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= 0018.0015.p (351 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... 576 e-165 gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] d... 97 1e-21 gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depo... 81 2e-16 gi|300311937|ref|YP_003776029.1| poly(3-hydroxyalkanoate) synthe... 80 3e-16 gi|300312303|ref|YP_003776395.1| poly(3-hydroxyalkanoate) synthe... 59 5e-10 >gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthetase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 576 bits (1484), Expect = e-165, Method: Compositional matrix adjust. Identities = 285/350 (81%), Positives = 312/350 (89%), Gaps = 1/350 (0%) Query: 1 MMLATEVFRQGQEVVDKHLRFLEEETKLHSLHHPQMATANQVRLTLRTLSLREYGKPAAA 60 M A + F+QGQ+++DK LRFLEEE KLH++HHP+MAT ++ RL LRTL+LREYG A Sbjct: 23 MAFAAQAFKQGQDMMDKQLRFLEEEAKLHAVHHPRMATPHRERLRLRTLTLREYGSADAG 82 Query: 61 HA-VPTLVVAPYAGHTSVIADYYRGQSLVETLMEHGVPHVFLTDWHSASEDMKDLEIDNY 119 HA VPTL+VAPYAGHTSVIADY +GQSLVETL+ +GV HV L DWHSAS DMKDLEIDNY Sbjct: 83 HATVPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVDHVLLIDWHSASADMKDLEIDNY 142 Query: 120 LADLCVVIDELGGRANLVGLCQGGWISAMIAARFPHKVQRLVLAGSPIDAGAGEGPLKQM 179 LADLCVVIDELGGR LVGLCQGGWISAMIAARFP KV RLVLAGSPIDAGAGEGPLKQM Sbjct: 143 LADLCVVIDELGGRVRLVGLCQGGWISAMIAARFPEKVARLVLAGSPIDAGAGEGPLKQM 202 Query: 180 VERTPIRFYEDLVRTGGGLMRGSFMLQGWKNMHPDEHYFSEHVDLFQHIDDPVYLAKREI 239 V+R P+RFYEDLVR+GGGLMRGSFMLQGWKNMHPDEHYF+EH++L QHIDDP YLAKRE Sbjct: 203 VQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQHIDDPAYLAKRET 262 Query: 240 FAAWYETPIDLPGRWYLQAIRQIFKDNLLARGQYVALGKMLDLRDVTCPLYLLAGERDDI 299 FAAWYET +DLPGRWYLQAI IFKDNLLARG+YVALG+ LDLR +TCPLYLLAGERDDI Sbjct: 263 FAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQITCPLYLLAGERDDI 322 Query: 300 TTPEQVLNAAQLVGTPAAHITQRVVPGGHIGLFMGGRTLAEAWPQIAQWL 349 TTPEQVLNAA LVGTPAA ITQ++VPGGHIGLFMG RTLAE WPQIA WL Sbjct: 323 TTPEQVLNAAALVGTPAAQITQKIVPGGHIGLFMGSRTLAEVWPQIATWL 372 >gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] depolymerase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 97.4 bits (241), Expect = 1e-21, Method: Compositional matrix adjust. Identities = 91/328 (27%), Positives = 148/328 (45%), Gaps = 35/328 (10%) Query: 47 RTLSLREYGKPAAAHAVPT-LVVAPYAGHTSVIADYYRGQSLVETLMEHGVPHVFLTDWH 105 + LS R+ A A PT LVVAP +GH S + +++ L EH V ++TDW Sbjct: 94 KDLSARQ----ATALKQPTVLVVAPLSGHHSTLLR----ETVRALLQEHDV---YITDWT 142 Query: 106 SASE---DMKDLEIDNYLADLCVVIDELGGRANLVGLCQG-----GWISAMIAARFPHKV 157 A + + +Y+ + I LG +++ +CQ IS M +A P Sbjct: 143 