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= 0001.1016.p (246 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... 84 9e-18 gi|300313340|ref|YP_003777432.1| transcription regulator protein... 79 3e-16 gi|300311570|ref|YP_003775662.1| GntR family transcription regul... 77 1e-15 gi|300312446|ref|YP_003776538.1| GntR family transcription regul... 72 3e-14 gi|300312613|ref|YP_003776705.1| transcription regulator protein... 67 1e-12 >gi|300313520|ref|YP_003777612.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 233 Score = 84.3 bits (207), Expect = 9e-18, Method: Compositional matrix adjust. Identities = 77/242 (31%), Positives = 115/242 (47%), Gaps = 35/242 (14%) Query: 4 ATSLTDRLAHFIAER----ALPPGRKLPSERTLAAEFGVSRSSLREAIRVLSSQGLLVAR 59 A +L+D +A + E A P G KLP+E LA +FGVSR+ +REAI L +G++ R Sbjct: 7 AQALSDTVARQLLENIDAGAFPRGSKLPTEAVLAQQFGVSRTVVREAIARLKHEGVVEPR 66 Query: 60 HGGGTFVAGQ--------DSAALTDPIAEALLPLAPLARSDAGYWKDVAEIRSSLEGDAA 111 G G FV Q D ++ P EA+L + E+R ++E + A Sbjct: 67 QGSGVFVTEQAGIKPLRIDYTEVSSP--EAVL--------------QIVELRRAIEAEVA 110 Query: 112 YFAALRANEQDRRRLRQAYLEVST---APLDDLAAQARTDAAFHLAIAQASRNVVLRQVM 168 AA R + +D + + A ++ A D +AA D AFH A+AQA+RN + + Sbjct: 111 AQAAKRRSAEDLQAIEAALAQIGVDVAAGGDGVAA----DVAFHRALAQATRNPYFIKTL 166 Query: 169 SGLLRLLEISIADTLRQLYCLPDIVAALDRQHRQILDAILDGRAEDARSHANAHLEFVQR 228 L + LE + A T D + +H I++AI G AR+ A H+ R Sbjct: 167 EFLSQYLEAATAVTRGNEARYEDFSRQVREEHEAIVEAIRAGDEMAARNAAQTHMFNAAR 226 Query: 229 RL 230 RL Sbjct: 227 RL 228 >gi|300313340|ref|YP_003777432.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 236 Score = 79.3 bits (194), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 68/223 (30%), Positives = 107/223 (47%), Gaps = 23/223 (10%) Query: 7 LTDRLAHFIAERALPPGRKLPSERTLAAEFGVSRSSLREAIRVLSSQGLLVARHGGGTFV 66 + D + +IAE L PG+ LPSE L FGVSR ++REA L+ +GL+ G V Sbjct: 21 IADHIVRYIAEHKLEPGQSLPSEGELTRLFGVSRPTVREATNALAGRGLIAVSSGKSPTV 80 Query: 67 AGQDSAALTDPIAEALLPLAPLARSDAGYWK----DVAEIRSSLEGDAAYFAALRANEQD 122 P+++ +P + LA+ + + E+R SL+ AA AA D Sbjct: 81 L---------PLSK--VPFSNLAQHGLATQQITPIQILEVRHSLDLQAAVLAAEHRTPAD 129 Query: 123 RRRLRQAYLEVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMSGLLRLLEISIADT 182 RL ++ A L ++ A + DAAFH A+ QA++N +L ++SG+ +L D+ Sbjct: 130 IDRLNAIVAQMPAA-LGNVEAFSPLDAAFHEAVGQATQNPLLSAIISGISPIL----FDS 184 Query: 183 LRQLYCLPDIVAALDR---QHRQILDAILDGRAEDARSHANAH 222 R ++ D H+ I AI++G A AR + H Sbjct: 185 TRSVHSHTRNQQEWDSVLLNHQNIAAAIINGNASAARRLVDIH 227 >gi|300311570|ref|YP_003775662.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 258 Score = 76.6 bits (187), Expect = 1e-15, Method: Compositional matrix adjust. Identities = 77/235 (32%), Positives = 107/235 (45%), Gaps = 20/235 (8%) Query: 4 ATSLTDRLAHFIAERALPPGRKLPSERTLAAEFGVSRSSLREAIRVLSSQGLLVARHGGG 63 A + + L H I E + G KLPSE LA F VSR +R+A+ L L+ + G G Sbjct: 33 AERVYETLFHAIVEGRITVGSKLPSENDLATLFEVSRPVVRQALDRLREDQLVESLRGSG 92 Query: 64 TFVAGQDSAALTDPIAEALLPLAPLARSDAGYWKDVAEIRSSLEGDAAYFAALRANEQDR 