High resolution structure of the thermophilic 60S ribosomal subunit of Chaetomium thermophilum. Determined by electron microscopy at 2.38 Å resolution. Released 17 Dec 2025.
Explore 9I1W in 3D Show helices and sheets RCSB PDB PDBe
9I1W contains 324 α-helices and 310 β-strands across 45 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 7-11 | 5 | |
| α-helix | 15-18 | 4 | |
| α-helix | 42-47 | 6 | |
| α-helix | 65-68 | 4 | |
| β-strand | 72-74 | 3 | 14 |
| α-helix | 75-77 | 3 | |
| α-helix | 79-81 | 3 | |
| α-helix | 84-92 | 9 | |
| β-strand | 98-103 | 6 | 15 |
| α-helix | 105-107 | 3 | |
| β-strand | 111-113 | 3 | 14 |
| β-strand | 124-127 | 4 | 15 |
| β-strand | 129-130 | 2 | 14 |
| α-helix | 132-141 | 10 | |
| β-strand | 144-147 | 4 | 15 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 6-9 | 4 | |
| α-helix | 30-32 | 3 | |
| α-helix | 34-38 | 5 | |
| β-strand | 40-49 | 10 | 9 |
| β-strand | 58-64 | 7 | 9 |
| β-strand | 71-77 | 7 | 9 |
| α-helix | 78 | 1 | |
| β-strand | 79 | 1 | 10 |
| β-strand | 83 | 1 | 11 |
| β-strand | 87-91 | 5 | 9 |
| β-strand | 101-103 | 3 | 9 |
| α-helix | 104-106 | 3 | |
| β-strand | 112-114 | 3 | 9 |
| β-strand | 116 | 1 | 12 |
| β-strand | 126 | 1 | 12 |
| β-strand | 134-140 | 7 | 9 |
| β-strand | 145-149 | 5 | 9 |
| β-strand | 155-159 | 5 | 9 |
| β-strand | 163-166 | 4 | 9 |
| β-strand | 169 | 1 | 10 |
| α-helix | 174-176 | 3 | |
| α-helix | 182-189 | 8 | |
| α-helix | 201-203 | 3 | |
| β-strand | 224-225 | 2 | 13 |
| β-strand | 237-238 | 2 | 13 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 12-16 | 5 | |
| β-strand | 22 | 1 | 91 |
| α-helix | 23-26 | 4 | |
| α-helix | 37-52 | 16 | |
| α-helix | 56-58 | 3 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 33-35 | 3 | |
| α-helix | 40-41 | 2 | |
| β-strand | 42-43 | 2 | 16 |
| β-strand | 45-59 | 15 | 17 |
| β-strand | 71-80 | 10 | 17 |
| β-strand | 84-95 | 12 | 18 |
| β-strand | 98-106 | 9 | 18 |
| α-helix | 112-115 | 4 | |
| α-helix | 116-118 | 3 | |
| α-helix | 131-134 | 4 | |
| α-helix | 135-138 | 4 | |
| α-helix | 143-155 | 13 | |
| β-strand | 158-165 | 8 | 18 |
| α-helix | 167-169 | 3 | |
| β-strand | 179-183 | 5 | 18 |
| β-strand | 184-185 | 2 | 16 |
| α-helix | 189-197 | 9 | |
