Negative stain reconstruction of the yeast exocyst octameric complex.

2024-03-06 REL RCSB RCSB RCSB 2020-01-21 2020-07-29 2020-07-29 2024-03-06 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) 2R01GM068803 United States Negative stain reconstruction of the yeast exocyst octameric complex. Frost A Munson M EXOCYST, COILED-COIL, EXOCYTOSIS Rossi G Lepore D Kenner L Czuchra AB Plooster M Frost A Munson M Brennwald P Exocyst structural changes associated with activation of tethering downstream of Rho/Cdc42 GTPases. J. Cell Biol. US 219 2020 31904797 doi:10.1083/jcb.201904161 1540-8140 2019 JCLBA3 Mei K Li Y Wang S Shao G Wang J Ding Y Luo G Yue P Liu JJ Wang X Dong MQ Wang HW Guo W Cryo-EM structure of the exocyst complex. Nat. Struct. Mol. Biol. US 25 139 146 2018 29335562 doi:10.1038/s41594-017-0016-2 1545-9985 Heider MR Gu M Duffy CM Mirza AM Marcotte LL Walls AC Farrall N Hakhverdyan Z Field MC Rout MP Frost A Munson M Subunit connectivity, assembly determinants and architecture of the yeast exocyst complex. Nat. Struct. Mol. Biol. US 23 59 66 2016 26656853 doi:10.1038/nsmb.3146 1545-9985 EMD-6827 other EM volume

CRYO-EM STRUCTURE OF THE EXOCYST COMPLEX

6vkl FULLOVERLAP NEGATIVE STAIN MAP OF THE YEAST EXOCYST COMPLEX NEGATIVE STAIN MAP OF THE YEAST EXOCYST COMPLEX 0 1 2 3 4 5 6 7 8 Saccharomyces cerevisiae Exocyst complex component SEC3 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.154889547 1 LEVO MRSSKSPFKRKSHSRETSHDENTSFFHKRTISGSSAHHSRNVSQGAVPSSAPPVSGGNYSHKRNVSRASNSSQTSNFLAE QYERDRKAIINCCFSRPDHKTGEPPNNYITHVRIIEDSKFPSSRPPPDSKLENKKKRLLILSAKPNNAKLIQIHKARENS DGSFQIGRTWQLTELVRVEKDLEISEGFILTMSKKYYWETNSAKERTVFIKSLITLYIQTFEGHVPELVNWDLSLFYLDE RSYQRAVITNRPGSVSPIKSPTSNFTTNTTQSVGSVPFSAPTERTRRSETESVNPVSTPASVEYHAGMKSLNKAPYSSNS TLNEVNKRYELEQQQQQEEAELRRLEEQKRLQLQKENEMKRLEEERRIKQEERKRQMELEHQRQLEEEERKRQMELEAKK QMELKRQRQFEEEQRLKKERELLEIQRKQREQETAERLKKEEQEALAKKEEEEKSKRNKVDNESYTQEINGKVDNLLEDL NAVLAEETETTPTMQNGTYVPERSTARAHDQLKKPLNIAKVESLGGSDLNDSISLSDEIAGLNTSNLSGEDQDEKNDLSF EKGDEVRYSNNFEGEAPHVYHEVSIIQEEAPAVSQKLILPEENNESEALIESKEEIKTMENIDDEVLLEILTDINWSIED