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= 0020.0230.p (376 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthet... 769 0.0 gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] d... 91 2e-19 gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depo... 76 4e-15 gi|300311937|ref|YP_003776029.1| poly(3-hydroxyalkanoate) synthe... 75 7e-15 gi|300312303|ref|YP_003776395.1| poly(3-hydroxyalkanoate) synthe... 67 3e-12 >gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthetase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 769 bits (1986), Expect = 0.0, Method: Compositional matrix adjust. Identities = 374/376 (99%), Positives = 375/376 (99%) Query: 1 MSSTTDTALPIMPAGSVPLFWPMAFAAQAFKQGQDMMDKQLRFLEEEAKLHAVHHPRMAT 60 MSSTTDTALPIMPAGSVPLFWPMAFAAQAFKQGQDMMDKQLRFLEEEAKLHAVHHPRMAT Sbjct: 1 MSSTTDTALPIMPAGSVPLFWPMAFAAQAFKQGQDMMDKQLRFLEEEAKLHAVHHPRMAT 60 Query: 61 PHRERLRLRTLTLREYGSADAGHANVPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVE 120 PHRERLRLRTLTLREYGSADAGHA VPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGV+ Sbjct: 61 PHRERLRLRTLTLREYGSADAGHATVPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVD 120 Query: 121 HVLLIDWHSASADMKDLEIDNYLADLCVVIDELGGRVRLVGLCQGGWISAMIAARFPEKV 180 HVLLIDWHSASADMKDLEIDNYLADLCVVIDELGGRVRLVGLCQGGWISAMIAARFPEKV Sbjct: 121 HVLLIDWHSASADMKDLEIDNYLADLCVVIDELGGRVRLVGLCQGGWISAMIAARFPEKV 180 Query: 181 ARLVLAGSPIDAGAGEGPLKQMVQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHY 240 ARLVLAGSPIDAGAGEGPLKQMVQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHY Sbjct: 181 ARLVLAGSPIDAGAGEGPLKQMVQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHY 240 Query: 241 FNEHLELLQHIDDPAYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALG 300 FNEHLELLQHIDDPAYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALG Sbjct: 241 FNEHLELLQHIDDPAYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALG 300 Query: 301 QQLDLRQITCPLYLLAGERDDITTPEQVLNAAALVGTPAAQITQKIVPGGHIGLFMGSRT 360 QQLDLRQITCPLYLLAGERDDITTPEQVLNAAALVGTPAAQITQKIVPGGHIGLFMGSRT Sbjct: 301 QQLDLRQITCPLYLLAGERDDITTPEQVLNAAALVGTPAAQITQKIVPGGHIGLFMGSRT 360 Query: 361 LAEVWPQIATWLVQPD 376 LAEVWPQIATWLVQPD Sbjct: 361 LAEVWPQIATWLVQPD 376 >gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] depolymerase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust. Identities = 84/308 (27%), Positives = 130/308 (42%), Gaps = 32/308 (10%) Query: 88 TLIVAPYAGHTSVIADYDQGQSLVETLLGNGVEH-VLLIDWHSAS---ADMKDLEIDNYL 143 L+VAP +GH S + L ET+ EH V + DW A + + +Y+ Sbjct: 109 VLVVAPLSGHHSTL--------LRETVRALLQEHDVYITDWTDARMVPVEQGAFHLHDYV 160 Query: 144 ADLCVVIDELGGRVRLVGLCQG-----GWISAMIAARFPEKVARLVLAGSPIDAGAGEGP 198 + I LG V ++ +CQ IS M +A P + + G PIDA Sbjct: 161 YYVQDFIRTLGPDVHVISVCQPTVPVLAAISLMASANDPMLPKSMTMMGGPIDARKSPTA 220 Query: 199 LKQMVQRLPLRFYEDLVRS---------GGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQ 249 + + P ++E+ V G + G G+ M+P H H + Sbjct: 221 VNDLATEKPYSWFENTVIYSVPANYPGFGRKVYPGFLQHAGFVAMNPRRHA-QSHWDFYM 279 Query: 250 HIDD--PAYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQ 307 H+ D A + F Y +D+P +YL+ I +F+D LARG + GQ + + Sbjct: 280 HLRDGDDASAEEHRKFYDEYNAVLDMPAEFYLETIKVVFQDFNLARGTWEIEGQLVRPQD 339 Query: 308 I-TCPLYLLAGERDDITTPEQVLNAAALVGT-PAAQITQKIVP-GGHIGLFMGSRTLAEV 364 I + L+ + GE DDI+ Q A L + P A+ VP GH G+F G R V Sbjct: 340 IKSVALFTIEGELDDISGSGQTQAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIV 399 Query: 365 WPQIATWL 372 P+I ++ Sbjct: 400 CPKIGEFI 407 >gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depolymerase [Herbaspirillum seropedicae SmR1] Length = 408 Score = 76.3 bits (186), Expect = 4e-15, Method: Compositional matrix adjust. Identities = 92/382 (24%), Positives = 157/382 (41%), Gaps = 45/382 (11%) Query: 18 PLFWPMAFAAQAFKQGQDMMDKQ---LRFLEEEAKLHAVHHPRM-ATPHRERLRLRTLTL 73 P + MA A + F + Q + + +EEE +VH + ATP L R Sbjct: 40 PYWRKMASACEVFARTQLTHARPPFGIATVEEEGCTISVHEEEIHATPFCGLLHFRK--- 96 Query: 74 REYGSADAGHANVPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVEHVLLIDWHSA--- 130 D+ L+VAP +GH + + + V TLL + V + DW +A Sbjct: 97 ------DSATVQPKVLVVAPMSGHFATLL-----RGTVRTLLRD--HDVYITDWRNARDV 143 Query: 131 SADMKDLEIDNYLADLCVVIDELGGRVRLVGLCQGGWISAMIAAR-----FPEKVARLVL 185 + +D Y++ + + LG L+ +CQ + AA P + + L Sbjct: 144 ATAHGRFGLDEYVSHIIDFLGVLGPGAHLLAVCQPTVAALTAAAVMAADGHPAQPRSMTL 203 Query: 186 AGSPIDAGAGEGPLKQMVQRLPLRFYEDLV------RSGGGLMR---GSFMLQGWKNMHP 236 PID + + + P+ ++E + R G R G L + NM+ Sbjct: 204 MAGPIDTRVNPTAVNALAKSKPIAWFEKNMISTVPARHAGAGRRVYPGFVQLAAFMNMNL 263 Query: 237 DEHYFNEHLELLQHIDDPAYLAKRETFAAWYE---TTVDLPGRWYLQAIGHIFKDNLLAR 293 H +L H+ D + A+ + +YE DLP +YL+ + +F+++ L Sbjct: 264 SRH-VEAFGKLYHHLVDGEH-ARADQIKDFYEEYFAMADLPAEFYLETVRTVFQEHALPL 321 Query: 294 GKYVALGQQLDLRQI-TCPLYLLAGERDDITTPEQVLNAAALVG--TPAAQITQKIVPGG 350 GK G+ ++ R I L+ + GE+DDI Q L A L P ++ G Sbjct: 322 GKLSYAGRPVEPRAIRRTALFTIEGEKDDICAVGQTLAAQELCSGIRPYMRLHHVQTAVG 381 Query: 351 HIGLFMGSRTLAEVWPQIATWL 372 H G+F G R E++P++ ++ Sbjct: 382 HYGVFNGRRWDNEIYPRLRDFI 403 >gi|300311937|ref|YP_003776029.1| poly(3-hydroxyalkanoate) synthetase [Herbaspirillum seropedicae SmR1] Length = 832 Score = 75.5 bits (184), Expect = 7e-15, Method: Compositional matrix adjust. Identities = 69/290 (23%), Positives = 124/290 (42%), Gaps = 25/290 (8%) Query: 87 PTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVEHVLLIDWHSASADMKDLEI-----DN 141 P ++V P AGH I + + S V + G V + + D + L Sbjct: 109 PVVVVDPRAGHGPGIGGF-KFDSEVGMAMKAG-HTVYFVTFRPEPEDGQTLVTVMDAEAR 166 Query: 142 YLADLCVVIDELGGRVRLVGLCQGGWISAMIAARFPEKVARLVLAGSPIDAGAGE---GP 198 +L ++ + + ++G CQ GW + A PE L++ G+P AG P Sbjct: 167 FLEEVIRRHPQCSAKPVVIGNCQAGWAMMTLDAVRPELFGPLMMVGAPASYWAGSSTLNP 226 Query: 199 LKQMVQRLPLRFYEDLVRS-GGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQHIDDPAYL 257 ++ L + L G G+++++ ++ ++P ++N++ L +D A Sbjct: 227 MRYSGANLGGTWLASLAADLGADRFDGAYLVENFEKLNPANTFWNKYYNLWAGVDQEA-- 284 Query: 258 AKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQITCPLYLLAG 317 A+ F W+ + G ++F N LARG+ G+ ++LR+I+ P+ + A Sbjct: 285 ARFLEFERWWGGFFRMTGAEIEAITENLFVGNKLARGELQVRGKPVNLREISAPIVVFAS 344 Query: 318 ERDDITTPEQVLN----------AAALVGTPAAQITQKIVPGGHIGLFMG 357 D+IT P Q LN A A G + + V GH+G+F+G Sbjct: 345 WGDNITPPPQALNWIIDTWGDERAIAAAGRTIIYVLHESV--GHLGIFVG 392 >gi|300312303|ref|YP_003776395.1| poly(3-hydroxyalkanoate) synthetase [Herbaspirillum seropedicae SmR1] Length = 588 Score = 67.0 bits (162), Expect = 3e-12, Method: Compositional matrix adjust. Identities = 74/285 (25%), Positives = 125/285 (43%), Gaps = 30/285 (10%) Query: 86 VPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVEHVLLIDWHSASADMKDLEIDNYLAD 145 VP LIV P ++ D SLV + G V LI W +A A ++ D Y+ D Sbjct: 231 VPLLIVPPCINKFYIL-DLQPHNSLVRYTVEQG-HTVFLISWRNADAAVETATWDQYVDD 288 Query: 146 LCV----VIDELGG--RVRLVGLCQGGWI----SAMIAARFPEKVARLVLAGSPIDAGAG 195 V ++ E+ ++ +G C GG I A++AAR + VA L L + +D + Sbjct: 289 AVVRSIHIVQEISKQPQINALGFCVGGTILSCALALLAARGEDPVASLTLLTTFLDF-SD 347 Query: 196 EGPLKQMVQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQHIDDPA 255 G + + + L E ++ GLM G + ++ P+ +LL + + Sbjct: 348 TGAIDVYIDEMQLALREQMI-GQRGLMAGRDFASAFSSLRPN--------DLLWNYVESN 398 Query: 256 YLAKRETFA----AWYETTVDLPGRWYLQAIGHIFKDNLLAR-GKYVALGQQLDLRQITC 310 YL + A W + +LPG + + H++ +N L G+ G+++DLR+I Sbjct: 399 YLKGEKPSAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRLTVGGEKIDLRKINA 458 Query: 311 PLYLLAGERDDITTPEQVLNAAALVGTPAAQITQKIVPG--GHIG 353 P ++ A D I + + L+ T A + + V G GHI Sbjct: 459 PAFIYASRDDHIVPWKSAYASLGLINT-AKRSNNRFVLGASGHIA 502 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 0.322 0.138 0.426 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: 1,266,449 Number of extensions: 56578 Number of successful extensions: 189 Number of sequences better than 1.0e-08: 5 Number of HSP's gapped: 184 Number of HSP's successfully gapped: 5 Length of query: 376 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 289 Effective length of database: 1,207,925 Effective search space: 349090325 Effective search space used: 349090325 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: 131 (55.1 bits)