| β-strand | 200 | 1 | 18 |
| β-strand | 203-204 | 2 | 18 |
| α-helix | 206-208 | 3 | |
| β-strand | 215-221 | 7 | 17 |
| β-strand | 224-228 | 5 | 19 |
| α-helix | 230-233 | 4 | |
| α-helix | 236-240 | 5 | |
| β-strand | 269-272 | 4 | 19 |
| β-strand | 275-287 | 13 | 17 |
| α-helix | 308 | 1 | |
| β-strand | 322-326 | 5 | 17 |
| β-strand | 336-341 | 6 | 17 |
| β-strand | 357-360 | 4 | 17 |
| α-helix | 374-381 | 8 | |
| α-helix | 385-387 | 3 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 13-23 | 11 | |
| β-strand | 25-28 | 4 | 23 |
| α-helix | 30-39 | 10 | |
| β-strand | 44-47 | 4 | 23 |
| α-helix | 53-66 | 14 | |
| β-strand | 70-72 | 3 | 23 |
| α-helix | 77-83 | 7 | |
| β-strand | 92-97 | 6 | 23 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| β-strand | 6-11 | 6 | 20 |
| β-strand | 14-22 | 9 | 20 |
| α-helix | 23-24 | 2 | |
| α-helix | 25-28 | 4 | |
| α-helix | 33-43 | 11 | |
| β-strand | 64-65 | 2 | 21 |
| β-strand | 76-77 | 2 | 21 |
| β-strand | 89 | 1 | 21 |
| α-helix | 116-129 | 14 | |
| α-helix | 133-138 | 6 | |
| β-strand | 151-153 | 3 | 20 |
| α-helix | 166-176 | 11 | |
| α-helix | 179-187 | 9 | |
| β-strand | 190-191 | 2 | 22 |
| α-helix | 195-199 | 5 | |
| β-strand | 203-204 | 2 | 22 |
| β-strand | 210-213 | 4 | 20 |
| α-helix | 222-227 | 6 | |
| β-strand | 233-236 | 4 | 20 |
| α-helix | 242-245 | 4 | |
| α-helix | 247-249 | 3 | |
| β-strand | 255-258 | 4 | 20 |
| α-helix | 259-270 | 12 | |
| α-helix | 277-280 | 4 | |
| α-helix | 287-291 | 5 | |
| α-helix | 294-297 | 4 | |
| α-helix | 300-303 | 4 | |
| α-helix | 309-311 | 3 | |
| α-helix | 323-329 | 7 | |
| α-helix | 333-338 | 6 | |
| α-helix | 344-348 | 5 | |
| α-helix | 358-362 | 5 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 9-11 | 3 | |
| β-strand | 16-22 | 7 | 28 |
| α-helix | 33-35 | 3 | |
| α-helix | 36-52 | 17 | |
| β-strand | 57-59 | 3 | 28 |
| α-helix | 61-67 | 7 | |
| β-strand | 70 | 1 | 29 |
| β-strand | 74 | 1 | 29 |
| β-strand | 79-87 | 9 | 28 |
| β-strand | 97-103 | 7 | 28 |
| β-strand | 115-116 | 2 | 28 |
| Element | Residues | Length | Sheet |
|---|---|---|---|
| α-helix | 10-15 | 6 | |
| α-helix | 21-24 | 4 | |
| α-helix | 30-37 | 8 | |
| β-strand | 50-55 | 6 | 24 |
| β-strand | 60-68 | 9 | 24 |
