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= 0001.2970.p (596 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312303|ref|YP_003776395.1| poly(3-hydroxyalkanoate) synthe... 1098 0.0 gi|300311720|ref|YP_003775812.1| poly-beta-hydroxyalkanoate synt... 322 6e-89 gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthet... 73 5e-14 >gi|300312303|ref|YP_003776395.1| poly(3-hydroxyalkanoate) synthetase [Herbaspirillum seropedicae SmR1] Length = 588 Score = 1098 bits (2839), Expect = 0.0, Method: Compositional matrix adjust. Identities = 538/600 (89%), Positives = 556/600 (92%), Gaps = 19/600 (3%) Query: 1 MSDPKFWTSLQSQFQSQFDQIKSHLPPMPNLAGMGQMPGAQGFPG----GLPPGGGQIDP 56 MSDPKFWT+LQSQFQSQF K P AQ FPG G PP G Q+DP Sbjct: 1 MSDPKFWTALQSQFQSQFAPFK---------------PPAQAFPGFAAMGAPPAGSQVDP 45 Query: 57 ALLVKQLGEMGATLEPADLVRLQQDYTREFGELWQSMLAAKTPAITDRRLSAPAWQEHPY 116 +KQL + GAT++PA+LVRLQQDYT++FG LWQSMLAAKTPAITDRRLSAPAWQEHPY Sbjct: 46 TAFLKQLADNGATIDPAELVRLQQDYTQQFGALWQSMLAAKTPAITDRRLSAPAWQEHPY 105 Query: 117 FAFQAAAYQLNSRFLLALADAVKGTEKVRHKLRFAVQQMIDAMSPANFLATNPVAQQKIL 176 FAFQAAAYQLNSRFLLALADAV+G+EKVRHKLRFAVQQMIDAMSPANFLATNPVAQQKIL Sbjct: 106 FAFQAAAYQLNSRFLLALADAVQGSEKVRHKLRFAVQQMIDAMSPANFLATNPVAQQKIL 165 Query: 177 ETRGESLTQGIAQLLADVQKGHISQTDETAFEVGRDVGASEGSVIFETELFQLIQYKPLT 236 ETRGESLT+GIAQLLAD+QKGH+SQTDETAFEVGRDVGASEGSVIFE ELFQLIQYKPLT Sbjct: 166 ETRGESLTKGIAQLLADLQKGHVSQTDETAFEVGRDVGASEGSVIFENELFQLIQYKPLT 225 Query: 237 KTVHAVPLLIVPPCINKFYILDLQPHNSLVRYTVEQGHTVFLISWRNADAAVETATWDNY 296 KTVH VPLLIVPPCINKFYILDLQPHNSLVRYTVEQGHTVFLISWRNADAAVETATWD Y Sbjct: 226 KTVHEVPLLIVPPCINKFYILDLQPHNSLVRYTVEQGHTVFLISWRNADAAVETATWDQY 285 Query: 297 VDDAVVRCIHIVQEISKQPQINALGFCVGGTILSCALALLAARGEDPVASLTLLTTFLDF 356 VDDAVVR IHIVQEISKQPQINALGFCVGGTILSCALALLAARGEDPVASLTLLTTFLDF Sbjct: 286 VDDAVVRSIHIVQEISKQPQINALGFCVGGTILSCALALLAARGEDPVASLTLLTTFLDF 345 Query: 357 SDTGAIDVYIDEMQLALREQMIGQRGLMAGRDFASAFSSLRPNDLLWNYVESNYLKGEKP 416 SDTGAIDVYIDEMQLALREQMIGQRGLMAGRDFASAFSSLRPNDLLWNYVESNYLKGEKP Sbjct: 346 SDTGAIDVYIDEMQLALREQMIGQRGLMAGRDFASAFSSLRPNDLLWNYVESNYLKGEKP 405 Query: 417 SAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRLSVGGEKIDLRKISAPAFIYAS 476 SAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRL+VGGEKIDLRKI+APAFIYAS Sbjct: 406 SAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRLTVGGEKIDLRKINAPAFIYAS 465 Query: 477 RDDHIVPWKSAYASLGLINTGKRSNNRFVLGASGHIAGVINPASKNKRNYWLNDKAKVGS 536 RDDHIVPWKSAYASLGLINT KRSNNRFVLGASGHIAGVINPASKNKRNYW+NDKAK GS Sbjct: 466 RDDHIVPWKSAYASLGLINTAKRSNNRFVLGASGHIAGVINPASKNKRNYWINDKAKAGS 525 Query: 537 DADTWLAGATEHPGSWWGEWAAFLAKHGGRKVAAPKTAGSTRYKHIEAAPGRYVKVKVDQ 596 AD WLAGATEHPGSWWG+WAAFLAKHGGRKVAAPK AGSTRYKHIE APGRYVKVK DQ Sbjct: 526 GADAWLAGATEHPGSWWGQWAAFLAKHGGRKVAAPKAAGSTRYKHIEPAPGRYVKVKADQ 585 >gi|300311720|ref|YP_003775812.1| poly-beta-hydroxyalkanoate synthase [Herbaspirillum seropedicae SmR1] Length = 590 Score = 322 bits (825), Expect = 6e-89, Method: Compositional matrix adjust. Identities = 182/495 (36%), Positives = 271/495 (54%), Gaps = 12/495 (2%) Query: 101 ITDRRLSAPAWQEHPYFAFQAAAYQLNSRFLLALADAVKGTEKVRHKL-RFAVQQMIDAM 159 + DRR S P WQ P F ++ L ++ A V G EK L FA +Q +D Sbjct: 100 VADRRFSNPDWQRWP-FNLWHQSFLLAEQWWAAATRDVWGVEKHHADLVAFAARQCLDVF 158 Query: 160 