Cryo-EM structure of apo-BBSome

2024-03-06 REL RCSB RCSB RCSB 2020-01-29 2020-07-01 2020-07-01 2024-03-06 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01-GM089933 United States Cryo-EM structure of apo-BBSome Yang S Walz T PROTEIN TRANSPORT Yang S Bahl K Chou HT Woodsmith J Stelzl U Walz T Nachury MV Near-atomic structures of the BBSome reveal the basis for BBSome activation and binding to GPCR cargoes. Elife US 9 2020 32510327 doi:10.7554/eLife.55954 2050-084X 6vnw FULLOVERLAP BBSome complex BBSome complex 0 1 2 3 4 5 6 7 8 Bos taurus retina 0.5 Bardet-Biedl syndrome 18 protein Bos taurus retina 0.008070502 1 LEVO MAETKSMFREVLPKQGQLYVEDITTMVLCKPKLLPLKSLTLEKLEKMQQAAQDTIHQQEMTEKEQKITH G3N2W1 Bardet-Biedl syndrome 2 protein homolog Bos taurus retina 0.07991148399999999 1 LEVO MLQPVFTLKLRHKISPRMVAVGRYDGTHPCLAAATQAGKVFIHNPHSRSQHLGAPRVLQSPLESDVSLLNINQTVSCLTA GVLNPELGYDALLVGTQTNLLAYDVYNNSDLFYREVADGASAIVLGTLGDITSPLAIIGGNCALQGFNHEGNDLFWTVTG DNVHSLALCDFDGDGKKELLVGSEDFDIRVFKEDEIVAEMSETEIITSLCPMYGSRFGYALSNGTVGVYDKTARYWRIKS KNQAMSIHAFDLNSDGVCELITGWSNGKVDARSDRTGEVIFKDNFSSAIAGVVEGDYRMEGCQQLICCSVDGEIRGYLPG TAEMRGNLMDISVEQDLIRELSQKKQNLLLELRNYEENAKAELSSPLNEADGHRGVIPANTKHHTALSVSLGSEAQAAHA ELCISTSNDTIIRAVLIFAEGVFAGESHVVHPSVHHLSSSVRIPITPPKDIPVDLHLKTFVGYRSSTQFHVFELTRQLPR FSMYALTSPDPASEPLSYVNFIIAERAQRVVMWLNQNFLLPEDTNIQNAPFQVCFTSLRNGGQLYIKIKLSGEITVNTDD IDLAGDIIQSMASFFAIEDLQVEADFPVYFEELRKVLVKVDEYHSVHQKLSADMADNSNLIRSLLVQAEDARLMRDMKTM KNRYKELYDLNKDLLNGYKIRCNNHTELLGSLKAVNQAIQRAGHLRVGKPKNQVITACRDAIRSNNINMLFRIMRVGTAS S Q32L13 Bardet-Biedl syndrome 4 protein homolog Bos taurus retina 0.058289133 1 LEVO MAEEKLSARTQLPVSAESQKPVLKKAPEFPILEKQNWLIHLYYIQKDYEACKAVIKEQLQETHGLCEYAIYVQALIFRLE GNIQESLRLFQMCAFLSPQCADNLKQVARSLFLLGKHKAAIEVYNEAAKLNQKDWEICHNLGVCYIYLKQFDKAQDQLHN ALHLNRHDLTYIMLGKIFLLKGDLDKAIEIYKKAVEFSPENTELLTTLGLLYLQLGIYQKAFEHLGNTLTYDPTNYKAIL AAGSMMQTHGDFDVALTKYKVVACAVIESPPLWNNIGMCFFGKKKYVAAISCLKRANYLAPLDWKILYNLGLVHLTMQQY ASAFHFLSAAINFQPKMGELYMLLAVALTNLEDSENAKRAYEEAVRLDKCNPLVNLNYAVLLYNQGEKRDALAQYQEMEK KVNLLKYSSSLEFDPEMVEVAQKLGAALQVGEALVWTKPVKDPKSKHQTASTSKAAGFQQPLGSNQALGQAMSSAATCRK