DADSMIERIDLRLAETEYLFNQNLLSLQKIGPNIRPYEDKVNDECHRIIPTLSLFLMEMSNFSNDIENVESQDNGLQVES ANKKLLWNTLDELLKTVSLDEISLNQLLECPIREKNLPWMENQLNLLLKAFQAIGSDGNEVEYNLREISGLKQRLQFYEK VTKIFLNRIVEEMQKKFSNIRGQDISHDQMIRILTTLLIFSPLILFCKEISQKSYQAIVENWNVSIQPVYMELWTKKISQ LQGIDTNDEKMNELSLSQLLNEWDTFRKERKTNDINPVFKNSFSLLTECLQTMRQECIVYQNFVEVFFHISSKHNFEEYI KHFNDPDAPPILLDTVKVMQSDREAAVIETQLVSRIFQPIVTRLSSYFVELVKAEPTVAPALTFYLENEIKSLESSNHEF LLSAVTRMYTQIKQVWSDNVEEQVLHFERISNATTNGEILPGILDLPVGLKNSEDLFQFAKRSMDIKDTDEGYESIELMN SSFRKLSIAATRSITHKEVNSSINPNLSDTAALNNDYMETISLLVNSNWLTEMLSMLNFNKDGIFDTSLQNVKKVFDVEK ESYASFLLRDTMPKLTAFVYGVSNIIENTNNVNMTNPSRWAAYSRQNLENILLAYTSHEIETLVKRLHTHMVNDFGYHQE NAINNVLCDKLWSCIQGQTVSLYLKLYTVIDKHYRGTNIRFTKNDIISAFEEYKNA P33332 Exocyst complex component SEC5 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.112236875 1 LEVO MDRFQIGDEQLLRFYQLKTINPTHSWAQDSSKLNNEEATSNELGVETSFDILKDFKYGNQISIDKESRAYLNDESLSYIR DPLNGQEMSKELQHLPNDSMRLNYLVNSKQFNVKAFLRDMHKQDSFNDLNNSLDRLDSDIQDQSIHLKQLVGKNFTKYVK IKNKLDQIYKEFDEKTNEKNQCDSPKENQINVESLNKKVDEVIRTTTFKLKPLMDNYQKILNYQATKKFIELNKFYFNLP KSLKRCLTNNDFNEFIIEYSKGLTLRRRFNQSSDASQSLVIKRIWTQIENLLVTYKDLIWNSLINSNFNIDQPQETILSL FSKLLNLENFINNNQRESESGNKNTTSSSNENPILRWMSIKMNGFQNELNELSGHMISKIIHSQRLILQNNTNQDKSQGC VELSYYLKINQLFQIISDTGKDSEGLKSTVEPNKVNTISGTSYLNLNCQPSSQGLTDSPTIIEMWLLILKYINDLWKICD QFIEFWEHIEKFLDGTYQNSIINEKRKENILIGDSNIIESYQKSLILKEEQINEVRLKGEEFITSVSQNLISFFTSSQSS LPSSLKDSTGDITRSNKDSGSPLDYGFIPPNCNGLSCLRYLPKIVEPILKFSTELAQLNITTNGITICRNTLSTIINRCV GAISSTKLRDISNFYQLENWQVYETVTFSSKSQDSSKNLTFEYGVTQFPEIVTSFQEVSIKTTRDLLFAYEKLPIINGIS VVSYPSKQLLTGIEIQQIISMEAVLEAILKNAAKDKDNPRNSHTILTLTNLQYFRECAFPNILQYFDDAFEWNLASKNLE LFSLLSKMESSIFGNYLSDLKINLRDTLEEKFHEINWPMYTSNSFRVGDYIIEALMILIVVHSECFRIGPQLIHKILIET QIFIARYLFEAFKPYVGNLSNDGSLQIIVDLEFFQKVMGPLLEKDTEATLRACLQNCFQNDTNRLQKCINEINPIVSANL KRTAIQFAAFS P89102 Exocyst complex component SEC6 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.09353970299999999 1 LEVO MSSDPLQQVCDLIKGDLSLERVRDIKEQLLKEKSVVEYQLNKESDKYYGEVEESLKLLNLSKNSVTSIKQQINEVNKLGN DNRFAINRYDILFRATKLYETVNTTSSIYDRIYNFVALMEHIERLLVAELAEDALETGCPHLLEIHFLLTSARDFQEQVV VMAKEATEDAQRTVMKLFSRLSGIISKFDKLLDGLTYDIVEMARAEQISLAIRLFKIYDLEEREDLRIEAIRNIIKKKEI