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= 0001.0250.p (383 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... 591 e-170 gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] d... 99 7e-22 gi|300311937|ref|YP_003776029.1| poly(3-hydroxyalkanoate) synthe... 77 2e-15 gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depo... 77 2e-15 >gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthetase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 591 bits (1523), Expect = e-170, Method: Compositional matrix adjust. Identities = 294/361 (81%), Positives = 319/361 (88%), Gaps = 4/361 (1%) Query: 22 GCVPLFWPMMLATQVFRQGQEVVDKHLRFLEEEAKLHAIQHPRMATANHERLKLRTLTLR 81 G VPLFWPM A Q F+QGQ+++DK LRFLEEEAKLHA+ HPRMAT + ERL+LRTLTLR Sbjct: 15 GSVPLFWPMAFAAQAFKQGQDMMDKQLRFLEEEAKLHAVHHPRMATPHRERLRLRTLTLR 74 Query: 82 EYGKP----AAVPTLVVAPYAGHSSVIADYYHGQSLVETLMAHGVSHVCLTDWHSASEDM 137 EYG A VPTL+VAPYAGH+SVIADY GQSLVETL+ +GV HV L DWHSAS DM Sbjct: 75 EYGSADAGHATVPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVDHVLLIDWHSASADM 134 Query: 138 KDLEIDNYLADLCVVIQELGGRVNLVGLCQGGWISAMIAARFPPMVQRLVLAGSPIDAGA 197 KDLEIDNYLADLCVVI ELGGRV LVGLCQGGWISAMIAARFP V RLVLAGSPIDAGA Sbjct: 135 KDLEIDNYLADLCVVIDELGGRVRLVGLCQGGWISAMIAARFPEKVARLVLAGSPIDAGA 194 Query: 198 GDGPLKQMVERTPIRFYEDLVRTGGGLMRGSFMLQGWKNMHPDEHYFTEHLDLFQHIDDP 257 G+GPLKQMV+R P+RFYEDLVR+GGGLMRGSFMLQGWKNMHPDEHYF EHL+L QHIDDP Sbjct: 195 GEGPLKQMVQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQHIDDP 254 Query: 258 VYLAKRETFSAWYETTVDLPGRWYLQAIRNIFKDNLLARGKYVALGKQLDLKDIHCPLYL 317 YLAKRETF+AWYETTVDLPGRWYLQAI +IFKDNLLARGKYVALG+QLDL+ I CPLYL Sbjct: 255 AYLAKRETFAAWYETTVDLPGRWYLQAIGHIFKDNLLARGKYVALGQQLDLRQITCPLYL 314 Query: 318 LAGERDDITTAEQVMNAATLMGTPATHITQRVVPGGHIGLFMGSRTLAETWPQIAQWLMA 377 LAGERDDITT EQV+NAA L+GTPA ITQ++VPGGHIGLFMGSRTLAE WPQIA WL+ Sbjct: 315 LAGERDDITTPEQVLNAAALVGTPAAQITQKIVPGGHIGLFMGSRTLAEVWPQIATWLVQ 374 Query: 378 P 378 P Sbjct: 375 P 375 >gi|300310951|ref|YP_003775043.1| poly[D(-)-3-hydroxyalkanoate] depolymerase [Herbaspirillum seropedicae SmR1] Length = 411 Score = 98.6 bits (244), Expect = 7e-22, Method: Compositional matrix adjust. Identities = 86/310 (27%), Positives = 137/310 (44%), Gaps = 32/310 (10%) Query: 91 TLVVAPYAGHSSVIADYYHGQSLVETLMAHGVSH-VCLTDWHSASE---DMKDLEIDNYL 146 LVVAP +GH S + L ET+ A H V +TDW A + + +Y+ Sbjct: 109 VLVVAPLSGHHSTL--------LRETVRALLQEHDVYITDWTDARMVPVEQGAFHLHDYV 160 Query: 147 ADLCVVIQELGGRVNLVGLCQG-----GWISAMIAARFPPMVQRLVLAGSPIDAGAGDGP 201 + I+ LG V+++ +CQ IS M +A P + + + + G PIDA Sbjct: 161 YYVQDFIRTLGPDVHVISVCQPTVPVLAAISLMASANDPMLPKSMTMMGGPIDARKSPTA 220 Query: 202 LKQMVERTPIRFYEDLV---------RTGGGLMRGSFMLQGWKNMHPDEHYFTEHLDLFQ 252 + + P ++E+ V G + G G+ M+P H H D + Sbjct: 221 VNDLATEKPYSWFENTVIYSVPANYPGFGRKVYPGFLQHAGFVAMNPRRHA-QSHWDFYM 279 Query: 253 HIDDPVYLAKRE--TFSAWYETTVDLPGRWYLQAIRNIFKDNLLARGKYVALGKQLDLKD 310 H+ D + E F Y +D+P +YL+ I+ +F+D LARG + G+ + +D Sbjct: 280 HLRDGDDASAEEHRKFYDEYNAVLDMPAEFYLETIKVVFQDFNLARGTWEIEGQLVRPQD 339 Query: 311 IH-CPLYLLAGERDDITTAEQVMNAATLMGT-PATHITQRVVP-GGHIGLFMGSRTLAET 367 I L+ + GE DDI+ + Q A L + P VP GH G+F G R Sbjct: 340 IKSVALFTIEGELDDISGSGQTQAAQELCSSIPKARKQHFTVPKAGHYGIFSGRRWREIV 