| β-strand | 71-77 | 7 | 24 |
| α-helix | 81-86 | 6 | |
| α-helix | 95-113 | 19 | |
| α-helix | 134 | 1 | |
| β-strand | 135-137 | 3 | 25 |
| β-strand | 140-142 | 3 | 25 |
| α-helix | 143-145 | 3 | |
| β-strand | 146 | 1 | 26 |
| β-strand | 148-150 | 3 | 24 |
| α-helix | 162-172 | 11 | |
| β-strand | 175 | 1 | 26 |
| β-strand | 186-187 | 2 | 27 |
| β-strand | 192-193 | 2 | 27 |
| α-helix | 197-202 | 6 | |
| α-helix | 205-217 | 13 | |
| α-helix | 219-225 | 7 | |
| α-helix | 227-231 | 5 | |
| α-helix | 239-250 | 12 | |
| α-helix | 267-276 | 10 | |
| α-helix | 280-283 | 4 | |
| α-helix | 284-300 | 17 |
36 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|---|---|---|---|---|
| 26S rRNA | 1 | RNA | 3337 | Thermochaetoides thermophila DSM 1495 | |
| 5S RNA | 3 | RNA | 120 | Thermochaetoides thermophila DSM 1495 | |
| 5.8S RNA | 4 | RNA | 156 | Thermochaetoides thermophila DSM 1495 | |
| E-site tRNA (5'-R(P*CP*CP*A)-3') | 9 | RNA | 3 | Thermochaetoides thermophila DSM 1495 | |
| 60S ribosomal protein L2-like protein | LA | protein | 254 | Thermochaetoides thermophila DSM 1495 | G0S4P8 (AlphaFold model) |
| 60S ribosomal protein L3-like protein | LB | protein | 392 | Thermochaetoides thermophila DSM 1495 | G0RXW1 (AlphaFold model) |
| 60S ribosomal protein L4-like protein | LC | protein | 365 | Thermochaetoides thermophila DSM 1495 | G0SFC3 (AlphaFold model) |
| 60S ribosomal protein l5-like protein | LD | protein | 304 | Thermochaetoides thermophila DSM 1495 | G0SEG2 (AlphaFold model) |
| 60S ribosomal protein L6 | LE | protein | 200 | Thermochaetoides thermophila DSM 1495 | G0S0D6 |
| 60S ribosomal protein l7-like protein | LF | protein | 249 | Thermochaetoides thermophila DSM 1495 | G0SFL0 |
| 60S ribosomal protein L8 | LG | protein | 262 | Thermochaetoides thermophila DSM 1495 | G0SAJ9 |
| 60S ribosomal protein l9-like protein | LH | protein | 192 | Thermochaetoides thermophila DSM 1495 | G0S0E5 |
38 more molecules are not listed.