DARMVPVEQGAFHLHDYVYYVQDFIRTLGPDVHVISVCQPTVPVLAAISLMASANDPMLP 202 Query: 158 QRLVLAGSPIDAGAGEGPLKQMVERTPIRFYEDLV---------RTGGGLMRGSFMLQGW 208 + + + G PIDA + + P ++E+ V G + G G+ Sbjct: 203 KSMTMMGGPIDARKSPTAVNDLATEKPYSWFENTVIYSVPANYPGFGRKVYPGFLQHAGF 262 Query: 209 KNMHPDEHYFSEHVDLFQHIDDPVYLAKRE--IFAAWYETPIDLPGRWYLQAIRQIFKDN 266 M+P H S H D + H+ D + E F Y +D+P +YL+ I+ +F+D Sbjct: 263 VAMNPRRHAQS-HWDFYMHLRDGDDASAEEHRKFYDEYNAVLDMPAEFYLETIKVVFQDF 321 Query: 267 LLARGQYVALGKMLDLRDV-TCPLYLLAGERDDITTPEQVLNAAQLVGT-PAAHITQRVV 324 LARG + G+++ +D+ + L+ + GE DDI+ Q A +L + P A V Sbjct: 322 NLARGTWEIEGQLVRPQDIKSVALFTIEGELDDISGSGQTQAAQELCSSIPKARKQHFTV 381 Query: 325 P-GGHIGLFMGGRTLAEAWPQIAQWLAA 351 P GH G+F G R P+I +++ A Sbjct: 382 PKAGHYGIFSGRRWREIVCPKIGEFIRA 409 >gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depolymerase [Herbaspirillum seropedicae SmR1] Length = 408 Score = 80.9 bits (198), Expect = 2e-16, Method: Compositional matrix adjust. Identities = 85/326 (26%), Positives = 145/326 (44%), Gaps = 40/326 (12%) Query: 51 LREYGKPAAAHAVPTLVVAPYAGHTSVIADYYRGQSLVETLM-EHGVPHVFLTDWHSASE 109 L + K +A LVVAP +GH A RG V TL+ +H V ++TDW +A + Sbjct: 91 LLHFRKDSATVQPKVLVVAPMSGH---FATLLRGT--VRTLLRDHDV---YITDWRNARD 142 Query: 110 DMK---DLEIDNYLADLCVVIDELGGRANLVGLCQGGWISAMIAARF-----PHKVQRLV 161 +D Y++ + + LG A+L+ +CQ + AA P + + + Sbjct: 143 VATAHGRFGLDEYVSHIIDFLGVLGPGAHLLAVCQPTVAALTAAAVMAADGHPAQPRSMT 202 Query: 162 LAGSPIDAGAGEGPLKQMVERTPIRFYE-DLVRT--------GGGLMRGSFMLQGWKNMH 212 L PID + + + PI ++E +++ T G + G L + NM+ Sbjct: 203 LMAGPIDTRVNPTAVNALAKSKPIAWFEKNMISTVPARHAGAGRRVYPGFVQLAAFMNMN 262 Query: 213 PDEHYFSEHVD----LFQHIDDPVYLAKREI--FAAWYETPIDLPGRWYLQAIRQIFKDN 266 S HV+ L+ H+ D + +I F Y DLP +YL+ +R +F+++ Sbjct: 263 -----LSRHVEAFGKLYHHLVDGEHARADQIKDFYEEYFAMADLPAEFYLETVRTVFQEH 317 Query: 267 LLARGQYVALGKMLDLRDV-TCPLYLLAGERDDITTPEQVLNAAQLVG--TPAAHITQRV 323 L G+ G+ ++ R + L+ + GE+DDI Q L A +L P + Sbjct: 318 ALPLGKLSYAGRPVEPRAIRRTALFTIEGEKDDICAVGQTLAAQELCSGIRPYMRLHHVQ 377 Query: 324 VPGGHIGLFMGGRTLAEAWPQIAQWL 349 GH G+F G R E +P++ ++ Sbjct: 378 TAVGHYGVFNGRRWDNEIYPRLRDFI 403 >gi|300311937|ref|YP_003776029.1| poly(3-hydroxyalkanoate) synthetase [Herbaspirillum seropedicae SmR1] Length = 832 Score = 80.1 bits (196), Expect = 3e-16, Method: Compositional matrix adjust. Identities = 75/306 (24%), Positives = 131/306 (42%), Gaps = 37/306 (12%) Query: 55 GKPAAAHAVPTLVVAPYAGHTSVIADYYRGQSLVETLMEHGVPHVFLTDWHSASEDMKDL 114 G P A P +VV P AGH I + + S V M+ G F+T + ED + L Sbjct: 100 GLPVNPQARPVVVVDPRAGHGPGIGGF-KFDSEVGMAMKAGHTVYFVT-FRPEPEDGQTL 157 Query: 