2024-11-20 REL PDBe PDBe PDBe 2022-09-27 2022-12-07 2022-12-07 2024-11-20 European Research Council (ERC) 724425 European Union Netherlands Organisation for Scientific Research (NWO) 724.016.001 Netherlands Netherlands Organisation for Scientific Research (NWO) 212.152 Netherlands Subtomogram average of the human Sec61-TRAP-OSTA-translocon Gemmer M Fedry JMM Forster FG membrane protein complex, protein translocation, N-glycosylation, signal peptide insertion, MEMBRANE PROTEIN Gemmer M Chaillet ML van Loenhout J Cuevas Arenas R Vismpas D Grollers-Mulderij M Koh FA Albanese P Scheltema RA Howes SC Kotecha A Fedry J Forster F Visualization of translation and protein biogenesis at the ER membrane. Nature UK 614 160 167 2023 36697828 doi:10.1038/s41586-022-05638-5 1476-4687 0006 NATUAS 8b6l FULLOVERLAP Sec61-TRAP-OSTA translocon complex Sec61-TRAP-OSTA translocon complex 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16
Translocon complex embedded in its native membrane and bound to cytosolic ribosomes
Homo sapiens Protein transport protein Sec61 subunit alpha isoform 1 Homo sapiens 0.052304406 1 LEVO MAIKFLEVIKPFCVILPEIQKPERKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFYWMRVILASNRGTLMELG ISPIVTSGLIMQLLAGAKIIEVGDTPKDRALFNGAQKLFGMIITIGQSIVYVMTGMYGDPSEMGAGICLLITIQLFVAGL IVLLLDELLQKGYGLGSGISLFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLP NLMNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVSNLYVISQMLSARFSGNLLVSL LGTWSDTSSGGPARAYPVGGLCYYLSPPESFGSVLEDPVHAVVYIVFMLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMV MRGHRETSMVHELNRYIPTAAAFGGLCIGALSVLADFLGAIGSGTGILLAVTIIYQYFEIFVKEQSEVGSMGALLF P61619 Protein transport protein Sec61 subunit beta Homo sapiens 0.009987456 1 LEVO MPGPTPSGTNVGSSGRSPSKAVAARAAGSTVRQRKNASCGTRSAGRTTSAGTGGMWRFYTEDSPGLKVGPVPVLVMSLLF IASVFMLHIWGKYTRS P60468 Protein transport protein Sec61 subunit gamma Homo sapiens 0.007752324999999999 1 LEVO MDQVMQFVEPSRQFVKDSIRLVKRCTKPDRKEFQKIAMATAIGFAIMGFIGFFVKLIHIPINNIIVGG P60059 Signal peptide mix Homo sapiens 0.001890321 1 LEVO (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) Translocon-associated protein subunit alpha Homo sapiens 0.032263219 1 LEVO MRLLPRLLLLLLLVFPATVLFRGGPRGLLAVAQDLTEDEETVEDSIIEDEDDEAEVEEDEPTDLVEDKEEEDVSGEPEAS PSADTTILFVKGEDFPANNIVKFLVGFTNKGTEDFIVESLDASFRYPQDYQFYIQNFTALPLNTVVPPQRQATFEYSFIP AEPMGGRPFGLVINLNYKDLNGNVFQDAVFNQTVTVIEREDGLDGETIFMYMFLAGLGLLVIVGLHQLLESRKRKRPIQK VEMGTSSQNDVDMSWIPQETLNQINKASPRRLPRKRAQKRSVGSDE P43307 Translocon-associated protein subunit beta Homo sapiens 0.020154986 1 LEVO MRLLSFVVLALFAVTQAEEGARLLASKSLLNRYAVEGRDLTLQYNIYNVGSSAALDVELSDDSFPPEDFGIVSGMLNVKW DRIAPASNVSHTVVLRPLKAGYFNFTSATITYLAQEDGPVVIGSTSAPGQGGILAQREFDRRFSPHFLDWAAFGVMTLPS IGIPLLLWYSSKRKYDTPKTKKN P43308 