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= 0020.0486.p (344 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310404|ref|YP_003774496.1| AraC family transcription regul... 688 0.0 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 96 6e-21 gi|300311760|ref|YP_003775852.1| transcription regulator protein... 82 7e-17 gi|300309514|ref|YP_003773606.1| AraC family transcription regul... 74 2e-14 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 688 bits (1776), Expect = 0.0, Method: Compositional matrix adjust. Identities = 342/344 (99%), Positives = 342/344 (99%) Query: 1 MPIFRKDMTIRPNLSETPEALPRERPADGVDPLTEILLGLRLDGVEYARYVLHEPWAVAF 60 MPIFRKDMTIRPNLSETPEALPRERPADGVDPLTEILLGLRLDGVEYARYVLHEPWAVAF Sbjct: 1 MPIFRKDMTIRPNLSETPEALPRERPADGVDPLTEILLGLRLDGVEYARYVLHEPWAVAF 60 Query: 61 PARREATFHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLPTVEIGKLAR 120 PARREATFHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLPTVEIGKLAR Sbjct: 61 PARREATFHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLPTVEIGKLAR 120 Query: 121 KALADNLFLIDDSGNGLADAAPHPASLPPSHVLFSGTLRFNLDPLHPLLMMMPEAMRACD 180 KALADNLFLIDDSGNGLADA HPASLPPSHVLFSGTLRFNLDPLHPLLMMMPEAMRACD Sbjct: 121 KALADNLFLIDDSGNGLADAPAHPASLPPSHVLFSGTLRFNLDPLHPLLMMMPEAMRACD 180 Query: 181 LAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASIIRGWVECACSDASGWIAAV 240 LAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASIIRGWVECACSDASGWIAAV Sbjct: 181 LAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASIIRGWVECACSDASGWIAAV 240 Query: 241 RCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQA 300 RCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQA Sbjct: 241 RCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQA 300 Query: 301 RHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSEARLG 344 RHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSEARLG Sbjct: 301 RHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSEARLG 344 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 95.5 bits (236), Expect = 6e-21, Method: Compositional matrix adjust. Identities = 82/308 (26%), Positives = 136/308 (44%), Gaps = 20/308 (6%) Query: 31 DPLTEILLGLRLDGVEYARYVLHEPWAVAFPARREATFHFVAQGGCWMQVGQQAWLQLNT 90 DPL+E++ LR V WAV + + +F + +G C + V +Q L+ Sbjct: 3 DPLSEVVRLLRPQAVFANLISGKGNWAVRYSEFGKPSFCIMLEGSCRLAVDEQEPTTLSA 62 Query: 91 GDAVLLPRGAPHALASAPGLPTVEIGKLARKALADNLFLIDDSGNGLADAAPHPASLPPS 150 GD VLLP ++S P V + + + L L G D Sbjct: 63 GDFVLLPTTPGFTISSFVPAPPVHLDP---NKVPEGLELRYGEQTGQPDMRS-------- 111 Query: 151 HVLFSGTLRFNLDPLHPLLMMMPEAMRACDLAQRDPAVLALLDAMEREVALNRIGACGIL 210 G+ F L+ ++P+ + Q + L+ + E + + G+ +L Sbjct: 112 ---LGGSFEFGCADPSLLVSLLPKVVHV----QGSTRLSQLVQMVGEEASGGKPGSEFML 164 Query: 211 ARLADVLAASIIRGWVECACSDASGWIAAVRCPQVGRVLAAVHQHPERDWSVAELAALMG 270 +RLA++L +R + S G + + ++ L +H E+ WSVA+LA + Sbjct: 165 SRLAEMLLVEAMRS--STSTSAPPGLLRGLGDERLAVALKHMHARIEQRWSVAQLARIAA 222 Query: 271 ASRSSFIDKFSAAVGETPAKYVARVKMFQARHWIAREGLRVAVVANRLGYDSEASFSRAF 330 SRSSF ++F+ +G P Y+ +M AR + R L V+ +A R GY S ++FS AF Sbjct: 223 LSRSSFFERFTRTLGVAPMAYLLAWRMEIARELLRRGELSVSEIAERTGYGSTSAFSVAF 282 Query: 331 KRIIGHPP 338 R +G