115 EI-----DNYLADLCVVIDELGGRANLVGLCQGGWISAMIAARFPHKVQRLVLAGSPIDA 169 +L ++ + + ++G CQ GW + A P L++ G+P Sbjct: 158 VTVMDAEARFLEEVIRRHPQCSAKPVVIGNCQAGWAMMTLDAVRPELFGPLMMVGAPASY 217 Query: 170 GAGEGPLKQMVERTPIRFY-EDLVRT---------GGGLMRGSFMLQGWKNMHPDEHYFS 219 AG L P+R+ +L T G G+++++ ++ ++P +++ Sbjct: 218 WAGSSTL------NPMRYSGANLGGTWLASLAADLGADRFDGAYLVENFEKLNPANTFWN 271 Query: 220 EHVDLFQHIDDPVYLAKREIFAAWYETPIDLPGRWYLQAIRQIFKDNLLARGQYVALGKM 279 ++ +L+ +D A+ F W+ + G +F N LARG+ GK Sbjct: 272 KYYNLWAGVDQEA--ARFLEFERWWGGFFRMTGAEIEAITENLFVGNKLARGELQVRGKP 329 Query: 280 LDLRDVTCPLYLLAGERDDITTPEQVLN----------AAQLVGTPAAHITQRVVPGGHI 329 ++LR+++ P+ + A D+IT P Q LN A G ++ V GH+ Sbjct: 330 VNLREISAPIVVFASWGDNITPPPQALNWIIDTWGDERAIAAAGRTIIYVLHESV--GHL 387 Query: 330 GLFMGG 335 G+F+GG Sbjct: 388 GIFVGG 393 >gi|300312303|ref|YP_003776395.1| poly(3-hydroxyalkanoate) synthetase [Herbaspirillum seropedicae SmR1] Length = 588 Score = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust. Identities = 73/287 (25%), Positives = 119/287 (41%), Gaps = 30/287 (10%) Query: 61 HAVPTLVVAPYAGHTSVIADYYRGQSLVETLMEHGVPHVFLTDWHSASEDMKDLEIDNYL 120 H VP L+V P ++ D SLV +E G VFL W +A ++ D Y+ Sbjct: 229 HEVPLLIVPPCINKFYIL-DLQPHNSLVRYTVEQG-HTVFLISWRNADAAVETATWDQYV 286 Query: 121 ADLCV----VIDELGGRA--NLVGLCQGGWI----SAMIAARFPHKVQRLVLAGSPIDAG 170 D V ++ E+ + N +G C GG I A++AAR V L L + +D Sbjct: 287 DDAVVRSIHIVQEISKQPQINALGFCVGGTILSCALALLAARGEDPVASLTLLTTFLDF- 345 Query: 171 AGEGPLKQMVERTPIRFYEDLVRTGGGLMRGSFMLQGWKNMHPDEHYFSEHVDLFQHIDD 230 + G + ++ + E ++ GLM G + ++ P+ DL + + Sbjct: 346 SDTGAIDVYIDEMQLALREQMIGQ-RGLMAGRDFASAFSSLRPN--------DLLWNYVE 396 Query: 231 PVYLAKREIFA----AWYETPIDLPGRWYLQAIRQIFKDNLLAR-GQYVALGKMLDLRDV 285 YL + A W +LPG + +R ++ +N L G+ G+ +DLR + Sbjct: 397 SNYLKGEKPSAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRLTVGGEKIDLRKI 456 Query: 286 TCPLYLLAGERDDITTPEQVLNAAQLVGTPAAHITQRVVPG--GHIG 330 P ++ A D I + + L+ T A R V G GHI Sbjct: 457 NAPAFIYASRDDHIVPWKSAYASLGLINT-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 0.323 0.138 0.429 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: 1,223,670 Number of extensions: 55177 Number of successful extensions: 189 Number of sequences better than 1.0e-08: 6 Number of HSP's gapped: 179 Number of HSP's successfully gapped: 6 Length of query: 351 Length of database: 1,619,870 Length adjustment: 86 Effective length of query: 265 Effective length of database: 1,212,660 Effective search space: 321354900 Effective search space used: 321354900 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)