>9I1W_1 26S rRNA (chains 1) AGGUUGACCUCGGAUCAGGUAGGAGGACCCGCUGAACUUAAGCAUAUCAAUAAGCGGAGG AAAAGAAACCAACAGGGAUUGCCCUAGUAACGGCGAGUGAAGCGGCAACAGCUCAAAUUU GAAAGCUGGCUUCGGCCCGCGUUGUAAUUUGGAGAGGAUGCUUUGGGCGAGGCUCCUUCU GAGUUCCCUGGAACGGGACGCCACAGAGGGUGAGAGCCCCGUAUAGUUGGAAGCCAAGCC UGUGUAAAGCUCCUUCGACGAGUCGAGUAGUUUGGGAAUGCUGCUCAAAAUGGGAGGUAA AUUUCUUCUAAAGCUAAAUACCGGCCAGAGACCGAUAGCGCACAAGUAGAGUGAUCGAAA GAUGAAAAGCACUUUGAAAAGAGGGUUAAAUAGCACGUGAAAUUGUUGAAAGGGAAGCGC UUGUGACCAGACUUGCGCCCGGCGGAUCAUCCGGUGUUCUCACCGGUGCACUCCGCCGGG CUCAGGCCAGCAUCGGUUCUGGCGGGGGGAUAAAGGCCCAGGGAAUGUGGCUCCUCCGGG AGUGUUAUAGCCCUGGGUGUAAUACCCUCGCCGGGACCGAGGACCGCGCUCUGCAAGGAU GCUGGCGUAAUGGUCACCAGCGACCCGUCUUGAAACACGGACCAAGGAGUCAAGGUUUUG CGCGAGUGUUUGGGUGUAAAACCCGCACGCGUAAUGAAAGUGAACGUAGGUGAGAGCUUC GGCGCAUCAUCGACCGAUCCUGAUGUAUUCGGAUGGAUUUGAGUAGGAGCGUUAAGCCUU GGACCCGAAAGAUGGUGAACUAUGCUUGGAUAGGGUGAAGCCAGAGGAAACUCUGGUGGA GGCUCGCAGCGGUUCUGACGUGCAAAUCGAUCGUCAAAUCUGAGCAUGGGGGCGAAAGAC UAAUCGAACCAUCUAGUAGCUGGUUACCGCCGAAGUUUCCCUCAGGAUAGCAGUGUCGAC CUUCAGUUUUAUGAGGUAAAGCGAAUGAUUAGGGACUCGGGGGCGAUUUUUAGCCUUCAU CCAUUCUCAAACUUUAAAUAUGUAAGAAGCCCUUGUUACUUAACUGAACGUGGGCAUUCG AAUGUAUCGACACUAGUGGGCCAUUUUUGGUAAGCAGAACUGGCGAUGCGGGAUGAACCG AACGCGGGGUUAAGGUGCCGGAGUGGACGCUCAUCAGACACCACAAAAGGCGUUAGUACA UCUUGACAGCAGGACGGUGGCCAUGGAAGUCGGAAUCCGCUAAGGACUGUGUAACAACUC ACCUGCCGAAUGUACUAGCCCUGAAAAUGGAUGGCGCUCAAGCGUCCCACCCAUACCCCG CCCUCAGGGUAGAAACGAUGCCCUGAGGAGUAGGCGGCCGUGGAGGUCAGUGACGAAGCC UAGGGCGUGAGCCCGGGUCGAACGGCCUCUAGUGCAGAUCUUGGUGGUAGUAGCAAAUAC UUCAAUGAGAACUUGAAGGACCGAAGUGGGGAAAGGUUCCAUGUGAACAGCGGUUGGACA UGGGUUAGUCGAUCCUAAGCCAUAGGGAAGUUCCGUUUCAAAGGGGCACUCGUGCCCCGU GUGGCGAAAGGGAAGCCGGUUAAUAUUCCGGCACCUGGAUGUGGGUUUUGCGCGGCAACG CAACUGAACGCGGAGACGACGGCGGGGGCCCCGGGCAGAGUUCUCUUUUCUUCUUAACGG UCUAUCACCCUGGAAACAGUUUGUCUGGAGAUAGGGUUUAAUGGCCGGAAGAGCCCGACA CUUCUGUCGGGUCCGGUGCGCUCUCGACGUCCCUUGAAAAUCCGCGGGAGGGAAUAAUUC UCACGCCAGGUCGUACUCAUAACCGCAGCAGGUCCCCAAGGUGAACAGCCUCUGGUUGAU AGAACAAUGUAGAUAAGGGAAGUCGGCAAAAUAGAUCCGUAACUUCGGGAAAAGGAUUGG CUCUAAGGGUUGGGCACGUUGGGCUUUGGGCGGACGCCCUGGGAGCAGAGGGCCUCUAGC CGGGCAACCGGCCGGCGGCCCUCAGCACCCGGGGUUGAAGCCCUUAGCAGGCUUCGGCCG UCCGGCGUGCGGUUAACAACCAACUUAGAACUGGUACGGACAGGGGGAAUCUGACUGUCU AAUUAAAACAUAGCAUUGCGAUGGCCAGAAAGUGGUGUUGACGCAAUGUGAUUUCUGCCC AGUGCUCUGAAUGUCAAAGUGAAGAAAUUCAACCAAGCGCGGGUAAACGGCGGGAGUAAC UAUGACUCUCUUAAGGUAGCCAAAUGCCUCGUCAUCUAAUUAGUGACGCGCAUGAAXGGA UUAACGAGAUUCCCACUGUCCCUAUCUACUAUCUAGCGAAACCACAGCCAAGGGAACGGG CUUGGCAAAAUCAGCGGGGAAAGAAGACCCUGUUGAGCUUGACUCUAGUUUGACAUUGUG