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= 0001.4599.p (317 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... 191 5e-50 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 188 6e-49 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 144 1e-35 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 133 2e-32 gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel A... 122 3e-29 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 191 bits (486), Expect = 5e-50, Method: Compositional matrix adjust. Identities = 120/316 (37%), Positives = 184/316 (58%), Gaps = 13/316 (4%) Query: 1 MIAYLIRRLLYALPIMLGVAFLCFMLVHIAPGDPLVSILPPDASADLQKQLMELYGFNRS 60 M +++I+RLL +P +L VA L F+ VH+ PGDP P+A + G ++ Sbjct: 1 MFSFVIKRLLGLIPTLLLVAVLVFLFVHLLPGDPARLAAGPEADDKTVALVRADLGLDKP 60 Query: 61 YPEQFLSWVWRALHGDLGSSIATGRPVAAEVFKAVGNTFMLAAVATVIGFVFGSLFGFVA 120 PEQF+++ A GD G SI T RPV+ E+ T L VA V +FG + G + Sbjct: 61 LPEQFVNFFLNAARGDFGHSIRTKRPVSEEISARFWPTLWLTVVAMVWAVLFGLIIGISS 120 Query: 121 GYFRNSWVDRIASFISVVGVSVPHYWLGMVLVIVFSSKLMWLPATGAGPDGSGAWVWDIE 180 +RN W DR+ ++V G+S P + LG++LV VFS KL WLP G D Sbjct: 121 AVWRNQWPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLGWLPTVG-----------DDT 169 Query: 181 HMKYLLMPAVTMSFIPMGIIARTVRALVADILAQEFVVGLKARGLSDAGV-LRHVVKNAA 239 + Y+L P++T+ ++AR R+ +IL ++FV +A+GL++ V ++H ++NA Sbjct: 170 WLHYIL-PSITLGAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNAL 228 Query: 240 PTALAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQRDLPLLQGSILVLAMFFVAL 299 + +MGLQ G+LLGGSIL+E VF+WPG G LL A+ RD P++Q IL+ ++ F+ + Sbjct: 229 IPVVTMMGLQFGFLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPVIQAEILLFSLEFIFI 288 Query: 300 NLLVDILQTIFDPRIE 315 NL+VD+L + +P I Sbjct: 289 NLVVDVLYAVINPSIR 304 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 188 bits (477), Expect = 6e-49, Method: Compositional matrix adjust. Identities = 102/316 (32%), Positives = 183/316 (57%), Gaps = 14/316 (4%) Query: 1 MIAYLIRRLLYALPIMLGVAFLCFMLVHIAPGDPLVSILPPDASADLQKQLMELYGFNRS 60 M+ Y++RRL AL + + V+ + F L+H++ GD VSI P+A+A + + +G +R Sbjct: 1 MLIYILRRLAIALCVAVTVSVVSFTLLHMS-GDLAVSIAGPEATAAQVESVRTQFGLDRP 59 Query: 61 YPEQFLSWVWRALHGDLGSSIATGRPVAAEVFKAVGNTFMLAAVATVIGFVFGSLFGFVA 120 Q+L W+ RA+ D G S PV + + + TF L A ++ + G +A Sbjct: 60 MATQYLDWLGRAVQLDFGKSFYFQGPVMEMIAERLPITFKLGGSALLLAVLTAIPLGVLA 119 Query: 121 GYFRNSWVDRIASFISVVGVSVPHYWLGMVLVIVFSSKLMWLPATGAGPDGSGAWVWDIE 180 +R++W+DR A I+VVG ++P +W G+ L+++F+ L WLP G E Sbjct: 120 AIYRDTWLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAGN------------E 167 Query: 181 HMKYLLMPAVTMSFIPMGIIARTVRALVADILAQEFVVGLKARGLSDAGVL-RHVVKNAA 239 ++ ++PAV + + M + R R+ + ++L +++ +A+GLS + V+ +H ++NA Sbjct: 168 SWQHFILPAVALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAV 227 Query: 240 PTALAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQRDLPLLQGSILVLAMFFVAL 299 +A+ ++LG++LGGS++IE+V+S G G L AI + D P++Q +L++AMF++ L Sbjct: 228 IPVVALAAVELGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGL 287 Query: 300 NLLVDILQTIFDPRIE 315 L D++ + DPRI Sbjct: 288 TFLADVINALLDPRIR 303 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 144 bits (362), Expect = 1e-35, Method: Compositional matrix adjust. Identities = 92/314 (29%), Positives = 174/314 (55%), Gaps = 6/314 (1%) Query: 7 RRLLYALPIMLGVAFLCFMLVHIAPGDPLVSILPPDASADLQKQLMELYGFNRSYPEQFL 66 R ++ AL ++L + + F +H+ G+P+ ++ D + ++++ G ++ Q+L Sbjct: 7 RSVVQALMVVLLMTVIVFFGLHMI-GNPVDILIGQDVDQVDRLRIIQELGLDQPVWRQYL 65 Query: 67 SWVWRALHGDLGSSIATGRPVAAEVFKAVGNTFMLAAVATVIGFVFGSLFGFVAGYFRNS 126 +++ ALHG+LG+S P +F+ + T LA A ++ V G G AG + Sbjct: 66 AFLNGALHGNLGNSFVYNTPAILLIFQRLPATLELACAALLLALVVGVPLGLFAGMKPDH 125 Query: 127 