399 Query: 368 WPQIAQWLMA 377 P+I +++ A Sbjct: 400 CPKIGEFIRA 409 >gi|300311937|ref|YP_003776029.1| poly(3-hydroxyalkanoate) synthetase [Herbaspirillum seropedicae SmR1] Length = 832 Score = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 71/302 (23%), Positives = 124/302 (41%), Gaps = 39/302 (12%) Query: 85 KPAAVPTLVVAPYAGHSSVIADYYHGQSLVETLMAHGVSH-VCLTDWHSASEDMKDLEI- 142 P A P +VV P AGH I + E MA H V + ED + L Sbjct: 104 NPQARPVVVVDPRAGHGPGIGGFKFDS---EVGMAMKAGHTVYFVTFRPEPEDGQTLVTV 160 Query: 143 ----DNYLADLCVVIQELGGRVNLVGLCQGGWISAMIAARFPPMVQRLVLAGSPIDAGAG 198 +L ++ + + ++G CQ GW + A P + L++ G+P AG Sbjct: 161 MDAEARFLEEVIRRHPQCSAKPVVIGNCQAGWAMMTLDAVRPELFGPLMMVGAPASYWAG 220 Query: 199 DGPLKQMVERTPIRFY-EDLVRT---------GGGLMRGSFMLQGWKNMHPDEHYFTEHL 248 L P+R+ +L T G G+++++ ++ ++P ++ ++ Sbjct: 221 SSTL------NPMRYSGANLGGTWLASLAADLGADRFDGAYLVENFEKLNPANTFWNKYY 274 Query: 249 DLFQHIDDPVYLAKRETFSAWYETTVDLPGRWYLQAIRNIFKDNLLARGKYVALGKQLDL 308 +L+ +D A+ F W+ + G N+F N LARG+ GK ++L Sbjct: 275 NLWAGVDQEA--ARFLEFERWWGGFFRMTGAEIEAITENLFVGNKLARGELQVRGKPVNL 332 Query: 309 KDIHCPLYLLAGERDDITTAEQVMN----------AATLMGTPATHITQRVVPGGHIGLF 358 ++I P+ + A D+IT Q +N A G ++ V GH+G+F Sbjct: 333 REISAPIVVFASWGDNITPPPQALNWIIDTWGDERAIAAAGRTIIYVLHESV--GHLGIF 390 Query: 359 MG 360 +G Sbjct: 391 VG 392 >gi|300309974|ref|YP_003774066.1| poly-beta-hydroxyalkanoate depolymerase [Herbaspirillum seropedicae SmR1] Length = 408 Score = 77.0 bits (188), Expect = 2e-15, Method: Compositional matrix adjust. Identities = 75/307 (24%), Positives = 133/307 (43%), Gaps = 32/307 (10%) Query: 92 LVVAPYAGHSSVIADYYHGQSLVETLMAHGVSHVCLTDWHSASEDMK---DLEIDNYLAD 148 LVVAP +GH + + + V TL+ V +TDW +A + +D Y++ Sbjct: 106 LVVAPMSGHFATLL-----RGTVRTLLRD--HDVYITDWRNARDVATAHGRFGLDEYVSH 158 Query: 149 LCVVIQELGGRVNLVGLCQGGWISAMIAARF-----PPMVQRLVLAGSPIDAGAGDGPLK 203 + + LG +L+ +CQ + AA P + + L PID + Sbjct: 159 IIDFLGVLGPGAHLLAVCQPTVAALTAAAVMAADGHPAQPRSMTLMAGPIDTRVNPTAVN 218 Query: 204 QMVERTPIRFYE-DLVRT--------GGGLMRGSFMLQGWKNMHPDEHYFTEHLDLFQHI 254 + + PI ++E +++ T G + G L + NM+ H L+ H+ Sbjct: 219 ALAKSKPIAWFEKNMISTVPARHAGAGRRVYPGFVQLAAFMNMNLSRH-VEAFGKLYHHL 277 Query: 255 DDPVYLAKRETFSAWYE---TTVDLPGRWYLQAIRNIFKDNLLARGKYVALGKQLDLKDI 311 D + A+ + +YE DLP +YL+ +R +F+++ L GK G+ ++ + I Sbjct: 278 VDGEH-ARADQIKDFYEEYFAMADLPAEFYLETVRTVFQEHALPLGKLSYAGRPVEPRAI 336 Query: 312 -HCPLYLLAGERDDITTAEQVMNAATLMG--TPATHITQRVVPGGHIGLFMGSRTLAETW 368 L+ + GE+DDI Q + A L P + GH G+F G R E + Sbjct: 337 RRTALFTIEGEKDDICAVGQTLAAQELCSGIRPYMRLHHVQTAVGHYGVFNGRRWDNEIY 396 Query: 369 PQIAQWL 375 P++ ++ Sbjct: 397 PRLRDFI 403 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 0.136 0.427 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: 1,276,138 Number of extensions: 55109 Number of successful extensions: 176 Number of sequences better than 1.0e-08: 4 Number of HSP's gapped: 169 Number of HSP's successfully gapped: 4 Length of query: 383 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 296 Effective length of database: 1,207,925 Effective search space: 357545800 Effective search space used: 357545800 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)