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= 0020.0293.p (323 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309514|ref|YP_003773606.1| AraC family transcription regul... 560 e-161 gi|300311760|ref|YP_003775852.1| transcription regulator protein... 110 1e-25 gi|300310404|ref|YP_003774496.1| AraC family transcription regul... 96 4e-21 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 92 7e-20 gi|300312798|ref|YP_003776890.1| AraC family transcription regul... 62 8e-11 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 560 bits (1444), Expect = e-161, Method: Compositional matrix adjust. Identities = 316/323 (97%), Positives = 321/323 (99%) Query: 1 MDALSHLLFLHPVRAALDIRCRFGQPWHLQNAAQPRGTAPYHFILEGQAQLQWGAGEPLA 60 MDALSHLLFLHPVRAALDIRCRFGQPWHLQNAAQP+GTAPYHFILEGQAQLQWGAGEPLA Sbjct: 1 MDALSHLLFLHPVRAALDIRCRFGQPWHLQNAAQPQGTAPYHFILEGQAQLQWGAGEPLA 60 Query: 61 LQAGDLVVLVRGAAHGLFTAPAAQAAAVRVASTTAPVALHVNGQAGEGGPALSDFLCGQF 120 LQAGDLVVLVRGAAHGLFTAPAAQAAAVRVASTTAPVALHVNGQAGEG PALSDFLCGQF Sbjct: 61 LQAGDLVVLVRGAAHGLFTAPAAQAAAVRVASTTAPVALHVNGQAGEGAPALSDFLCGQF 120 Query: 121 TFDAPHSHALMQALPDLLWIRGAELPEGHGLRTLATLLRDECGGSEGIDGIEARPGAQAV 180 TFDAPHSHALMQALPDLLWIRGAELPEGHGLRTLATLLRDECGGSEGID IEARPGAQAV Sbjct: 121 TFDAPHSHALMQALPDLLWIRGAELPEGHGLRTLATLLRDECGGSEGIDAIEARPGAQAV 180 Query: 181 VASLAAALFGLAVRAWLAQSGPTPGLLALLAHPLLNKAMQAMLEAPAEDWSLPRLAALCH 240 VASLAAALFGLAVRAWLAQSGPTPGLLALLAHPLL+KAMQAML+APAEDWSLPRLAALCH Sbjct: 181 VASLAAALFGLAVRAWLAQSGPTPGLLALLAHPLLHKAMQAMLKAPAEDWSLPRLAALCH 240 Query: 241 MSRATFIRRFAEVGASTPAQVLLQLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRVF 300 MSRATFIRRFAEVGASTPAQVL+QLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRVF Sbjct: 241 MSRATFIRRFAEVGASTPAQVLMQLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRVF 300 Query: 301 RKYSGMGPGAYRRQARAAGQGQQ 323 RKYSGMGPGAYRRQARAAG+GQQ Sbjct: 301 RKYSGMGPGAYRRQARAAGEGQQ 323 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 110 bits (276), Expect = 1e-25, Method: Compositional matrix adjust. Identities = 90/278 (32%), Positives = 135/278 (48%), Gaps = 26/278 (9%) Query: 41 YHFILEGQAQLQWGAGEPLALQAGDLVVLVRGAAHGLFTAPAAQAAAVRVASTTAPVALH 100 Y +L+G +L+ AG + L+AGD V+ A HG F + + + P L Sbjct: 43 YCAVLDGSCRLEPAAGPAILLEAGDFVL--APALHG-FALTSLHTNDATLLDESNPPPLL 99 Query: 101 VNGQAGEG---GPALSDFLCGQFTFDAPHSHALMQALPDLLWIRGAELPEGHGLRTLATL 157 +G+ G GPA + G F++P S L+ LPDL+ +R L TL L Sbjct: 100 PDGRYHLGTPEGPAEVQLVAGHCVFESPDSVLLVSLLPDLVVVRA-----HTRLATLVQL 154 Query: 158 LRDECGGSEGIDGIEARPGAQAVVASLAAALFGLAVRAWLAQSGPT----PGLLALLAHP 213 + DE RP + V+A L L A+R+ + PT PGLL LA Sbjct: 155 VGDESRAQ--------RPAREVVLARLLEVLLIEALRS---SNDPTVAASPGLLRGLADV 203 Query: 214 LLNKAMQAMLEAPAEDWSLPRLAALCHMSRATFIRRFAEVGASTPAQVLLQLRMAQAARL 273 L +A++A+ PA+DW++PRLA + +SR++F RF TP LL RMA A RL Sbjct: 204 RLAQAIRALHAQPAQDWNVPRLARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRL 263 Query: 274 LSYSKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGAY 311 L + + A++ VGY S + F+ F ++ G+ P + Sbjct: 264 LLRADGSIAEVALQVGYSSASTFSVAFSRHVGLPPSQF 301 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 95.9 bits (237), Expect = 4e-21, Method: Compositional matrix adjust. Identities = 84/301 (27%), Positives = 135/301 (44%), Gaps = 25/301 (8%) Query: 