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= 0002.0385.p (289 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... 185 5e-48 gi|300310404|ref|YP_003774496.1| AraC family transcription regul... 98 7e-22 gi|300311760|ref|YP_003775852.1| transcription regulator protein... 81 9e-17 gi|300311726|ref|YP_003775818.1| AraC family transcription regul... 69 5e-13 gi|300313807|ref|YP_003777899.1| AraC family transcription regul... 58 8e-10 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 185 bits (469), Expect = 5e-48, Method: Compositional matrix adjust. Identities = 132/317 (41%), Positives = 170/317 (53%), Gaps = 37/317 (11%) Query: 6 DTLSRLLQLYPVRTTLDIRCHFGAPWQLPEPTSAPGVVRYHMIVSGDALMEANGERGVAL 65 D LS LL L+PVR LDIRC FG PW L G YH I+ G A ++ +AL Sbjct: 2 DALSHLLFLHPVRAALDIRCRFGQPWHLQNAAQPQGTAPYHFILEGQAQLQWGAGEPLAL 61 Query: 66 QAGDIVVFPRGSAHKLHAGRGKAIAQQVATRSDDLLIRMENG--GAGAEXL--------- 114 QAGD+VV RG+AH L A + + NG G GA L Sbjct: 62 QAGDLVVLVRGAAHGLFTAPAAQAAAVRVASTTAPVALHVNGQAGEGAPALSDFLCGQFT 121 Query: 115 ------------------VRTAGRADFAGLQALMKMLQVE------IEVDPARPGAHAVV 150 +R A + GL+ L +L+ E I+ ARPGA AVV Sbjct: 122 FDAPHSHALMQALPDLLWIRGAELPEGHGLRTLATLLRDECGGSEGIDAIEARPGAQAVV 181 Query: 151 TQLSSALFALLMRAWLEQQETAATPGLFTLLASPRLQRALHCMLAEPGRAWSLDQLAEAC 210 L++ALF L +RAWL Q + TPGL LLA P L +A+ ML P WSL +LA C Sbjct: 182 ASLAAALFGLAVRAWLAQ--SGPTPGLLALLAHPLLHKAMQAMLKAPAEDWSLPRLAALC 239 Query: 211 HLSRTTFARLFRAAAGATPGEILTRTRMAQAAQLLAGRQQTVAAVAEAVGYQSEASFNRI 270 H+SR TF R F +TP ++L + RMAQAA+LL+ +Q A + EAVGYQSEA+FNR+ Sbjct: 240 HMSRATFIRRFAEVGASTPAQVLMQLRMAQAARLLSYSKQATAQIGEAVGYQSEAAFNRV 299 Query: 271 FKRHFGIGPGQHRRQAR 287 F+++ G+GPG +RRQAR Sbjct: 300 FRKYSGMGPGAYRRQAR 316 >gi|300310404|ref|YP_003774496.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 344 Score = 98.2 bits (243), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 81/291 (27%), Positives = 128/291 (43%), Gaps = 40/291 (13%) Query: 30 PWQLPEPTSAPGVVRYHMIVSGDALMEANGERGVALQAGDIVVFPRGSAHKLHAGRGKAI 89 PW + P +H + G M+ + + L GD V+ PRG+ H L + G Sbjct: 55 PWAVAFPARREAT--FHFVAQGGCWMQVGQQAWLQLNTGDAVLLPRGAPHALASAPGLPT 112 Query: 90 AQ--QVATRS--DDLLIRMENGGAGAEXLVRTAG------------RADFAGLQALMKML 133 + ++A ++ D+L + ++G A+ A R + L L+ M+ Sbjct: 113 VEIGKLARKALADNLFLIDDSGNGLADAPAHPASLPPSHVLFSGTLRFNLDPLHPLLMMM 172 Query: 134 Q---------------------VEIEVDPARPGAHAVVTQLSSALFALLMRAWLEQQETA 172 +E EV R GA ++ +L+ L A ++R W+E + Sbjct: 173 PEAMRACDLAQRDPAVLALLDAMEREVALNRIGACGILARLADVLAASIIRGWVECACSD 232 Query: 173 ATPGLFTLLASPRLQRALHCMLAEPGRAWSLDQLAEACHLSRTTFARLFRAAAGATPGEI 232 A+ G + P++ R L + P R WS+ +LA SR++F F AA G TP + Sbjct: 233 AS-GWIAAVRCPQVGRVLAAVHQHPERDWSVAELAALMGASRSSFIDKFSAAVGETPAKY 291 