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FASTA Sequence PDB Format mmCIF Format
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8HKV

Cryo-em structures and translocation mechanism of crenarchaeota ribosome

PDB DOI: 10.2210/pdb8hkv/pdb

Classification: RIBOSOME
Organism(s): Sulfolobus Acidocaldarius Dsm 639

Deposited: 2022-11-28
Deposition Author(s): Wang, Y.H. , Zhou, J.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.94 Å

8hkv
Literature

Cryo-em structures and translocation mechanism of crenarchaeota ribosome

Wang, Y.H. , Zhou, J.

Primary Citation of Related Structures: 8HKV


Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
23s rRNA (2996-MER) a23s 3022 NA GCCGAAGCCUCCCGGUGGAUGGCUCGGCUCGGGCACCGAAGAAGGGCGCGGCAAGCAGCGAAAUGCUCGGGUGAGGCGCAAGCAGCCGUUGACCCCGAGGUCCCCUAAUGGGAUAUCCUGCCGGGUUUCCGGCGCUCCCGGUUUAUAACUGGGAGUGGGAACCCCCCGAACGGAAACAUCUUAGUAGGGGGAGGAAAAGAAAUCAAUUGAGAUCCCCUGAGUAGGGGCGACCGAAAGGGGGACAGCCCAAACUAAACCUGCCGAUGAUAAGUCGGUGGGGAUGUGGUGUUACGACCUCUAGCCUGAGGUUCGACCUCGGCUUUCCUAACCUAUCUAGCCGAACUCCCCUGGAACGGGGGGCCAUAGAGGGUGAAAGCCCCGUAGGCUAAAGAUAGGUGGAAAGUGGCUAGAGGUAGAGUACCAUCCCCUGGUUUGGGGGUGGGAAGUUAGGGGACACGUGCCUCUAAGGCUAAAUAUGUCCCGAGACCGAUAGCAAACUAAGUACCGUGAGGGAAAGCUGAAAAGAACCCCGGAAGGGGGAGUGCAAAGAGCCUGAAACCGGGUGGUUAUACAGGGUGUGGCUCGAAAGAAGUGAACCCUUCCGAAGGAAAGGGGCGCAAGCCCUUAGUACGAGGAAGGGCGAUCGGGGUCACGCCUUUCGUCUUGAAACACGGGCCGGGGAGUUCACAUCAGUGGCGAGCUUAAGGAGAUUAUCUCCGAAGGCAUAGGGAAACCAAGUGCCCGCAGCCUAGUUUCUAGGCGAGGGGCAGGGUCUGUCAGGGCCUGAAGCCACUGAUGUGAGGCUAGAAACCGGGCGAUCUAGUCCGGGGCAGGCUGAAGGUGGGGGAAACCCCACUGGAGGGCCGAAUAGGGGUUCUGACGUGCAAUUCGUUCCCUUGACCUCGGACUAGGGGCAAAAGACCAAUCUAGCCCGGUGAUAGCUAGUUCCCCCCGAAAUGCGUCCUAGCGCAGCCUCCCUAAAGGCAGCUCGCGGGGUAGAGUGACAGAUCGGGGGCUCCAGGCGAAAGCCUGGGGCUUCCGGUCUAACUCCGAACCCACGAGCGCCGAAGAAGGGGGGAGUGGGUCACUCGGCGUAAGGUUGGGUGGCAAAAGGGGAACAACCCAGACCUGGGUUAAGGCCCCAAAGUCCCGGCUAAGUGCCAACGAAAAGGCGUCUCCAGCCUUAGACAGCGGGAAGGUGGGCCCAGCAGCAGCCAUCCUCUAAGGAGUGCGUAACAGCUCACCCGCCGAGGCUGGAGGCCCUAAAGAUUGGUCGGGGCUCAAGCCGGGCGCCGAGACCCAGGAGGGGGUCUCUACUAGAGAUCCUCUGGUAGGGGGGCGCUGUGAUGGGGUAGAAGGUGGGUCGUGAGAUCCACUGGACCCGUCACAGGUGCAGAUCCCGGCGGUAGUAACAGCGAAGGGGGGUGAGAAUCCCCCUCGCCGGAAGGGCAAGGGUUUCCCGGCAACGUUCGUCAGCCGGGAGUUAGCCGGUCCUAAGGUAGGGCCUAAUAGGUACCUACCGAAAGGGAAAGGGGUUAACAUUCCCCUGCCUCCCGGGUAGGUGCGGUAACGCAAGCCAGACUCCUGACGGAUUGGGGUAGGGAGAGUAGGACCACCGUCCUACCCAAGCACUCAAGCCCUUGGAGAGCCGUAACGGUGAGAAGAGGGCGAAGGUGUGAUGGGCCUUCCGUUAGGAGGGUUCUCCUGAUCCCUAGUCCCCAUGAAAAGGGAGUCUGGAACGAUCCCGGGAGACCGUACCUAGAACCGACACUGGUGCCCCUGGGUGAGAAGCCCAAGGCGUCUGAGGGGUAACCCAGGCUAGGGAACUCGGCAAAUUAGCCCCGUAACUUCGGGAGAAGGGGUGCCUAUCGUGGUUUAACAAAGCCACGAUAGGUCGCAGUGACCAGAGGGACCUGACUGUUUAAUAAAAACAUAGGUCCCCGCUAGCCCGAAAGGGUGUGUACGGGGGCUAAAUCCUGGCCACUGGUGGUUGGUUAAAUCCGGGUUCAACCGGGCGAAGCCCCACCGAAGGCCGGGGGUAACUCUGACCCUCUUAAGGUAGCCAAAUGCCUUGCCGGGUAAGUUCCGGCGCGCAUGAAUGGAUCAACGCGGUCCCUACUGUCCCAGCCUGGGGCCUCGUGAACGCCCUGAGCCGGUGCACAGUCCGGCAUCUCCCUACACCGAGAGAAGACCCCGUGGAGCUUCACCGCAGCCUGGCGUUGUCCCUCGGGCGUUUAUGCGUAGAGUAGGUGGGAGGGGUCGAACCUGUCCUUUCGGGGGCAGGGGACCCGAAAGUGAAACACCACCCAUGGACGCUCGAGGGACUAACCUCUCGAAAGAGAGGAACAACGUCAGGUGGGCGGUUCGGCUGGGGCGGCACUCCCGCGAAAAGAUAACACGGGAGCCCAAAGGUCGGCUCAGGCGGUACAGAACGCCGCCGUAGAGCGCAAGGGCAAAAGCCGGCCUGACGUGACCCUUCCAAGUACGGGGUCACGACGCGAAAGCGGGGCCUAGCGAACGCUCGUGCCCCCACACGUGGGGGCCGGGCAUGACAGAAAAGUUACCCCGGGGAUAACAGGGUCGUCGCGGGCGAGAGCUCACAUCGACCCCGCGGUUUGCUACAUCGAUGUCGGCUCUUCCCACCCUGGAGGUGCAGCUGCCUCCAAGGGUAGGGCUGCCCGCCCGUUAAAGGGGAGCGUGAGCUGGGUUUAGACCGUCGCGAGACAGGUCGGACUCUAAGGGUAGGGAGUGCGGACCGCUUGAGGGGAAGGAACCCCUAGUACGAGAGGAACAGGGUUCCGGGGCCUCCAGUUUACCGGUUGUCCGGUAGGGCAAUGCCGGGCAGCCGCGCCCUGAGGGGUAACCGCUGAAAGCAUCUAAGCGGGAACCCCUCCCCUAAAAGAGGCGGUCAGGCGUUAGCCGGGGCCUUCCCCUAGAAGAGGGGGUUGAUGGGGUGGGGAUGUAAGCUCCAAGGUUGUAAGACCGAGGAGUUUAGUCCGCCACUCCCAAUCAGGCUCCCCCC
5s rRNA (122-MER) a5s 122 NA UGCCCACCCGGUCAUAGUGAGCGGGUAACACCCGGACUCGUUUCGAACCCGGAAGUUAAGCCGCUCACGUCAGAGGGGCCGUGGGAUCCGAGAGGGCCCGCAGCCUCUCUGAGCUGGGAUGG

