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= 0002.0301.p (283 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... 252 2e-68 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 217 8e-58 gi|300309514|ref|YP_003773606.1| AraC family transcription regul... 72 5e-14 gi|300310404|ref|YP_003774496.1| AraC family transcription regul... 71 8e-14 gi|300309661|ref|YP_003773753.1| AraC family transcription regul... 57 2e-09 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 252 bits (644), Expect = 2e-68, Method: Compositional matrix adjust. Identities = 136/261 (52%), Positives = 178/261 (68%), Gaps = 8/261 (3%) Query: 11 FCCVVLEGKIRY-TVDELQLIAEAGDFLLIPSMSTFSASSF---DVPLEDEWQSEPVVLE 66 F C VL+G R ++ EAGDF+L P++ F+ +S D L DE + P +L Sbjct: 42 FYCAVLDGSCRLEPAAGPAILLEAGDFVLAPALHGFALTSLHTNDATLLDE-SNPPPLLP 100 Query: 67 NGEHRNGSASAEADVRSLVGFCQLTSPDATLLLTLLPKVILIRGDVRLTALVQLAIDEAR 126 +G + G+ A+V+ + G C SPD+ LL++LLP ++++R RL LVQL DE+R Sbjct: 101 DGRYHLGTPEGPAEVQLVAGHCVFESPDSVLLVSLLPDLVVVRAHTRLATLVQLVGDESR 160 Query: 127 SQRPARDVVLERLLEVLLIEALRSSNN--AVTSPGLLRGLADTRLANAIRRIHESPEEPW 184 +QRPAR+VVL RLLEVLLIEALRSSN+ SPGLLRGLAD RLA AIR +H P + W Sbjct: 161 AQRPAREVVLARLLEVLLIEALRSSNDPTVAASPGLLRGLADVRLAQAIRALHAQPAQDW 220 Query: 185 TVALLAKESALSRSTFFQRFSTALGVTPMDYLLSWRMALAKK-FLDQKKSITVVAALVGY 243 V LA+ +ALSRS+FF+RF +G+TPMDYLL+WRMALAK+ L SI VA VGY Sbjct: 221 NVPRLARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRLLLRADGSIAEVALQVGY 280 Query: 244 SSSSTFTVAFTRHTGMPPGQY 264 SS+STF+VAF+RH G+PP Q+ Sbjct: 281 SSASTFSVAFSRHVGLPPSQF 301 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 217 bits (553), Expect = 8e-58, Method: Compositional matrix adjust. Identities = 116/255 (45%), Positives = 165/255 (64%), Gaps = 3/255 (1%) Query: 13 CVVLEGKIRYTVDELQLIA-EAGDFLLIPSMSTFSASSFDVPLEDEWQSEPVVLENGEHR 71 C++LEG R VDE + AGDF+L+P+ F+ SSF VP V E E R Sbjct: 41 CIMLEGSCRLAVDEQEPTTLSAGDFVLLPTTPGFTISSF-VPAPPVHLDPNKVPEGLELR 99 Query: 72 NGSASAEADVRSLVGFCQLTSPDATLLLTLLPKVILIRGDVRLTALVQLAIDEARSQRPA 131 G + + D+RSL G + D +LL++LLPKV+ ++G RL+ LVQ+ +EA +P Sbjct: 100 YGEQTGQPDMRSLGGSFEFGCADPSLLVSLLPKVVHVQGSTRLSQLVQMVGEEASGGKPG 159 Query: 132 RDVVLERLLEVLLIEALRSSNNAVTSPGLLRGLADTRLANAIRRIHESPEEPWTVALLAK 191 + +L RL E+LL+EA+RSS + PGLLRGL D RLA A++ +H E+ W+VA LA+ Sbjct: 160 SEFMLSRLAEMLLVEAMRSSTSTSAPPGLLRGLGDERLAVALKHMHARIEQRWSVAQLAR 219 Query: 192 ESALSRSTFFQRFSTALGVTPMDYLLSWRMALAKKFLDQKK-SITVVAALVGYSSSSTFT 250 +ALSRS+FF+RF+ LGV PM YLL+WRM +A++ L + + S++ +A GY S+S F+ Sbjct: 220 IAALSRSSFFERFTRTLGVAPMAYLLAWRMEIARELLRRGELSVSEIAERTGYGSTSAFS 279 Query: 251 VAFTRHTGMPPGQYS 265 VAFTR G PPG Y+ Sbjct: 280 VAFTRQVGQPPGLYA 294 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 72.0 bits (175), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 72/224 (32%), Positives = 101/224 (45%), Gaps = 21/224 (9%) Query: 