AAAAGACAUAGGAGGUGUAGAAUAGGUGGGAGCUUCGGCGCCAGUGAAAUACCACUACUC CUAUUGUUUUUUUACUUAUUCAAUGAAGCGGGGCUGGACUUGCGUCCAACUUCUGGAGUU AAGGUCCUUCGCGGGCCGACCCGGGUUGAAGACAUUGUCAGGUGGGGAGUUUGGCUGGGG CGGCACAUCUGUUAAACCAUAACGCAGGUGUCCUAAGGGGGGCUCAUGGAGAACAGAAAU CUCCAGUAGAACAAAAGGGUAAAAGUCCCCUUGAUUUUGAUUUUCAGUGXGAAUACAAAC CAUGAAAGUGUGGCCUAUCGAUCCUUUAGUCCCUCGAAAUUUGAGGCUAGAGGUGCCAGA AAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUU UGAUCCUUCGAUGUCGGCUCUUCCUAUCAUACCGAAGCAGAAUUCGGUAAGCGUUGGAUU GUUCACCCACUAAUAGGGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUUAGUUUU ACCCUACUGAUGAACUCGUCGCAAUGGUAAUUCAGCUUAGUACGAGAGGAACCGCUGAUU CAGAUAAUUGGUUUUUGCGGUUGUCCGACCGGGCAGUGCCGCGAAGCUACCAUCUGCUGG AUAAUGGCUGAACGCCUCUAAGUCAGAAUCCAUGCCAGAACGCGACGAUACUACCCGCAC GUUGUAGACGUAUAAGAAUAGGCUCCGGCCUCGUAUCCUAGCAGGCGAUUCCUCCGCCGG CCUCGAAGUGGCCGUCGGUAAUUCGCGUAUUGCAAUUUAGACACGCGCGGGAUCAAAUCC UUUGCAGACGACUUAGAUGUGCGAAAGGGUCCUGUAAGCAGUAGAGUAGCCUUGUUGUUA CGAUCUGCUGAGGGUAAGCCCUCCUUCGCCUAGAUUU
>9I1W_2 5S RNA (chains 3) ACAUACGACCAUACCUAGUGGAAAACUCGGGAUCCCGUCCGCUCUCCCAUAGAUAGGCCA CUAAGGGCGGGGUUAGUACUCAGGUCGGUGACGACUGGGGAAUCCCCCGUGUUGUAUGUU
>9I1W_3 5.8S RNA (chains 4) AAACUUUCAACAACGGAUCUCUUGGUUCUGGCAUCGAUGAAGAACGCAGCGAAAUGCGAU AAGUAAUGUGAAUUGCAGAAUUCCGUGAAUCAUCGAAUCUUUGAACGCACAUUGCGCCCG CCGGUAUUCCGGCGGGCAUGCCUGUUCGAGCGUCAU
>9I1W_4 E-site tRNA (5'-R(P*CP*CP*A)-3') (chains 9) CCA
>9I1W_5 60S ribosomal protein L2-like protein (chains LA) MGRVIRNQRKGRGSVFTAHTRLRKAPAKFRPLDYAERHGYIRGIVKEIIHDPGRGAPLAR VVFRSPYKYKQITETFIANEGMYTGQFIYAGKNAALTVGNILPLSSVPEGTVVSNVEEKP GDRGALGRTSGNYVTVVGHNPDEGKTRIKLPSGAKKVVPSSSRGMIGIVAGGGRTDKPLL KASRAKHKFAVKRNRWPKTRGVAMNPVDHPHGGGNHQHIGKASTISRYAAQGQKAGLIAA RRTGLLRGTQKTKE
>9I1W_6 60S ribosomal protein L3-like protein (chains LB) MSHRKYEAPRHGSLAFLPRKRAARHRGRVKSFPKDDPKKPVHLTAAMGYKAGMTTIVRDL DRPGAKAHKKEVVEAVTIIDCPPMVVVGLVGYIETPRGLRSLTTVWAEHLSDEVKRRFYK NWYKSKKKAFTKYAKKYAENNGASITRELERIKKYCTVVRVLAHTQIRKTPLKQKKAHLM EIQINGGSVADKVEFGRSLFEKPVTIDTIFEKDEMIDVIAVTKGHGFVGVTARWGTKKLP RKTHKGLRKVACIGAWHPSHVQWTVARAGQMGYHHRTSVNHKIYRIGKGDDEANASTETD LTKKKITPMGGFVRYGEVNNDYVMIKGSVPGVKKRIMTLRKSLFTHTSRKALEKVELKWI DTSSEFGHGAFQTAAEKKQFMGTLKKDLQTSA
