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= 0034.0454.p (247 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... 187 5e-49 gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 155 4e-39 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 149 2e-37 gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 130 9e-32 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 187 bits (476), Expect = 5e-49, Method: Compositional matrix adjust. Identities = 109/242 (45%), Positives = 149/242 (61%), Gaps = 3/242 (1%) Query: 4 PVVVRAFDYQDGYREIW--HSHEQAQLVYATSGVVRILTPAGSWLLPPSRAMWIVPGVDH 61 P V AF + R++ HSH + QL+YA GV+++ TP G WL+PP RA+W+ P V+H Sbjct: 21 PSSVVAFARELSARDLLTAHSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEH 80 Query: 62 ELHAVGAVALRSVYFEPDAVSWLSADCSMIEVSGLLHELIVGMLADPLEYAPDSRAALIA 121 E+ + V++R++Y L C ++EVS LL ELI+ +LA+P +YAP SRA +A Sbjct: 81 EILMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVA 140 Query: 122 PLLLRALQDAPAAHGGLLPLPTDARLRQICEKLMHDPGNNNTLEVWGEQFGLSTRTLARH 181 L+L L APA +P P D RL+ ICE ++ DPG +L W G S RT+ R Sbjct: 141 ELILSELARAPAIPVA-IPWPGDRRLQAICEAILADPGRQFSLADWAGMGGASVRTVIRL 199 Query: 182 FRDETGLSFGQWRQQMRVSEAVYRLILKEPLARVAETLGYASQSAFITMFRKSMGTTPQR 241 F ETGL F W QQ+ +SEA+ RL +P+ VA+ LGY SQSAF MFRK++ TTP Sbjct: 200 FPKETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNH 259 Query: 242 YL 243 YL Sbjct: 260 YL 261 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 155 bits (391), Expect = 4e-39, Method: Compositional matrix adjust. Identities = 89/240 (37%), Positives = 128/240 (53%), Gaps = 2/240 (0%) Query: 5 VVVRAFDYQDGYREIWHSHEQAQLVYATSGVVRILTPAGSWLLPPSRAMWIVPGVDHELH 64 +R QD HSH + QLV A G V T G W++PP A+WI PGV H Sbjct: 21 TALRVHTSQDERETPLHSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVWIPPGVPHSNR 80 Query: 65 AVGAVALRSVYFEPDAVSWLSADCSMIEVSGLLHELIVGMLADPLEYAPDSRAALIAPLL 124 L ++ P A S + C + +S LL ++I + +YAP R A +A +L Sbjct: 81 VTLDGQLCFLFIAPQAAS-MPEQCCTLALSPLLVQMICHLAEQRQDYAPHERTARLAAVL 139 Query: 125 LRALQDAPAAHGGL-LPLPTDARLRQICEKLMHDPGNNNTLEVWGEQFGLSTRTLARHFR 183 + L+ + L LP P +RLR I L P + T+ WG++ +S R+ AR + Sbjct: 140 VEELEHSQRHALPLHLPAPQHSRLRAIARHLAEHPADRRTVAQWGQRHAMSERSFARFVQ 199 Query: 184 DETGLSFGQWRQQMRVSEAVYRLILKEPLARVAETLGYASQSAFITMFRKSMGTTPQRYL 243 ETG+SFG+WR+Q+ + A+ RL + RV++ LGY S SAFITMFRK++G P RY+ Sbjct: 200 AETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFRKTLGKPPARYM 259 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 149 bits (375), Expect = 2e-37, Method: Compositional matrix adjust. Identities = 83/237 (35%), Positives = 129/237 (54%), Gaps = 7/237 (2%) Query: 3 RPVVVRAFDYQDGYREIWHSHEQAQLVYATSGVVRILTPAGSWLLPPSRAMWIVPGVDHE 62 RPVV Y+ G + WHSH +AQL+Y SG+++++T G+W++PP A+WI G +H+ Sbjct: 24 RPVVAAGAQYRHGAVQPWHSHRRAQLLYGLSGLMQVITADGAWVVPPQHAVWIPSGREHQ 83 Query: 63 LHAVGAVALRSVYFEPDAVSWLSADCSMIEVSGLLHELIVGMLADPLEYAPDSRAALIAP 122 + AV S + EP+ +++ C ++ V LL EL++ Y SR + Sbjct: 84 SRMLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIEATRMDPHYVLHSREENLIR 143 Query: 123 LLLRAL---QDAPAAHGGLLPLPTDARLRQICEKLMHDPGNNNTLEVWGEQFGLSTRTLA 179 LLL + ++ PA +PLP + RL ++C + + P + W Q +S RT + Sbjct: 144 LLLDEIGRAEEIPAH----VPLPPEPRLGELCHRFLAAPSIRSGPAQWALQLHISERTFS 199 Query: 180 RHFRDETGLSFGQWRQQMRVSEAVYRLILKEPLARVAETLGYASQSAFITMFRKSMG 236 R F +TG+ F QWR + V A+ RL L +P+ +A LGY +AF TMFRK G Sbjct: 200 RRFLAQTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERPAAFSTMFRKMTG 256 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 130 bits (327), Expect = 9e-32, Method: Compositional matrix adjust. Identities = 77/243 (31%), Positives = 121/243 (49%), Gaps = 4/243 (1%) Query: 4 PVVVRAFDYQDGYREIWHSHEQAQLVYATSGVVRILTPAGSWLLPPSRAMWIVPGVDHEL 63 PV + Y G H H Q L+YA SG++R+ +G WL+PP+ A+W+ GV H L Sbjct: 24 PVFGVSGRYPAGSVVPMHQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSL 83 Query: 64 HAVGAVALRSVYFEPDAVSWLSADCSMIEVSGLLHELIVGMLADPLEYAPDSRAALIAPL 123 + ++ D + L A ++ VS LL ELI+ + E R L+ L Sbjct: 84 AMPVTLQAYGLFVRQDVCARLPAFDCVVHVSPLLRELIITLAQAREENMSAKRMRLLGAL 143 Query: 124 LLRALQDAPAAHGGLLPLP---TDARLRQICEKLMHDPGNNNTLEVWGEQFGLSTRTLAR 180 ++ + P L P P TD + ++C+ L+ DPG+ T W ++ + +T R Sbjct: 144 VMEEVLTQPTLPFHL-PWPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHR 202 Query: 181 HFRDETGLSFGQWRQQMRVSEAVYRLILKEPLARVAETLGYASQSAFITMFRKSMGTTPQ 240 F TG++FG+WRQQ+R+ ++ L+ P+ +VA GY S SA+ T F K G P Sbjct: 203 RFLQSTGMTFGKWRQQLRLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPS 262 Query: 241 RYL 243 + Sbjct: 263 AFF 265 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 0.136 0.419 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: 830,456 Number of extensions: 33743 Number of successful extensions: 139 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 140 Number of HSP's successfully gapped: 4 Length of query: 247 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 164 Effective length of database: 1,226,865 Effective search space: 201205860 Effective search space used: 201205860 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 (21.9 bits) S2: 129 (54.3 bits)