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= 0007.0028.p (245 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313520|ref|YP_003777612.1| transcription regulator protein... 87 1e-18 gi|300313340|ref|YP_003777432.1| transcription regulator protein... 80 1e-16 gi|300312613|ref|YP_003776705.1| transcription regulator protein... 74 1e-14 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 70 1e-13 gi|300311570|ref|YP_003775662.1| GntR family transcription regul... 67 1e-12 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 87.0 bits (214), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 80/235 (34%), Positives = 114/235 (48%), Gaps = 31/235 (13%) Query: 10 LASLIARQ--------ALAPGQKLPSERTLAAEFGVSRSSLREAIGVLVSRGVLVARHGG 61 L+ +ARQ A G KLP+E LA +FGVSR+ +REAI L GV+ R G Sbjct: 10 LSDTVARQLLENIDAGAFPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHEGVVEPRQGS 69 Query: 62 GTFMADDEQAALTDPI----AEALQPLAPLARSDAGYWKDVAEIRFSLEGDAAYFAALRA 117 G F+ EQA + P+ E P A L + E+R ++E + A AA R Sbjct: 70 GVFVT--EQAGI-KPLRIDYTEVSSPEAVL---------QIVELRRAIEAEVAAQAAKRR 117 Query: 118 SDDDKRRLQQAYLAVST---APLDDLAAQARTDAAFHLAIAQASRNVVLRQVMSGLLRLL 174 S +D + ++ A + A D +AA D AFH A+AQA+RN + + L + L Sbjct: 118 SAEDLQAIEAALAQIGVDVAAGGDGVAA----DVAFHRALAQATRNPYFIKTLEFLSQYL 173 Query: 175 EISIADTLRQLYRLPDIVAQLDQQHRQILDAILAGRAEEARQHANAHLDFVQQRL 229 E + A T R D Q+ ++H I++AI AG AR A H+ +RL Sbjct: 174 EAATAVTRGNEARYEDFSRQVREEHEAIVEAIRAGDEMAARNAAQTHMFNAARRL 228 >gi|300313340|ref|YP_003777432.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 80.5 bits (197), Expect = 1e-16, Method: Compositional matrix adjust. Identities = 68/221 (30%), Positives = 104/221 (47%), Gaps = 19/221 (8%) Query: 6 LVDRLASLIARQALAPGQKLPSERTLAAEFGVSRSSLREAIGVLVSRGVLVARHGGGTFM 65 + D + IA L PGQ LPSE L FGVSR ++REA L RG++ G + Sbjct: 21 IADHIVRYIAEHKLEPGQSLPSEGELTRLFGVSRPTVREATNALAGRGLIAVSSGKSPTV 80 Query: 66 ADDEQAALTDPIAEAL--QPLAPLARSDAGYWKDVAEIRFSLEGDAAYFAALRASDDDKR 123 + ++ L Q + P+ + E+R SL+ AA AA + D Sbjct: 81 LPLSKVPFSNLAQHGLATQQITPI---------QILEVRHSLDLQAAVLAAEHRTPADID 131 Query: 124 RLQQAYLAVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMSGLLRLLEISIADTLR 183 RL A +A A L ++ A + DAAFH A+ QA++N +L ++SG+ +L D+ R Sbjct: 132 RL-NAIVAQMPAALGNVEAFSPLDAAFHEAVGQATQNPLLSAIISGISPIL----FDSTR 186 Query: 184 QLYRLPDIVAQLDQ---QHRQILDAILAGRAEEARQHANAH 221 ++ + D H+ I AI+ G A AR+ + H Sbjct: 187 SVHSHTRNQQEWDSVLLNHQNIAAAIINGNASAARRLVDIH 227 >gi|300312613|ref|YP_003776705.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 73.6 bits (179), Expect = 1e-14, Method: Compositional matrix adjust. Identities = 73/214 (34%), Positives = 103/214 (48%), Gaps = 12/214 (5%) Query: 9 RLASLIARQALAPGQKLPSERTLAAEFGVSRSSLREAIGVLVSRGVLVARHGGGTFMADD 68 RL ++I L P Q+LP ER LAA GV R ++REAI L G+L R G GTF++ Sbjct: 18 RLLTMIRSGLLKPDQQLPPERELAAMLGVGRPAVREAIRGLALLGLLRIRQGEGTFVSSL 77 Query: 69 EQAALTDPIAEALQPLAPLARSDAGYWKDVAEIRFSLEGDAAYFAALRASDDDKRRLQQA 