EIEKSSIKKLPNSKNTARLQDETPKVIEYPTNKGLYQEIMSGTISTRTAPRGYKHFLINGINNSISEMFGEMREKYVGDQ KFDVLDNMDWIFNELIIVKEHIANCCPPHWNIFEVYFDQYYKELHSLITDLVESEPETIIILDILAFDKTFQDTLKQDFG FTKSEVKSVIGDKEKETLFKDYLNLIVVKMTEWIGNLEKAEFDVFLERSTPPHSDSDGLLFLDGTKTCFQMFTQQVEVAA GTNQAKILVGVVERFSDLLTKRQKNWISKISEEIKKQINYNHKYDIDPESITPEDECPGGLVEYLIAVSNDQMKAADYAV AISSKYGKLVSKVYEKQITNHLEGTLDGFAEVAQCSSLGLITLMFDDLRKPYQEIFSKTWYMGSQAQQIADTLDEYLLDI KPQMNSVLFVNFIDNVIGETIIKFLTALSFEHSFKNKNNKFLEAMKRDFEIFYQLFVKVLDGNESKDTLITQNFTVMEFF MDLSCEPIDSILDIWQKYLEVYWDSRIDLLVGILKCRKDVSSSERKKIVQQATEMLHEYRRNMEANGVDREPTLMRRFVL EFEKQ P32844 Exocyst complex component SEC8 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.12236710899999999 1 LEVO MDYLKPAQKGRRRGLSINSLSETQQSAMNSSLDHLQNDLNRINLQWNRILSDNTNPLELALAFLDDTSVGLGHRYEEFNQ LKSQIGSHLQDVVNEHSQVFNTNVASYGKAVSSIMQAQEQTLNLKNCLKEANEKITTDKGSLQELNDNNLKYTKMIDVLV NIEELLQIPEKIEENIRKENFHQVQILLERGFILMNNKSLKTVEILKPINQQLELQEHLLFNNLIEEIHDIMYSKSNKTN FTRVTNNDIFKIISISHNGFTSLENYLYNIVNIDIMEHSKTINKNLEQFIHDQSLNKGNIMLQENAATQAPLAPSRNQEN EGFNRIGFLLKTINNINKLPVAFNIITERAKEEIHNIIVKSTESIRSKHPSLLKMATSLKNDNHFGLPVQDILSIILREC FWEIFLKLLYAIQCHRAIFEMSNILQPTSSAKPAFKFNKIWGKLLDEIELLLVRYINDPELISSNNGSIKPINGATNNAP TLPKRKNPKIFSLEYNIEDNSSVKDQAFELKALLKDIFPGFSVSSNMDLDSIYVKDESFEQDEPLVPPSVFNMKVILDPF LLFTQSTSTIVPSVLTQNTISSLTFFDDYMNKSFLPKIQMTMDYLFTVEVESNNPYALELSDENHNIFKTALDFQRLFYN LLNVFNTANTFREKISYCILDLLNHFYNYYLGLFNSLIGTSDRHLTRKIITAWLQNGILMDQEQKILNGDETLFHEESIE LFKEIPHFYQAGKGLSKSDLFNNLTLDTILQFSASVLWILNWLPGLKKAINIDEVSQEPMLDADRLRSSWTFSESMDLNY SNPSSSPNSLGNLKILLDDKASKKFDETIDGFKTLKFKLITILRFNIRALCIYDIGSFFQNTKIWNMDVGSIELDQNIAS LISELRRTESKLKQQLPEKEKNSIFIGLDIVNNYALIKGAKSIKVLNHNGIKKMLRNVNVLQHAYRNLSSEPSKINMNVT MNFYSLCGSSEAELFEYIKDNELPHCSVEDLKTILRLQFSEEMHRQLKRQSTSSTKGSIKPSNKRYTEALEKLSNLEKEQ SKEGARTKIGKLKSKLNAVHTANEK P32855 Exocyst complex component SEC10 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.100459578 1 LEVO MNSLYELDPKWKKLLKTDNFLGGLTVNEFVQELSKDHRNDVLIDANTKNLPTNEKDQDAIREAIWKQLDPKPYIRTFEST LKELKNLNEETLNKRQYFSEQVATQEVIHSENVIKLSKDLHTTLLTFDKLDDRLTNVTQVVSPLGDKLETAIKKKQNYIQ SVELIRRYNDFYSMGKSDIVEQLRLSKNWKLNLKSVKLMKNLLILSSKLETSSIPKTINTKLVIEKYSEMMENELLENFN