Proteins
Molecule Chains Sequence Length Organism Sequence
50S ribosomal protein L13 L13P 140 Sulfolobus Acidocaldarius Dsm 639 VIVDATNQILGRMSTHIAKLLKSGKKVYVVNAEKAIISGPRSRVLEGYSLLFTVKTMQNPYRQGIRRPRNPINIVKRTVRGMLPKNKLGKQIYRNLKAYIGIPKELEGKSMIRFDDADVSRLKGKYITVAELSRLLGGLK
50S ribosomal protein L14e L141 86 Sulfolobus Acidocaldarius Dsm 639 AIEIGRICVKTRGREAGKKCVIVDIIDSNFVLVTGPKEINGVKRRRVNILHIEPTDKKVEINKGATDQEVKQAIEQSGLTDFIKEA
50S ribosomal protein L14e L142 86 Sulfolobus Acidocaldarius Dsm 639 AIEIGRICVKTRGREAGKKCVIVDIIDSNFVLVTGPKEINGVKRRRVNILHIEPTDKKVEINKGATDQEVKQAIEQSGLTDFIKEA
50S ribosomal protein L14 L14P 134 Sulfolobus Acidocaldarius Dsm 639 MNVLGSRKGFTPALQHNSSVVVADNSGAKEAVIIGIYGYRGVLRRVPFANIADLVMVSVRKGSPDVRKQKFKAVIVRQRMPFRRPDGTWISFEDNAVVIINPDGTPKGTEVRGPIAREAAERWPKIASVATMVI
50S ribosomal protein L15e L15E 169 Sulfolobus Acidocaldarius Dsm 639 SMYHYIEQTWQNKDWRRSILRKRLIEWRRQPAITRIDRPTRLNRARALGYKAKQGFVMVRVRVRRGGLNKPRPNSGRRPKRMGVYGYGPSKGYRWIAEERAARKFPNLEVLGSYYVAEDGMYKYYEVIMVDYSHPVIRSDPELKWLQDSVNRKRVFRGLTSAGQKSRGL
50S ribosomal protein L18e L18E 112 Sulfolobus Acidocaldarius Dsm 639 TNIMLRKLITSLKKQDKAIWVRVAEELEAPRRKRAYINIYKINRYSKANDIIVVPGKVLGVGNLDHPVTVVALSFSKPAKEKILRSGGKVMSLYKAIQELNDFKGKTVRLMK
50S ribosomal protein L18 L18P 193 Sulfolobus Acidocaldarius Dsm 639 TQGPNYRIKFRRRREGKTDYYTRYTYVINNAIRFVPRLTNKYVIVSVSKFDQKGDIMIAYAHSIELVKKYGWKGDTNNTPAAYLTGYLAGLRAVKSGVKAAVSDIGLFVPVKGGRIFAVIKGAIDAGLKVPVGDLGKLKDRVNGSHISAYAQKLKNENQELYNKLFSSYIQRGLDPVLLPQHFEEVLNKIKEN
50S ribosomal protein L19e L19E 144 Sulfolobus Acidocaldarius Dsm 639 PEFQLQRRLAADIAGVGLNNIKFNPERLEEVEEALTREDIKKLIKERAVIVNPKRGISSGRLKERKHKRRSKGEGRKHGSRKGKSGARTGDKEIWINKIRKIRRYIRWLRDNNVIDKHTYRLLYKRAKGNYFKNLSDVKSYLRQ
50S ribosomal protein L22 L22P 150 Sulfolobus Acidocaldarius Dsm 639 YPILSIPEDKLAKAVIKNIDASVRDLYNVCKAIRGMNLKEAREFLNNVLEEKEALPFWRYSHGTSHRSNISRKWKVKSGRYPKKAIKYVLKLLDNAENNANSKGLDIDNLKIVHIAAHKGLVLKRYMTRAFGRSTRKYKYLSHIEVILGE
50S ribosomal protein L23 L23P 81 Sulfolobus Acidocaldarius Dsm 639 IIKEFLATEKAVKLIESQNTLTIIVNRNTTKKDIKNEVEKLFSVKVEKINTLITPKGEKKAYVKLKQEYKASDVAHKLGML
50S ribosomal protein L24e L24E 54 Sulfolobus Acidocaldarius Dsm 639 RQCSFCGKDILPGTGLMYVRNDGSLLWFCSSKCRKSMLKLHRDPKKLKWTKSYL
50S ribosomal protein L24 L24P 122 Sulfolobus Acidocaldarius Dsm 639 MISSKPSKQRKLVYNLPNHLRYKLLTARLSEDLEKQYGIKRISIRKGDSVKLMRGSQVGYEGKVVEVDRKRGRVAIEGLTKKKADGTPVYVWVHASKVIITKLDTGDKERMDAIERKRKMRE
