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= 0027.0319.p (307 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310541|ref|YP_003774633.1| nitrate transporter permease [H... 593 e-171 gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate A... 111 7e-26 gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate A... 100 2e-22 gi|300312619|ref|YP_003776711.1| ABC transporter permease [Herba... 84 1e-17 gi|300311644|ref|YP_003775736.1| taurine ABC transporter permeas... 79 5e-16 >gi|300310541|ref|YP_003774633.1| nitrate transporter permease [Herbaspirillum seropedicae SmR1] Length = 307 Score = 593 bits (1529), Expect = e-171, Method: Compositional matrix adjust. Identities = 304/307 (99%), Positives = 304/307 (99%) Query: 1 MSAVVESIMGENAKPAGPAGSHPPVAVNSQAPASPLAAIPARRAKKRLASGGLFMRVAPP 60 MSAVVESIMGENAKPAGPAGSHPP AVNSQAPASP AAIPARRAKKRLASGGLFMRVAPP Sbjct: 1 MSAVVESIMGENAKPAGPAGSHPPAAVNSQAPASPPAAIPARRAKKRLASGGLFMRVAPP 60 Query: 61 LLGLALLVLVWQIIALKTSSFPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRV 120 LLGLALLVLVWQIIALKTSSFPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRV Sbjct: 61 LLGLALLVLVWQIIALKTSSFPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRV 120 Query: 121 GMGFGLAALVGIPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIW 180 G GFGLAALVGIPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIW Sbjct: 121 GTGFGLAALVGIPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIW 180 Query: 181 SIFICSIWPMIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSI 240 SIFICSIWPMIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSI Sbjct: 181 SIFICSIWPMIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSI 240 Query: 241 GTAWLVIVAAEMLTGGVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLEQLLVALAKAF 300 GTAWLVIVAAEMLTGGVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLEQLLVALAKAF Sbjct: 241 GTAWLVIVAAEMLTGGVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLEQLLVALAKAF 300 Query: 301 TYEQVNN 307 TYEQVNN Sbjct: 301 TYEQVNN 307 >gi|300310817|ref|YP_003774909.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 256 Score = 111 bits (278), Expect = 7e-26, Method: Compositional matrix adjust. Identities = 62/226 (27%), Positives = 127/226 (56%), Gaps = 7/226 (3%) Query: 68 VLVWQIIALKTSSFPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRVGMGFGLA 127 +++WQ+++L TS P V++ A + +D + +VLAS R+ G+G Sbjct: 26 LVLWQLVSLTTSPLFLPSVSMTWAAAL-------ELISDGTLQQSVLASSGRILAGWGAG 78 Query: 128 ALVGIPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIWSIFICSI 187 ++G+PLG +GR E + ++ P I R + P+A++ + ++ + I IF ++ Sbjct: 79 VVIGVPLGIFMGRFETVRQLLDPYIEFFRFIPPIAFVTLAVIWLGPGELSKIALIFYTTV 138 Query: 188 WPMIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSIGTAWLVI 247 + + +NT GVQ V + A L +WK+L+ ++ PS +P+M+TG R+++G ++L + Sbjct: 139 FIVTLNTIAGVQAVNPLRLRAAASLGAGQWKILSTVILPSTVPFMVTGARIAMGNSFLTV 198 Query: 248 VAAEMLTGGVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLEQLL 293 V+AE+++ G+G +W N + + I+ +G++G + +++L Sbjct: 199 VSAEIVSAREGLGALIWTARNFSRTEWVFVGIIALGILGYLFDRVL 244 >gi|300309716|ref|YP_003773808.1| nitrate/sulfonate/bicarbonate ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 273 Score = 100 bits (248), Expect = 2e-22, Method: Compositional matrix adjust. Identities = 66/219 (30%), Positives = 124/219 (56%), Gaps = 10/219 (4%) Query: 81 