Translocon-associated protein subunit gamma Homo sapiens 0.021106464999999998 1 LEVO MAPKGSSKQQSEEDLLLQDFSRNLSAKSSALFFGNAFIVSAIPIWLYWRIWHMDLIQSAVLYSVMTLVSTYLVAFAYKNV KFVLKHKVAQKREDAVSKEVTRKLSEADNRKMSRKEKDERILWKKNEVADYEATTFSIFYNNTLFLVVVIVASFFILKNF NPTVNYILSISASSGLIALLSTGSK Q9UNL2 Translocon-associated protein subunit delta Homo sapiens 0.019015546999999997 1 LEVO MAAMASLGALALLLLSSLSRCSAEACLEPQITPSYYTTSDAVISTETVFIVEISLTCKNRVQNMALYADVGGKQFPVTRG QDVGRYQVSWSLDHKSAHAGTYEVRFFDEESYSLLRKAQRNNEDISIIPPLFTVSVDHRGTWNGPWVSTEVLAAAIGLVI YYLAFSAKSHIQA P51571 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A Homo sapiens 0.08060732000000001 1 LEVO MTKFGFLRLSYEKQDTLLKLLILSMAAVLSFSTRLFAVLRFESVIHEFDPYFNYRTTRFLAEEGFYKFHNWFDDRAWYPL GRIIGGTIYPGLMITSAAIYHVLHFFHITIDIRNVCVFLAPLFSSFTTIVTYHLTKELKDAGAGLLAAAMIAVVPGYISR SVAGSYDNEGIAIFCMLLTYYMWIKAVKTGSICWAAKCALAYFYMVSSWGGYVFLINLIPLHVLVLMLTGRFSHRIYVAY CTVYCLGTILSMQISFVGFQPVLSSEHMAAFGVFGLCQIHAFVDYLRSKLNPQQFEVLFRSVISLVGFVLLTVGALLMLT GKISPWTGRFYSLLDPSYAKNNIPIIASVSEHQPTTWSSYYFDLQLLVFMFPVGLYYCFSNLSDARIFIIMYGVTSMYFS AVMVRLMLVLAPVMCILSGIGVSQVLSTYMKNLDISRPDKKSKKQQDSTYPIKNEVASGMILVMAFFLITYTFHSTWVTS EAYSSPSIVLSARGGDGSRIIFDDFREAYYWLRHNTPEDAKVMSWWDYGYQITAMANRTILVDNNTWNNTHISRVGQAMA STEEKAYEIMRELDVSYVLVIFGGLTGYSSDDINKFLWMVRIGGSTDTGKHIKENDYYTPTGEFRVDREGSPVLLNCLMY KMCYYRFGQVYTEAKRPPGFDRVRNAEIGNKDFELDVLEEAYTTEHWLVRIYKVKDLDNRGLSRT P46977 2.4.99.18 Oligosaccharyltransferase complex subunit OSTC Homo sapiens 0.016844215 1 LEVO METLYRVPFLVLECPNLKLKKPPWLHMPSAMTVYALVVVSYFLITGGIIYDVIVEPPSVGSMTDEHGHQRPVAFLAYRVN GQYIMEGLASSFLFTMGGLGFIILDRSNAPNIPKLNRFLLLFIGFVCVLLSFFMARVFMRMKLPGYLMG Q9NRP0 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 4 Homo sapiens 0.004196004 1 LEVO MITDVQLAIFANMLGVSLFLLVVLYHYVAVNNPKKQE P0C6T2 Transmembrane protein 258 Homo sapiens 0.009083804 1 LEVO MELEAMSRYTSPVNPAVFPHLTVVLLAIGMFFTAWFFVYEVTSTKYTRDIYKELLISLVASLFMGFGVLFLLLWVGIYV P61165 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit DAD1 Homo sapiens 0.012503631 1 LEVO MSASVVSVISRFLEEYLSSTPQRLKLLDAYLLYILLTGALQFGYCLLVGTFPFNSFLSGFISCVGSFILAVCLRIQINPQ NKADFQGISPERAFADFLFASTILHLVVMNFVG P61803 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase 48 kDa subunit Homo sapiens 0.050854578 1 LEVO MGYFRCARAGSFGRRRKMEPSTAARAWALFWLLLPLLGAVCASGPRTLVLLDNLNVRETHSLFFRSLKDRGFELTFKTAD DPSLSLIKYGEFLYDNLIIFSPSVEDFGGNINVETISAFIDGGGSVLVAASSDIGDPLRELGSECGIEFDEEKTAVIDHH NYDISDLGQHTLIVADTENLLKAPTIVGKSSLNPILFRGVGMVADPDNPLVLDILTGSSTSYSFFPDKPITQYPHAVGKN TLLIAGLQARNNARVIFSGSLDFFSDSFFNSAVQKAAPGSQRYSQTGNYELAVALSRWVFKEEGVLRVGPVSHHRVGETA PPNAYTVTDLVEYSIVIQQLSNGKWVPFDGDDIQLEFVRIDPFVRTFLKKKGGKYSVQFKLPDVYGVFQFKVDYNRLGYT HLYSSTQVSVRPLQHTQYERFIPSAYPYYASAFSMMLGLFIFSIVFLHMKEKEKSD P39656 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 1 Homo sapiens 0.068656156 1 