SAYRENNFTKLNEIAIILNNFNGGVNVIQSFINQHDYFIDTKQIDLENEFENVFIKNVKFKEQLIDFENHSVIIETSMQN LINDVETVIKNESKIVKRVFEEKATHVIQLFIQRVFAQKIEPRFEVLLRNSLSISNLAYVRILHGLFTLFGKFTKSLIDY FQLLEIDDSNQILSTTLEQCFADLFSHYLYDRSKYFGIEKRSLEAILVDMTSKFTVNYDKEINKRVLLDKYKEKLSTNVD AFMHSPRGNTHSRQDSTSRSKLSQFNSFLKTHLDKDHLSLNRTNTLSDSFNNSSSSTQYDVANNSSSLVNSSFTASDIDN SPNSPANYSLNDVDSMLKCVVESTARVMELIPNKAHLYILEILKIMFLGIVDSYMEIALEVAYWKICKVDINKTAGVVNL NFLKFISMSTEILDLLSISIKSIFLPLLNNSPEIKAQIIEMTNSQIQKMEILINIILQETITVISTKFSAILCKQKKKDF VPKSQELLDQDTLPAIEIVNILNLIFEQSSKFLKGKNLQTFLTLIGEELYGLLLSHYSHFQVNSIGGVVVTKDIIGYQTA IEDWGVASLIDKFATLRELANLFTVQPELLESLTKEGHLADIGRDIIQSYISNREDFNHDNFINSVKLNFR Q06245 Exocyst complex component SEC15 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.105166641 1 LEVO MDQEGQPLLSKDFQQVLLATASGNNSSWTERAVLNNESTDAVKHEPALGQNDVFDLDPLSFDKWVPFLRRALDKNQLDPV IDELENSIEDNFQGLELQLLQDSQMNDKLETSIDEIANIQGMVQDTLSSEISKFQIRLSESANELIVKKQMYVNNKKISL KISEATILITKVVRILELSSKCQELITERKFFKVLQNLDSLEKLYLQEFKNYNFQFLIEIYNSIPFLQKVTKDECINLIR NSLNLNLGKNLIKVGQEFVAIYENELLPQWLETRSKMKLTNFKFNSPIEISMRDESFLAKLNLGEFFQLDDFHDSIMIFQ NLNELSVLSGEFNKEYELRKTKLMYPLIWKKNKTAAYQMDSLLRGTGTTPGSTAHDVSTDDPFTQSLSLHFLQDYFLKIL GFLLYDINLNKATEFILVDNNYNSTNEFWDGLMDRLSPYLSYFIDEKLKTEEDMIKLKDFLCIYVAILENFKLNIEPLYK ILVSIFEKFCSVSLRAFDDEFQILLNDDDFMPLSINDKTLYEKVLKICWMKEGEHLSLPDPTNGEPFAVTLPFSPLYPMT CTLAKKTYSKITAFLSIFYRHELHTLNNILVKTMDDIFNDIVNKKIRSKLESTSREEIAQILVNLDYFIIAAKEFSNFMT RENILQNPDMEIRLSSIKYLAESRKLAETKLIELIDSKISDILETIEIDWQITEVRQDPDISIIDLAQFLEMMFASTLQN LPYSVQTLLIFREFDSLTRQFMGLLLHDTPSTITHESIMNFEVDVNYLESIIPRIFPSTPGTIDSNGYQSPMTPSTPTFP NANGVDAPTLFENNIKSLEATFMELKQCIELLKTQGKDYNEPEIRLRKYSRIRQEDAALLLSKIQHFVSSVEGANGDDTS VMDSSSIFNSESASVIDSNTSRIAKFFNRR P22224 Exocyst complex component EXO70 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.071382328 1 LEVO MPAEIDIDEADVLVLSQELQKTSKLTFEINKSLKKIAATSNQSSQLFTPILARNNVLTTLQRNIESTLNSVASVKDLANE ASKYEIILQKGINQVGLKQYTQVVHKLDDMLEDIQSGQANREENSEFHGILTHLEQLIKRSEAQLRVYFISILNSIKPFD PQINITKKMPFPYYEDQQLGALSWILDYFHGNSEGSIIQDILVGERSKLILKCMAFLEPFAKEISTAKNAPYEKGSSGMN SYTEALLGFIANEKSLVDDLYSQYTESKPHVLSQILSPLISAYAKLFGANLKIVRSNLENFGFFSFELVESINDVKKSLR