FPTPWVTLKEAGVMFADPFYRNSPNDQG-IGW--------NVLASLQRVGMGFGLAALVG 131 P+PW L++ V +A P P + W + + SL RV GF + A + Sbjct: 37 LPSPWAVLRKW-VEYATPLKPYDPEAGSWLAWAFSGELVMDAIGSLYRVVAGFLIGAGLA 95 Query: 132 IPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIWSIFICSIWPMI 191 +PLG +G + + + + ++RP+ P+A++P+ +L F NP A++ I + + +P++ Sbjct: 96 LPLGLLMGSSQRIYGLMNLTVQVIRPIPPIAYIPLAILWFGLGNPPALFLISLGAFFPVL 155 Query: 192 INTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSIGTAWLVIVAAE 251 +NT GV++V Y+ AR L S+ + +++ P+ +PY+L+GVR+ IGTA++V++ AE Sbjct: 156 MNTIAGVRQVDSIYLRAARNLGASQSTLFLRVMLPAAVPYILSGVRIGIGTAFIVVIVAE 215 Query: 252 MLTGGVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLE 290 M+ G+GF + + II ++ IG++GL ++ Sbjct: 216 MIAVSNGLGFRIMEAREYFWSDKIIAGMITIGLLGLAID 254 >gi|300312619|ref|YP_003776711.1| ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 257 Score = 84.3 bits (207), Expect = 1e-17, Method: Compositional matrix adjust. Identities = 59/234 (25%), Positives = 116/234 (49%), Gaps = 8/234 (3%) Query: 62 LGLALLVLVWQIIALKTSSFPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRVG 121 L + ++L+WQI A SF P GV + SL R+G Sbjct: 18 LAIVFILLMWQIAAWSLPSFLMP-------GVPSVAARLWEEVQSSNFRLALFGSLYRLG 70 Query: 122 MGFGLAALVGIPLGFAIGRVEFLARMFGPIISLLRPVSPLAWLPIGLLVFKSANPAAIWS 181 MG+G A ++GI G + F + I +L+ + +AW+P+ L++ N + Sbjct: 71 MGYGSALVLGIGFGLVGAVLFFFREVLKSAIVILQSIPSIAWVPLFLILMGFGNLPIVVV 130 Query: 182 IFICSIWPMIINTAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSIG 241 + I + +P ++ + V Q +++ ARV+ S +L ++ P+V+P ++TG +L+ G Sbjct: 131 VAIAAFFPAALSVMNATESVQQVHVSAARVMGASRLSMLRRVYLPAVMPELITGAQLAFG 190 Query: 242 TAWLVIVAAEMLTG-GVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLEQLLV 294 AW +++AEML G G G+G + ++ ++ I+ I ++ +++Q+++ Sbjct: 191 NAWRALISAEMLVGFGKGLGRTLAYSGETADMVGVMANILTIAILAALIDQVIL 244 >gi|300311644|ref|YP_003775736.1| taurine ABC transporter permease [Herbaspirillum seropedicae SmR1] Length = 293 Score = 79.0 bits (193), Expect = 5e-16, Method: Compositional matrix adjust. Identities = 60/227 (26%), Positives = 107/227 (47%), Gaps = 19/227 (8%) Query: 81 FPTPWVTLKEAGVMFADPFYRNSPNDQGIGWNVLASLQRVGMGFGLAALVGIPLGFAIGR 140 PTP LK A ++ D Y N+ + +G ASL R+ +A L+GIP+G +G Sbjct: 72 LPTPAEVLKVAQSIWEDG-YANATLAEHVG----ASLLRILTAGVIAVLLGIPVGLLMGL 126 Query: 141 VEFLARMFGPIISLL-------RPVSPLAWLPIGLLVFKSANPAAIWSIFICSIWPMIIN 193 ++ + I + WL IG + I + + P++++ Sbjct: 127 NRWVKGVLDTPIEFYWPLPPLAYLPLMIIWLGIG-------EASKITLLTLAMFAPVVLS 179 Query: 194 TAVGVQRVPQDYMNVARVLNLSEWKVLTKILFPSVLPYMLTGVRLSIGTAWLVIVAAEML 253 GV+ +PQ+ +N A L + W++LT+++ PS LP +LTG+R+++G W +VAAE++ Sbjct: 180 AQAGVRSLPQERVNAALSLGATRWQLLTEVVLPSALPEILTGIRIALGVGWSTLVAAELI 239 Query: 254 TGGVGIGFWVWDEWNNLNVPHIIIAIVVIGVVGLVLEQLLVALAKAF 300 GIG+ + + L + + I +I + L +A Sbjct: 240 ASNRGIGYMIMSASHFLATDAVFVGIALIATCAFAFSYGMRLLERAL 286 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 0.325 0.140 0.439 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: 956,476 Number of extensions: 40926 Number of successful extensions: 288 Number of sequences better than 1.0e-08: 16 Number of HSP's gapped: 284 Number of HSP's successfully gapped: 16 Length of query: 307 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 222 Effective length of database: 1,217,395 Effective search space: 270261690 Effective search space used: 270261690 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 130 (54.7 bits)