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= 0001.3290.p (257 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312619|ref|YP_003776711.1| ABC transporter permease [Herba... 490 e-140 gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate A... 89 3e-19 gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate A... 84 1e-17 gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 82 4e-17 gi|300310541|ref|YP_003774633.1| nitrate transporter permease [H... 79 4e-16 >gi|300312619|ref|YP_003776711.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 257 Score = 490 bits (1261), Expect = e-140, Method: Compositional matrix adjust. Identities = 248/257 (96%), Positives = 253/257 (98%) Query: 1 MSSQRRVTGVRKKLAMLLAIAFILLMWQIAAWSLPSFLMPGVPEVAVRLWEEVQSSNFRA 60 MSSQRRVTG+RKKLAM+LAI FILLMWQIAAWSLPSFLMPGVP VA RLWEEVQSSNFR Sbjct: 1 MSSQRRVTGIRKKLAMVLAIVFILLMWQIAAWSLPSFLMPGVPSVAARLWEEVQSSNFRL 60 Query: 61 ALFGSLYRLGLGYGSALVLGIGFGLIGAVLFFFREVLKSAIVILQSIPSIAWVPLFLILM 120 ALFGSLYRLG+GYGSALVLGIGFGL+GAVLFFFREVLKSAIVILQSIPSIAWVPLFLILM Sbjct: 61 ALFGSLYRLGMGYGSALVLGIGFGLVGAVLFFFREVLKSAIVILQSIPSIAWVPLFLILM 120 Query: 121 GFGNLPIVVVVAIAAFFPAALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPE 180 GFGNLPIVVVVAIAAFFPAALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPE Sbjct: 121 GFGNLPIVVVVAIAAFFPAALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPE 180 Query: 181 LITGAQLAFGNAWRALISAEMLVGFGKGLGRTLAYSGETADMIGVMANILTIAILAALID 240 LITGAQLAFGNAWRALISAEMLVGFGKGLGRTLAYSGETADM+GVMANILTIAILAALID Sbjct: 181 LITGAQLAFGNAWRALISAEMLVGFGKGLGRTLAYSGETADMVGVMANILTIAILAALID 240 Query: 241 QVILENLKHRLLKYQYV 257 QVILENLKHRLLKYQYV Sbjct: 241 QVILENLKHRLLKYQYV 257 >gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 256 Score = 89.4 bits (220), Expect = 3e-19, Method: Compositional matrix adjust. Identities = 66/250 (26%), Positives = 125/250 (50%), Gaps = 1/250 (0%) Query: 5 RRVTGVRKKLAMLLAIAFILLMWQIAAWSLPSFLMPGVPEVAVRLWEEVQSSNFRAALFG 64 RR+ R L ++AI L++WQ+ + + +P V E + + ++ Sbjct: 7 RRLKAARPFLISVIAIVGGLVLWQLVSLTTSPLFLPSVSMTWAAALELISDGTLQQSVLA 66 Query: 65 SLYRLGLGYGSALVLGIGFGLIGAVLFFFREVLKSAIVILQSIPSIAWVPLFLILMGFGN 124 S R+ G+G+ +V+G+ G+ R++L I + IP IA+V L +I +G G Sbjct: 67 SSGRILAGWGAGVVIGVPLGIFMGRFETVRQLLDPYIEFFRFIPPIAFVTLAVIWLGPGE 126 Query: 125 LPIVVVVAIAAFFPAALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPELITG 184 L + ++ F L+ + ++V + + AA +GA + +L V LP+ +P ++TG Sbjct: 127 LSKIALIFYTTVFIVTLNTIAGVQAVNPLRLRAAASLGAGQWKILSTVILPSTVPFMVTG 186 Query: 185 AQLAFGNAWRALISAEMLVGFGKGLGRTLAYSGETADMIGVMANILTIAILAALIDQVIL 244 A++A GN++ ++SAE +V +GLG + + + V I+ + IL L D+V+ Sbjct: 187 ARIAMGNSFLTVVSAE-IVSAREGLGALIWTARNFSRTEWVFVGIIALGILGYLFDRVLR 245 Query: 245 ENLKHRLLKY 254 + L +Y Sbjct: 246 VATRKLLARY 255 >gi|300309985|ref|YP_003774077.