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= 0001.0079.p (340 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... 610 e-176 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 103 1e-23 gi|300311760|ref|YP_003775852.1| transcription regulator protein... 87 1e-18 gi|300309514|ref|YP_003773606.1| AraC family transcription regul... 85 1e-17 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 610 bits (1574), Expect = e-176, Method: Compositional matrix adjust. Identities = 305/344 (88%), Positives = 318/344 (92%), Gaps = 4/344 (1%) Query: 1 MPIFRKDMTIRPNLPEITECAPKDRPTEGVDPLTEILLGLRLDGVEYARYVLHEPWAVAF 60 MPIFRKDMTIRPNL E E P++RP +GVDPLTEILLGLRLDGVEYARYVLHEPWAVAF Sbjct: 1 MPIFRKDMTIRPNLSETPEALPRERPADGVDPLTEILLGLRLDGVEYARYVLHEPWAVAF 60 Query: 61 PARREATFHFIAQGSCWMQVGQDDWLQLNAGDAVLLPRGSAHALASARALPTVEIGKLAR 120 PARREATFHF+AQG CWMQVGQ WLQLN GDAVLLPRG+ HALASA LPTVEIGKLAR Sbjct: 61 PARREATFHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLPTVEIGKLAR 120 Query: 121 KAVADNLFLVDDSAH--AQSGAAPA--PPTHVVFSGTLRFNLDPLHPLLMMMPEAMRACD 176 KA+ADNLFL+DDS + A + A PA PP+HV+FSGTLRFNLDPLHPLLMMMPEAMRACD Sbjct: 121 KALADNLFLIDDSGNGLADAPAHPASLPPSHVLFSGTLRFNLDPLHPLLMMMPEAMRACD 180 Query: 177 LAQRDPAVLALLDAMEREVALNRIGGCGILARLADVLAASIIRGWVECACSDASGWIAAV 236 LAQRDPAVLALLDAMEREVALNRIG CGILARLADVLAASIIRGWVECACSDASGWIAAV Sbjct: 181 LAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASIIRGWVECACSDASGWIAAV 240 Query: 237 RCPLVGRVLAAVHQHPERDWSVNELAALMGASRSSFIEKFSATVGETPAKYVARVKMFQA 296 RCP VGRVLAAVHQHPERDWSV ELAALMGASRSSFI+KFSA VGETPAKYVARVKMFQA Sbjct: 241 RCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKYVARVKMFQA 300 Query: 297 RHWIARDGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSAARLG 340 RHWIAR+GLRVAVVANRLGYDSEASFSRAFKRIIGHPPS ARLG Sbjct: 301 RHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSEARLG 344 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 103 bits (258), Expect = 1e-23, Method: Compositional matrix adjust. Identities = 85/304 (27%), Positives = 137/304 (45%), Gaps = 16/304 (5%) Query: 31 DPLTEILLGLRLDGVEYARYVLHEPWAVAFPARREATFHFIAQGSCWMQVGQDDWLQLNA 90 DPL+E++ LR V WAV + + +F + +GSC + V + + L+A Sbjct: 3 DPLSEVVRLLRPQAVFANLISGKGNWAVRYSEFGKPSFCIMLEGSCRLAVDEQEPTTLSA 62 Query: 91 GDAVLLPRGSAHALASARALPTVEIGKLARKAVADNLFLVDDSAHAQSGAAPAPPTHVVF 150 GD VLLP ++S P V + V + L L + G P Sbjct: 63 GDFVLLPTTPGFTISSFVPAPPVHLDP---NKVPEGLEL-------RYGEQTGQPDMRSL 112 Query: 151 SGTLRFNLDPLHPLLMMMPEAMRACDLAQRDPAVLALLDAMEREVALNRIGGCGILARLA 210 G+ F L+ ++P+ + Q + L+ + E + + G +L+RLA Sbjct: 113 GGSFEFGCADPSLLVSLLPKVVHV----QGSTRLSQLVQMVGEEASGGKPGSEFMLSRLA 168 Query: 211 DVLAASIIRGWVECACSDASGWIAAVRCPLVGRVLAAVHQHPERDWSVNELAALMGASRS 270 ++L +R + S G + + + L +H E+ WSV +LA + SRS Sbjct: 169 EMLLVEAMRS--STSTSAPPGLLRGLGDERLAVALKHMHARIEQRWSVAQLARIAALSRS 226 Query: 271 SFIEKFSATVGETPAKYVARVKMFQARHWIARDGLRVAVVANRLGYDSEASFSRAFKRII 330 SF E+F+ T+G P Y+ +M AR + R L V+ +A R GY S ++FS AF R + Sbjct: 227 SFFERFTRTLGVAPMAYLLAWRMEIARELLRRGELSVSEIAERTGYGSTSAFSVAFTRQV 286 