>9I1W_7 60S ribosomal protein L4-like protein (chains LC) MASRPTVTVFGADGKPTGATEVLPKVFSAPIRPDIVKHVHTGMAKNKRQPYAVSEKAGHQ TSAESWGTGRAVARIPRVSGGGTHRAGQGAFGNMCRSGRMFAPTKIWRKWHVKINQGQKR FATASALAASAVAPLLMARGHQVSTVPEVPLVVDSAAVAGDAVAKTAAAYKLLKAIGAGP DVEKVKKSKKLRAGKGKMRGRRHRQRRGPLIVYSPEHDGKELVKGFRNIPGVETCPVDAL NLLQLAPGGHLGRFIVWTSAAIKQLDAVYESKKGFFLPANIVSQADLSRLINSTEIQSVL RAPKGEARTKRACVQKKNPLRNKQIMLRLNPYASTFAKEKLGEVKAEEGKPPKVPASFKE LLHEA
>9I1W_8 60S ribosomal protein l5-like protein (chains LD) MAFHKLVKNSAYYSRFQTKFKRRRQGKTDYYARKRLITQAKNKYNAPKYRLVVRFTNRDI ITQMVTSEINGDKIFAAAYSHELRAYGINHGLTNWAAAYATGLLLARRVLAKLGLDKTFT GVEEPNGEYTLTEAAETEDGERRPFKAILDVGLARTSTGARVFGVMKGASDGGIFIPHSE NRFPGYDIETEELDTEVLKKYIYGGHVAEYMETLADDDEERYKSQFVKYIEDDVEADSLE ELYAEAHKQIRADPFRKYVSDAPKKSKEEWKAESLKYKKAKLSREERKARVEAKIKQLLA EQDE
>9I1W_9 60S ribosomal protein L6 (chains LE) MSAAPTTKTFGKGTRTVPAPSEKAQKWYPAEDEAQPKKVRKAVRPWTPRKSLQPGTVLIL LAGRFRGKRVVLLKCLDQGVLLVTGPFKINGVPLRRVNARYVIATSVKVDLTGVDQAKID EVAQPKYFTAEKAKEKASEEAFFKQGEKPQKKPVSSTRAADQKAIDKALIANIKKVDMLA SYLASSFSLRKGDKPHLMKF
>9I1W_10 60S ribosomal protein l7-like protein (chains LF) MSSTTVPTQNDILVPETLLKKRKSQEKARAERAAALEKRKQANKEKRQVIFKRAEKYVKE YREQEREKIRLARIAKQQGSFHIPAEAKLVFVIRIKGINKIPPKPRKILQLLRLRQINNG VFVKVTKATAEMIKIVEPWVAYGYPNLKSVRELIYKRGYGKVNGQRIPLTDNAIIEENLG KYGIICIEDLIHEIFTVGPNFKQAANFLWPFKLSNPNGGFRPRKFKHFIEGGDLGNREEH INALIRAMN
>9I1W_11 60S ribosomal protein L8 (chains LG) MPPKSGKKVAPAPFPQGKAGAKKAPKNPLLEKRPRNFGIGQDIQPKRNLSRMVKWPEYIR LQRQKKILRMRLKVPPAIAQFQYTLDKNLAAQAFKLLNKYRPETKQEKKERLLREATAIK EGKKKEDVSKKPYTVKYGLNHVVGLIENKKASLVLIANDVDPIELVVFLPALCRKMGIPY AIIKGKARLGTLVHKKTAAVVAITEVRSEDKNELAKLISAVKEGYLEKVEDTRKRWGGGI MGFKAQKREEKRKKSLETAIKV
>9I1W_12 60S ribosomal protein l9-like protein (chains LH) MRYIHSEETIPVPENLKVSIKSRLVTVEGPRGKLQKDLSHIAVNFSVVKKGVIGLEIHHG SRKDVAALRTVRTIINNMIIGVTKGFKYKMRYVYAHFPINVNVEKNAETGCYEVEIRNFI GEKIVRKVVMAPGVEVEISKAQKDELILSGNSLEAVSQSAADIQQICKVRNKDIRKFLDG IYVSEKGNIVED
Water and common crystallization additives (K) are not listed.
Pseudouridine increases ribosome stability in a thermophilic eukaryote. Wild, K., Klein, M., Burkard, A. et al. Nucleic Acids Res (2025) 53. DOI 10.1093/nar/gkaf1368 · PubMed
Other PDB entries of the same protein (UniProt G0S4P8 (AlphaFold model), which also has an AlphaFold model), best resolution first:
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