123 T+V + A P AE P R G+ + E+R +E + A AALR N QD Sbjct: 93 TYVKEKPGLAPAQPGAE------PETR--IGHIMNGLELRLVIEPECAAMAALRRNRQDL 144 Query: 124 RRLRQAYLEVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMSGLLRLLEISIADTL 183 R+ + LE A D FH AIA A+ N+ QVM + LE ++ + Sbjct: 145 DRM-ERLLEGFEAANRVGGIAHHYDFGFHEAIATATGNLRFVQVM----KTLEYDVSHAV 199 Query: 184 RQLYCLPDIVA------ALDRQHRQILDAILDGRAEDARSHANAHLEFVQRRLLD 232 L L I A+D +HRQI + I AE AR H+E + R+ + Sbjct: 200 NMLRHLMHIAPWKRSQDAMD-EHRQIFELIRVQDAEGARRAMRGHIENARTRMFN 253 >gi|300312446|ref|YP_003776538.1| GntR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 255 Score = 72.4 bits (176), Expect = 3e-14, Method: Compositional matrix adjust. Identities = 73/228 (32%), Positives = 105/228 (46%), Gaps = 23/228 (10%) Query: 11 LAHFIAERALPPGRKLPSERTLAAEFGVSRSSLREAIRVLSSQGLLVARHGGGTFV--AG 68 L I+ +L PG KLP+E + GVSR+ +REAI L + GL+ RHG GTFV A Sbjct: 28 LTAMISNGSLTPGDKLPTESEIMQTQGVSRTVVREAISRLQAAGLVETRHGIGTFVLEAK 87 Query: 69 QDSAALTDPIAEALLP--LAPLARSDAGYWKDVAEIRSSLEGDAAYFAALRANEQDRRRL 126 + DP + LA L E+R SLE + A AA R E+ + + Sbjct: 88 KGGNINIDPATITTMRDLLALL------------ELRISLETETAGLAAARRTEEQLQEI 135 Query: 127 RQAYLEVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMS----GLLRLLEISIADT 182 R+A L++ A D FH AIA A+ N +++S G++ I+ A+ Sbjct: 136 REA-LDLFRANQQGGGDTVGPDFRFHFAIANATGNRYFIEIISHLGMGVIPRKRINTAEL 194 Query: 183 LRQLYCLPDIVAALDRQHRQILDAILDGRAEDARSHANAHLEFVQRRL 230 + + R+H I +AI G AE AR+ HL + RL Sbjct: 195 AHDQQA--SYLDRVQREHEDIYEAIARGDAEAARAAMRNHLTNSRERL 240 >gi|300312613|ref|YP_003776705.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 239 Score = 67.0 bits (162), Expect = 1e-12, Method: Compositional matrix adjust. Identities = 73/201 (36%), Positives = 100/201 (49%), Gaps = 18/201 (8%) Query: 10 RLAHFIAERALPPGRKLPSERTLAAEFGVSRSSLREAIRVLSSQGLLVARHGGGTFVAGQ 69 RL I L P ++LP ER LAA GV R ++REAIR L+ GLL R G GTFV+ Sbjct: 18 RLLTMIRSGLLKPDQQLPPERELAAMLGVGRPAVREAIRGLALLGLLRIRQGEGTFVSSL 77 Query: 70 DSAALTDPIAEALLPLAPLARSDAGYWKDVAEIRSSLEGDAAYFAALRANEQDRRRLRQA 129 ++ L +P+ E ++ L P G + + + R +E A AA + + RL + Sbjct: 78 ETRELLEPL-EMIIDLNP------GTLESLFDARLIIETGVAALAATHIEDAELDRLAR- 129 Query: 130 YLEVSTAPLDDLAAQARTDAAFHLAIAQASRNVVLRQVMSGLLRLLEISIADTLRQLYCL 189 +E L D AA A D FH AI +A N L+ + L L + S + T R Sbjct: 130 NVEDEARLLSDPAAFAAADVEFHEAIIEACNNPFLQSIAGSLYMLGKKSRSITSR----- 184 Query: 190 PDIVAALDRQ---HRQILDAI 207 I A L+R HRQILDA+ Sbjct: 185 --IPATLERSLQDHRQILDAL 203 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 0.365 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: 636,159 Number of extensions: 23702 Number of successful extensions: 167 Number of sequences better than 1.0e-08: 12 Number of HSP's gapped: 152 Number of HSP's successfully gapped: 12 Length of query: 246 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 163 Effective length of database: 1,226,865 Effective search space: 199978995 Effective search space used: 199978995 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)