LEVO MEAPAAGLFLLLLLGTWAPAPGSASSEAPPLINEDVKRTVDLSSHLAKVTAEVVLAHLGGGSTSRATSFLLALEPELEAR LAHLGVQVKGEDEEENNLEVRETKIKGKSGRFFTVKLPVALDPGAKISVIVETVYTHVLHPYPTQITQSEKQFVVFEGNH YFYSPYPTKTQTMRVKLASRNVESYTKLGNPTRSEDLLDYGPFRDVPAYSQDTFKVHYENNSPFLTITSMTRVIEVSHWG NIAVEENVDLKHTGAVLKGPFSRYDYQRQPDSGISSIRSFKTILPAAAQDVYYRDEIGNVSTSHLLILDDSVEMEIRPRF PLFGGWKTHYIVGYNLPSYEYLYNLGDQYALKMRFVDHVFDEQVIDSLTVKIILPEGAKNIEIDSPYEISRAPDELHYTY LDTFGRPVIVAYKKNLVEQHIQDIVVHYTFNKVLMLQEPLLVVAAFYILFFTVIIYVRLDFSITKDPAAEARMKVACITE QVLTLVNKRIGLYRHFDETVNRYKQSRDISTLNSGKKSLETEHKALTSEIALLQSRLKTEGSDLCDRVSEMQKLDAQVKE LVLKSAVEAERLVAGKLKKDTYIENEKLISGKRQELVTKIDHILDAL P04843 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit 2 Homo sapiens 0.069347508 1 LEVO MAPPGSSTVFLLALTIIASTWALTPTHYLTKHDVERLKASLDRPFTNLESAFYSIVGLSSLGAQVPDAKKACTYIRSNLD PSNVDSLFYAAQASQALSGCEISISNETKDLLLAAVSEDSSVTQIYHAVAALSGFGLPLASQEALSALTARLSKEETVLA TVQALQTASHLSQQADLRSIVEEIEDLVARLDELGGVYLQFEEGLETTALFVAATYKLMDHVGTEPSIKEDQVIQLMNAI FSKKNFESLSEAFSVASAAAVLSHNRYHVPVVVVPEGSASDTHEQAILRLQVTNVLSQPLTQATVKLEHAKSVASRATVL QKTSFTPVGDVFELNFMNVKFSSGYYDFLVEVEGDNRYIANTVELRVKISTEVGITNVDLSTVDKDQSIAPKTTRVTYPA KAKGTFIADSHQNFALFFQLVDVNTGAELTPHQTFVRLHNQKTGQEVVFVAEPDNKNVYKFELDTSERKIEFDSASGTYT LYLIIGDATLKNPILWNVADVVIKFPEEEAPSTVLSQNLFTPKQEIQHLFREPEKRPPTVVSNTFTALILSPLLLLFALW IRIGANVSNFTFAPSTIIFHLGHAAMLGLMYVYWTQLNMFQTLKYLAILGSVTFLAGNRMLAQQAVKRTAH P04844 subtomogramAveraging particle 2 7.4 Quantifoil COPPER GLOW DISCHARGE ETHANE-PROPANE
Manual plunger.
ER-derived vesicles decorated with cytosolic ribosomes.
 FEI TALOS ARCTICA FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 200 100.0 2.7 3.0 3.0 79000.0 NITROGEN GATAN K2 SUMMIT (4k x 4k) COUNTING 7-7 8 0.7 2.3 1 BACK PROJECTION 7.6 FSC 0.143 CUT-OFF 42215 869 134350 Subtomogram average of ER membrane-associated ribosome Template matching PyTom 0.994 RELION 3.1.1 MAXIMUM LIKELIHOOD RELION 3.1.1 emd_15870.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 348 348 348 0 0 0 348 348 348 599.95197 599.95197 599.95197 90.0 90.0 90.0 X Y Z -0.0659893 0.08555481 0.00024772485 0.0019177131 1.7239999 1.7239999 1.7239999 0.01 AUTHOR subtomogram average of the Sec61-TRAP-OSTA translocon FLEXIBLE FIT REAL emd_15870_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 348 348 348 0 0 0 348 348 348 599.95197 599.95197 599.95197 90.0 90.0 90.0 X Y Z -0.019424299 0.025541374 0.00024918915 0.0024320155 1.7239999 1.7239999 1.7239999 AUTHOR subtomogram average of the Sec61-TRAP-OSTA translocon emd_15870_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 348 348 348 0 0 0 348 348 348 599.95197 599.95197 599.95197 90.0 90.0 90.0 X Y Z -0.019061172 0.026037205 0.00024626058 0.0024347624 1.7239999 1.7239999 1.7239999 AUTHOR subtomogram average of the Sec61-TRAP-OSTA translocon