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= 0028.0163.p (195 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... 155 3e-39 gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel A... 138 2e-34 gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel A... 124 7e-30 gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel A... 99 2e-22 gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herba... 89 2e-19 >gi|300311170|ref|YP_003775262.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 306 Score = 155 bits (391), Expect = 3e-39, Method: Compositional matrix adjust. Identities = 79/185 (42%), Positives = 119/185 (64%), Gaps = 8/185 (4%) Query: 9 WANAIGTLIALFGMSVPHFWLGMLFIILFAVKLGWLPASGFVPLSVDWHANLIAMIMPMV 68 W + +G +A+ G+S P F LG+L + +F+VKLGWLP G + I+P + Sbjct: 127 WPDRLGMTLAVSGISFPAFSLGILLVQVFSVKLGWLPTVG--------DDTWLHYILPSI 178 Query: 69 VTGLRESAILMRMVRSSLLEVLNEDYIRTAFSKGLRDWQVVLGHALRNAMIPVVTASGLM 128 G +A++ R RSS +E+L ED++RTA +KGL + VV+ H LRNA+IPVVT GL Sbjct: 179 TLGAAVAAVMARFTRSSFIEILQEDFVRTARAKGLTETVVVIKHCLRNALIPVVTMMGLQ 238 Query: 129 VSGMLGGLVITESIFGIPGMGKMIVDAIFQRDYVTVQAGVLAATVMVVIVNLCVDLLYSV 188 +LGG ++ E +F PGMG+++VDA+ RDY +QA +L ++ + +NL VD+LY+V Sbjct: 239 FGFLLGGSILVEVVFNWPGMGRLLVDAVEMRDYPVIQAEILLFSLEFIFINLVVDVLYAV 298 Query: 189 IDPRI 193 I+P I Sbjct: 299 INPSI 303 >gi|300312480|ref|YP_003776572.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 305 Score = 138 bits (348), Expect = 2e-34, Method: Compositional matrix adjust. Identities = 76/185 (41%), Positives = 111/185 (60%), Gaps = 8/185 (4%) Query: 9 WANAIGTLIALFGMSVPHFWLGMLFIILFAVKLGWLPASGFVPLSVDWHANLIAMIMPMV 68 W + LIA+ G ++P FW G+ I++FAV L WLP +G + W I+P V Sbjct: 126 WLDRAALLIAVVGQAMPSFWFGLTLILIFAVTLHWLPVAG----NESWQH----FILPAV 177 Query: 69 VTGLRESAILMRMVRSSLLEVLNEDYIRTAFSKGLRDWQVVLGHALRNAMIPVVTASGLM 128 G +MR+ RS +LEVL DYIRTA +KGL +VV HALRNA+IPVV + + Sbjct: 178 ALGYYAMPAMMRLTRSGMLEVLGSDYIRTARAKGLSKSRVVFKHALRNAVIPVVALAAVE 237 Query: 129 VSGMLGGLVITESIFGIPGMGKMIVDAIFQRDYVTVQAGVLAATVMVVIVNLCVDLLYSV 188 + MLGG V+ ES++ + G+G++ DAI + DY VQA VL + + + D++ ++ Sbjct: 238 LGFMLGGSVVIESVYSMQGLGQLAWDAISRNDYPVVQAVVLIIAMFYIGLTFLADVINAL 297 Query: 189 IDPRI 193 +DPRI Sbjct: 298 LDPRI 302 >gi|300310893|ref|YP_003774985.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 124 bits (310), Expect = 7e-30, Method: Compositional matrix adjust. Identities = 70/184 (38%), Positives = 111/184 (60%), Gaps = 8/184 (4%) Query: 18 ALFGMSVPHFWLGMLFIILFAVKLGWLPASGFVP----LSVDWH----ANLIAMIMPMVV 69 ++FG S+P FW+G++ I+ F+V LGWLP+ G V W MI+P + Sbjct: 135 SIFGFSLPTFWIGLMLIMAFSVTLGWLPSGGRGQTAELFGVQWSWLTADGWRHMILPAIN 194 Query: 70 TGLRESAILMRMVRSSLLEVLNEDYIRTAFSKGLRDWQVVLGHALRNAMIPVVTASGLMV 