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= 0011.0091.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|300309907|ref|YP_003773999.1| transcription regulator protein... 598 e-172 gi|300310891|ref|YP_003774983.1| transcription regulator protein... 84 2e-17 gi|300310484|ref|YP_003774576.1| LysR family transcription regul... 66 4e-12 gi|300312961|ref|YP_003777053.1| transcription regulator protein... 64 2e-11 gi|300312102|ref|YP_003776194.1| LysR family transcription regul... 61 1e-10 >gi|300309907|ref|YP_003773999.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 295 Score = 598 bits (1542), Expect = e-172, Method: Compositional matrix adjust. Identities = 294/295 (99%), Positives = 295/295 (100%) Query: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE 60 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE Sbjct: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE 60 Query: 61 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWCQAHPDS 120 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWCQAHPDS Sbjct: 61 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWCQAHPDS 120 Query: 121 ECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPAKWWPQERLD 180 ECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPA+WWPQERLD Sbjct: 121 ECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPAQWWPQERLD 180 Query: 181 TPITPDEIAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLARSLVEARIGIA 240 TPITPDEIAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLARSLVEARIGIA Sbjct: 181 TPITPDEIAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLARSLVEARIGIA 240 Query: 241 VVDHFTAKAGHADKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAIRSLPD 295 VVDHFTAKAGHADKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAIRSLPD Sbjct: 241 VVDHFTAKAGHADKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAIRSLPD 295 >gi|300310891|ref|YP_003774983.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 312 Score = 83.6 bits (205), Expect = 2e-17, Method: Compositional matrix adjust. Identities = 86/300 (28%), Positives = 140/300 (46%), Gaps = 21/300 (7%) Query: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE 60 M L +E F+A+M GS GA R L +QPA+SK + E +G+ALF R+G ++ PT + Sbjct: 1 MDLNQLEAFAAVMTLGSVTGAGRSLGRSQPAVSKAIGDLESELGYALFDRNGPRVTPTAK 60 Query: 61 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWC----QA 116 A L +E++ L IR +A P+ + ATPA+A +AP A+ L A Sbjct: 61 AFLLYEEVERSLVGLRSIRERALEIAREEVHPVHLVATPALASTIAPAALQLLAADGQHA 120 Query: 117 HPDSECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPAKWWPQ 176 P+ L SAS ++++++L V + LT P++H L D++ I A Sbjct: 121 FPEHVHLRSAS-AEQVVHAVLHRTVSLGLTSLPVAHRGL--------DLHWIGEAPCVAV 171 Query: 177 ERLDTPITPDE------IAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLAR 230 R D P+ + + GQ I++ R L V L G DV + T A Sbjct: 172 VRADHPLASKDKLTRAALRGQRVITMSNRYRLRQRVELAL-GEDSQLDVAIDTNTSFNAI 230 Query: 231 SLVEARIGIAVVDHFTAKAGHADKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAI 290 A +G+A+V+ TA G + + ++R+ + +T +P L++A+ Sbjct: 231 MAARAGLGVALVEPATAY-GMPIEGMVVKRLAVEIPFYFGVVTPYGKPVEGVTERLIDAV 289 >gi|300310484|ref|YP_003774576.