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= 0001.0605.p (408 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depo... 715 0.0 gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] d... 358 e-100 gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthet... 77 4e-15 >gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depolymerase [Herbaspirillum seropedicae SmR1] Length = 408 Score = 715 bits (1846), Expect = 0.0, Method: Compositional matrix adjust. Identities = 351/408 (86%), Positives = 376/408 (92%) Query: 1 MINTYQLYQNYADATDPLRACARLMAPLLGTTWPGVPVNPYLRKMASACEVFARTQLTHV 60 MI TYQLYQNYADATDPLRACAR+MA LG TWPG+PV+PY RKMASACEVFARTQLTH Sbjct: 1 MIPTYQLYQNYADATDPLRACARMMAQALGATWPGIPVHPYWRKMASACEVFARTQLTHA 60 Query: 61 RPPFGLGEMVDGERTITVHEEEISGTPFCGLLHFRKENAVNQPKVLVVAPMSGHFATLLR 120 RPPFG+ + + TI+VHEEEI TPFCGLLHFRK++A QPKVLVVAPMSGHFATLLR Sbjct: 61 RPPFGIATVEEEGCTISVHEEEIHATPFCGLLHFRKDSATVQPKVLVVAPMSGHFATLLR 120 Query: 121 GTVKTLLRDHDVYITDWRNARDIALAHGRFGLDEYVSHVIDFLDVLGPGAHLLAVCQPTV 180 GTV+TLLRDHDVYITDWRNARD+A AHGRFGLDEYVSH+IDFL VLGPGAHLLAVCQPTV Sbjct: 121 GTVRTLLRDHDVYITDWRNARDVATAHGRFGLDEYVSHIIDFLGVLGPGAHLLAVCQPTV 180 Query: 181 AALTAAAVMAEADHPAQPRTMTLMAGPLDTRVNPTAVNALAKSKPMAWFEKNMISTVPAR 240 AALTAAAVMA HPAQPR+MTLMAGP+DTRVNPTAVNALAKSKP+AWFEKNMISTVPAR Sbjct: 181 AALTAAAVMAADGHPAQPRSMTLMAGPIDTRVNPTAVNALAKSKPIAWFEKNMISTVPAR 240 Query: 241 HAGGGRRVYPGFVQLSAFMNMNLNRHIEAFRKLYHHLVEGEEAQAAQIKDFYEEYFAMSD 300 HAG GRRVYPGFVQL+AFMNMNL+RH+EAF KLYHHLV+GE A+A QIKDFYEEYFAM+D Sbjct: 241 HAGAGRRVYPGFVQLAAFMNMNLSRHVEAFGKLYHHLVDGEHARADQIKDFYEEYFAMAD 300 Query: 301 LPAEFYLETVRLVFQEHALPLGKLSYGPHLVNPRAIRRTALFTIEGEKDDICAVGQTVAA 360 LPAEFYLETVR VFQEHALPLGKLSY V PRAIRRTALFTIEGEKDDICAVGQT+AA Sbjct: 301 LPAEFYLETVRTVFQEHALPLGKLSYAGRPVEPRAIRRTALFTIEGEKDDICAVGQTLAA 360 Query: 361 QEMCSNIRPYMRMHHVQTAVGHYGVFNGRRWENEIYPRLRDFINMHHR 408 QE+CS IRPYMR+HHVQTAVGHYGVFNGRRW+NEIYPRLRDFINMHHR Sbjct: 361 QELCSGIRPYMRLHHVQTAVGHYGVFNGRRWDNEIYPRLRDFINMHHR 408 >gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] depolymerase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 358 bits (920), Expect = e-100, Method: Compositional matrix adjust. Identities = 181/406 (44%), Positives = 259/406 (63%), Gaps = 8/406 (1%) Query: 5 YQLYQNYADATDPLRACARLMAPLLGTTWPGVPVNPYLRKMASACEVFARTQLTHVRPPF 64 YQL++ +P+ A A L + P+ +++A+ E+ R + +P F Sbjct: 3 YQLHELNRAFLNPMMQWAETSAKLFSDPVSPLAHTPFSQRIAAGYELLYRLSKEYEKPQF 62 Query: 65 GLGEM-VDGERTITVHEEEISGTPFCGLLHFRKE------NAVNQPKVLVVAPMSGHFAT 117 + + VDG +++ + EE + PFC L+HFRK+ A+ QP VLVVAP+SGH +T Sbjct: 63 NIDAVPVDG-KSVGIVEEVVEEKPFCRLIHFRKDLSARQATALKQPTVLVVAPLSGHHST 121 Query: 118 LLRGTVKTLLRDHDVYITDWRNARDIALAHGRFGLDEYVSHVIDFLDVLGPGAHLLAVCQ 177 LLR TV+ LL++HDVYITDW +AR + + G F L +YV +V DF+ LGP H+++VCQ Sbjct: 122 LLRETVRALLQEHDVYITDWTDARMVPVEQGAFHLHDYVYYVQDFIRTLGPDVHVISVCQ 181 Query: 178 PTVAALTAAAVMAEADHPAQPRTMTLMAGPLDTRVNPTAVNALAKSKPMAWFEKNMISTV 237 PTV L A ++MA A+ P P++MT+M GP+D R +PTAVN LA KP +WFE +I +V Sbjct: 182 PTVPVLAAISLMASANDPMLPKSMTMMGGPIDARKSPTAVNDLATEKPYSWFENTVIYSV 241 Query: 238 PARHAGGGRRVYPGFVQLSAFMNMNLNRHIEAFRKLYHHLVEGEEAQAAQIKDFYEEYFA 297 PA + G GR+VYPGF+Q + F+ MN RH ++ Y HL +G++A A + + FY+EY A Sbjct: 242 PANYPGFGRKVYPGFLQHAGFVAMNPRRHAQSHWDFYMHLRDGDDASAEEHRKFYDEYNA 301 Query: 298 MSDLPAEFYLETVRLVFQEHALPLGKLSYGPHLVNPRAIRRTALFTIEGEKDDICAVGQT 357 + D+PAEFYLET+++VFQ+ L G LV P+ I+ ALFTIEGE DDI GQT Sbjct: 302 VLDMPAEFYLETIKVVFQDFNLARGTWEIEGQLVRPQDIKSVALFTIEGELDDISGSGQT 361 Query: 358 VAAQEMCSNIRPYMRMHHVQTAVGHYGVFNGRRWENEIYPRLRDFI 403 AAQE+CS+I + H GHYG+F+GRRW + P++ +FI Sbjct: 362 QAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIVCPKIGEFI 407 >gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthetase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 76.6 bits (187), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 76/308 (24%), Positives = 136/308 (44%), Gaps = 34/308 (11%) Query: 106 LVVAPMSGHFATLL-----RGTVKTLLR---DHDVYITDWRNARDIALAHGRFGLDEYVS 157 L+VAP +GH + + + V+TLL DH V + DW +A + +D Y++ Sbjct: 89 LIVAPYAGHTSVIADYDQGQSLVETLLGNGVDH-VLLIDWHSA---SADMKDLEIDNYLA 144 Query: 158 HVIDFLDVLGPGAHLLAVCQPT-VAALTAAAVMAEADHPAQPRTMTLMAGPLDTRVNPTA 216 + +D LG L+ +CQ ++A+ AA P + + L P+D Sbjct: 145 DLCVVIDELGGRVRLVGLCQGGWISAMIAARF------PEKVARLVLAGSPIDAGAGEGP 198 Query: 217 VNALAKSKPMAWFEKNMISTVPARHAGGGRRVYPGFVQLSAFMNMNLNRH-IEAFRKLYH 275 + + + P+ ++E + R GG R G L + NM+ + H +L Sbjct: 199 LKQMVQRLPLRFYEDLV------RSGGGLMR---GSFMLQGWKNMHPDEHYFNEHLELLQ 249 Query: 276 HLVEGEEAQAAQIKDFYEEYFAMSDLPAEFYLETVRLVFQEHALPLGKLSYGPHLVNPRA 335 H+ + A A+ + F Y DLP +YL+ + +F+++ L GK ++ R Sbjct: 250 HI--DDPAYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQ 307 Query: 336 IRRTALFTIEGEKDDICAVGQTVAAQEMCSNIRPYMRMHHVQTAVGHYGVFNGRRWENEI 395 I L+ + GE+DDI Q + A + P ++ GH G+F G R E+ Sbjct: 308 I-TCPLYLLAGERDDITTPEQVLNAAALVGT--PAAQITQKIVPGGHIGLFMGSRTLAEV 364 Query: 396 YPRLRDFI 403 +P++ ++ Sbjct: 365 WPQIATWL 372 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 0.324 0.137 0.424 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: 1,307,615 Number of extensions: 53442 Number of successful extensions: 190 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 188 Number of HSP's successfully gapped: 3 Length of query: 408 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 321 Effective length of database: 1,207,925 Effective search space: 387743925 Effective search space used: 387743925 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: 132 (55.5 bits)