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= 0012.0016.p (300 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313807|ref|YP_003777899.1| AraC family transcription regul... 467 e-133 gi|300313797|ref|YP_003777889.1| AraC family transcription regul... 131 8e-32 gi|300309514|ref|YP_003773606.1| AraC family transcription regul... 61 1e-10 gi|300311694|ref|YP_003775786.1| AraC family transcription regul... 60 2e-10 >gi|300313807|ref|YP_003777899.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 299 Score = 467 bits (1202), Expect = e-133, Method: Compositional matrix adjust. Identities = 224/299 (74%), Positives = 256/299 (85%), Gaps = 1/299 (0%) Query: 1 MTAQVPLATAPARSDSLGCSSTALKQSQELQGSQFSFYRKRVEGREVSQVYTPASDRGFL 60 M A PL+T RSDSLGCS+ +LK SQELQGS FSFYRKRVEG E++QV TPASDRGFL Sbjct: 1 MAALAPLSTIAERSDSLGCSARSLKHSQELQGSDFSFYRKRVEGEEIAQVVTPASDRGFL 60 Query: 61 VGISMASQHRRSIFRGRQGAQFEFGRGAVYIRDFSEDYRADLQTPFDFLLVELPLSWFAT 120 +GIS+A HRRSIFRGRQGA+FEF GA+Y RDFSEDYRADLQ PFDFLLVE+PLSWFA Sbjct: 61 LGISLAP-HRRSIFRGRQGAKFEFAPGAIYTRDFSEDYRADLQAPFDFLLVEMPLSWFAA 119 Query: 121 VNEDLRGRKASGLATITGHDDPVLAHLAAALAPALAQPDADNHLFVDQLGLAMGTHLLQR 180 +++LR R+ +GLAT+TG DPVL HLA AL PALA PD D+ LF+DQLG+A+GTHLLQR Sbjct: 120 ASDELRRRRVAGLATVTGQHDPVLQHLAYALTPALANPDPDSRLFIDQLGVALGTHLLQR 179 Query: 181 YGGASLSAPRHVRLSRLHEERAKQMLLQKNRDQVSIPEIARECNMSASYFLRAFKASTGH 240 YGGA R LSRLHEERAK MLL+K + VSIPEIARECNMSASYFLRAFKASTGH Sbjct: 180 YGGAPAPTLRTAPLSRLHEERAKMMLLEKVKGNVSIPEIARECNMSASYFLRAFKASTGH 239 Query: 241 TPHQWLLLQRVDMAREYLRHSGLSLAEIAVACDFYDQSHFSRVFSQIVGSSPGAWRRRL 299 TPHQWL++QRV+MA++YLR + L+LAEIA+ACDFYDQSHFSRVFSQ+VGS+PGAWRRRL Sbjct: 240 TPHQWLMVQRVEMAQQYLRSTQLTLAEIALACDFYDQSHFSRVFSQVVGSTPGAWRRRL 298 >gi|300313797|ref|YP_003777889.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 294 Score = 131 bits (329), Expect = 8e-32, Method: Compositional matrix adjust. Identities = 83/221 (37%), Positives = 117/221 (52%), Gaps = 9/221 (4%) Query: 86 RGAVYIRDFSEDYRADLQTPFDFLLVELPLSWFATVNEDLRGRKASGLATITGHDDPVLA 145 RG V + D E +R + ++ + + +P + + E++ R L + G DPVL Sbjct: 73 RGEVAVTDLREQWRCQHLSGYENVRLLVPRTAMEELGEEI-ARPVGELRPVQGAADPVLF 131 Query: 146 HLAAALAPALAQPDAD-------NHLFVDQLGLAMGTHLLQRYGG-ASLSAPRHVRLSRL 197 HLA A+ PA A LF+D + LA+ THL QRYG +S A RL+ Sbjct: 132 HLAQAMLPAARTAGAAGAASVASETLFLDSMMLALTTHLWQRYGQQSSRPASAAGRLAGW 191 Query: 198 HEERAKQMLLQKNRDQVSIPEIARECNMSASYFLRAFKASTGHTPHQWLLLQRVDMAREY 257 E R + +L ++S+ EIA + +S ++F RAFK S G +PH WL QR+ +A Sbjct: 192 QEARVRDFMLSHLAQRLSLAEIAAQSGLSRAHFSRAFKQSFGLSPHAWLQQQRIALACRL 251 Query: 258 LRHSGLSLAEIAVACDFYDQSHFSRVFSQIVGSSPGAWRRR 298 L G S+ IA+ C F DQSHFSRVF Q+ G P AW RR Sbjct: 252 LHEGGKSMTTIALECGFSDQSHFSRVFKQVQGMGPAAWLRR 292 >gi|300309514|ref|YP_003773606.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 323 Score = 60.8 bits (146), Expect = 1e-10, Method: Compositional matrix adjust. Identities = 33/98 (33%), Positives = 54/98 (55%) Query: 201 RAKQMLLQKNRDQVSIPEIARECNMSASYFLRAFKASTGHTPHQWLLLQRVDMAREYLRH 260 +A Q +L+ + S+P +A C+MS + F+R F TP Q L+ R+ A L + Sbjct: 217 KAMQAMLKAPAEDWSLPRLAALCHMSRATFIRRFAEVGASTPAQVLMQLRMAQAARLLSY 276 Query: 261 SGLSLAEIAVACDFYDQSHFSRVFSQIVGSSPGAWRRR 298 S + A+I A + ++ F+RVF + G PGA+RR+ Sbjct: 277 SKQATAQIGEAVGYQSEAAFNRVFRKYSGMGPGAYRRQ 314 >gi|300311694|ref|YP_003775786.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 375 Score = 60.5 bits (145), Expect = 2e-10, Method: Compositional matrix adjust. Identities = 30/85 (35%), Positives = 47/85 (55%) Query: 214 VSIPEIARECNMSASYFLRAFKASTGHTPHQWLLLQRVDMAREYLRHSGLSLAEIAVACD 273 +++ E A +MS F R FK TG TPH +L R++ A YL+ + L + +IA C Sbjct: 270 INMSEAADHVSMSERNFQREFKRETGETPHCFLTKIRIEAACLYLKETDLPIEKIARRCG 329 Query: 274 FYDQSHFSRVFSQIVGSSPGAWRRR 298 H +R+F + G SPG +R++ Sbjct: 330 LVSGEHLARLFRKHHGVSPGEYRKK 354 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 0.396 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: 858,268 Number of extensions: 31756 Number of successful extensions: 128 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 123 Number of HSP's successfully gapped: 6 Length of query: 300 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 215 Effective length of database: 1,217,395 Effective search space: 261739925 Effective search space used: 261739925 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)