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= 0081.0006.p (299 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease ... 527 e-151 gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease ... 89 4e-19 gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease ... 88 8e-19 gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease ... 83 3e-17 gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC tra... 77 2e-15 >gi|300310302|ref|YP_003774394.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 296 Score = 527 bits (1358), Expect = e-151, Method: Compositional matrix adjust. Identities = 269/295 (91%), Positives = 282/295 (95%) Query: 1 MNKPYNNKAWFFILPVFLTVAFSAIVPLMTVVNYSVQDIISPEQSVFVGLEWFRAVMRDS 60 MNKPYNNKAWFFILPVFLTVAFSAI+PLMTVVNYSVQDIISPEQ VFVGL+WFR VMRD Sbjct: 1 MNKPYNNKAWFFILPVFLTVAFSAIIPLMTVVNYSVQDIISPEQKVFVGLDWFREVMRDG 60 Query: 61 ELHSALLRQLIFSFCVLLVQIPLGIGLALSMPAQGWKSSAALVILAMPLLIPWNVVGTIW 120 ELH+ALLRQLIFSFCVLLVQIPLGIGLAL+MP +GWKSSA LVILAMPLLIPWNVVGTIW Sbjct: 61 ELHAALLRQLIFSFCVLLVQIPLGIGLALAMPHKGWKSSATLVILAMPLLIPWNVVGTIW 120 Query: 121 QIFGRADIGLGGYVLSRLGMDYNYASDSLDAWITVLVMDVWHWTPLVALLAFAGLRSIPD 180 QIFGRADIGLGGYVL+ LG+DYNYAS+ LDAW+TVL+MDVWHWTPLVALLAFAGLRSIPD Sbjct: 121 QIFGRADIGLGGYVLNLLGIDYNYASNPLDAWLTVLLMDVWHWTPLVALLAFAGLRSIPD 180 Query: 181 AYYQAAQIDGASRWAVFRFIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTT 240 AYYQAAQIDGASRWAVFR+IQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTT Sbjct: 181 AYYQAAQIDGASRWAVFRYIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTT 240 Query: 241 FLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNWMQSAGNGGQSGAQEH 295 FLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNWMQSAGN + +H Sbjct: 241 FLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNWMQSAGNHANASGGQH 295 >gi|300309782|ref|YP_003773874.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 324 Score = 89.0 bits (219), Expect = 4e-19, Method: Compositional matrix adjust. Identities = 72/270 (26%), Positives = 134/270 (49%), Gaps = 12/270 (4%) Query: 25 IVPLMTVVNYSVQ--DIISPEQSVFVGLEWFRAVMRDSELHSALLRQLIFSFCVLLVQIP 82 IVPL + +SV ++++P+Q+ FVGLE + +++D ++ + VL + + Sbjct: 56 IVPLAMTIYFSVNRYNLMAPDQTGFVGLENYAFLLQDPAFWPSIGNTALLIGSVLAISVI 115 Query: 83 LGIGLAL--SMPAQGWKSSAALVILAMPLLIPWNVVGTIWQ-IFGRADIGLGGYVLSRLG 139 G LA+ P +G + LVI P + V IW+ + G+ YV+ LG Sbjct: 116 GGTLLAVLFDQPFRGRGIARLLVI--GPFFVMPTVAALIWKNMIMHPVYGILAYVMRHLG 173 Query: 140 MDYNYASDSLDAW--ITVLVMDVWHWTPLVALLAFAGLRSIPDAYYQAAQIDGASRWAVF 197 ++ D L + ++V+++ W W P L+ L+S+ +AAQ+DGA +F Sbjct: 174 LE---PIDWLAEYPMLSVIIIVAWQWIPFAFLILLTALQSLDTDQKEAAQLDGAGPVRIF 230 Query: 198 RFIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQFDLG 257 +I LP ++ + + +++ + ++ E F T GGPG +TT L+ + + QFD+G Sbjct: 231 FYIVLPHLKRAITVVIMIETIFLLSVFAEIFTTTAGGPGTATTNLTFLVYSIGLQQFDIG 290 Query: 258 PAAAFSLIYFLIILLLSFVLYNWMQSAGNG 287 A+A + ++ ++SF L + G Sbjct: 291 IASAGGIFAVVLANIVSFFLVRMLARNLKG 320 >gi|300312691|ref|YP_003776783.