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= 0444.0004.p (519 letters) Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF 2,715,099 sequences; 757,237,578 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value ref|ZP_00169789.1| hypothetical protein Raeut100701 [Ralstonia e... 171 4e-41 gb|EAH90495.1| unknown [environmental sequence] 170 9e-41 ref|NP_743220.1| amino acid permease [Pseudomonas putida KT2440]... 167 4e-40 ref|ZP_00087798.1| COG1113: Gamma-aminobutyrate permease and rel... 167 8e-40 ref|NP_249480.1| probable amino acid permease [Pseudomonas aerug... 166 1e-39 >ref|ZP_00169789.1| hypothetical protein Raeut100701 [Ralstonia eutropha JMP134] Length = 440 Score = 171 bits (433), Expect = 4e-41, Method: Compositional matrix adjust. Identities = 111/320 (34%), Positives = 164/320 (51%), Gaps = 3/320 (0%) Query: 16 LALGTVVGGSFFLGSSVAIRAAGPSVLLSYVIGGILVYFILSALSEMTVANPVAGSFRTY 75 +ALG+ +G FLGS+ AIR AGP+++L+Y+IGG +++ I+ AL EM V NPVAGSF Y Sbjct: 1 MALGSAIGVGLFLGSANAIRMAGPAIMLAYLIGGAMIFLIMRALGEMAVHNPVAGSFCRY 60 Query: 76 TEQAFGRGAGFTVGWVYWTGLVLAMSSEATAVSILLRGWFPALPLALLGSGIIAGVTLLN 135 + G AG+ GW YW ++ +E TAV+I + WFP +P + +A + +N Sbjct: 61 AQDHMGPLAGYLTGWNYWFLWLVTCVAEITAVAIYMGVWFPDVPRWIWALAALATMGSVN 120 Query: 136 LLGAKRLSRLESXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRAVGLDVVRGQSLF-PGGI 194 LL K E A G+ + F P G Sbjct: 121 LLTVKAYGEFEFWFAMIKIVTIVLMLFGGGAMIVFGLGNGGIATGISNLWAHGGFMPNGA 180 Query: 195 AGIAGSMLMVMFTYAGFEVLGLAASETGNPGVTIPRAIRYTIVLLVGLYLAAIIGLFLLL 254 +G+ S+ MVMF Y G E++GL A E NP +IP AI ++ Y+ A+ + L Sbjct: 181 SGVLMSLQMVMFAYLGVEMIGLTAGEAKNPRKSIPDAINSVFWRILIFYVGALFVILSLY 240 Query: 255 PPARVSEQVSPFVSALSLYGLGWAGTVMNIVLVSAILSTMLASVFGLGRMLRSLAEEGHT 314 P + Q SPFV G+ A ++N V+++A LS+ +F GRML +LA++G Sbjct: 241 PWNEIGAQGSPFVMTFERLGIKTAAGIINFVVLTAALSSCNGGIFSTGRMLYNLAQQGQA 300 Query: 315 PAWMR--DRADIPYRGILIS 332 PA DR +P R +L+S Sbjct: 301 PAAFARVDRNGVPRRALLVS 320 >gb|EAH90495.1| unknown [environmental sequence] Length = 453 Score = 170 bits (430), Expect = 9e-41, Method: Compositional matrix adjust. Identities = 107/349 (30%), Positives = 172/349 (49%), Gaps = 3/349 (0%) Query: 5 EKGLSAWGLTMLALGTVVGGSFFLGSSVAIRAAGPSVLLSYVIGGILVYFILSALSEMTV 64 +GL + ++ALG +G FLGS+ AIR AGP++LL+Y++GGI ++ I+ AL EM + Sbjct: 2 HRGLEERHINLMALGATIGVGLFLGSATAIRVAGPAILLTYLLGGIAIFLIMRALGEMAI 61 Query: 65 ANPVAGSFRTYTEQAFGRGAGFTVGWVYWTGLVLAMSSEATAVSILLRGWFPALPLALLG 124 ANPVAG+F Y G AG+ GW YW ++ +E TAV + + WFP +P + Sbjct: 62 ANPVAGAFSRYARDYLGPLAGYLTGWTYWFVWIVTCMAEITAVGVYMHMWFPGVPNWIWA 121 Query: 125 SGIIAGVTLLNLLGAKRLSRLESXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRAVGLDVV 184 + + +N + K E A+GL + Sbjct: 122 LAALMAMGSVNFIAVKLYGEFEFWFALIKIVTIVLMIIGGGLMIAFGIGNGGVAIGLSNL 181 Query: 185 