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= 0178.0068.p (325 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... 483 e-138 gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] d... 303 1e-83 gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthet... 75 7e-15 >gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depolymerase [Herbaspirillum seropedicae SmR1] Length = 408 Score = 483 bits (1243), Expect = e-138, Method: Compositional matrix adjust. Identities = 236/291 (81%), Positives = 263/291 (90%) Query: 35 LLRGTVKTLLRDHDVYITDWHNARDIALEHGRFGLDEYVGHLIRFLQVIGPGAHLVAVCQ 94 LLRGTV+TLLRDHDVYITDW NARD+A HGRFGLDEYV H+I FL V+GPGAHL+AVCQ Sbjct: 118 LLRGTVRTLLRDHDVYITDWRNARDVATAHGRFGLDEYVSHIIDFLGVLGPGAHLLAVCQ 177 Query: 95 PTVAALTAAAVMAEGDDPAQPRTMTLMAGPLDTRVNPTTVNDLAKSKPIEWFEKHLVSTV 154 PTVAALTAAAVMA PAQPR+MTLMAGP+DTRVNPT VN LAKSKPI WFEK+++STV Sbjct: 178 PTVAALTAAAVMAADGHPAQPRSMTLMAGPIDTRVNPTAVNALAKSKPIAWFEKNMISTV 237 Query: 155 PARHPGGGRKVYPGFMQLAAFMNMNLNRHVDAFRNLYTYLIEGEHDKAEAIKVFYEEYFA 214 PARH G GR+VYPGF+QLAAFMNMNL+RHV+AF LY +L++GEH +A+ IK FYEEYFA Sbjct: 238 PARHAGAGRRVYPGFVQLAAFMNMNLSRHVEAFGKLYHHLVDGEHARADQIKDFYEEYFA 297 Query: 215 MSDLPAEFYLETVRVVFQEHALPLGLLQFQGRPVNLKAIRRTALFTVEGEKDDICAVGQT 274 M+DLPAEFYLETVR VFQEHALPLG L + GRPV +AIRRTALFT+EGEKDDICAVGQT Sbjct: 298 MADLPAEFYLETVRTVFQEHALPLGKLSYAGRPVEPRAIRRTALFTIEGEKDDICAVGQT 357 Query: 275 VAAQDMCSSIRPYMRLHHVQTAVGHYGVFNGRRWENEIYPRLRDFINMHHR 325 +AAQ++CS IRPYMRLHHVQTAVGHYGVFNGRRW+NEIYPRLRDFINMHHR Sbjct: 358 LAAQELCSGIRPYMRLHHVQTAVGHYGVFNGRRWDNEIYPRLRDFINMHHR 408 >gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] depolymerase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 303 bits (776), Expect = 1e-83, Method: Compositional matrix adjust. Identities = 140/286 (48%), Positives = 196/286 (68%) Query: 35 LLRGTVKTLLRDHDVYITDWHNARDIALEHGRFGLDEYVGHLIRFLQVIGPGAHLVAVCQ 94 LLR TV+ LL++HDVYITDW +AR + +E G F L +YV ++ F++ +GP H+++VCQ Sbjct: 122 LLRETVRALLQEHDVYITDWTDARMVPVEQGAFHLHDYVYYVQDFIRTLGPDVHVISVCQ 181 Query: 95 PTVAALTAAAVMAEGDDPAQPRTMTLMAGPLDTRVNPTTVNDLAKSKPIEWFEKHLVSTV 154 PTV L A ++MA +DP P++MT+M GP+D R +PT VNDLA KP WFE ++ +V Sbjct: 182 PTVPVLAAISLMASANDPMLPKSMTMMGGPIDARKSPTAVNDLATEKPYSWFENTVIYSV 241 Query: 155 PARHPGGGRKVYPGFMQLAAFMNMNLNRHVDAFRNLYTYLIEGEHDKAEAIKVFYEEYFA 214 PA +PG GRKVYPGF+Q A F+ MN RH + + Y +L +G+ AE + FY+EY A Sbjct: 242 PANYPGFGRKVYPGFLQHAGFVAMNPRRHAQSHWDFYMHLRDGDDASAEEHRKFYDEYNA 301 Query: 215 MSDLPAEFYLETVRVVFQEHALPLGLLQFQGRPVNLKAIRRTALFTVEGEKDDICAVGQT 274 + D+PAEFYLET++VVFQ+ L G + +G+ V + I+ ALFT+EGE DDI GQT Sbjct: 302 VLDMPAEFYLETIKVVFQDFNLARGTWEIEGQLVRPQDIKSVALFTIEGELDDISGSGQT 361 Query: 275 VAAQDMCSSIRPYMRLHHVQTAVGHYGVFNGRRWENEIYPRLRDFI 320 AAQ++CSSI + 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 = 75.1 bits (183), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 72/287 (25%), Positives = 129/287 (44%), Gaps = 31/287 (10%) Query: 40 VKTLLR---DHDVYITDWHNARDIALEHGRFGLDEYVGHLIRFLQVIGPGAHLVAVCQPT 96 V+TLL DH V + DWH+A + + +D Y+ L + +G LV +CQ Sbjct: 111 VETLLGNGVDH-VLLIDWHSA---SADMKDLEIDNYLADLCVVIDELGGRVRLVGLCQGG 166 Query: 97 -VAALTAAAVMAEGDDPAQPRTMTLMAGPLDTRVNPTTVNDLAKSKPIEWFEKHLVSTVP 155 ++A+ AA P + + L P+D + + + P+ ++E + S Sbjct: 167 WISAMIAARF------PEKVARLVLAGSPIDAGAGEGPLKQMVQRLPLRFYEDLVRS--- 217 Query: 156 ARHPGGGRKVYPGFMQLAAFMNMNLNRHVDAFRNLYTYLIEGEHDKAEAIK--VFYEEYF 213 GGG + G L + NM+ + H + N + L++ D A K F Y Sbjct: 218 ----GGG--LMRGSFMLQGWKNMHPDEH---YFNEHLELLQHIDDPAYLAKRETFAAWYE 268 Query: 214 AMSDLPAEFYLETVRVVFQEHALPLGLLQFQGRPVNLKAIRRTALFTVEGEKDDICAVGQ 273 DLP +YL+ + +F+++ L G G+ ++L+ I L+ + GE+DDI Q Sbjct: 269 TTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQI-TCPLYLLAGERDDITTPEQ 327 Query: 274 TVAAQDMCSSIRPYMRLHHVQTAVGHYGVFNGRRWENEIYPRLRDFI 320 + A + + P ++ GH G+F G R E++P++ ++ Sbjct: 328 VLNAAALVGT--PAAQITQKIVPGGHIGLFMGSRTLAEVWPQIATWL 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 0.138 0.421 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: 1,013,604 Number of extensions: 40898 Number of successful extensions: 141 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 139 Number of HSP's successfully gapped: 3 Length of query: 325 Length of database: 1,619,870 Length adjustment: 85 Effective length of query: 240 Effective length of database: 1,217,395 Effective search space: 292174800 Effective search space used: 292174800 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 (21.5 bits) S2: 131 (55.1 bits)