PP Sbjct: 283 TRQVGQPP 290 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 82.0 bits (201), Expect = 7e-17, Method: Compositional matrix adjust. Identities = 85/316 (26%), Positives = 134/316 (42%), Gaps = 19/316 (6%) Query: 27 ADGVDPLTEILLGLRLDGVEYARYVLHE-PWAVAFPARREATFHFVAQGGCWMQVGQQAW 85 ++ DPL E++ L+ Y +YV W V A + V G C ++ Sbjct: 2 SEPTDPLAEVVTLLQ-PAARYTKYVQGSGAWRVQRSRPELAFYCAVLDGSCRLEPAAGPA 60 Query: 86 LQLNTGDAVLLPRGAPHALASAPGLPTVEIGKLARKALADNLFLIDDSGNGLAD-AAPHP 144 + L GD VL P A H A L ++ ++ L+ D L P Sbjct: 61 ILLEAGDFVLAP--ALHGFA----LTSLHTNDATLLDESNPPPLLPDGRYHLGTPEGPAE 114 Query: 145 ASLPPSHVLFSGTLRFNLDPLHPLLMMMPEAMRACDLAQRDPAVLALLDAMEREVALNRI 204 L H +F L L P L+++ R L Q + E R Sbjct: 115 VQLVAGHCVFESPDSVLLVSLLPDLVVVRAHTRLATLVQ----------LVGDESRAQRP 164 Query: 205 GACGILARLADVLAASIIRGWVECACSDASGWIAAVRCPQVGRVLAAVHQHPERDWSVAE 264 +LARL +VL +R + + + G + + ++ + + A+H P +DW+V Sbjct: 165 AREVVLARLLEVLLIEALRSSNDPTVAASPGLLRGLADVRLAQAIRALHAQPAQDWNVPR 224 Query: 265 LAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQARHWIAREGLRVAVVANRLGYDSEA 324 LA + SRSSF ++F VG TP Y+ +M A+ + R +A VA ++GY S + Sbjct: 225 LARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRLLLRADGSIAEVALQVGYSSAS 284 Query: 325 SFSRAFKRIIGHPPSE 340 +FS AF R +G PPS+ Sbjct: 285 TFSVAFSRHVGLPPSQ 300 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 73.6 bits (179), Expect = 2e-14, Method: Compositional matrix adjust. Identities = 78/302 (25%), Positives = 129/302 (42%), Gaps = 27/302 (8%) Query: 54 EPWAVAFPARREAT--FHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLP 111 +PW + A+ + T +HF+ +G +Q G L L GD V+L RGA H L +AP Sbjct: 25 QPWHLQNAAQPQGTAPYHFILEGQAQLQWGAGEPLALQAGDLVVLVRGAAHGLFTAPAAQ 84 Query: 112 TVEIGKLARKALADNLFLIDDSGNGLADAAPHPASLPPSHVLFSGTLRFNLDPLHPLLMM 171 + + A L + +G G P G F+ H L+ Sbjct: 85 AAAVRVASTTAPV-ALHVNGQAGEGA----------PALSDFLCGQFTFDAPHSHALMQA 133 Query: 172 MPEAM--RACDLAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASI-------- 221 +P+ + R +L + L L + R+ G I AR + Sbjct: 134 LPDLLWIRGAELPEGHG--LRTLATLLRDECGGSEGIDAIEARPGAQAVVASLAAALFGL 191 Query: 222 -IRGWVECACSDASGWIAAVRCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKF 280 +R W+ G +A + P + + + A+ + P DWS+ LAAL SR++FI +F Sbjct: 192 AVRAWL-AQSGPTPGLLALLAHPLLHKAMQAMLKAPAEDWSLPRLAALCHMSRATFIRRF 250 Query: 281 SAAVGETPAKYVARVKMFQARHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSE 340 + TPA+ + +++M QA ++ A + +GY SEA+F+R F++ G P Sbjct: 251 AEVGASTPAQVLMQLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGA 310 Query: 341 AR 342 R Sbjct: 311 YR 312 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 0.424 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: 1,079,791 Number of extensions: 45106 Number of successful extensions: 199 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 203 Number of HSP's successfully gapped: 4 Length of query: 344 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 258 Effective length of database: 1,212,660 Effective search space: 312866280 Effective search space used: 312866280 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (22.0 bits) S2: 131 (55.1 bits)