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 322 Score = 65.9 bits (159), Expect = 4e-12, Method: Compositional matrix adjust. Identities = 52/153 (33%), Positives = 80/153 (52%), Gaps = 14/153 (9%) Query: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPT-- 58 L+ +E+F+AI+ GS AA LLN+TQPA+S+ ++ E++VG ALF R + T Sbjct: 3 FNLQQLEMFNAIVSAGSLGRAAALLNLTQPALSRAIKRLEESVGGALFERHTKGMHLTVL 62 Query: 59 -----PEALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALW 113 P A+ LQ+E Q E+L IR LA G +++ A +IA + P AV Sbjct: 63 GQALLPHAMSLQREAQQAREELDAIR----GLAKGV---IKVGAVGSIASLVLPLAVRGV 115 Query: 114 CQAHPDSECLLSASHTRELLYSLLLNEVDIALT 146 P+ + L+ LL +E+D+AL+ Sbjct: 116 LDKWPNLRVEIIEGVWDRLVEGLLTHEIDLALS 148 >gi|300312961|ref|YP_003777053.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 300 Score = 63.5 bits (153), Expect = 2e-11, Method: Compositional matrix adjust. Identities = 48/194 (24%), Positives = 87/194 (44%), Gaps = 2/194 (1%) Query: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE 60 M LRH++ F+A+ T S AA LL++ QP +S+ +R E+ +G L R+ + T Sbjct: 1 MELRHLKYFNAVASTLSFSRAAELLHIAQPPLSRQIRQLEEMLGVELIDRASRPIALTMA 60 Query: 61 ALRLQQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWCQAHPDS 120 ++ +L +I +A G + I P+ + L P+ + + P+ Sbjct: 61 GKFFYEQTLQVLSRLEQIEEGTRVIARGRQHWFNIGFVPSALYGLLPEMIKRFRTEMPEI 120 Query: 121 ECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCDIYAIAPAKWWPQERLD 180 E S T E + +L +D+ PIS P+++ + + + A+ P R Sbjct: 121 EIGFSEIVTMEQVEALKSGRIDVGFGRLPISDPDIVCETIVEEPLVAVFPLGHPLLAR-- 178 Query: 181 TPITPDEIAGQPFI 194 +T ++A Q FI Sbjct: 179 NKVTLAQLAAQRFI 192 >gi|300312102|ref|YP_003776194.1| LysR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 305 Score = 61.2 bits (147), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 76/301 (25%), Positives = 125/301 (41%), Gaps = 17/301 (5%) Query: 1 MRLRHIEIFSAIMQTGSAIGAARLLNVTQPAISKMLRHAEQTVGFALFLRSGGKLVPTPE 60 + L + AI GS AAR L++ P +S + E+ +G L LR ++ P+ Sbjct: 4 LSLDRLRTLVAIADLGSFAAAARELHLAPPTVSLHISELEERIGAPLLLRQRAQVRPSGI 63 Query: 61 ALRL----QQELQPFDEQLARIRRVVSNLASGSEAPLRIAATPAIAHHLAPKAVALWCQA 116 L +Q L D+ L + R V LA +R+ A+ +L P+A+ ++ Sbjct: 64 GETLIARARQLLAAADQALEEVGRQVQGLAGR----VRLGASTGAIAYLLPQALEQLGRS 119 Query: 117 HPDSECLLSASHTRELLYSLLLNEVDIALTMQPISHPNLITTVVCDCD-IYAIAPAKWWP 175 HP + + ++E L L +DI L P + +T D + A PA W Sbjct: 120 HPGIDVQVMVLTSQETLARLAAGALDIGLVALPQAPVAGLTVQPWRRDPVMAFLPASW-- 177 Query: 176 QERLDTPITPDEIAGQPFISIDIRSHLGASVSAWLAGVSPPPDVKVTVQTYTLARSLVEA 235 R +TP +A QP I + L + W A P ++ + +SLV A Sbjct: 178 --RAPRVVTPAWLAAQPLILNAPETRLSRLTTEWFARGGEHPVARIQLNFNDAIKSLVGA 235 Query: 236 RIGIAVVDHFTAKAGHA---DKEIQMRRIDLPTANKVYAITNRSRPAPKSANFLLEAIRS 292 G ++ H + G A D I MR + P + I +R+ + +LEA+ + Sbjct: 236 GYGATLLPHEASAQGAAVALDPRIVMRPLR-PALWRPLGIAHRTGQPEPATRHVLEALWA 294 Query: 293 L 293 L Sbjct: 295 L 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 0.321 0.133 0.394 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: 948,737 Number of extensions: 39771 Number of successful extensions: 220 Number of sequences better than 1.0e-08: 19 Number of HSP's gapped: 235 Number of HSP's successfully gapped: 19 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 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 130 (54.7 bits)