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= 0001.1553.p (270 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 393 e-111 gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 156 1e-39 gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 138 5e-34 gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 137 1e-33 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 393 bits (1009), Expect = e-111, Method: Compositional matrix adjust. Identities = 191/247 (77%), Positives = 213/247 (86%) Query: 8 PLKLPIDRIDGIARPVVAAGADYPSGSLQPWHSHRRAQLLFGLGGLMQVVTQDGAWVVPP 67 P LPID++DGIARPVVAAGA Y G++QPWHSHRRAQLL+GL GLMQV+T DGAWVVPP Sbjct: 11 PAVLPIDQVDGIARPVVAAGAQYRHGAVQPWHSHRRAQLLYGLSGLMQVITADGAWVVPP 70 Query: 68 QHAVWIPSGREHQSRMLLPVTTCSAFVEPDHAPRDALTCQVLEVRPLLRELLIEATRIDP 127 QHAVWIPSGREHQSRML VTTCSAF+EP+HAPR A +CQVL VRPLLRELLIEATR+DP Sbjct: 71 QHAVWIPSGREHQSRMLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIEATRMDP 130 Query: 128 RYAPHSCEENLMRLLLQEIGRAREIPVHVPLPQDDKLGALCRDFMREPSIHARPGQWAQR 187 Y HS EENL+RLLL EIGRA EIP HVPLP + +LG LC F+ PSI + P QWA + Sbjct: 131 HYVLHSREENLIRLLLDEIGRAEEIPAHVPLPPEPRLGELCHRFLAAPSIRSGPAQWALQ 190 Query: 188 LYMSERSFNRRFLAQTGMGFQQWRLRACVVNAISRLALGHSVTVIAYDLGYERPAAFSTM 247 L++SER+F+RRFLAQTGMGFQQWRLRACV+ AISRLALG VT IAYDLGYERPAAFSTM Sbjct: 191 LHISERTFSRRFLAQTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERPAAFSTM 250 Query: 248 FRKMTGY 254 FRKMTG+ Sbjct: 251 FRKMTGH 257 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 156 bits (395), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 89/227 (39%), Positives = 124/227 (54%), Gaps = 3/227 (1%) Query: 37 PWHSHRRAQLLFGLGGLMQVVTQDGAWVVPPQHAVWIPSGREHQSRMLLPVTTCSAFVEP 96 P HSHR+ QL+ L G + T G W+VPPQ AVWIP G H +R+ L C F+ P Sbjct: 35 PLHSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNRVTLDGQLCFLFIAP 94 Query: 97 DHAPRDALTCQVLEVRPLLRELLIEATRIDPRYAPHSCEENLMRLLLQEIGRARE--IPV 154 A C L + PLL +++ YAPH L +L++E+ ++ +P+ Sbjct: 95 QAASMPEQCC-TLALSPLLVQMICHLAEQRQDYAPHERTARLAAVLVEELEHSQRHALPL 153 Query: 155 HVPLPQDDKLGALCRDFMREPSIHARPGQWAQRLYMSERSFNRRFLAQTGMGFQQWRLRA 214 H+P PQ +L A+ R P+ QW QR MSERSF R A+TGM F +WR + Sbjct: 154 HLPAPQHSRLRAIARHLAEHPADRRTVAQWGQRHAMSERSFARFVQAETGMSFGRWRRQI 213 Query: 215 CVVNAISRLALGHSVTVIAYDLGYERPAAFSTMFRKMTGYAPSSHPA 261 ++ A+ RLA G SV ++ DLGY+ +AF TMFRK G P+ + A Sbjct: 214 HLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFRKTLGKPPARYMA 260 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 138 bits (348), Expect = 5e-34, Method: Compositional matrix adjust. Identities = 86/249 (34%), Positives = 131/249 (52%), Gaps = 21/249 (8%) Query: 22 PVVAAGADYPSGSLQPWHSHRRAQLLFGLGGLMQVVTQDGAWVVPPQHAVWIPSGREHQS 81 PV YP+GS+ P H H + L++ GL++V + G W+VPP AVW+ SG H Sbjct: 24 PVFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSL 83 Query: 82 RMLLPVTTCSAFVEPDHAPR-DALTCQVLEVRPLLRELLIEATRIDPRYAPHSCEENL-- 138 M + + FV D R A C V+ V PLLREL+I + + EEN+ Sbjct: 84 AMPVTLQAYGLFVRQDVCARLPAFDC-VVHVSPLLRELIITLAQ--------AREENMSA 134 Query: 139 --MRLL----LQEIGRAREIPVHVPLPQ---DDKLGALCRDFMREPSIHARPGQWAQRLY 189 MRLL ++E+ +P H+P P D + LC+ + +P A +WA RL Sbjct: 135 KRMRLLGALVMEEVLTQPTLPFHLPWPMSETDGPMARLCQALLDDPGDMATAAEWADRLA 194 Query: 190 MSERSFNRRFLAQTGMGFQQWRLRACVVNAISRLALGHSVTVIAYDLGYERPAAFSTMFR 249 M +++F+RRFL TGM F +WR + +++++ L G +T +A GY+ +A++T F Sbjct: 195 MGQKTFHRRFLQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFG 254 Query: 250 KMTGYAPSS 258 K G PS+ Sbjct: 255 KQFGKPPSA 263 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 137 bits (345), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 88/248 (35%), Positives = 128/248 (51%), Gaps = 2/248 (0%) Query: 13 IDRIDGIARPVVAAGADYPSGSLQPWHSHRRAQLLFGLGGLMQVVTQDGAWVVPPQHAVW 72 +D + VVA + + L HSHRR QLL+ + G+MQV T G W+VPP A+W Sbjct: 14 VDTFQHLPSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALW 73 Query: 73 IPSGREHQSRMLLPVTTCSAFVEPDHAPRDALTCQVLEVRPLLRELLIEATRIDPR-YAP 131 +P EH+ ML V+ + ++ C++LEV +L LI A +PR YAP Sbjct: 74 VPPQVEHEILMLSKVSMRTLYINQAQGRELGEQCRLLEV-SVLLRELILALLAEPRDYAP 132 Query: 132 HSCEENLMRLLLQEIGRAREIPVHVPLPQDDKLGALCRDFMREPSIHARPGQWAQRLYMS 191 S ++ L+L E+ RA IPV +P P D +L A+C + +P WA S Sbjct: 133 QSRAGHVAELILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLADWAGMGGAS 192 Query: 192 ERSFNRRFLAQTGMGFQQWRLRACVVNAISRLALGHSVTVIAYDLGYERPAAFSTMFRKM 251 R+ R F +TG+ F+ W + + A+ RL+ G V V+A LGY +AFS MFRK Sbjct: 193 VRTVIRLFPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKA 252 Query: 252 TGYAPSSH 259 P+ + Sbjct: 253 LRTTPNHY 260 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 0.137 0.435 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: 913,503 Number of extensions: 37965 Number of successful extensions: 123 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 120 Number of HSP's successfully gapped: 4 Length of query: 270 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 186 Effective length of database: 1,222,130 Effective search space: 227316180 Effective search space used: 227316180 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: 41 (22.0 bits) S2: 130 (54.7 bits)