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= 0034.0054.p (315 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311760|ref|YP_003775852.1| transcription regulator protein... 449 e-127 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 247 7e-67 gi|300310404|ref|YP_003774496.1| AraC family transcription regul... 79 6e-16 gi|300309514|ref|YP_003773606.1| AraC family transcription regul... 68 9e-13 gi|300309661|ref|YP_003773753.1| AraC family transcription regul... 63 4e-11 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 449 bits (1154), Expect = e-127, Method: Compositional matrix adjust. Identities = 235/309 (76%), Positives = 255/309 (82%), Gaps = 8/309 (2%) Query: 1 MSEPSLTDPLAEVVSLLQPAARYTKYVQGAGGWRVQRSRPELAFYCAVLEGSCRILRADA 60 MSEP TDPLAEVV+LLQPAARYTKYVQG+G WRVQRSRPELAFYCAVL+GSCR+ A Sbjct: 1 MSEP--TDPLAEVVTLLQPAARYTKYVQGSGAWRVQRSRPELAFYCAVLDGSCRLEPAAG 58 Query: 61 GAMTEETCIVLHAGDFFLAPALQGFTLASMDDCDDALLDEDNPPPRLPDGRYHLGTLGLP 120 A I+L AGDF LAPAL GF L S+ D LLDE NPPP LPDGRYHLGT P Sbjct: 59 PA------ILLEAGDFVLAPALHGFALTSLHTNDATLLDESNPPPLLPDGRYHLGTPEGP 112 Query: 121 PQVQLVVGHCVFASPDTPLLLSLLPSLVVVRAHARLHTLVQLVGDEYRAERPARDVVLAR 180 +VQLV GHCVF SPD+ LL+SLLP LVVVRAH RL TLVQLVGDE RA+RPAR+VVLAR Sbjct: 113 AEVQLVAGHCVFESPDSVLLVSLLPDLVVVRAHTRLATLVQLVGDESRAQRPAREVVLAR 172 Query: 181 LLEVLLIEALRSGTDTGAAATPGLLRGLGDVRLAAALRSIHARPADNWNVLRLARAAALS 240 LLEVLLIEALRS D AA+PGLLRGL DVRLA A+R++HA+PA +WNV RLAR AALS Sbjct: 173 LLEVLLIEALRSSNDPTVAASPGLLRGLADVRLAQAIRALHAQPAQDWNVPRLARVAALS 232 Query: 241 RSSFFERFRREVGLAPMEYLLAWRMALAKRLLLGEAASMATVAQQVGYSSASTFSVAFSR 300 RSSFFERFRREVGL PM+YLLAWRMALAKRLLL S+A VA QVGYSSASTFSVAFSR Sbjct: 233 RSSFFERFRREVGLTPMDYLLAWRMALAKRLLLRADGSIAEVALQVGYSSASTFSVAFSR 292 Query: 301 HVGVPPSQF 309 HVG+PPSQF Sbjct: 293 HVGLPPSQF 301 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 247 bits (631), Expect = 7e-67, Method: Compositional matrix adjust. Identities = 143/308 (46%), Positives = 191/308 (62%), Gaps = 17/308 (5%) Query: 6 LTDPLAEVVSLLQPAARYTKYVQGAGGWRVQRSRPELAFYCAVLEGSCRILRADAGAMTE 65 ++DPL+EVV LL+P A + + G G W V+ S +C +LEGSCR+ A+ E Sbjct: 1 MSDPLSEVVRLLRPQAVFANLISGKGNWAVRYSEFGKPSFCIMLEGSCRL------AVDE 54 Query: 66 ETCIVLHAGDFFLAPALQGFTLASMDDCDDALLDEDNPPPRLPDG---RYHLGTLGLPPQ 122 + L AGDF L P GFT++S LD P ++P+G RY G P Sbjct: 55 QEPTTLSAGDFVLLPTTPGFTISSFVPAPPVHLD----PNKVPEGLELRY--GEQTGQPD 108 Query: 123 VQLVVGHCVFASPDTPLLLSLLPSLVVVRAHARLHTLVQLVGDEYRAERPARDVVLARLL 182 ++ + G F D LL+SLLP +V V+ RL LVQ+VG+E +P + +L+RL Sbjct: 109 MRSLGGSFEFGCADPSLLVSLLPKVVHVQGSTRLSQLVQMVGEEASGGKPGSEFMLSRLA 168 Query: 183 EVLLIEALRSGTDTGAAATPGLLRGLGDVRLAAALRSIHARPADNWNVLRLARAAALSRS 242 E+LL+EA+RS T T +A PGLLRGLGD RLA AL+ +HAR W+V +LAR AALSRS Sbjct: 169 EMLLVEAMRSSTST--SAPPGLLRGLGDERLAVALKHMHARIEQRWSVAQLARIAALSRS 226 Query: 243 SFFERFRREVGLAPMEYLLAWRMALAKRLLLGEAASMATVAQQVGYSSASTFSVAFSRHV 302 SFFERF R +G+APM YLLAWRM +A+ LL S++ +A++ GY S S FSVAF+R V Sbjct: 227 SFFERFTRTLGVAPMAYLLAWRMEIARELLRRGELSVSEIAERTGYGSTSAFSVAFTRQV 286 Query: 303 GVPPSQFA 310 G PP +A Sbjct: 287 GQPPGLYA 294 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 78.6 bits (192), Expect = 6e-16, Method: Compositional matrix adjust. Identities = 85/320 (26%), Positives = 132/320 (41%), Gaps = 27/320 (8%) Query: 7 TDPLAEVV-SLLQPAARYTKYVQGAGGWRVQRSRPELAFYCAVLEGSCRILRADAGAMTE 65 DPL E++ L Y +YV W V A + V +G C + + + Sbjct: 30 VDPLTEILLGLRLDGVEYARYVLHEP-WAVAFPARREATFHFVAQGGCWM------QVGQ 82 Query: 66 ETCIVLHAGDFFLAPALQGFTLASM-------------DDCDDALLDEDNPPPRLPDGRY 112 + + L+ GD L P LAS D L D+ L D Sbjct: 83 QAWLQLNTGDAVLLPRGAPHALASAPGLPTVEIGKLARKALADNLFLIDDSGNGLADAPA 142 Query: 113 HLGTLGLPPQVQLVVGHCVFA-SPDTPLLLSLLPSLVVVRAHAR---LHTLVQLVGDEYR 168 H +L PP L G F P PLL+ + ++ R + L+ + E Sbjct: 143 HPASL--PPSHVLFSGTLRFNLDPLHPLLMMMPEAMRACDLAQRDPAVLALLDAMEREVA 200 Query: 169 AERPARDVVLARLLEVLLIEALRSGTDTGAAATPGLLRGLGDVRLAAALRSIHARPADNW 228 R +LARL +VL +R + + G + + ++ L ++H P +W Sbjct: 201 LNRIGACGILARLADVLAASIIRGWVECACSDASGWIAAVRCPQVGRVLAAVHQHPERDW 260 Query: 229 NVLRLARAAALSRSSFFERFRREVGLAPMEYLLAWRMALAKRLLLGEAASMATVAQQVGY 288 +V LA SRSSF ++F VG P +Y+ +M A+ + E +A VA ++GY Sbjct: 261 SVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQARHWIAREGLRVAVVANRLGY 320 Query: 289 SSASTFSVAFSRHVGVPPSQ 308 S ++FS AF R +G PPS+ Sbjct: 321 DSEASFSRAFKRIIGHPPSE 340 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 68.2 bits (165), Expect = 9e-13, Method: Compositional matrix adjust. Identities = 64/212 (30%), Positives = 99/212 (46%), Gaps = 16/212 (7%) Query: 118 GLPPQVQLVVGHCVFASPDTPLLLSLLPSLVVVRA------HARLHTLVQLVGDEYRAE- 170 G P + G F +P + L+ LP L+ +R H L TL L+ DE Sbjct: 108 GAPALSDFLCGQFTFDAPHSHALMQALPDLLWIRGAELPEGHG-LRTLATLLRDECGGSE 166 Query: 171 -------RPARDVVLARLLEVLLIEALRSGTDTGAAATPGLLRGLGDVRLAAALRSIHAR 223 RP V+A L L A+R+ + TPGLL L L A++++ Sbjct: 167 GIDAIEARPGAQAVVASLAAALFGLAVRAWLAQ-SGPTPGLLALLAHPLLHKAMQAMLKA 225 Query: 224 PADNWNVLRLARAAALSRSSFFERFRREVGLAPMEYLLAWRMALAKRLLLGEAASMATVA 283 PA++W++ RLA +SR++F RF P + L+ RMA A RLL + A + Sbjct: 226 PAEDWSLPRLAALCHMSRATFIRRFAEVGASTPAQVLMQLRMAQAARLLSYSKQATAQIG 285 Query: 284 QQVGYSSASTFSVAFSRHVGVPPSQFAQQGKA 315 + VGY S + F+ F ++ G+ P + +Q +A Sbjct: 286 EAVGYQSEAAFNRVFRKYSGMGPGAYRRQARA 317 >gi|300309661|ref|YP_003773753.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 62.8 bits (151), Expect = 4e-11, Method: Compositional matrix adjust. Identities = 46/138 (33%), Positives = 71/138 (51%), Gaps = 3/138 (2%) Query: 170 ERPARDVVLARLLE-VLLIEALRSGTDTGAAATPGLLRGLGDVRLAAALRSIHARPADNW 228 ERPA +LA ++ +L L +G GA +L+ R+A A+R I Sbjct: 188 ERPADVPILAPMIRREILYRLLMNGQ--GALLRQTVLQDSQMNRVAKAIRLIKEGYDQAL 245 Query: 229 NVLRLARAAALSRSSFFERFRREVGLAPMEYLLAWRMALAKRLLLGEAASMATVAQQVGY 288 + +AR +S SS F+ ++P++Y R+ A++L+L AS+AT A +VGY Sbjct: 246 RIDDIARDVHMSVSSLHHHFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAAHRVGY 305 Query: 289 SSASTFSVAFSRHVGVPP 306 S+S FS +SR G PP Sbjct: 306 ESSSQFSREYSRLFGAPP 323 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 0.136 0.404 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: 922,939 Number of extensions: 33888 Number of successful extensions: 136 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 137 Number of HSP's successfully gapped: 7 Length of query: 315 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 230 Effective length of database: 1,217,395 Effective search space: 280000850 Effective search space used: 280000850 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 (22.0 bits) S2: 130 (54.7 bits)