Query: 331 GHPP 334 G PP Sbjct: 287 GQPP 290 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 87.4 bits (215), Expect = 1e-18, Method: Compositional matrix adjust. Identities = 91/314 (28%), Positives = 133/314 (42%), Gaps = 21/314 (6%) Query: 27 TEGVDPLTEILLGLRLDGVEYARYVLHE-PWAVAFPARREATFHFIAQGSCWMQVGQDDW 85 +E DPL E++ L+ Y +YV W V A + + GSC ++ Sbjct: 2 SEPTDPLAEVVTLLQ-PAARYTKYVQGSGAWRVQRSRPELAFYCAVLDGSCRLEPAAGPA 60 Query: 86 LQLNAGDAVLLPRGSAHALASARALPTVEIGKLARKAVADNLFLVDDSAHAQSGAAPAPP 145 + L AGD VL P AL S L T + L L D H + PA Sbjct: 61 ILLEAGDFVLAPALHGFALTS---LHTNDATLLDESNPPP--LLPDGRYHLGTPEGPAEV 115 Query: 146 T----HVVFSGTLRFNLDPLHPLLMMMPEAMRACDLAQRDPAVLALLDAMEREVALNRIG 201 H VF L L P L+++ R L Q + E R Sbjct: 116 QLVAGHCVFESPDSVLLVSLLPDLVVVRAHTRLATLVQ----------LVGDESRAQRPA 165 Query: 202 GCGILARLADVLAASIIRGWVECACSDASGWIAAVRCPLVGRVLAAVHQHPERDWSVNEL 261 +LARL +VL +R + + + G + + + + + A+H P +DW+V L Sbjct: 166 REVVLARLLEVLLIEALRSSNDPTVAASPGLLRGLADVRLAQAIRALHAQPAQDWNVPRL 225 Query: 262 AALMGASRSSFIEKFSATVGETPAKYVARVKMFQARHWIARDGLRVAVVANRLGYDSEAS 321 A + SRSSF E+F VG TP Y+ +M A+ + R +A VA ++GY S ++ Sbjct: 226 ARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRLLLRADGSIAEVALQVGYSSAST 285 Query: 322 FSRAFKRIIGHPPS 335 FS AF R +G PPS Sbjct: 286 FSVAFSRHVGLPPS 299 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 84.7 bits (208), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 83/298 (27%), Positives = 135/298 (45%), Gaps = 23/298 (7%) Query: 54 EPWAVAFPARREAT--FHFIAQGSCWMQVGQDDWLQLNAGDAVLLPRGSAHALASARALP 111 +PW + A+ + T +HFI +G +Q G + L L AGD V+L RG+AH L +A A Sbjct: 25 QPWHLQNAAQPQGTAPYHFILEGQAQLQWGAGEPLALQAGDLVVLVRGAAHGLFTAPAAQ 84 Query: 112 TVEIGKLARKAVADNLFLVDDSAHAQSGAAPAPPTHVVFSGTLRFNLDPLHPLLMMMPEA 171 + + A V + Q+G AP G F+ H L+ +P+ Sbjct: 85 AAAVRVASTTAP------VALHVNGQAGEG-APALSDFLCGQFTFDAPHSHALMQALPDL 137 Query: 172 M--RACDLAQRDPAVLALLDAMEREVALNRIGGCGILARLADVLAASI---------IRG 220 + R +L + L L + R+ G I AR + +R Sbjct: 138 LWIRGAELPEGHG--LRTLATLLRDECGGSEGIDAIEARPGAQAVVASLAAALFGLAVRA 195 Query: 221 WVECACSDASGWIAAVRCPLVGRVLAAVHQHPERDWSVNELAALMGASRSSFIEKFSATV 280 W+ G +A + PL+ + + A+ + P DWS+ LAAL SR++FI +F+ Sbjct: 196 WL-AQSGPTPGLLALLAHPLLHKAMQAMLKAPAEDWSLPRLAALCHMSRATFIRRFAEVG 254 Query: 281 GETPAKYVARVKMFQARHWIARDGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSAAR 338 TPA+ + +++M QA ++ A + +GY SEA+F+R F++ G P A R Sbjct: 255 ASTPAQVLMQLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGAYR 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 0.422 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: 1,106,472 Number of extensions: 46334 Number of successful extensions: 228 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 228 Number of HSP's successfully gapped: 4 Length of query: 340 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 254 Effective length of database: 1,212,660 Effective search space: 308015640 Effective search space used: 308015640 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 131 (55.1 bits)