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= 0250.0020.p (218 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel A... 142 2e-35 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 136 1e-33 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 114 7e-27 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 103 8e-24 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 94 1e-20 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 142 bits (358), Expect = 2e-35, Method: Compositional matrix adjust. Identities = 80/216 (37%), Positives = 127/216 (58%), Gaps = 13/216 (6%) Query: 2 LAALATLIGFFFGSLFGFVAGYFRNSWVDKIASFISVVGVSVPHYWLGMVLVIIFSSQLM 61 L +A + FG + G + +RN W D++ ++V G+S P + LG++LV +FS +L Sbjct: 101 LTVVAMVWAVLFGLIIGISSAVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLG 160 Query: 62 WLPATGAGPDGSAAWIWDVEHVKYLIMPAVTMSFIPMGIIARTVRALVADILAQEFVIGL 121 WLP G W+ + I+P++T+ ++AR R+ +IL ++FV Sbjct: 161 WLPTVG-----DDTWL-------HYILPSITLGAAVAAVMARFTRSSFIEILQEDFVRTA 208 Query: 122 KARGLGE-FGVFRHVVKNCAPTAMAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQ 180 +A+GL E V +H ++N + +MGLQ G+LLGGSIL+E VF+WPG G LL A+ Sbjct: 209 RAKGLTETVVVIKHCLRNALIPVVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLVDAVEM 268 Query: 181 RDLPLLQGTILVLALFFVSLNLLVDILQTVFDPRIE 216 RD P++Q IL+ +L F+ +NL+VD+L V +P I Sbjct: 269 RDYPVIQAEILLFSLEFIFINLVVDVLYAVINPSIR 304 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 136 bits (343), Expect = 1e-33, Method: Compositional matrix adjust. Identities = 66/201 (32%), Positives = 123/201 (61%), Gaps = 13/201 (6%) Query: 17 FGFVAGYFRNSWVDKIASFISVVGVSVPHYWLGMVLVIIFSSQLMWLPATGAGPDGSAAW 76 G +A +R++W+D+ A I+VVG ++P +W G+ L++IF+ L WLP G + +W Sbjct: 115 LGVLAAIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAG-----NESW 169 Query: 77 IWDVEHVKYLIMPAVTMSFIPMGIIARTVRALVADILAQEFVIGLKARGLGEFGV-FRHV 135 ++ I+PAV + + M + R R+ + ++L +++ +A+GL + V F+H Sbjct: 170 -------QHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHA 222 Query: 136 VKNCAPTAMAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQRDLPLLQGTILVLAL 195 ++N +A+ ++LG++LGGS++IE+V+S G G L AI + D P++Q +L++A+ Sbjct: 223 LRNAVIPVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAM 282 Query: 196 FFVSLNLLVDILQTVFDPRIE 216 F++ L L D++ + DPRI Sbjct: 283 FYIGLTFLADVINALLDPRIR 303 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 114 bits (285), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 63/208 (30%), Positives = 116/208 (55%), Gaps = 5/208 (2%) Query: 14 GSLFGFVAGYFRNSWVDKIASFISVVGVSVPHYWLGMVLVIIFSSQLMWLPATGAGPDGS 73 G G AG + ++ S+ G S+P +W+G++L++ FS L WLP+ G G Sbjct: 112 GVPLGLFAGMKPDHPFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAE 171 Query: 74 ---AAWIW-DVEHVKYLIMPAVTMSFIPMGIIARTVRALVADILAQEFVIGLKARGLGEF 129 W W + +++I+PA+ +S + ++ R RA V ++L +FV +A+GL Sbjct: 172 LFGVQWSWLTADGWRHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPA 231 Query: 130 GV-FRHVVKNCAPTAMAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQRDLPLLQG 188 V +V++N + V+GL+ G + +++ E++F+WPG G L+ +I D P++ Sbjct: 232 RVVLMYVLRNTLIPLVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVA 291 Query: 189 TILVLALFFVSLNLLVDILQTVFDPRIE 216 ++V+ FV++NL+VD+L + DPR+ Sbjct: 292 YLMVIVCMFVTINLVVDVLYKLLDPRVR 319 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 103 bits (258), Expect = 8e-24, Method: Compositional matrix adjust. Identities = 68/218 (31%), Positives = 111/218 (50%), Gaps = 7/218 (3%) Query: 1 MLAALATLIGFFFGSLFGFVAGYFRNSWVDKIASFISVVGVSVPHYWLGMVLVIIFSSQL 60 MLAA+ L+ G + +R S+ D+ + +V VSVP + + V V+IF+ +L Sbjct: 104 MLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVPEFLVATVAVMIFAVKL 163 Query: 61 MWLPATGAGPDGSAAWIWDVEHVKYLIMPAVTMSFIPMGIIARTVRALVADILAQEFVIG 120 WL A D + + +K MP +T+ + + + R RA V D L + Sbjct: 164 RWLSALSHAGDAATLGAF----IKAYAMPVLTLCCVIVAQMTRMTRAAVIDQLRSSYAEM 219 Query: 121 LKARGLGEFG-VFRHVVKNC-APTAMAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAI 178 +G+ V RH + N P A AV L L YLLGG I++E++F++PG L+ A+ Sbjct: 220 ALLKGVKRTRIVLRHALPNAIGPIANAV-ALSLSYLLGGVIIVESIFNYPGIATLMIDAV 278 Query: 179 FQRDLPLLQGTILVLALFFVSLNLLVDILQTVFDPRIE 216 RD+PL+Q ++ ++ L L D+L V +PR++ Sbjct: 279 TTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLK 316 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 93.6 bits (231), Expect = 1e-20, Method: Compositional matrix adjust. Identities = 71/202 (35%), Positives = 105/202 (51%), Gaps = 13/202 (6%) Query: 14 GSLFGFVAGYFRNSWVDKIASFISVVGVSVPHYWLGMVLVIIFSSQLMWLPATGAGPDGS 73 G G +AG W+D+ +SV ++P + LG++LV++FS QL LPA G G G Sbjct: 132 GPTLGVLAGLHPGRWLDRATLALSVGLRALPSFLLGLILVLLFSVQLGALPAAGHGDHGG 191 Query: 74 AAWIWDVEHVKYLIMPAVTMSFIPMGIIARTVRALVADILAQEFVIGLKARGLGEFGVF- 132 +++PA+T++ + R R + + + +GL Sbjct: 192 ------------ILLPALTLALGLAAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQALA 239 Query: 133 RHVVKNCAPTAMAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQRDLPLLQGTILV 192 RH ++N A A +G+QL L+ G +L+ET+F+WPG G L AIF RD+P++QGT LV Sbjct: 240 RHGLRNVAAPVTAYLGVQLVMLVEGVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALV 299 Query: 193 LALFFVSLNLLVDILQTVFDPR 214 L L FV N LVD DPR Sbjct: 300 LGLMFVLFNALVDAACAFLDPR 321 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 0.331 0.145 0.453 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: 689,233 Number of extensions: 29294 Number of successful extensions: 114 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 105 Number of HSP's successfully gapped: 6 Length of query: 218 Length of database: 1,619,870 Length adjustment: 82 Effective length of query: 136 Effective length of database: 1,231,600 Effective search space: 167497600 Effective search space used: 167497600 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.2 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.9 bits) S2: 128 (53.9 bits)