50S ribosomal protein L29 L29P 63 Sulfolobus Acidocaldarius Dsm 639 PLEVDELRKMDLKQLKERLNELEMQLLKLRVESRMGTLKNTASIKNTRKDIARILTVIGEKSK
50S ribosomal protein L30e L30E 94 Sulfolobus Acidocaldarius Dsm 639 FEGELKTLLRSGKVILGTRKTLKLLKTGKVKGVVVSSTLRQDLKDDIMTFSKFSDIPIYLYKGSGYELGTLCGKPFMVSVIGIVDEGESKILEF
50S ribosomal protein L30 L30P 155 Sulfolobus Acidocaldarius Dsm 639 MNELIGVIRIRGWAATPWYIQDTLSMLRLKNAFNAMIYPKDSSIQGMLNLVSSYVTWGELNDEGLRLLVSKLEISRGKKVNEEYVKDKLNVDFQSFVESIKDGKLRLNKLDEIFSLPIRLHPPKGGFKGKVSRPFRAGGEFGYRGDKINELIRRM
50S ribosomal protein L31e L31E 75 Sulfolobus Acidocaldarius Dsm 639 KPEKENFEMVINFRRVIMGRKTTRTKRAIKYVRYMVKRHFGAEKVIIDPLLAKAITMNGRDKIVRRVRIAVKRIG
50S ribosomal protein L32e L32E 123 Sulfolobus Acidocaldarius Dsm 639 KPAKKNMKSPGKAIKFLRFDWDKYYRIGRQERWRKPRGIDNAIRLELKGYQPKVKIGYRTDKQIRGLHPSGLRPILVKSVKDLEAFAKGKQDVIIIISSTIGLRKRIELIKKAEELGLKIANR
50S ribosomal protein L34e L34E 77 Sulfolobus Acidocaldarius Dsm 639 SPQQRSGSFRKVFVKLPSGKSTIHYERRKDNIARCGMCKKPLNGVKNNYTYKYSKTEKRPERVYGGYLCHKCLESLI
50S ribosomal protein L37Ae L37A 65 Sulfolobus Acidocaldarius Dsm 639 TGIAGRFGARYGSSTRKKWKEVMERRYMPHQCPYCKTTGKVVRIASGIWYCRKCETKWAGLAYTP
50S ribosomal protein L37e L37E 54 Sulfolobus Acidocaldarius Dsm 639 MKGTPSFGKMNKTPTHVRCRRCGRNSFNARKGYCAACGFGRSKKIRRYSWQNKK
50S ribosomal protein L39e L39E 49 Sulfolobus Acidocaldarius Dsm 639 KHKSLGKKLRLGKALKRNSPIPAWVIIKTQAEIRFNPLRRNWRRNNLKV
50S ribosomal protein L2 AL2P 234 Sulfolobus Acidocaldarius Dsm 639 GKKLLQQRAGRGGINFRSPSWRRVGPARYPNIEGDHKGKIIDILHNPGVTAPVVKVKLDNGLQFYIPAVQGVAVGQEISIGKNATISNGNIVEVGQLPEGTVICNVEKLKGDGGKFARAAGSYAVISGKAGNKVLIKLSSEKIVEVSQNARATVGIIAGGGFVEKPLLKAGNNYWKYRVRAVKWPVVRGVAMNAVSHPHGGGLHQSVSRPSTVSRNAPPGRKVGHIASRRTGRR
50S ribosomal protein L40E L40E 55 Sulfolobus Acidocaldarius Dsm 639 MPLTDPVKLQIVQQRVFLKKICRDCGALNSIRATKCRRCHSSNLRAKKKELPAKK
50S ribosomal protein L44e L44E 92 Sulfolobus Acidocaldarius Dsm 639 MKVPKVIKTYCPKCKTHTEHSVSLYKGGKRRSLAEGQRRYERKNVGYGSKRKPEQKRFAKTTKKQTLVLKCQKCSYTIVKEGMRLKKLELVE
50S ribosomal protein L7Ae L7A1 123 Sulfolobus Acidocaldarius Dsm 639 PSYVKFEVPQELADKVLEAVKKAKDSGKIKKGTNETTKAVERSQAKLVVIAEDVQPEEIVAHLPLLCEEKKIPYVYVPSKKSLGEACGLQVAAASVALMDPGEAKDLVDEIVKRVNEIKGKSS
50S ribosomal protein L7Ae L7A2 123 Sulfolobus Acidocaldarius Dsm 639 PSYVKFEVPQELADKVLEAVKKAKDSGKIKKGTNETTKAVERSQAKLVVIAEDVQPEEIVAHLPLLCEEKKIPYVYVPSKKSLGEACGLQVAAASVALMDPGEAKDLVDEIVKRVNEIKGKSS
50S ribosomal protein L15 L15P 144 Sulfolobus Acidocaldarius Dsm 639 MVVRKEKKSRKYRGYRTHGWGTKGQHRDRGAQGGRQIGMHKEKWSWTVKFGEGWYGKHGFRNPTSKLVNAIGLRKLQEYIDNDKIKIEEENGKKVVDLAKYGYDKLLGGGNLRLPLVIKVAKATEKAKERVKEIGGEIILTSSE