128 E E L+PL + + G + + + R +E A AA D + RL + Sbjct: 78 E-------TRELLEPLEMIIDLNPGTLESLFDARLIIETGVAALAATHIEDAELDRLAR- 129 Query: 129 YLAVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMSGLLRLLEISIADTLRQLYRL 188 + L D AA A D FH AI +A N L+ + L L + S + T R+ Sbjct: 130 NVEDEARLLSDPAAFAAADVEFHEAIIEACNNPFLQSIAGSLYMLGKKSRSIT----SRI 185 Query: 189 PDIVAQLDQQHRQILDAILAGRAEEARQHANAHL 222 P + + Q HRQILDA+ A ++A + HL Sbjct: 186 PATLERSLQDHRQILDALKARDPQKASEAMRHHL 219 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 70.5 bits (171), Expect = 1e-13, Method: Compositional matrix adjust. Identities = 63/227 (27%), Positives = 110/227 (48%), Gaps = 21/227 (9%) Query: 10 LASLIARQALAPGQKLPSERTLAAEFGVSRSSLREAIGVLVSRGVLVARHGGGTFMADDE 69 L ++I+ +L PG KLP+E + GVSR+ +REAI L + G++ RHG GTF+ + + Sbjct: 28 LTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISRLQAAGLVETRHGIGTFVLEAK 87 Query: 70 QAALTDPIAEALQPLAPLARSDAGYWKDVAEIRFSLEGDAAYFAALRASDDDKRRLQQA- 128 + + + P + + E+R SLE + A AA R +++ + +++A Sbjct: 88 KGGNIN--------IDPATITTMRDLLALLELRISLETETAGLAAARRTEEQLQEIREAL 139 Query: 129 --YLAVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMS----GLLRLLEISIADTL 182 + A D + R FH AIA A+ N +++S G++ I+ A+ Sbjct: 140 DLFRANQQGGGDTVGPDFR----FHFAIANATGNRYFIEIISHLGMGVIPRKRINTAELA 195 Query: 183 RQLYRLPDIVAQLDQQHRQILDAILAGRAEEARQHANAHLDFVQQRL 229 + + ++ ++H I +AI G AE AR HL ++RL Sbjct: 196 HD--QQASYLDRVQREHEDIYEAIARGDAEAARAAMRNHLTNSRERL 240 >gi|300311570|ref|YP_003775662.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 258 Score = 67.4 bits (163), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 65/215 (30%), Positives = 96/215 (44%), Gaps = 18/215 (8%) Query: 22 GQKLPSERTLAAEFGVSRSSLREAIGVLVSRGVLVARHGGGTFMADDEQAALTDPIAEAL 81 G KLPSE LA F VSR +R+A+ L ++ + G GT++ + A P AE Sbjct: 52 GSKLPSENDLATLFEVSRPVVRQALDRLREDQLVESLRGSGTYVKEKPGLAPAQPGAE-- 109 Query: 82 QPLAPLARSDAGYWKDVAEIRFSLEGDAAYFAALRASDDDKRRLQQAYLAVSTAPLDDLA 141 P R G+ + E+R +E + A AALR + D R+++ A Sbjct: 110 ----PETR--IGHIMNGLELRLVIEPECAAMAALRRNRQDLDRMERLLEGFEAANRVGGI 163 Query: 142 AQARTDAAFHLAIAQASRNVVLRQVMSGLLRLLEISIADTLRQLYRLPDIVAQLDQQ--- 198 A D FH AIA A+ N+ QVM + LE ++ + L L I Q Sbjct: 164 AH-HYDFGFHEAIATATGNLRFVQVM----KTLEYDVSHAVNMLRHLMHIAPWKRSQDAM 218 Query: 199 --HRQILDAILAGRAEEARQHANAHLDFVQQRLLD 231 HRQI + I AE AR+ H++ + R+ + Sbjct: 219 DEHRQIFELIRVQDAEGARRAMRGHIENARTRMFN 253 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 0.132 0.360 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: 720,162 Number of extensions: 30009 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 185 Number of HSP's successfully gapped: 12 Length of query: 245 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 162 Effective length of database: 1,226,865 Effective search space: 198752130 Effective search space used: 198752130 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: 129 (54.3 bits)