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= 0011.0099.p (265 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309916|ref|YP_003774008.1| transcription regulator protein... 539 e-155 gi|300310493|ref|YP_003774585.1| transcription regulator protein... 97 2e-21 gi|300310974|ref|YP_003775066.1| transcription regulator protein... 83 3e-17 gi|300313290|ref|YP_003777382.1| IclR family transcription regul... 72 4e-14 gi|300311600|ref|YP_003775692.1| transcription regulator protein... 69 5e-13 >gi|300309916|ref|YP_003774008.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 265 Score = 539 bits (1389), Expect = e-155, Method: Compositional matrix adjust. Identities = 265/265 (100%), Positives = 265/265 (100%) Query: 1 MPAHALPPDDAARIAGTAAFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAAL 60 MPAHALPPDDAARIAGTAAFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAAL Sbjct: 1 MPAHALPPDDAARIAGTAAFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAAL 60 Query: 61 MAEGMVVENPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSD 120 MAEGMVVENPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSD Sbjct: 61 MAEGMVVENPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSD 120 Query: 121 HSMVYIEKLESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTAN 180 HSMVYIEKLESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTAN Sbjct: 121 HSMVYIEKLESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTAN 180 Query: 181 THTELAALRADVEDTRARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLP 240 THTELAALRADVEDTRARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLP Sbjct: 181 THTELAALRADVEDTRARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLP 240 Query: 241 DAQQAYVQPLLQACATISRKLAGPG 265 DAQQAYVQPLLQACATISRKLAGPG Sbjct: 241 DAQQAYVQPLLQACATISRKLAGPG 265 >gi|300310493|ref|YP_003774585.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 263 Score = 96.7 bits (239), Expect = 2e-21, Method: Compositional matrix adjust. Identities = 59/249 (23%), Positives = 123/249 (49%) Query: 7 PPDDAARIAGTAAFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMV 66 P D A+ + + K + VL+ Q + + +A+ +G + + R++ L G + Sbjct: 4 PDDTASDLLFNQSLEKGLAVLRAFNAQHRTMTLGDVASATGISKSSAQRMVHTLETLGYI 63 Query: 67 VENPRNKQYEVGPRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYI 126 ++P+ ++Y++ P+++ + + A L +L ++T ETV+L P D MVY+ Sbjct: 64 CKHPKTRRYQLTPKVMEVGYNYLAADILVDVANPFLSELANITGETVNLTEPYDGEMVYV 123 Query: 127 EKLESPQAVRMDSRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELA 186 + + + + + IG+R+ +Y ++ G+AYL+ LE + ++ + T +T T++ Sbjct: 124 ARFVASKFIPIHMPIGSRIPMYCTASGRAYLSALEPEEAQAILESSERTVHTPHTRTDVE 183 Query: 187 ALRADVEDTRARGYAEDREENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLPDAQQAY 246 + + +R RG+A +REE + + ++ PVA V V P R + + Sbjct: 184 DIMQLLAASRERGFASNREELFLGDMSIASPVFNSERKPVASVHVVAPTSRWSVEEAEKK 243 Query: 247 VQPLLQACA 255 + PL+ CA Sbjct: 244 LGPLVLECA 252 >gi|300310974|ref|YP_003775066.