Query: 233 LTRTRMAQAAQLLAGRQQTVAAVAEAVGYQSEASFNRIFKRHFGIGPGQHR 283 + R +M QA +A VA VA +GY SEASF+R FKR G P + R Sbjct: 292 VARVKMFQARHWIAREGLRVAVVANRLGYDSEASFSRAFKRIIGHPPSEAR 342 >gi|300311760|ref|YP_003775852.1| transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 319 Score = 81.3 bits (199), Expect = 9e-17, Method: Compositional matrix adjust. Identities = 51/139 (36%), Positives = 74/139 (53%), Gaps = 1/139 (0%) Query: 143 RPGAHAVVTQLSSALFALLMRAWLEQQETAATPGLFTLLASPRLQRALHCMLAEPGRAWS 202 RP V+ +L L +R+ AA+PGL LA RL +A+ + A+P + W+ Sbjct: 163 RPAREVVLARLLEVLLIEALRSS-NDPTVAASPGLLRGLADVRLAQAIRALHAQPAQDWN 221 Query: 203 LDQLAEACHLSRTTFARLFRAAAGATPGEILTRTRMAQAAQLLAGRQQTVAAVAEAVGYQ 262 + +LA LSR++F FR G TP + L RMA A +LL ++A VA VGY Sbjct: 222 VPRLARVAALSRSSFFERFRREVGLTPMDYLLAWRMALAKRLLLRADGSIAEVALQVGYS 281 Query: 263 SEASFNRIFKRHFGIGPGQ 281 S ++F+ F RH G+ P Q Sbjct: 282 SASTFSVAFSRHVGLPPSQ 300 >gi|300311726|ref|YP_003775818.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 304 Score = 68.9 bits (167), Expect = 5e-13, Method: Compositional matrix adjust. Identities = 49/145 (33%), Positives = 71/145 (48%), Gaps = 3/145 (2%) Query: 138 EVDPARPGAHAVVTQLSSALFALLMRAWLEQQETAATPGLFTLLASPRLQRALHCMLAEP 197 E +PG+ ++++L+ L MR+ T+A PGL L RL AL M A Sbjct: 152 EASGGKPGSEFMLSRLAEMLLVEAMRS---STSTSAPPGLLRGLGDERLAVALKHMHARI 208 Query: 198 GRAWSLDQLAEACHLSRTTFARLFRAAAGATPGEILTRTRMAQAAQLLAGRQQTVAAVAE 257 + WS+ QLA LSR++F F G P L RM A +LL + +V+ +AE Sbjct: 209 EQRWSVAQLARIAALSRSSFFERFTRTLGVAPMAYLLAWRMEIARELLRRGELSVSEIAE 268 Query: 258 AVGYQSEASFNRIFKRHFGIGPGQH 282 GY S ++F+ F R G PG + Sbjct: 269 RTGYGSTSAFSVAFTRQVGQPPGLY 293 >gi|300313807|ref|YP_003777899.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 58.2 bits (139), Expect = 8e-10, Method: Compositional matrix adjust. Identities = 33/101 (32%), Positives = 55/101 (54%) Query: 187 QRALHCMLAEPGRAWSLDQLAEACHLSRTTFARLFRAAAGATPGEILTRTRMAQAAQLLA 246 +RA +L + S+ ++A C++S + F R F+A+ G TP + L R+ A Q L Sbjct: 199 ERAKMMLLEKVKGNVSIPEIARECNMSASYFLRAFKASTGHTPHQWLMVQRVEMAQQYLR 258 Query: 247 GRQQTVAAVAEAVGYQSEASFNRIFKRHFGIGPGQHRRQAR 287 Q T+A +A A + ++ F+R+F + G PG RR+ R Sbjct: 259 STQLTLAEIALACDFYDQSHFSRVFSQVVGSTPGAWRRRLR 299 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 0.133 0.393 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: 856,995 Number of extensions: 33289 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 144 Number of HSP's successfully gapped: 10 Length of query: 289 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 205 Effective length of database: 1,222,130 Effective search space: 250536650 Effective search space used: 250536650 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)