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 292 Score = 88.2 bits (217), Expect = 8e-19, Method: Compositional matrix adjust. Identities = 64/255 (25%), Positives = 125/255 (49%), Gaps = 4/255 (1%) Query: 2 NKPYNNKAWFFILPVFLTVAFSAIVPLMTVVNYSVQD-IISPEQSVFVGLEWFRAVMRDS 60 N+ + + F+ P L + +VP + +N ++++ ++ S +V L +M D Sbjct: 3 NRGKTSLPYLFLGPSLLVMLVLGLVPTVAAINLALKNRVLRYPDSDYVWLRNLERLMSDR 62 Query: 61 ELHSALLRQLIFSFCVLLVQIPLGIGLALSM--PAQGWKSSAALVILAMPLLIPWNVVGT 118 +A+ ++ +L + +GI +A+ + G A V+L P+L+P Sbjct: 63 RFLNAIEVSAVWEVVTVLGAVIVGIAIAVYLFENVHGKWRQAMCVLLITPVLLPRVSAAF 122 Query: 119 IWQIFGRADIGLGGYVLSRLGM-DYNYASDSLDAWITVLVMDVWHWTPLVALLAFAGLRS 177 IW+ G+ G++L +G+ D + SD A V ++D+W W A++ L + Sbjct: 123 IWKFMYSPLTGILGWLLGLVGIHDTAFLSDPALALYAVALVDIWQWGLFFAVIVLKLLET 182 Query: 178 IPDAYYQAAQIDGASRWAVFRFIQLPKMRGVLVIAVLLRFMDSFMIYTEPFVLTGGGPGN 237 +P +AA++D A W V+ +I LP ++G L+ V ++ ++S + +V+T GGPG Sbjct: 183 LPPEPLEAARLDYARTWQVYAYIALPMLKGPLISLVFIKMVESLRSFDLIYVMTKGGPGV 242 Query: 238 STTFLSQYLTQKAVG 252 +T L Y + +G Sbjct: 243 ATETLDMYAYAQGIG 257 >gi|300312636|ref|YP_003776728.1| sugar ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 299 Score = 83.2 bits (204), Expect = 3e-17, Method: Compositional matrix adjust. Identities = 63/254 (24%), Positives = 123/254 (48%), Gaps = 5/254 (1%) Query: 44 QSVFVGLEWFRAVMRDSELHSALLRQLIFSFCVLLVQIPLGIGLALSMPAQGWKSSAALV 103 + F+GL+ F + DS +L + ++ +++ LG+ LA+ + + Sbjct: 48 EGSFIGLDNFTYLAGDSLAQLSLFNTVFYTVSASILKFMLGLWLAILLNKNVPLKTFFRA 107 Query: 104 ILAMPLLIPWNVVGTIWQIFGRADIGLGGYVLSRLGMDYNYAS---DSLDAWITVLVMDV 160 I+ +P ++P + + A + + L ++G+ Y D +A + + +V Sbjct: 108 IVLLPWIVPTALSALAFWWLYDAQFSVISWALHKMGLIDRYIDFLGDPWNARWSTVFANV 167 Query: 161 WHWTPLVALLAFAGLRSIPDAYYQAAQIDGASRWAVFRFIQLPKMRGVLVIAVLLRFMDS 220 W P VA+ AGL++I + Y+AA IDGA+ W FR + LP + ++ + + + + Sbjct: 168 WRGIPFVAISLLAGLQTISPSLYEAAAIDGATPWQQFRHVTLPLLTPIIAVVMTFSVLFT 227 Query: 221 FMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLYNW 280 F + +VLT GGP N+T ++ Q+A+ LG AA L ++I LL+ +++++ Sbjct: 228 FTDFQLIYVLTRGGPLNATHLMATLSFQRAIPGGALGEGAA--LATYMIPFLLAAIMFSY 285 Query: 281 MQSAGNGGQSGAQE 294 G Q G + Sbjct: 286 FGLQRRGWQQGGDK 299 >gi|300313088|ref|YP_003777180.1| sn-glycerol-3-phosphate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 294 Score = 76.6 bits (187), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 68/245 (27%), Positives = 110/245 (44%), Gaps = 11/245 (4%) Query: 45 SVFVGLEWFRAVMRDSELHSALLRQLIFSFCVLLVQIPLGIGLALSMPAQGWKSSAALVI 104 S FV + F+ + D + IFS V + L + LA+ +S Sbjct: 50 SEFVWFDNFKTLFGDPTYLESFRTTAIFSALVAFFGLALSLLLAVFADRVRRGASIYKTF 109 Query: 105 LAMPLLIPWNVVGTIWQIFGRADIGLGGYVLSRLGMDYNYASDSLDAWITVLVMDVWHWT 164 L P + VVG +W +G+ +VLS LG+ ++Y + A I +++ +W Sbjct: 110 LIWPYAVSPVVVGVLWMFLLSPSLGILSHVLSWLGLPWDYMINGTHAMILIVIAAIWKQI 169 Query: 165 PLVALLAFAGLRSIPDAYYQAAQIDGASRWAVFRFIQL------PKMRGVLVIAVLLRFM 218 L AGL+SIP + +AA IDGA V RF + P + V+ V+ F Sbjct: 170 SYNFLFFLAGLQSIPKSLIEAAAIDGAG--PVKRFFTIVFPLISPTTFFLFVVNVVYAFF 227 Query: 219 DSFMIYTEPFVLTGGGPGNSTTFLSQYLTQKAVGQFDLGPAAAFSLIYFLIILLLSFVLY 278 D+F+I T GGPG T L + DLG +AA S++ +++LL+ V + Sbjct: 228 DTFVIVDAT---THGGPGKDTEILVYKVFSDGFKGGDLGGSAAQSVVLMALVILLTVVQF 284 Query: 279 NWMQS 283 +++ Sbjct: 285 KYVEK 289 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 0.327 0.140 0.442 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: 869,264 Number of extensions: 36164 Number of successful extensions: 201 Number of sequences better than 1.0e-08: 10 Number of HSP's gapped: 195 Number of HSP's successfully gapped: 10 Length of query: 299 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 214 Effective length of database: 1,217,395 Effective search space: 260522530 Effective search space used: 260522530 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 (21.7 bits) S2: 130 (54.7 bits)