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= 0001.4328.p (284 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300313525|ref|YP_003777617.1| AraC family transcription regul... 226 1e-60 gi|300311011|ref|YP_003775103.1| AraC family transcription regul... 189 3e-49 gi|300310273|ref|YP_003774365.1| AraC family transcription regul... 161 7e-41 gi|300310311|ref|YP_003774403.1| AraC family transcription regul... 144 7e-36 >gi|300313525|ref|YP_003777617.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 298 Score = 226 bits (577), Expect = 1e-60, Method: Compositional matrix adjust. Identities = 115/255 (45%), Positives = 159/255 (62%), Gaps = 3/255 (1%) Query: 14 KDVDGVSRPVLALSATSVAKDWENARHQHRKAQLIYSVRGILNCEIEEGVWIVPPQCAVW 73 D D + V AL + + E H HRK QL+ ++RG + CE +G+WIVPPQ AVW Sbjct: 11 HDPDRLDAAVTALRVHTSQDERETPLHSHRKGQLVVALRGAVTCETAQGMWIVPPQSAVW 70 Query: 74 IPGDLPHAARGAGETECYCLFVEPDAAPDLPKTCCTISVSPLLRELILKVAGFAELYPLG 133 IP +PH+ R + + LF+ P AA +P+ CCT+++SPLL ++I +A + Y Sbjct: 71 IPPGVPHSNRVTLDGQLCFLFIAPQAA-SMPEQCCTLALSPLLVQMICHLAEQRQDYAPH 129 Query: 134 GREDRLIAALLDELATAPVEDL--HLPMPRDLRLRRLAEMILADPSDKTSKADWAMRIGM 191 R RL A L++EL + L HLP P+ RLR +A + P+D+ + A W R M Sbjct: 130 ERTARLAAVLVEELEHSQRHALPLHLPAPQHSRLRAIARHLAEHPADRRTVAQWGQRHAM 189 Query: 192 SERSMSRLLLQEIGMSFGRWRRQLHVILALQRLTKGESVQSVALELGYENASGFITMFRK 251 SERS +R + E GMSFGRWRRQ+H++LALQRL G SVQ V+ +LGY++ S FITMFRK Sbjct: 190 SERSFARFVQAETGMSFGRWRRQIHLMLALQRLASGSSVQRVSQDLGYDSVSAFITMFRK 249 Query: 252 ATGKSPARYLSDRTS 266 GK PARY++ R + Sbjct: 250 TLGKPPARYMAQRQA 264 >gi|300311011|ref|YP_003775103.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 273 Score = 189 bits (479), Expect = 3e-49, Method: Compositional matrix adjust. Identities = 101/253 (39%), Positives = 145/253 (57%), Gaps = 8/253 (3%) Query: 7 SDPTVAPKD-VDGVSRPVLALSAT---SVAKDWENARHQHRKAQLIYSVRGILNCEIEEG 62 + P V P D VDG++RPV+A A + W H HR+AQL+Y + G++ +G Sbjct: 9 ARPAVLPIDQVDGIARPVVAAGAQYRHGAVQPW----HSHRRAQLLYGLSGLMQVITADG 64 Query: 63 VWIVPPQCAVWIPGDLPHAARGAGETECYCLFVEPDAAPDLPKTCCTISVSPLLRELILK 122 W+VPPQ AVWIP H +R F+EP+ AP + +C ++V PLLREL+++ Sbjct: 65 AWVVPPQHAVWIPSGREHQSRMLQAVTTCSAFIEPEHAPRVASSCQVLAVRPLLRELLIE 124 Query: 123 VAGFAELYPLGGREDRLIAALLDELATAPVEDLHLPMPRDLRLRRLAEMILADPSDKTSK 182 Y L RE+ LI LLDE+ A H+P+P + RL L LA PS ++ Sbjct: 125 ATRMDPHYVLHSREENLIRLLLDEIGRAEEIPAHVPLPPEPRLGELCHRFLAAPSIRSGP 184 Query: 183 ADWAMRIGMSERSMSRLLLQEIGMSFGRWRRQLHVILALQRLTKGESVQSVALELGYENA 242 A WA+++ +SER+ SR L + GM F +WR + V+ A+ RL G+ V ++A +LGYE Sbjct: 185 AQWALQLHISERTFSRRFLAQTGMGFQQWRLRACVMYAISRLALGQPVTTIAYDLGYERP 244 Query: 243 SGFITMFRKATGK 255 + F TMFRK TG Sbjct: 245 AAFSTMFRKMTGH 257 >gi|300310273|ref|YP_003774365.