129 L + ++++R+ R+++ EVL D+++ A +KGL +VVL + LRN +IP+VT GL Sbjct: 195 LSLFKISLVIRLTRANVREVLPMDFVKFARAKGLSPARVVLMYVLRNTLIPLVTVVGLEF 254 Query: 130 SGMLGGLVITESIFGIPGMGKMIVDAIFQRDYVTVQAGVLAATVMVVIVNLCVDLLYSVI 189 + V+TESIF PG GK+I+D+I D + A ++ M V +NL VD+LY ++ Sbjct: 255 GSTIAFAVVTESIFAWPGAGKLILDSINALDRPVIVAYLMVIVCMFVTINLVVDVLYKLL 314 Query: 190 DPRI 193 DPR+ Sbjct: 315 DPRV 318 >gi|300310464|ref|YP_003774556.1| dipeptide/oligopeptide/nickel ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 318 Score = 99.0 bits (245), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 59/171 (34%), Positives = 96/171 (56%) Query: 23 SVPHFWLGMLFIILFAVKLGWLPASGFVPLSVDWHANLIAMIMPMVVTGLRESAILMRMV 82 SVP F + + +++FAVKL WL A + A + A MP++ A + RM Sbjct: 145 SVPEFLVATVAVMIFAVKLRWLSALSHAGDAATLGAFIKAYAMPVLTLCCVIVAQMTRMT 204 Query: 83 RSSLLEVLNEDYIRTAFSKGLRDWQVVLGHALRNAMIPVVTASGLMVSGMLGGLVITESI 142 R+++++ L Y A KG++ ++VL HAL NA+ P+ A L +S +LGG++I ESI Sbjct: 205 RAAVIDQLRSSYAEMALLKGVKRTRIVLRHALPNAIGPIANAVALSLSYLLGGVIIVESI 264 Query: 143 FGIPGMGKMIVDAIFQRDYVTVQAGVLAATVMVVIVNLCVDLLYSVIDPRI 193 F PG+ +++DA+ RD VQA + +++ L D+L V +PR+ Sbjct: 265 FNYPGIATLMIDAVTTRDMPLVQACSMIFCAGYLLLVLTADVLAIVSNPRL 315 >gi|300312718|ref|YP_003776810.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 356 Score = 89.0 bits (219), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 60/192 (31%), Positives = 102/192 (53%), Gaps = 16/192 (8%) Query: 15 TLIALFGMSVPHFWLGMLFIILFA--VKLGWLPASGFVPLSVDWHA---------NLIAM 63 T + L G S+P F LG+ ++LFA + W P G S +W + L + Sbjct: 161 TGLVLVGYSIPGFVLGVFLLVLFAGGSFVQWFPLRGLT--SDNWESLSLMGKITDYLWHI 218 Query: 64 IMPMVVTGLRESAILMRMVRSSLLEVLNEDYIRTAFSKGLRDWQVVLGHALRNAMIPVVT 123 +P+ + + A++ + R++ LE + + Y+ TA +KGL + +V+ H RNA+IP+VT Sbjct: 219 TLPVTASVIGSFAVITMLTRNTFLEEIRKQYVLTARAKGLSERRVLYKHVFRNALIPLVT 278 Query: 124 A--SGLMVSGMLGGLVITESIFGIPGMGKMIVDAIFQRDYVTVQAGVLAATVMVVIVNLC 181 S + S G L+I E++F + GMG + ++ +RDY V + T++ ++V L Sbjct: 279 GFPSAFIASFFAGSLLI-ETLFSLDGMGLLAYESAIRRDYPVVMGTLYLFTLIGLVVKLV 337 Query: 182 VDLLYSVIDPRI 193 DL Y DPR+ Sbjct: 338 GDLCYVWADPRV 349 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 0.330 0.142 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: 532,906 Number of extensions: 18408 Number of successful extensions: 113 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 107 Number of HSP's successfully gapped: 6 Length of query: 195 Length of database: 1,619,870 Length adjustment: 80 Effective length of query: 115 Effective length of database: 1,241,070 Effective search space: 142723050 Effective search space used: 142723050 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 (21.9 bits) S2: 128 (53.9 bits)