60 SEPVVLENGEHRNGSASAEADVRS--LVGFCQLTSPDATLLLTLLPKVILIRG-----DV 112 + PV L H NG A A S L G +P + L+ LP ++ IRG Sbjct: 94 TAPVAL----HVNGQAGEGAPALSDFLCGQFTFDAPHSHALMQALPDLLWIRGAELPEGH 149 Query: 113 RLTALVQLAIDE--------ARSQRPARDVVLERLLEVLLIEALRSS-NNAVTSPGLLRG 163 L L L DE A RP V+ L L A+R+ + +PGLL Sbjct: 150 GLRTLATLLRDECGGSEGIDAIEARPGAQAVVASLAAALFGLAVRAWLAQSGPTPGLLAL 209 Query: 164 LADTRLANAIRRIHESPEEPWTVALLAKESALSRSTFFQRFSTALGVTPMDYLLSWRMAL 223 LA L A++ + ++P E W++ LA +SR+TF +RF+ TP L+ RMA Sbjct: 210 LAHPLLHKAMQAMLKAPAEDWSLPRLAALCHMSRATFIRRFAEVGASTPAQVLMQLRMAQ 269 Query: 224 AKKFLDQKKSITV-VAALVGYSSSSTFTVAFTRHTGMPPGQYSR 266 A + L K T + VGY S + F F +++GM PG Y R Sbjct: 270 AARLLSYSKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGAYRR 313 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 71.2 bits (173), Expect = 8e-14, Method: Compositional matrix adjust. Identities = 51/173 (29%), Positives = 85/173 (49%), Gaps = 7/173 (4%) Query: 98 LLTLLPKVI----LIRGDVRLTALVQLAIDEARSQRPARDVVLERLLEVLLIEALRSSNN 153 LL ++P+ + L + D + AL+ E R +L RL +VL +R Sbjct: 168 LLMMMPEAMRACDLAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASIIRGWVE 227 Query: 154 AVTS--PGLLRGLADTRLANAIRRIHESPEEPWTVALLAKESALSRSTFFQRFSTALGVT 211 S G + + ++ + +H+ PE W+VA LA SRS+F +FS A+G T Sbjct: 228 CACSDASGWIAAVRCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGET 287 Query: 212 PMDYLLSWRMALAKKFLDQKK-SITVVAALVGYSSSSTFTVAFTRHTGMPPGQ 263 P Y+ +M A+ ++ ++ + VVA +GY S ++F+ AF R G PP + Sbjct: 288 PAKYVARVKMFQARHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSE 340 >gi|300309661|ref|YP_003773753.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 338 Score = 56.6 bits (135), Expect = 2e-09, Method: Compositional matrix adjust. Identities = 38/132 (28%), Positives = 63/132 (47%), Gaps = 1/132 (0%) Query: 143 LLIEALRSSNNAVTSPGLLRGLADTRLANAIRRIHESPEEPWTVALLAKESALSRSTFFQ 202 +L L + A+ +L+ R+A AIR I E ++ + +A++ +S S+ Sbjct: 204 ILYRLLMNGQGALLRQTVLQDSQMNRVAKAIRLIKEGYDQALRIDDIARDVHMSVSSLHH 263 Query: 203 RFSTALGVTPMDYLLSWRMALAKKF-LDQKKSITVVAALVGYSSSSTFTVAFTRHTGMPP 261 F ++P+ Y + R+ A+K L S+ A VGY SSS F+ ++R G PP Sbjct: 264 HFKLVTAMSPLQYQKNLRLQEARKLILTADASVATAAHRVGYESSSQFSREYSRLFGAPP 323 Query: 262 GQYSRLRQNAEA 273 + R Q EA Sbjct: 324 LRDKRRWQEEEA 335 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 0.318 0.131 0.369 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: 712,450 Number of extensions: 23882 Number of successful extensions: 126 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 124 Number of HSP's successfully gapped: 5 Length of query: 283 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 199 Effective length of database: 1,222,130 Effective search space: 243203870 Effective search space used: 243203870 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits) S2: 130 (54.7 bits)