2024-05-01 REL PDBe PDBe PDBe 2020-12-18 2021-05-19 2021-05-19 2024-05-01 Wellcome Trust 102174/B/13/Z United Kingdom World Health Organization (WHO) 2019/883397-O United Kingdom Saudi Ministry of Education Saudi Arabia Fatty acid synthase (FAS) from Pichia pastoris, including ACP domain resolved by focussed classification Snowden JS Alzahrani J Multienzyme, Complex, Fatty acid, Synthase, BIOSYNTHETIC PROTEIN Snowden JS Alzahrani J Sherry L Stacey M Rowlands DJ Ranson NA Stonehouse NJ Structural insight into Pichia pastoris fatty acid synthase. Sci Rep UK 11 9773 9773 2021 33963233 doi:10.1038/s41598-021-89196-2 2045-2322 7bc5 FULLOVERLAP Fatty acid synthase Fatty acid synthase 0 1 Komagataella phaffii GS115 2.6 Fatty acid synthase subunit alpha Komagataella phaffii (strain GS115 / ATCC 20864) GS115 / ATCC 20864 0.20637573399999998 1 LEVO MRPEVEQELSHVLLTELLAYQFASPVRWIETQDVFLKDYNTERVVEIGPSPTLAGMASRTIKAKYESYDAALSLQRQVLC YAKDTKEIYYTPDPADIAPPIKEEAETSAAATSSSAPAAAAPVSAAPAAAPSGPVAEIPDEPVKAALVLHVLVAHKLKKS LDAVPLSKAIKDLVGGKSTVQNEILGDLGKEFGSTPEKPEDTPLQELAEQFQDTFPGSLGKQTGSLVNRLMSSKMPGGFS LSVARKYLQTRWGLGPGRQDSVLLVALVNEPGARLSSDGEAKEFLDSCAQKYASGAGITLAQAAAGGAGSSGAGGAVIDA EAFEELTKDNRVLARQQLEVLARYLKYDLTKGEKSLVKEKEASSLLQQELDLWAEEHGEIYAQGIKPVFSHLKARTYDSY WNWARQDALSMYFDIIFGKLTDVDRETVSQCIQLMNRSNPTLIKFMQYHIDHCPEYKGETYQLAKSLGQQLIDNCIQVAN QDPVYKDISYPTGPHTEVDSKGNIVYKEVNRKSVRKLEQYVFEMSQGGELTKEVQPTIQEDLAKIYEALNKQASTESQLE FNKLYNSLIEFVEKSKEIEVSKSINAVLASKSSDSDRSAEISSLSEKTSIVDPVSGGIPPETVPFLHLKKKLPSGEWVFD RDTSALFLDGLQKGAVNGISYKGKNVLITGAGAGSIGAEVLQGLISGGAKVIVTTSRFSKKVTEYYQDIYARFGAAGSCL IVVPFNQGSKQDVEALIDYIYRDVKDEGLGWDLDAVIPFAAIPEAGIEIDELGSKSELAHRIMLTNLLRLLGEVKKQKFT RAINTRPAQIILPLSPNHGTFGSDGLYSESKLGLETLFNRWYSESWSEQLTVCGAIIGWTRGTGLMSGNNIIAEGLEKLG VRTFSQKEMAFNILGLMTPELTEMCQNGPVVADLNGGLQFIENLREYTAQLRNEIYETSEVRRAVSIETGIETRVVNGEN ADAPYQKARIEPRANLKFEFPPLKSHKEIQNKAPGLEGLLDLERVIVVTGFGEVSPWGNTRTRWEMEAFGEFSIEGCLEM AWIMGFIKYHNGNLKGKPYTGWIDAKTNEPVEDKDIKKKYEEEILAHAGIRLIEPELFRGYNPEKKELIQEVIIEQDMAP FVTDESTAQQYKLQHEDAVDILKSEESDEYTVTFKKGARLFVPKALRFDRLVAGQIPTGWDAKRYGISEDTISQVDPVTL YALVSTIEALLSAGITDPYEFYKYVHVSEVGNCSGSGMGGVSALRGMFRDRYSDKPVQNDILQESFINTMSAWVNMLLLS SSGPIKTPVGACATAVESVDIGVETILSGKAKICLVGGYDDFQEEGSYEFANMNATSNSLDEFDHGRTPQEMSRPATTTR NGFMEAQGSGTQVIMNAELAIKMGVPIYAIVALTATATDKIGRSVPAPGKGILTTAREHHGSLKTKSPKLDIKYRTRQLN KRKDQIKQWVEDELEYIREEAAELANSDAKFDAVSFVSERTEEVYREATKQVKMAQQEWGNEFWKNDPRIAPLRGALATF NLTVDDLGVASFHGTSTKANDKNESITINKMMQHLGRSEGNPVFGVFQKYLTGHPKGAAGAWMLNGAIQILQTGIVPGNR NADNVDKILEDFEYVLYPSRSIQTDGIKACSVTSFGFGQKGGQAIVVHPDYLFASLDSETFEEYKTKVEARYKSTYRYMH NAIIRNTMFVAKSDPPYTDELEQPVYLDPLARVNNCKKNPSKLVFVNADVQSKQNFVGKSANDTAKVISSLTSDVTSGGK GVGVDVELISAINNENHTFIERNFTENEISYCASAPSSKSSLAGTWSAKEAVFKALGVESKGAGASLKDIEIVRDSKGAP TVVLHGDAKSAASAAGVKNVKVSISHDDVQSVAVAISEF C4QY10 2.3.1.86 singleParticle particle 7.4
PBS