RGQSLF-PGGIAGIAGSMLMVMFTYAGFEVLGLAASETGNPGVTIPRAIRYTIVLLVGLY 243 F P GI G+ ++ +VMF Y G E+LGL A E NP ++ +A+ ++ Y Sbjct: 182 WAHGGFMPNGINGVVAALPIVMFAYLGVEMLGLTAGEARNPEKSLTKAVNSVFWRVLIFY 241 Query: 244 LAAIIGLFLLLPPARVSEQVSPFVSALSLYGLGWAGTVMNIVLVSAILSTMLASVFGLGR 303 + A+ + L P ++ Q SPFV S G+ A ++N V+++A LS+ + +F R Sbjct: 242 IGALFVIMSLYPWDQIGTQGSPFVMTFSRLGIPAAAGIINFVVLTAALSSCNSGLFSTAR 301 Query: 304 MLRSLAEEGHTPAWM--RDRADIPYRGILISXXXXXXXXXXXXXXPQGV 350 ML +LA++G P+ + +R +P G+++S PQ V Sbjct: 302 MLYNLAQQGQAPSTLGKVNRNGVPVYGVIVSVTLLLIGVLLNYLAPQHV 350 >ref|NP_743220.1| amino acid permease [Pseudomonas putida KT2440] gb|AAN66684.1| amino acid permease [Pseudomonas putida KT2440] Length = 472 Score = 167 bits (424), Expect = 4e-40, Method: Compositional matrix adjust. Identities = 106/303 (34%), Positives = 153/303 (50%), Gaps = 1/303 (0%) Query: 15 MLALGTVVGGSFFLGSSVAIRAAGPSVLLSYVIGGILVYFILSALSEMTVANPVAGSFRT 74 ++ALG +G FLGS+ AI AGP+++LSY+IGG+ + I+ AL EM V NPVAGSF Sbjct: 29 LMALGACIGVGLFLGSAKAIEMAGPAIMLSYIIGGLAILVIMRALGEMAVHNPVAGSFSR 88 Query: 75 YTEQAFGRGAGFTVGWVYWTGLVLAMSSEATAVSILLRGWFPALPLALLGSGIIAGVTLL 134 Y + G AGF GW YW ++ +E TAV+I + WFP +P + + + + Sbjct: 89 YAQDYLGPLAGFLTGWNYWFLWLVTCVAEITAVAIYMGIWFPDVPRWIWALAALGSMGAV 148 Query: 135 NLLGAKRLSRLESXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRAVGLDVVRGQSLF-PGG 193 NL+ K E AVG+ + F P G Sbjct: 149 NLVAVKAFGEFEFWFALIKIVTIIAMVLGGIGIIAFGFGNDGVAVGISNLWSNGGFMPNG 208 Query: 194 IAGIAGSMLMVMFTYAGFEVLGLAASETGNPGVTIPRAIRYTIVLLVGLYLAAIIGLFLL 253 + G+ S+ MVMF Y G E++GL A E NP TIP+AI ++ Y+ A+ + + Sbjct: 209 VTGVLMSLQMVMFAYLGVEMIGLTAGEARNPQKTIPQAIGSVFWRILLFYVGALFVILSI 268 Query: 254 LPPARVSEQVSPFVSALSLYGLGWAGTVMNIVLVSAILSTMLASVFGLGRMLRSLAEEGH 313 P + Q SPFV G+ A ++N V+++A LS+ +F GRML SLA+ G Sbjct: 269 YPWNEIGSQGSPFVMTFERLGIKTAAGIINFVVITAALSSCNGGIFSTGRMLYSLAQNGQ 328 Query: 314 TPA 316 PA Sbjct: 329 APA 331 >ref|ZP_00087798.1| COG1113: Gamma-aminobutyrate permease and related permeases [Pseudomonas fluorescens PfO-1] Length = 485 Score = 167 bits (422), Expect = 8e-40, Method: Compositional matrix adjust. Identities = 104/305 (34%), Positives = 153/305 (50%), Gaps = 1/305 (0%) Query: 13 LTMLALGTVVGGSFFLGSSVAIRAAGPSVLLSYVIGGILVYFILSALSEMTVANPVAGSF 72 + ++ALG +G FLGS+ AI AGP+++LSY+IGG+ + I+ AL EM V NPVAGSF Sbjct: 39 IRLMALGACIGVGLFLGSAKAIEMAGPAIMLSYIIGGLAILVIMRALGEMAVHNPVAGSF 98 Query: 73 RTYTEQAFGRGAGFTVGWVYWTGLVLAMSSEATAVSILLRGWFPALPLALLGSGIIAGVT 132 Y + G AGF GW YW ++ +E TAV++ + WFP +P + + + Sbjct: 99 SRYAQDYLGPLAGFLTGWNYWFLWLVTCVAEITAVAVYMGIWFPDVPRWIWALAALVSMG 158 Query: 133 LLNLLGAKRLSRLESXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRAVGLDVVRGQSLF-P 191 +NL+ K E A+G+ + F P Sbjct: 159 SINLIAVKAFGEFEFWFALIKIVTIIAMVLGGIGIIAFGFGNDGVALGISNLWAHGGFMP 