GKELQNYNLLQDCTQEVRQVTQSLFRDAIDRIIKKANSISTIPSNNGVTEATVDTMSRLRKFSEYKNGCLGAMDNITREN WLPSNYKEKEYTLQNEALNWEDHNVLLSCFISDCIDTLAVNLERKAQIALMPNQEPDVANPNSSKNKHKQRIGFFILMNL TLVEQIVEKSELNLMLAGEGHSRLERLKKRYISYMVSDWRDLTANLMDSVFIDSSGKKSKDKEQIKEKFRKFNEGFEDLV SKTKQYKLSDPSLKVTLKSEIISLVMPMYERFYSRYKDSFKNPRKHIKYTPDELTTVLNQLVR P19658 Exocyst complex component EXO84 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) ATCC 204508 / S288c 0.085649672 1 LEVO MVEFSLKKARNNWKHVKKSASSPAKQKTPPSPAKPKQKTKKNPYSDLKDPATSYTLPTINARERSRVATSMQRRLSIHNT NYAPPTLDYSMPLPDMPNMIVPNDNVDSSHNNSSFTTENESVSSKGPSNSLNLSTADLSLNDSSYNKVPARSAMRNTVNP SGSNDPFNNSTSLRKMLANPHFNAKDFVHDKLGNASAITIDKFTSNLTDLSIQVQEEVKLNINKSYNEIMTVNNDLNVAM LELKRVRANINDLNEVLDQCTKIAEKRLQLQDQIDQERQGNFNNVESHSNSPALLPPLKAGQNGNLMRRDRSSVLILEKF WDTELDQLFKNVEGAQKFINSTKGRHILMNSANWMELNTTTGKPLQMVQIFILNDLVLIADKSRDKQNDFIVSQCYPLKD VTVTQEEFSTKRLLFKFSNSNSSLYECRDADECSRLLDVIRKAKDDLCDIFHVEEENSKRIRESFRYLQSTQQTPGRENN RSPNKNKRRSMGGSITPGRNVTGAMDQYLLQNLTLSMHSRPRSRDMSSTAQRLKFLDEGVEEIDIELARLRFESAVETLL DIESQLEDLSERISDEELMLLNLISLKIEQRREAISSKLSQSILSSNEIVHLKSGTENMIKLGLPEQALDLFLQNRSNFI QDLILQIGSVDNPTNYLTQLAVIRFQTIKKTVEDFQDIFKELGAKISSILVDWCSDEVDNHFKLIDKQLLNDEMLSPGSI KSSRKQIDGLKAVGLDFVYKLDEFIKKNSDKIR P38261 singleParticle particle 0.30 7.4 NEGATIVE Uranyl Acetate GLOW DISCHARGE

unspecified

FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 2.0 3.0 22500.0 GATAN K2 SUMMIT (4k x 4k) 6466 50.0 1

de novo model generated in cryoSPARC.

1 C1 FOURIER SPACE 15.0 FSC 0.5 CUT-OFF 67509 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD 1 1 C1 FOURIER SPACE 15.0 FSC 0.5 CUT-OFF 67509 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_21226.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 256 256 256 0 0 0 256 256 256 734.976 734.976 734.976 90.0 90.0 90.0 X Y Z -2.171029 11.401691 0.028356869 0.40476105 2.871 2.871 2.871 4.1 AUTHOR ::::EMDATABANK.org::::EMD-21226:::: Purified yeast exocyst complex stained with uranyl acetate and reconstructed in Relion and cryoSPARC.Fitted PDBs are equivalent to PDB:5YFP and based on DOI: 10.2210/pdb5YFP/pdb. 5YFP PDB experimental model RIGID BODY FIT REAL