25 QPWHLQNAAQPRGTAPYHFILEGQAQLQWGAGEPLALQAGDLVVLVRGAAHGLFTAPAAQ 84 +PW + A R A +HF+ +G +Q G L L GD V+L RGA H L +AP Sbjct: 54 EPWAVAFPA--RREATFHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLP 111 Query: 85 AAAV-RVASTTAPVALHVNGQAGEGG----------PALSDFLCGQFTFDAPHSHALMQA 133 + ++A L + +G G P G F+ H L+ Sbjct: 112 TVEIGKLARKALADNLFLIDDSGNGLADAPAHPASLPPSHVLFSGTLRFNLDPLHPLLMM 171 Query: 134 LPDLLWIRGAELPEGHGLRTLATL-LRDECGGSEGIDGIEARPGAQAVVASLAAALFGLA 192 +P+ + R +L + R A L L D ++ I GA ++A LA L Sbjct: 172 MPEAM--RACDLAQ----RDPAVLALLDAMEREVALNRI----GACGILARLADVLAASI 221 Query: 193 VRAWL-AQSGPTPGLLALLAHPLLNKAMQAMLEAPAEDWSLPRLAALCHMSRATFIRRFA 251 +R W+ G +A + P + + + A+ + P DWS+ LAAL SR++FI +F+ Sbjct: 222 IRGWVECACSDASGWIAAVRCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFS 281 Query: 252 EVGASTPAQVLLQLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGAY 311 TPA+ + +++M QA ++ A + +GY SEA+F+R F++ G P Sbjct: 282 AAVGETPAKYVARVKMFQARHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSEA 341 Query: 312 R 312 R Sbjct: 342 R 342 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 91.7 bits (226), Expect = 7e-20, Method: Compositional matrix adjust. Identities = 78/275 (28%), Positives = 120/275 (43%), Gaps = 17/275 (6%) Query: 37 GTAPYHFILEGQAQLQWGAGEPLALQAGDLVVLVRGAAHGLFTAPAAQAAAVRVASTTAP 96 G + +LEG +L EP L AGD V+L G + A V + P Sbjct: 36 GKPSFCIMLEGSCRLAVDEQEPTTLSAGDFVLL--PTTPGFTISSFVPAPPVHLDPNKVP 93 Query: 97 VALHVNGQAGEGGPALSDFLCGQFTFDAPHSHALMQALPDLLWIRGAELPEGHGLRTLAT 156 L + G P + L G F F L+ LP ++ ++G+ L L Sbjct: 94 EGLELRYGEQTGQPDMRS-LGGSFEFGCADPSLLVSLLPKVVHVQGS-----TRLSQLVQ 147 Query: 157 LLRDECGGSEGIDGIEARPGAQAVVASLAAALFGLAVRAWLAQSGPTPGLLALLAHPLLN 216 ++ +E G +PG++ +++ LA L A+R+ + S P PGLL L L Sbjct: 148 MVGEEASG--------GKPGSEFMLSRLAEMLLVEAMRSSTSTSAP-PGLLRGLGDERLA 198 Query: 217 KAMQAMLEAPAEDWSLPRLAALCHMSRATFIRRFAEVGASTPAQVLLQLRMAQAARLLSY 276 A++ M + WS+ +LA + +SR++F RF P LL RM A LL Sbjct: 199 VALKHMHARIEQRWSVAQLARIAALSRSSFFERFTRTLGVAPMAYLLAWRMEIARELLRR 258 Query: 277 SKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGAY 311 + + ++I E GY S +AF+ F + G PG Y Sbjct: 259 GELSVSEIAERTGYGSTSAFSVAFTRQVGQPPGLY 293 >gi|300312798|ref|YP_003776890.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 335 Score = 61.6 bits (148), Expect = 8e-11, Method: Compositional matrix adjust. Identities = 34/91 (37%), Positives = 47/91 (51%) Query: 222 MLEAPAEDWSLPRLAALCHMSRATFIRRFAEVGASTPAQVLLQLRMAQAARLLSYSKQAT 281 ML+ P ED S+ LA MS F RRF P Q +L+LR+ A R L + + Sbjct: 239 MLDHPQEDMSVNALAERAAMSPRNFARRFLREVGKPPGQYVLELRIDHACRHLEKTGWSI 298 Query: 282 AQIGEAVGYQSEAAFNRVFRKYSGMGPGAYR 312 +I E G ++ +RVFR++ GM P YR Sbjct: 299 ERIAERSGLKNADTLHRVFRQHLGMTPAQYR 329 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 0.322 0.134 0.407 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: 849,303 Number of extensions: 31232 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 7 Number of HSP's gapped: 190 Number of HSP's successfully gapped: 7 Length of query: 323 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 238 Effective length of database: 1,217,395 Effective search space: 289740010 Effective search space used: 289740010 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: 131 (55.1 bits)