SPANFLATNPVAQQKILETRGESLTQGIAQLLADVQKGHISQTDETA--FEVGRDVGASE 217 SP+N L TNP + +E RG +L G+ + D+ + + TA F GRDV S Sbjct: 159 SPSNQLLTNPEVLRITMEQRGANLLMGMQNCMNDMIGLLLEKPASTARTFMPGRDVAVSP 218 Query: 218 GSVIFETELFQLIQYKPLTKTVHAVPLLIVPPCINKFYILDLQPHNSLVRYTVEQGHTVF 277 G V+ + +LI+Y P T+TV PLL++P I K+YILDL P NSL+RY VE+GHTVF Sbjct: 219 GKVVLRNRIMELIRYAPATETVCPEPLLLIPAWIMKYYILDLSPANSLIRYLVEKGHTVF 278 Query: 278 LISWRNADAAVETATWDNYVDDAVVRCIHIVQEISKQPQINALGFCVGGTILSCALALLA 337 +SW+N A + D+Y+D + V +++ +G+C+GGT+LS A A +A Sbjct: 279 CVSWKNPAPADRDLSMDDYLDSGFHAALDAVNSACPDRKVHGVGYCLGGTLLSIAAAAMA 338 Query: 338 ARGEDPVASLTLLTTFLDFSDTGAIDVYIDEMQLALREQMIGQRGLMAGRDFASAFSSLR 397 G+ +ASLTLL DF++ G + ++IDE Q++L E + Q G ++ A+AF LR Sbjct: 339 RDGDQRLASLTLLAAQTDFTEPGELGLFIDESQISLLEAQMQQAGTLSQSQMAAAFQMLR 398 Query: 398 PNDLLWNYVESNYLKGEKPSAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRLSV 457 DLLW+ V YL G DL+ WNAD+T +P M YLR ++L++ L E GR V Sbjct: 399 SYDLLWSRVIRQYLMGVPAHNSDLMEWNADATRMPALMHSQYLRRLFLDDDLSE-GRYEV 457 Query: 458 GGEKIDLRKISAPAFIYASRDDHIVPWKSAYASLGLINTGKRSNNRFVLGASGHIAGVIN 517 G+ + L ++ P F+ + DH+ PW+S Y +++ + FVL + GH AG+++ Sbjct: 458 DGKPVLLADVNLPVFLVGTVRDHVAPWRSVYK----LHSLCPAEITFVLASGGHNAGIVS 513 Query: 518 PASKNKRNYWLNDKAKVGS--DADTWLAGATEHPGSWWGEWAAFLAKHGGRKVAAPKTAG 575 P + + ++ +A S AD W+AG + GSWW WA +LA+ G V A G Sbjct: 514 PPGHPRSQFQISTRAAGASYRSADEWMAGTSVTTGSWWPAWADWLAQRSGTPVPAAGM-G 572 Query: 576 STRYKHIEAAPGRYV 590 + + APG Y+ Sbjct: 573 YDKAHSLADAPGNYI 587 >gi|300309607|ref|YP_003773699.1| poly(3-hydroxyalkanoate)synthetase [Herbaspirillum seropedicae SmR1] Length = 376 Score = 73.2 bits (178), Expect = 5e-14, Method: Compositional matrix adjust. Identities = 74/284 (26%), Positives = 126/284 (44%), Gaps = 30/284 (10%) Query: 242 VPLLIVPPCINKFYIL-DLQPHNSLVRYTVEQG-HTVFLISWRNADAAVETATWDNYVDD 299 VP LIV P ++ D SLV + G V LI W +A A ++ DNY+ D Sbjct: 86 VPTLIVAPYAGHTSVIADYDQGQSLVETLLGNGVDHVLLIDWHSASADMKDLEIDNYLAD 145 Query: 300 AVVRCIHIVQEISKQPQINALGFCVGGTILSCALALLAARGEDPVASLTLLTTFLDF-SD 358 V ++ E+ ++ +G C GG I A++AAR + VA L L + +D + Sbjct: 146 LCV----VIDELGG--RVRLVGLCQGGWI----SAMIAARFPEKVARLVLAGSPIDAGAG 195 Query: 359 TGAIDVYIDEMQLALREQMI-GQRGLMAGRDFASAFSSLRPN--------DLLWNYVESN 409 G + + + L E ++ GLM G + ++ P+ +LL + + Sbjct: 196 EGPLKQMVQRLPLRFYEDLVRSGGGLMRGSFMLQGWKNMHPDEHYFNEHLELLQHIDDPA 255 Query: 410 YLKGEKPSAFDLLYWNADSTNLPGPMFCYYLRHMYLENALKEPGRLSVGGEKIDLRKISA 469 YL + A W + +LPG + + H++ +N L G+ G+++DLR+I+ Sbjct: 256 YLAKRETFA----AWYETTVDLPGRWYLQAIGHIFKDNLLAR-GKYVALGQQLDLRQITC 310 Query: 470 PAFIYASRDDHIVPWKSAYASLGLINT-GKRSNNRFVLGASGHI 512 P ++ A D I + + L+ T + + V G GHI Sbjct: 311 PLYLLAGERDDITTPEQVLNAAALVGTPAAQITQKIVPG--GHI 352 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 0.319 0.134 0.410 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: 1,824,155 Number of extensions: 74642 Number of successful extensions: 205 Number of sequences better than 1.0e-08: 3 Number of HSP's gapped: 198 Number of HSP's successfully gapped: 3 Length of query: 596 Length of database: 1,619,870 Length adjustment: 91 Effective length of query: 505 Effective length of database: 1,188,985 Effective search space: 600437425 Effective search space used: 600437425 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 (21.8 bits) S2: 133 (55.8 bits)