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 271 Score = 161 bits (407), Expect = 7e-41, Method: Compositional matrix adjust. Identities = 87/229 (37%), Positives = 127/229 (55%), Gaps = 5/229 (2%) Query: 40 HQHRKAQLIYSVRGILNCEIEEGVWIVPPQCAVWIPGDLPHAARGAGETECYCLFVEPDA 99 HQH + LIY+ G+L + E G W+VPP AVW+ + H+ + Y LFV D Sbjct: 41 HQHPQGHLIYADSGLLRVQAESGQWLVPPTAAVWLRSGVAHSLAMPVTLQAYGLFVRQDV 100 Query: 100 APDLPKTCCTISVSPLLRELILKVAGFAELYPLGGREDRLIAAL-LDELATAPVEDLHLP 158 LP C + VSPLLRELI+ +A E + + RL+ AL ++E+ T P HLP Sbjct: 101 CARLPAFDCVVHVSPLLRELIITLAQARE-ENMSAKRMRLLGALVMEEVLTQPTLPFHLP 159 Query: 159 MP---RDLRLRRLAEMILADPSDKTSKADWAMRIGMSERSMSRLLLQEIGMSFGRWRRQL 215 P D + RL + +L DP D + A+WA R+ M +++ R LQ GM+FG+WR+QL Sbjct: 160 WPMSETDGPMARLCQALLDDPGDMATAAEWADRLAMGQKTFHRRFLQSTGMTFGKWRQQL 219 Query: 216 HVILALQRLTKGESVQSVALELGYENASGFITMFRKATGKSPARYLSDR 264 ++ +L L +G + VAL GY++ S + T F K GK P+ + R Sbjct: 220 RLMSSLPLLMQGMPITQVALASGYDSHSAYTTAFGKQFGKPPSAFFPAR 268 >gi|300310311|ref|YP_003774403.1| AraC family transcription regulator protein [Herbaspirillum seropedicae SmR1] Length = 274 Score = 144 bits (363), Expect = 7e-36, Method: Compositional matrix adjust. Identities = 91/239 (38%), Positives = 130/239 (54%), Gaps = 1/239 (0%) Query: 23 VLALSATSVAKDWENARHQHRKAQLIYSVRGILNCEIEEGVWIVPPQCAVWIPGDLPHAA 82 V+A + A+D A H HR+ QL+Y+V G++ +GVW+VPP A+W+P + H Sbjct: 24 VVAFARELSARDLLTA-HSHRRGQLLYAVEGVMQVRTPQGVWLVPPHRALWVPPQVEHEI 82 Query: 83 RGAGETECYCLFVEPDAAPDLPKTCCTISVSPLLRELILKVAGFAELYPLGGREDRLIAA 142 + L++ +L + C + VS LLRELIL + Y R + Sbjct: 83 LMLSKVSMRTLYINQAQGRELGEQCRLLEVSVLLRELILALLAEPRDYAPQSRAGHVAEL 142 Query: 143 LLDELATAPVEDLHLPMPRDLRLRRLAEMILADPSDKTSKADWAMRIGMSERSMSRLLLQ 202 +L ELA AP + +P P D RL+ + E ILADP + S ADWA G S R++ RL + Sbjct: 143 ILSELARAPAIPVAIPWPGDRRLQAICEAILADPGRQFSLADWAGMGGASVRTVIRLFPK 202 Query: 203 EIGMSFGRWRRQLHVILALQRLTKGESVQSVALELGYENASGFITMFRKATGKSPARYL 261 E G+ F W +Q+H+ AL RL++G+ V VA LGY + S F MFRKA +P YL Sbjct: 203 ETGLQFRHWVQQVHLSEALVRLSRGDPVGVVAQALGYRSQSAFSNMFRKALRTTPNHYL 261 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 0.320 0.135 0.408 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: 871,834 Number of extensions: 33172 Number of successful extensions: 117 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 116 Number of HSP's successfully gapped: 5 Length of query: 284 Length of database: 1,619,870 Length adjustment: 84 Effective length of query: 200 Effective length of database: 1,222,130 Effective search space: 244426000 Effective search space used: 244426000 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 (21.8 bits) S2: 130 (54.7 bits)