WVDRIASFISVVGVSVPHYWLGMVLVIVFSSKLMWLPATGAGPDGS---GAWVW-DIEHM 182 R+ S+ G S+P +W+G++L++ FS L WLP+ G G W W + Sbjct: 126 PFSRLVMTTSIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWLTADGW 185 Query: 183 KYLLMPAVTMSFIPMGIIARTVRALVADILAQEFVVGLKARGLSDAG-VLRHVVKNAAPT 241 +++++PA+ +S + ++ R RA V ++L +FV +A+GLS A VL +V++N Sbjct: 186 RHMILPAINLSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLRNTLIP 245 Query: 242 ALAVMGLQLGYLLGGSILIETVFSWPGTGFLLNQAIFQRDLPLLQGSILVLAMFFVALNL 301 + V+GL+ G + +++ E++F+WPG G L+ +I D P++ ++V+ FV +NL Sbjct: 246 LVTVVGLEFGSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMFVTINL 305 Query: 302 LVDILQTIFDPRIE 315 +VD+L + DPR+ Sbjct: 306 VVDVLYKLLDPRVR 319 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 133 bits (334), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 90/296 (30%), Positives = 148/296 (50%), Gaps = 11/296 (3%) Query: 24 FMLVHIAPGDPLVSILPPDASADLQKQLMELYGFNRSYPEQFLSWVWRALHGDLGSSIAT 83 F + ++ PGD + L A+ + L YG + P ++ W+ L G+ G S+ Sbjct: 28 FFITNLLPGDAAQTALGQAATPETVAALRLQYGLDLPAPLRYAHWLGNLLSGNPGMSLVN 87 Query: 84 GRPVAAEVFKAVGNTFMLAAVATVIGFVFGSLFGFVAGYFRNSWVDRIASFISVVGVSVP 143 PVA + + + MLAAV ++ G + +R S+ DR + +V VSVP Sbjct: 88 NVPVAQMIGGRLPASLMLAAVTALVSVPLALFLGIFSAMYRGSFFDRAVNVSAVSMVSVP 147 Query: 144 HYWLGMVLVIVFSSKLMWLPATGAGPDGS--GAWVWDIEHMKYLLMPAVTMSFIPMGIIA 201 + + V V++F+ KL WL A D + GA++ K MP +T+ + + + Sbjct: 148 EFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFI------KAYAMPVLTLCCVIVAQMT 201 Query: 202 RTVRALVADILAQEFVVGLKARGLSDAG-VLRHVVKNA-APTALAVMGLQLGYLLGGSIL 259 R RA V D L + +G+ VLRH + NA P A AV L L YLLGG I+ Sbjct: 202 RMTRAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAV-ALSLSYLLGGVII 260 Query: 260 IETVFSWPGTGFLLNQAIFQRDLPLLQGSILVLAMFFVALNLLVDILQTIFDPRIE 315 +E++F++PG L+ A+ RD+PL+Q ++ ++ L L D+L + +PR++ Sbjct: 261 VESIFNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRLK 316 >gi|300310861|ref|YP_003774953.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 122 bits (306), Expect = 3e-29, Method: Compositional matrix adjust. Identities = 99/298 (33%), Positives = 149/298 (50%), Gaps = 18/298 (6%) Query: 22 LCFMLVHIAPGDPLVSILPPDASADLQKQ-----LMELYGFNRSYPEQFLSWVWRALHGD 76 LCF + + PGD I D+ + + G +R + W R LH D Sbjct: 36 LCFFMTRMLPGDMAYRIAAGRYGYDMVTTEAALAVRDELGLDRPWFMALSEWWSRLLHLD 95 Query: 77 LGSSIATGRPVAAEVFKAVGNTFMLAAVATVIGFVFGSLFGFVAGYFRNSWVDRIASFIS 136 LG S + +PV AE+ +G T L+ +A + + G G +AG W+DR +S Sbjct: 96 LGVSQVSSQPVLAEIAHQLGPTLRLSLLAMALSLLVGPTLGVLAGLHPGRWLDRATLALS 155 Query: 137 VVGVSVPHYWLGMVLVIVFSSKLMWLPATGAGPDGSGAWVWDIEHMKYLLMPAVTMSFIP 196 V ++P + LG++LV++FS +L LPA G G G +L+PA+T++ Sbjct: 156 VGLRALPSFLLGLILVLLFSVQLGALPAAGHGDHGG------------ILLPALTLALGL 203 Query: 197 MGIIARTVRALVADILAQEFVVGLKARGLSDAGVL-RHVVKNAAPTALAVMGLQLGYLLG 255 + R R + + + +GLS A L RH ++N A A +G+QL L+ Sbjct: 204 AAVSCRVARDAMVQVRQSAYFAFALTKGLSPAQALARHGLRNVAAPVTAYLGVQLVMLVE 263 Query: 256 GSILIETVFSWPGTGFLLNQAIFQRDLPLLQGSILVLAMFFVALNLLVDILQTIFDPR 313 G +L+ET+F+WPG G L AIF RD+P++QG+ LVL + FV N LVD DPR Sbjct: 264 GVVLVETIFAWPGIGHALVHAIFGRDVPMIQGTALVLGLMFVLFNALVDAACAFLDPR 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 0.329 0.143 0.444 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: 1,092,252 Number of extensions: 49986 Number of successful extensions: 239 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 224 Number of HSP's successfully gapped: 6 Length of query: 317 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 232 Effective length of database: 1,217,395 Effective search space: 282435640 Effective search space used: 282435640 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.1 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.8 bits) S2: 130 (54.7 bits)