50S ribosomal protein L21e L21E 97 Sulfolobus Acidocaldarius Dsm 639 VARSKGYRSKTRKLLEKKVREKGAIPKLSLLMHDYSQGEYVVVKINPSIHKGMPHRRYHGKVGLVVGKRGKAYEVKVNIGDKERVLIVRPEHLIPFN
DUF2280 domain-containing protein L45A 101 Sulfolobus Acidocaldarius Dsm 639 MKVVKYVLTAKIDYDGKEIEIKRSFRHRKNIFEFLKNADSNLKGALSEYAKQNKVKSSDLPLNEFITCGEIEEEQGVMRTECKGKEKVSVKIEVQTQKIAK
Conserved protein L46A 70 Sulfolobus Acidocaldarius Dsm 639 MLKHQKYVYVDIGDQKKFLKVRFLKSRSENNNPEAYVILDKISIKLPRNAKVIKYEDLPAEVKDKLKLKL
50S ribosomal protein L47A L47A 80 Sulfolobus Acidocaldarius Dsm 639 MKISNVESKYSMKVRGQELLIEEARNEKGEKIIIFQSLTSAKLLNNEEWKENTTDAKNVEKREDLPQDVRKITGKILSLI
50S ribosomal protein L3 AL3P 339 Sulfolobus Acidocaldarius Dsm 639 RKLSSPRRGSAGLRPRKRADEILPTPKNWPLVNLKEPKLLGFIGYKAGMTHVYMIDDKPTSPNYGKEVYTPVTIVESPPILGLALRAYHIDSKGELSVLVDYWANFEEGSLKYLKRKITSLKVDSSKMKEKLDLIQKNLNNITYMRLLVSTQPWLVPSLGKKRPEIVEIQIGGGSIQDQLNYGLSLLGKQIPVRDVFREGQLTDIIGVTKGKGFQGVIKRYSVVEFPRWHKHRKGSRKIGARGPSISTPSYVPQPGQLGFHRRTEYNKRIIKIGDNVNEINPAGGIVNYGLVKNTYLVIEGSVLGSRKRPLFLRYPIRPSWSPESAPKITYVNLASQQG
50S ribosomal protein L4 AL4P 251 Sulfolobus Acidocaldarius Dsm 639 KVSVLDLKGNQLEEIELPLFFSYPVRKDLIRRVFLSEFTKSLQPKGRDPLAGKRTSALSFGINLGIARVPRVKGSGEAALAPNTVGGRLAFPPTTEKRLVEEVNLKEKKLGIISALAATADPNFVKARGHRFTSNNVPIILVDDFENISKAKEIMDILKSIGVVDDIKRVKESKGVRAGKGKMRGRRYQIAKGPLIVVSNHKSPVVESASNIPGVNVVSANLVSVIHLAPGGHPGRLTIYTKSSINILRQR
50S ribosomal protein L5 AL5P 168 Sulfolobus Acidocaldarius Dsm 639 KENVMRRVVLDKVTVNIGVGESGERLQKAYQLVQELTGVKPVYTKGRKSIREFGVRKGAPIGVKATLRRQAAVEFLKKVLPAVNFRLKQSSFDNYGNVSFGIAEHVLIPGTRYDPEIGIFGMDVAITLVRPGYRTMKRKRKKASIPRRHRVTKEEAINFMKENFNVTI
50S ribosomal protein L6 AL6P 181 Sulfolobus Acidocaldarius Dsm 639 LKAAYIREEIQIPDKVKVSLENNVLKVKGPKGEVIKDFSYAKGIRIQLNEGKIILETTFADRRKKALLYSIIAHIKNMITGTINGYRYYLKVISTHFPISVKVSGDEVQVSNLIGEKNIRRAKILPGVKVTVKGEDIVVEGSDIYNVAQTAANIESSTKIVGYDRRIFSDGIYIYKKEVIG
50S ribosomal protein L18Ae ALX0 76 Sulfolobus Acidocaldarius Dsm 639 VKIFMVRGTAIFSASRFPTSQKFTKYVRALNEKQAIEYIYSQLGGKNKIKRYNIHIQEIKEVKEDEITDKTIRDLA
50S ribosomal protein L10e L10E 164 Sulfolobus Acidocaldarius Dsm 639 RPGRCYRKFSGPAYTRREYIPGIPMPKITKFVMGNVNGDYDYELRLITTEKGQIRHNALEAARVIALKYLSKKLASEQNFALVVTKYPHHVIRENKMMAFAGADRLQDGMRLSFGKPIGTAARLEKLGELVMYVRVKKEHLEAAKEALKIASSKLPIRTKIEIS
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2022-11-28
Deposition Author(s): Wang, Y.H. , Zhou, J.