LSSGAGGTSQLTKPPSLPLEPEPTVEAQPTEASAQTREK Q1JQ97 Bardet-Biedl syndrome 5 protein homolog Bos taurus retina 0.03888098399999999 1 LEVO MSVLDALWEDRDVRFDVSSQQMKTRPGEVLIDCLDSVEDTKGNNGDRGRLLVTNLRIVWHSLALPRVNLSIGYNCILNIT TRTANSKLRGQTEALYVLTKCNSTRFEFIFTNLVPGSPRLYTSLIAVHRAYETSKMYRDFKLRSALIQNKQLRLLPQENV YNKINGVWNLSSDQGNLGTFFITNVRIVWHANMNDSFNVSIPYLQIRSVKIRDSKFGLALVIESSQQSGGYVLGFKIDPV EKLQESVKEINSLHKVYSANPIFGVDYEMEEKPQPLEALTVKQIQDDVEIDSDDHTDAFVAYFADGNKQQDREPVFSEEL GLAIEKLKDGFTLQGLWEVMN A6QLF9 Bardet-Biedl syndrome 7 protein homolog Bos taurus retina 0.080471375 1 LEVO MDLNLNRADYLQVGVTSQKTMKLLPASKHRATQKVVVGDHDGIVMCFGMKKGEAVTVFKTLPGQKIARLELGGALNTPQE KIFIAAGSEIRGFTKRGKQFLSFETNLTESIKAMHISGSDLFLSASYIYNHYCDCKDQHYYLSGDKINDVICLPVERLLR EVPVLACQDRVLRVLQGSDVTYEIEVPGPPTVLALHNGNGGDSGEDLLFGTSDGKLGLIQITTSKPIHKWEIRNEKKRGG ILCVDSFDIVGDGVKDLLVGRDDGMVEVYGFDNANEPVLRFDHTLSESVTSIQGGCVGKDGYDEIVVSTYSGWITGLTTE PVHKESGPGEELKFNQEMQNKISSLRSELEQLQYKVLQEREKYQQSSQSSKAKSAVPSFSVNDKFTLNKDDASYSLILEV QTAIDNVLIQSDVPIDLLDVDKNSAVVSFSSCDSESNDNFLLATYRCQANTTRLELKIRSIEGQYGTLQAYVTPRIQPKT CQVRQYHIKPLSLHQRTHFIDHDRPMNTLTLTGQFSFSELHSWVVFCMPEVPEKPPAGECVTFYFQNTFLDTQLESTYRK GEGVFKSDNISTISILKDVLSKEATKRKINLNISYEINEVSVKHTLKLIHPKLEYQLLLAKKVQLIDALKELQVHEGNTN FLIPEYRCILEEADHLQEEYKKQPAHLERLYGMITDLFIDKFKFKGTNVKTKVPLLLEILDSYDQNALIAFFDAA F1MB52 Tetratricopeptide repeat domain 8 Bos taurus retina 0.056686406 1 LEVO MEPLLLAWSYFRRRRFQLCADLCTQMLEKSPCDQAAWILKARALTEMVYVDEIDVDEEGIAEMILDENAIAQVPRPGTSL KLPGTNQTGGPSPAVRPVTQAGRPITGFLRPSTQSGRPGTIEQAIKTPRTAYTARPIASSSGRFVRLGTASMLTSPDGPF INLSRLNLAKYAQKPKLAKALFEYIFHHENDVKTALDLAALSTEHSQYKDWWWKVQIGKCYYRLGLYREAEKQFKSALKQ QEMVDTFLYLAKVYISLDQPLTALNLFKQGLDKFPGEVTLLCGIARIYEEMNNISSATEYYKEVLKQDNTHVEAIACIGS NHFYTDQPEVALRFYRRLLQMGVYNCQLFNNLGLCCFYAQQYDMTLTSFERALSLAENEEEVADVWYNLGHVAVGTGDTN LAHQCFRLALVSNNQHAEAYNNLAVLEMRRGHVEQAKALLQTASSLAPHMYEPHFNFATISDKIGDLQRSYAAAKKSEAA FPDHVDTQHLIKQLEQHFAML F1N4X0 Bardet-Biedl syndrome 9 Bos taurus retina 0.099230914 1 LEVO MSLFKARDWWSTVLGDKEEFDQGCLCLADVDNTGNGQDKIIVGSFMGYLRIFNPHPVKTGDGAQAEDLLLEVHLRDPILQ VEVGKFVSGTEMLHLAVLHSRKLCVYSVSGTLGNVEHGNQYQIKLMYEHNLQRTACNMTYGSFGGVKGRDLICIQSVDGM