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= 0001.1500.p (411 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] d... 818 0.0 gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depo... 354 9e-99 gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthet... 93 4e-20 >gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] depolymerase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 818 bits (2114), Expect = 0.0, Method: Compositional matrix adjust. Identities = 395/411 (96%), Positives = 401/411 (97%) Query: 1 MLYQLHELNRAFLNPMMQWAETSAKLFSDPVSPLAHTPFSQRIAAGYELLYRLSKEYEKP 60 MLYQLHELNRAFLNPMMQWAETSAKLFSDPVSPLAHTPFSQRIAAGYELLYRLSKEYEKP Sbjct: 1 MLYQLHELNRAFLNPMMQWAETSAKLFSDPVSPLAHTPFSQRIAAGYELLYRLSKEYEKP 60 Query: 61 QFNIGEVPVEGKPVGISEEVVETKPFCRLIHFKKDLPARQSAALKQPTVLVVAPLSGHHS 120 QFNI VPV+GK VGI EEVVE KPFCRLIHF+KDL ARQ+ ALKQPTVLVVAPLSGHHS Sbjct: 61 QFNIDAVPVDGKSVGIVEEVVEEKPFCRLIHFRKDLSARQATALKQPTVLVVAPLSGHHS 120 Query: 121 TLLRETVRALLQEHDVFITDWTDARMVPVEQGDFHLHDYVYYVQDFIRTLGPDVHVISVC 180 TLLRETVRALLQEHDV+ITDWTDARMVPVEQG FHLHDYVYYVQDFIRTLGPDVHVISVC Sbjct: 121 TLLRETVRALLQEHDVYITDWTDARMVPVEQGAFHLHDYVYYVQDFIRTLGPDVHVISVC 180 Query: 181 QPTVPVLAAISLMASANDPKLPKSMTMMGGPIDARKSPTAVNDLATEKPFSWFENTVIYS 240 QPTVPVLAAISLMASANDP LPKSMTMMGGPIDARKSPTAVNDLATEKP+SWFENTVIYS Sbjct: 181 QPTVPVLAAISLMASANDPMLPKSMTMMGGPIDARKSPTAVNDLATEKPYSWFENTVIYS 240 Query: 241 VPANYPGFGRKVYPGFLQHAGFVAMNPRRHAQSHWDFYMHLRNGDDASAEEHRKFYDEYN 300 VPANYPGFGRKVYPGFLQHAGFVAMNPRRHAQSHWDFYMHLR+GDDASAEEHRKFYDEYN Sbjct: 241 VPANYPGFGRKVYPGFLQHAGFVAMNPRRHAQSHWDFYMHLRDGDDASAEEHRKFYDEYN 300 Query: 301 AVLDMPAEFYLETIKVVFQDFNLARGTWEIEGNLVRPQDIKSVALFTIEGELDDISGSGQ 360 AVLDMPAEFYLETIKVVFQDFNLARGTWEIEG LVRPQDIKSVALFTIEGELDDISGSGQ Sbjct: 301 AVLDMPAEFYLETIKVVFQDFNLARGTWEIEGQLVRPQDIKSVALFTIEGELDDISGSGQ 360 Query: 361 TQAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIVCPKIGEFIRANA 411 TQAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIVCPKIGEFIRANA Sbjct: 361 TQAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIVCPKIGEFIRANA 411 >gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depolymerase [Herbaspirillum seropedicae SmR1] Length = 408 Score = 354 bits (908), Expect = 9e-99, Method: Compositional matrix adjust. Identities = 184/405 (45%), Positives = 252/405 (62%), Gaps = 6/405 (1%) Query: 3 YQLHELNRAFLNPMMQWAETSAKLFSDPVSPLAHTPFSQRIAAGYELLYRLSKEYEKPQF 62 YQL++ +P+ A A+ + P+ +++A+ E+ R + +P F Sbjct: 5 YQLYQNYADATDPLRACARMMAQALGATWPGIPVHPYWRKMASACEVFARTQLTHARPPF 64 Query: 63 NIGEVPVEGKPVGISEEVVETKPFCRLIHFKKDLPARQSAALKQPTVLVVAPLSGHHSTL 122 I V EG + + EE + PFC L+HF+KD +A QP VLVVAP+SGH +TL Sbjct: 65 GIATVEEEGCTISVHEEEIHATPFCGLLHFRKD------SATVQPKVLVVAPMSGHFATL 118 Query: 123 LRETVRALLQEHDVFITDWTDARMVPVEQGDFHLHDYVYYVQDFIRTLGPDVHVISVCQP 182 LR TVR LL++HDV+ITDW +AR