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 261 Score = 82.8 bits (203), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 69/231 (29%), Positives = 110/231 (47%), Gaps = 12/231 (5%) Query: 36 PLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVGPRLINLASRAWDRSDIR 95 P+++ +L+A + T +RIL L+ + V+ Y +G RL+ L + R +R Sbjct: 33 PVSLKELSAATDLHPSTAHRILNDLVVK-RFVDRVEPGTYRLGMRLLELGNIVKSRLSVR 91 Query: 96 TTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESP----QAVRMDSRIGTRVTLYSSS 151 A++ +R L T +T++L+V +VYI++ S Q VR IG R L+ +S Sbjct: 92 EAALDFMRALHRKTHQTINLSVRQADEIVYIDRSFSERSGMQVVRA---IGGRAPLHLTS 148 Query: 152 VGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVEDTRARGYAEDREENEAQI 211 GK +L+ + + L N+ T+LA L ++ RA GYA D EE E + Sbjct: 149 TGKLFLSVDDPKNVRAYATRTGLAGHNKNSITDLAKLERELSMVRALGYARDNEELELGV 208 Query: 212 FCYGAAIVGADGVPVACVSVSIPLYRRLPDAQQAYVQPLLQACATISRKLA 262 C A I G VA +S+S P R Q +V+ L+ + IS L Sbjct: 209 RCMAAGICDDSGKLVAGLSISAPADR----LQDEWVEDLVSTASQISSALG 255 >gi|300313290|ref|YP_003777382.1| IclR family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 260 Score = 72.4 bits (176), Expect = 4e-14, Method: Compositional matrix adjust. Identities = 55/213 (25%), Positives = 98/213 (46%), Gaps = 2/213 (0%) Query: 19 AFSKFMVVLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVG 78 + ++ + V++ +D L IAQ++ +G PR V R L L G + N + + Sbjct: 18 SLARGLAVIRAFSDSRRSLTIAQISQKTGIPRAAVRRCLHTLKQLGYADSDVNN--FSLR 75 Query: 79 PRLINLASRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESPQAVRMD 138 P+++ L + + +A L + E+ LAV DH ++Y+ + + + + + Sbjct: 76 PKILTLGYSYLSSTPLTVSAQPYLNNISRTLGESCSLAVLDDHEVLYVARSAASRVMSVA 135 Query: 139 SRIGTRVTLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVEDTRAR 198 G+R+ Y +S+G+A LA L E + + L+A T T LR + RA Sbjct: 136 LNTGSRLPAYCTSLGRAMLAHLPEDQLKAYFDKVKLRALTEKTVVSQKRLRDILAGVRAN 195 Query: 199 GYAEDREENEAQIFCYGAAIVGADGVPVACVSV 231 GYA EE E + + GA G +A ++V Sbjct: 196 GYAVIDEELEVGLRSIAVPVRGASGNVLAALNV 228 >gi|300311600|ref|YP_003775692.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 292 Score = 68.6 bits (166), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 63/236 (26%), Positives = 110/236 (46%), Gaps = 6/236 (2%) Query: 26 VLQLIADQDAPLNIAQLAALSGYPRPTVYRILAALMAEGMVVENPRNKQYEVGPRLINLA 85 VL +A P++ Q+AA+ P TVYR LA+L G++ E+ + +E GP + LA Sbjct: 63 VLAGVARAGKPVSAKQIAAMVQQPVSTVYRHLASLKKWGLLQEHMNSGTFEPGPTGVQLA 122 Query: 86 SRAWDRSDIRTTAIESLRQLRDLTRETVHLAVPSDHSMVYIEKLESPQAVRMDSRIGTRV 145 S++ + + E + L + E+V L V + MV I ES Q +R G Sbjct: 123 WGFDQNSNLVSQSREEISSLVQRSGESVGLLVAINGQMVCIAMEESDQPLRCSFTKGRAH 182 Query: 146 TLYSSSVGKAYLAGLEEAHRERLMRTLHLQAFTANTHTELAALRADVEDTRARGYAEDRE 205 L + K+ LA + +++L+ T L + ELAAL +E+ R RGY Sbjct: 183 PLLKGASAKSLLAFMPRKLQQKLL-TDQL----GDKPEELAALETQLEEIRRRGYCISES 237 Query: 206 ENEAQIFCYGAAIVGADGVPVACVSVSIPLYRRLPDAQQAYVQPLLQACATISRKL 261 E + ++ I+ ++G +++ P R+ + +Q V+ L++ I + Sbjct: 238 EVDLGVWGVSVPIMTSNGRLEGTITLMAPAL-RVGNREQELVRMTLESAQRICNRF 292 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 0.320 0.132 0.376 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: 812,847 Number of extensions: 31787 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 8 Number of HSP's gapped: 134 Number of HSP's successfully gapped: 8 Length of query: 265 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 181 Effective length of database: 1,222,130 Effective search space: 221205530 Effective search space used: 221205530 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: 129 (54.3 bits)