LMVFEQESYAFGRFLPGSLLPGPLAYSSRTDSFITVSSCHQVESYKYQVLAFATDADKRQETEQQKHGSGKRLVVDWTLN IGEQAIDICIVSFIQSASSVFVLGERNFFCLKDNGQIQFMKKLDYSPSCFLPYCSVSEGTINTLIGNHNNMLHIYQDVTL KWATQLPHVPVAVRVGCLHDLKGVIVTLSDDGHLQCSYLGTDPSLFQAPKVESRELNYDELDMELKELQKVIKNVNKSQD VWPLTEREDDLKVSAMVSPNFDSVSQATDVEVGADLVPSVTVKVTLKNRVALQKIKLSIYVQPPLVLTGDQFTFEFMAPE MTRTVGFSVYLKGSYSPPELEGNAVVSYSRPTERNPDGIPRVSQCKFRLPLKLVCLPGQPSKTASHKLTIDTNKSPVSLL SLFPGFAKQSEDDQVNVMGFRFLGGSQVTLLASKTSQRYRIQSEQFEDLWLITNELIIRLQEYFEKQGIKDFTCSFSGSV PLEEYFELIDHHFELRINGEKLEELLSERAVQFRAIQRRLLTRFKDKTPAPLQHLDTLLDGTYKQVIALADAVEENQDNL FQSFTRLKSATHLVILLIGLWQKLSADQIAILEAAFLPLQQDTQELGWEETVDAALSHLLKTCLSKSSKEQALNLNSQLG IPKDTSQLKKHITLFCDRLAKGGRLCLSTDAAAPQTMVMPGGCATIPESDLEGRSIDQDSSELFTNHKHLMVETPVPEVS PLQGVTE E1BHJ5 BBS1 domain-containing protein Bos taurus retina 0.064939141 1 LEVO MAATSSSDSDGGKGESEANSKWLDSLSDSMANIHTFSACLALADFHGDGEYKLAMGDLGPDGRQPRLKVLKGHTLVSQKP LPDLPAAAVTFLMASHEPRTPALAIASGPCVYVYKNLKPYFKFSLPSLPTNPLEQDLWNQAKEDQIDPLTLKEMLEGIRE KAEVPLSVQSLRFLPLELSEMEAFVNQHKSKSIRRQTVITTMTTLKKNLADEDAVSCLVLGTENKELLVLDPEAFTILAK MSLPSVPAFLEASGQFDVEFRLAAACRNGSIYILRRDSKRPKYCIELGAQPVGLVGVHKVLVVGSNQDSLHGFTYKGKRL WTVQMPAAILAMNLLEQHSRGLQAVMAALANEEVRIYHDKVLLNVIRTPEAVTSLCFGRYGREDNTLIMTTLGGGLIIKI LKRTAVFAEGGGEAGPPPSQAIKLNVPRKTRLYVDQTLREREAGTAMHRTFQADLYLLRLRAARAYVQALESSLSPVSLT AREPLKLHAVVQGLGPTFKLTLHLQNTSTARPILGLVVCFLYNEVLYALPRAFFKVPLLVPGLNYPLETFVKSLSDKGIS DIIKVLVLREGQSTPLLSAHINMPMSEGLAAD E1BN34 singleParticle particle 0.4 7.5 20.0 C8H18N2O4S HEPES 150.0 NaCl sodium chloride 0.7 MgCl2 Magnesium chloride 1.0 C4H10O2S2 DTT Quantifoil R1.2/1.3 COPPER 400 CARBON CONTINUOUS GLOW DISCHARGE 25 AIR ETHANE 100 277 FEI VITROBOT MARK IV

Wait time 20s, blot force -2, blot time 3.5s.

FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 80.0 1 EMD-7839 C1 3.44 FSC 0.143 CUT-OFF 560777 OTHER MAXIMUM LIKELIHOOD emd_21251.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 320 320 320 0 0 0 320 320 320 416.0 416.0 416.0 90.0 90.0 90.0 X Y Z -0.24943139 0.40319476 0.0000053318463 0.0054252753 1.3 1.3 1.3 0.018 AUTHOR ::::EMDATABANK.org::::EMD-21251::::