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= 0013.0004.p (261 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 522 e-149 gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 151 4e-38 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 146 2e-36 gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 124 1e-29 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 522 bits (1345), Expect = e-149, Method: Compositional matrix adjust. Identities = 260/261 (99%), Positives = 260/261 (99%) Query: 1 VDTFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALW 60 VDTFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALW Sbjct: 14 VDTFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALW 73 Query: 61 VPPQVEHEILMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQ 120 VPPQVEHEILMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQ Sbjct: 74 VPPQVEHEILMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQ 133 Query: 121 SRAGHVAELILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLVDWAGMGGASV 180 SRAGHVAELILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSL DWAGMGGASV Sbjct: 134 SRAGHVAELILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLADWAGMGGASV 193 Query: 181 RTVIRLFPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKAL 240 RTVIRLFPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKAL Sbjct: 194 RTVIRLFPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKAL 253 Query: 241 RTTPNHYLQRQERRRLSLPAS 261 RTTPNHYLQRQERRRLSLPAS Sbjct: 254 RTTPNHYLQRQERRRLSLPAS 274 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 151 bits (382), Expect = 4e-38, Method: Compositional matrix adjust. Identities = 89/232 (38%), Positives = 128/232 (55%), Gaps = 4/232 (1%) Query: 27 HSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEHEILMLSKVSMRTLYINQAQ 86 HSHR+GQL+ A+ G + T QG+W+VPP A+W+PP V H + + L+I Q Sbjct: 37 HSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNRVTLDGQLCFLFIA-PQ 95 Query: 87 GRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVAELILSELARAP--AIPVAI 144 + EQC L +S LL ++I L + +DYAP R +A +++ EL + A+P+ + Sbjct: 96 AASMPEQCCTLALSPLLVQMICHLAEQRQDYAPHERTARLAAVLVEELEHSQRHALPLHL 155 Query: 145 PWPGDRRLQAICEAILADPGRQFSLVDWAGMGGASVRTVIRLFPKETGLQFRHWVQQVHL 204 P P RL+AI + P + ++ W S R+ R ETG+ F W +Q+HL Sbjct: 156 PAPQHSRLRAIARHLAEHPADRRTVAQWGQRHAMSERSFARFVQAETGMSFGRWRRQIHL 215 Query: 205 SEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNHYL-QRQERRR 255 AL RL+ G V V+Q LGY S SAF MFRK L P Y+ QRQ +R+ Sbjct: 216 MLALQRLASGSSVQRVSQDLGYDSVSAFITMFRKTLGKPPARYMAQRQAQRQ 267 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 146 bits (369), Expect = 2e-36, Method: Compositional matrix adjust. Identities = 86/238 (36%), Positives = 121/238 (50%) Query: 1 VDTFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALW 60 +D + VVA + + HSHRR QLLY + G+MQV T G W+VPP A+W Sbjct: 16 IDQVDGIARPVVAAGAQYRHGAVQPWHSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVW 75 Query: 61 VPPQVEHEILMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQ 120 +P EH+ ML V+ + +I + C++L V LLREL++ Y Sbjct: 76 IPSGREHQSRMLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIEATRMDPHYVLH 135 Query: 121 SRAGHVAELILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLVDWAGMGGASV 180 SR ++ L+L E+ RA IP +P P + RL +C LA P + WA S Sbjct: 136 SREENLIRLLLDEIGRAEEIPAHVPLPPEPRLGELCHRFLAAPSIRSGPAQWALQLHISE 195 Query: 181 RTVIRLFPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRK 238 RT R F +TG+ F+ W + + A+ RL+ G PV +A LGY +AFS MFRK Sbjct: 196 RTFSRRFLAQTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERPAAFSTMFRK 253 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 124 bits (310), Expect = 1e-29, Method: Compositional matrix adjust. Identities = 76/245 (31%), Positives = 119/245 (48%), Gaps = 3/245 (1%) Query: 11 VVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEHEIL 70 V + A ++ H H +G L+YA G+++V+ G WLVPP A+W+ V H + Sbjct: 25 VFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLA 84 Query: 71 MLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVAELI 130 M + L++ Q L ++ VS LLRELI+ L + R + L+ Sbjct: 85 MPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGALV 144 Query: 131 LSELARAPAIPVAIPWP---GDRRLQAICEAILADPGRQFSLVDWAGMGGASVRTVIRLF 187 + E+ P +P +PWP D + +C+A+L DPG + +WA +T R F Sbjct: 145 MEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRF 204 Query: 188 PKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNHY 247 + TG+ F W QQ+ L +L L +G P+ VA A GY S SA++ F K P+ + Sbjct: 205 LQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAF 264 Query: 248 LQRQE 252 +E Sbjct: 265 FPARE 269 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 0.409 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: 796,146 Number of extensions: 31304 Number of successful extensions: 160 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 158 Number of HSP's successfully gapped: 4 Length of query: 261 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 178 Effective length of database: 1,226,865 Effective search space: 218381970 Effective search space used: 218381970 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.5 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.5 bits) S2: 129 (54.3 bits)