V G F L +YV ++ DF+ LGP H+++VCQP Sbjct: 119 LRGTVRTLLRDHDVYITDWRNARDVATAHGRFGLDEYVSHIIDFLGVLGPGAHLLAVCQP 178 Query: 183 TVPVLAAISLMASANDPKLPKSMTMMGGPIDARKSPTAVNDLATEKPFSWFENTVIYSVP 242 TV L A ++MA+ P P+SMT+M GPID R +PTAVN LA KP +WFE +I +VP Sbjct: 179 TVAALTAAAVMAADGHPAQPRSMTLMAGPIDTRVNPTAVNALAKSKPIAWFEKNMISTVP 238 Query: 243 ANYPGFGRKVYPGFLQHAGFVAMNPRRHAQSHWDFYMHLRNGDDASAEEHRKFYDEYNAV 302 A + G GR+VYPGF+Q A F+ MN RH ++ Y HL +G+ A A++ + FY+EY A+ Sbjct: 239 ARHAGAGRRVYPGFVQLAAFMNMNLSRHVEAFGKLYHHLVDGEHARADQIKDFYEEYFAM 298 Query: 303 LDMPAEFYLETIKVVFQDFNLARGTWEIEGNLVRPQDIKSVALFTIEGELDDISGSGQTQ 362 D+PAEFYLET++ VFQ+ L G G V P+ I+ ALFTIEGE DDI GQT Sbjct: 299 ADLPAEFYLETVRTVFQEHALPLGKLSYAGRPVEPRAIRRTALFTIEGEKDDICAVGQTL 358 Query: 363 AAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIVCPKIGEFI 407 AAQELCS I + H GHYG+F+GRRW + P++ +FI Sbjct: 359 AAQELCSGIRPYMRLHHVQTAVGHYGVFNGRRWDNEIYPRLRDFI 403 >gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthetase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 92.8 bits (229), Expect = 4e-20, Method: Compositional matrix adjust. Identities = 83/308 (26%), Positives = 131/308 (42%), Gaps = 32/308 (10%) Query: 109 VLVVAPLSGHHSTL--------LRETVRALLQEHDVFITDWTDARMVPVEQGDFHLHDYV 160 L+VAP +GH S + L ET+ +H V + DW A + D + +Y+ Sbjct: 88 TLIVAPYAGHTSVIADYDQGQSLVETLLGNGVDH-VLLIDWHSAS---ADMKDLEIDNYL 143 Query: 161 YYVQDFIRTLGPDVHVISVCQPTVPVLAAISLMASANDPKLPKSMTMMGGPIDARKSPTA 220 + I LG V ++ +CQ IS M +A P+ + + G PIDA Sbjct: 144 ADLCVVIDELGGRVRLVGLCQG-----GWISAMIAARFPEKVARLVLAGSPIDAGAGEGP 198 Query: 221 VNDLATEKPFSWFENTVIYSVPANYPGFGRKVYPGFLQHAGFVAMNPRRHA-QSHWDFYM 279 + + P ++E+ V G + G G+ M+P H H + Sbjct: 199 LKQMVQRLPLRFYEDLVRS---------GGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQ 249 Query: 280 HLRNGDDASAEEHRKFYDEYNAVLDMPAEFYLETIKVVFQDFNLARGTWEIEGNLVRPQD 339 H+ D A + F Y +D+P +YL+ I +F+D LARG + G + + Sbjct: 250 HID--DPAYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQ 307 Query: 340 IKSVALFTIEGELDDISGSGQTQAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIV 399 I + L+ + GE DDI+ Q A L + P A+ VP GH G+F G R V Sbjct: 308 I-TCPLYLLAGERDDITTPEQVLNAAALVGT-PAAQITQKIVP-GGHIGLFMGSRTLAEV 364 Query: 400 CPKIGEFI 407 P+I ++ 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 0.321 0.136 0.418 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: 1,356,915 Number of extensions: 57904 Number of successful extensions: 138 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 135 Number of HSP's successfully gapped: 3 Length of query: 411 Length of database: 1,619,870 Length adjustment: 88 Effective length of query: 323 Effective length of database: 1,203,190 Effective search space: 388630370 Effective search space used: 388630370 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: 132 (55.5 bits)