTVIP 266 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 78.2 bits (191), Expect = 7e-16, Method: Compositional matrix adjust. Identities = 70/278 (25%), Positives = 119/278 (42%), Gaps = 12/278 (4%) Query: 6 HLSIVQEVERQGSLTAAAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQAGQYL 65 HL V S + AA +LH+ Q LS +++LE+ LG ++ R R + LT AG++ Sbjct: 5 HLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMAGKFF 64 Query: 66 LAVANRVLPQLSLAEERLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPDVDVDV 125 +VL +L EE R A+G + IG Y L +++ + P++++ Sbjct: 65 YEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEIEIGF 124 Query: 126 KQKFQFGGIGALFGYEIDLLVTPDPLDKPGLVFEPVFDYEQVLVVAADHRLADADYVKPK 185 + + AL ID+ P+ P +V E + + V V H L + V Sbjct: 125 SEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLARNKVTLA 184 Query: 186 QLSNEVLVSYPVP-----VDR-LDIYTQFLAPAGIVPRRHKTIETTDIMLQMVASGRGVA 239 QL+ + + YP D+ LDI++ IV K + +VA+G GV Sbjct: 185 QLAAQRFILYPARPRPSYADQVLDIFSSRALRPSIV----KEANEMQTAIGLVAAGVGVT 240 Query: 240 ALPRWLVLEYAQQMAVVPVRLGKHGIAKHIYLGARESD 277 +PR + + + P L G+ + + R +D Sbjct: 241 LVPRSVQGLHRSDVVYRP--LSNKGVHSPVIMNFRAND 276 >gi|300309864|ref|YP_003773956.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 306 Score = 77.4 bits (189), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 61/224 (27%), Positives = 107/224 (47%), Gaps = 4/224 (1%) Query: 22 AAGVLHVTQSALSHSMKKLEQQLGTDIWLREGRHLRLTQAGQYLLAVANRVLPQLSLAEE 81 AA +L++TQ LS + LE +LG ++ R GR +RLT G+ LA A+R+L AE Sbjct: 22 AAALLNMTQPPLSRQIHLLEHRLGVQLFERVGRTVRLTTEGRVFLADASRLLQLSEQAES 81 Query: 82 RLRQFAQGERGALRIGMECHPCYQWLLKVVSPYLAAWPDVDVDVKQKFQFGGIGALFGYE 141 +R+ +QG+ G +R+G Y+ + +++ + P++DV + + + A Sbjct: 82 TVRRASQGKTGRVRVGFTGAAGYELIPELLMQARTSLPEIDVVLFELISVAQLEAFTANT 141 Query: 142 IDLLVTPDPLDKPGLVFEPVFDYEQVLVVAADHRLADADYVKPKQLSNEVLVSYPVPVDR 201 ID+ + L + V + VL + H LA D + QL + + + P Sbjct: 142 IDIGFLRPVASRQPLELQLVDEEALVLAMPQGHALAAYDRIATTQLDGQPFIMHS-PTHG 200 Query: 202 LDIYTQFLAPAG---IVPRRHKTIETTDIMLQMVASGRGVAALP 242 Y + +A G + P + I+ + +L +V +G GV LP Sbjct: 201 KYFYERIMAMLGAADVKPDFTQYIDQSHTILSLVRAGLGVGILP 244 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 0.138 0.410 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: 955,943 Number of extensions: 41973 Number of successful extensions: 231 Number of sequences better than 1.0e-08: 43 Number of HSP's gapped: 220 Number of HSP's successfully gapped: 43 Length of query: 295 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 210 Effective length of database: 1,217,395 Effective search space: 255652950 Effective search space used: 255652950 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 (21.9 bits) S2: 130 (54.7 bits)