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 278 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 60/205 (29%), Positives = 104/205 (50%), Gaps = 2/205 (0%) Query: 17 LLAIAFILLMWQIAAWSL-PSFLMPGVPEVAVRLWEEVQSSNFRAALFGSLYRLGLGYGS 75 ++ +AF+LL+ A L P+ L+P E+A LW Q + SL R+ G+ Sbjct: 30 IVPLAFLLLVEAGARLELIPARLLPPPSELAHTLWSLAQRGELLPHIAASLARVAAGFVI 89 Query: 76 ALVLGIGFGLIGAVLFFFREVLKSAIVILQSIPSIAWVPLFLILMGFGNLPIVVVVAIAA 135 L + GL+ + +L+ + L++IPS+AW+PL L+ +G P VV++AI A Sbjct: 90 GSALAVALGLLVGISRRAEALLEPSFQALRAIPSLAWIPLLLLWLGIDETPKVVLIAIGA 149 Query: 136 FFPAALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPELITGAQLAFGNAWRA 195 FFP L+++ + + G + +++ + LPA +P L G + AW Sbjct: 150 FFPVYLNLVAGIRDIDHKLIEVGTTSGLNTQALIGHILLPASLPYLFAGLRGGLSLAWMF 209 Query: 196 LISAEMLVGFGKGLGRTLAYSGETA 220 L++AE L+ KG+G L+ E++ Sbjct: 210 LVAAE-LIAATKGVGYLLSDGRESS 233 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 82.0 bits (201), Expect = 4e-17, Method: Compositional matrix adjust. Identities = 46/153 (30%), Positives = 90/153 (58%), Gaps = 2/153 (1%) Query: 103 ILQSIPSIAWVPLFLILMGFGNLPIVVVVAIAAFFPAALSVMNATESVQQVHVSAARVMG 162 +++ IP IA++PL ++ G GN P + ++++ AFFP ++ + V +++ AAR +G Sbjct: 118 VIRPIPPIAYIPLAILWFGLGNPPALFLISLGAFFPVLMNTIAGVRQVDSIYLRAARNLG 177 Query: 163 ASRLSMLRRVYLPAVMPELITGAQLAFGNAWRALISAEMLVGFGKGLGRTLAYSGETADM 222 AS+ ++ RV LPA +P +++G ++ G A+ +I AEM + GLG + + E Sbjct: 178 ASQSTLFLRVMLPAAVPYILSGVRIGIGTAFIVVIVAEM-IAVSNGLGFRIMEAREYFWS 236 Query: 223 IGVMANILTIAILAALIDQVILENLKHRLLKYQ 255 ++A ++TI +L ID + + L + +L++ Sbjct: 237 DKIIAGMITIGLLGLAID-LGMSRLNNYMLRWH 268 >gi|300310541|ref|YP_003774633.1| nitrate transporter permease [Herbaspirillum seropedicae SmR1] Length = 307 Score = 78.6 bits (192), Expect = 4e-16, Method: Compositional matrix adjust. Identities = 60/192 (31%), Positives = 100/192 (52%), Gaps = 10/192 (5%) Query: 27 WQIAAWSLPSFLMPGV--PEVAVRLWEEV--QSSNFRA---ALFGSLYRLGLGYGSALVL 79 WQI A SF P V E V + S N + + SL R+G G+G A ++ Sbjct: 71 WQIIALKTSSFPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRVGTGFGLAALV 130 Query: 80 GIGFGL-IGAVLFFFREVLKSAIVILQSIPSIAWVPLFLILMGFGNLPIVVVVAIAAFFP 138 GI G IG V F R + I +L+ + +AW+P+ L++ N + + I + +P Sbjct: 131 GIPLGFAIGRVEFLAR-MFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIWSIFICSIWP 189 Query: 139 AALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPELITGAQLAFGNAWRALIS 198 ++ + V Q +++ ARV+ S +L ++ P+V+P ++TG +L+ G AW +++ Sbjct: 190 MIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSIGTAWLVIVA 249 Query: 199 AEMLVGFGKGLG 210 AEML G G G+G Sbjct: 250 AEMLTG-GVGIG 260 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 0.141 0.409 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: 603,524 Number of extensions: 19778 Number of successful extensions: 157 Number of sequences better than 1.0e-08: 14 Number of HSP's gapped: 160 Number of HSP's successfully gapped: 14 Length of query: 257 Length of database: 1,619,870 Length adjustment: 83 Effective length of query: 174 Effective length of database: 1,226,865 Effective search space: 213474510 Effective search space used: 213474510 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: 129 (54.3 bits)