218 Query: 192 GGIAGIAGSMLMVMFTYAGFEVLGLAASETGNPGVTIPRAIRYTIVLLVGLYLAAIIGLF 251 G+ G+ S+ MVMF Y G E++GL A E NP TIP AI ++ Y+ A+ + Sbjct: 219 NGVTGVLMSLQMVMFAYLGVEMIGLTAGEAKNPQKTIPNAIGSVFWRILLFYVGALFVIL 278 Query: 252 LLLPPARVSEQVSPFVSALSLYGLGWAGTVMNIVLVSAILSTMLASVFGLGRMLRSLAEE 311 + P + Q SPFV G+ A ++N V+++A LS+ +F GRML SLA+ Sbjct: 279 SIYPWNEIGTQGSPFVMTFERLGIKTAAGIINFVVITAALSSCNGGIFSTGRMLYSLAQN 338 Query: 312 GHTPA 316 G PA Sbjct: 339 GQAPA 343 >ref|NP_249480.1| probable amino acid permease [Pseudomonas aeruginosa PA01] pir||D83546 probable amino acid permease PA0789 [imported] - Pseudomonas aeruginosa (strain PAO1) gb|AAG04178.1| probable amino acid permease [Pseudomonas aeruginosa PAO1] Length = 471 Score = 166 bits (421), Expect = 1e-39, Method: Compositional matrix adjust. Identities = 107/329 (32%), Positives = 163/329 (49%), Gaps = 3/329 (0%) Query: 2 GKEEKGLSAWGLTMLALGTVVGGSFFLGSSVAIRAAGPSVLLSYVIGGILVYFILSALSE 61 G ++ L + ++ALG +G FLGS+ AI+ AGP++++SY++GG+ + I+ AL E Sbjct: 12 GSLKRELGERHIRLMALGACIGVGLFLGSAKAIQMAGPAIMISYILGGLAILVIMRALGE 71 Query: 62 MTVANPVAGSFRTYTEQAFGRGAGFTVGWVYWTGLVLAMSSEATAVSILLRGWFPALPLA 121 M V NPVAGSF Y + G AGF GW YW ++ +E TAV++ + WFP +P Sbjct: 72 MAVHNPVAGSFSQYAKDYLGPLAGFITGWNYWFLWLVTCVAEITAVAVYMGIWFPDVPRW 131 Query: 122 LLGSGIIAGVTLLNLLGAKRLSRLESXXXXXXXXXXXXXXXXXXXXXXXXXXXXXRAVGL 181 + +A + +NL+ + E A G+ Sbjct: 132 IWALAALASMGTINLIAVRAFGEFEFWFALIKIVTILAMVVVGIGMIAFGFGNDGIATGI 191 Query: 182 DVVRGQSLF-PGGIAGIAGSMLMVMFTYAGFEVLGLAASETGNPGVTIPRAIRYTIVLLV 240 + F P GI G+ S+ MVMF Y G E++GL A E NP TIP AI ++ Sbjct: 192 SNLWAHGGFMPNGIQGVLMSLQMVMFAYLGVEMIGLTAGEARNPTKTIPSAINSVFWRIL 251 Query: 241 GLYLAAIIGLFLLLPPARVSEQVSPFVSALSLYGLGWAGTVMNIVLVSAILSTMLASVFG 300 Y+ ++ + L P + Q SPFV G+ A ++N V+++A LS+ +F Sbjct: 252 LFYVGSLFVIMSLYPWNEIGTQGSPFVMTFERMGIKTAAGIINFVVITAALSSCNGGIFS 311 Query: 301 LGRMLRSLAEEGHTPAWM--RDRADIPYR 327 GRML SLA+ PA+ R+ +P R Sbjct: 312 TGRMLYSLAQHRQAPAFFGKASRSGVPRR 340 Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF Posted date: Mar 24, 2004 1:53 AM Number of letters in database: 757,237,578 Number of sequences in database: 2,715,099 Lambda K H 0.323 0.138 0.419 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 2715099 Number of Hits to DB: 573,769,016 Number of extensions: 19378783 Number of successful extensions: 60186 Number of sequences better than 1.0e-05: 740 Number of HSP's gapped: 59958 Number of HSP's successfully gapped: 1095 Length of query: 519 Length of database: 757,237,578 Length adjustment: 130 Effective length of query: 389 Effective length of database: 404,274,708 Effective search space: 157262861412 Effective search space used: 157262861412 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.9 bits) S2: 128 (53.9 bits)