 ETHANE 80 281 LEICA EM GP FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.8 3.0 FEI FALCON III (4k x 4k) INTEGRATING 60.1 1 Initial model generated using SGD in RELION 3.0.7. C1 3.1 FSC 0.143 CUT-OFF RELION 3.0.7
Asymmetric reconstruction without alignment was performed on each of two subsets (randomly assigned) from an ACP domain density-containing class after focussed 3D classification. This led to the generation of two half-maps, which were used to generate a sharpened map from all the data. Note that the number of particles given above includes particles contributing to multiple symmetrically redundant orientations, as particles were generated through focussed 3D classification.
117012 MAXIMUM LIKELIHOOD RELION 3.0.7 MAXIMUM LIKELIHOOD RELION 3.0.7 10 RELION 3.0.7
After D3 symmetrical reconstruction in RELION, focussed 3D classification was performed on the resultant set of particles and orientations after symmetry expansion (i.e., each particle was classified in each symmetrically redundant orientation) with a mask around the ACP domain-containing region of the complex. Classification was performed in RELION 3.0.7, without alignment, and a regularisation parameter ('T' number) of 40. A class containing high-resolution density corresponding to the ACP domain was selected and particles in this class were used for a final reconstruction without alignment.
 emd_12139.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 460 460 460 0 0 0 460 460 460 489.90002 489.90002 489.90002 90.0 90.0 90.0 X Y Z -0.11260153 0.21179315 -0.000025127461 0.009525308 1.065 1.065 1.065 0.021 AUTHOR Sharpened map. Derived from focussed classification of ACP domain containing region. emd_12139_msk_1.map emd_12139_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 460 460 460 0 0 0 460 460 460 489.90002 489.90002 489.90002 90.0 90.0 90.0 X Y Z 0.0 1.0 0.001244048 0.034434535 1.065 1.065 1.065 AUTHOR Focussed mask used for focussed 3D classification of ACP domain density. The mask only covers the region of the map containing ACP density. This mask was not used for sharpening. emd_12139_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 460 460 460 0 0 0 460 460 460 489.90002 489.90002 489.90002 90.0 90.0 90.0 X Y Z -0.11260153 0.21179315 0.000616017 0.0066563063 1.065 1.065 1.065 AUTHOR Sharpened map with solvent mask applied. emd_12139_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 460 460 460 0 0 0 460 460 460 489.90002 489.90002 489.90002 90.0 90.0 90.0 X Y Z -0.04647458 0.09133703 -0.000024209672 0.005589129 1.065 1.065 1.065 AUTHOR Half map 1. emd_12139_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 460 460 460 0 0 0 460 460 460 489.90002 489.90002 489.90002 90.0 90.0 90.0 X Y Z -0.0413405 0.09201537 -0.000026045249 0.005588991 1.065 1.065 1.065 AUTHOR Half map 2.