8VVT: Mammalian ribosomes
Mammalian ribosomes bound to Anisomycin in the rotated conformation. Determined by electron microscopy at 2.9 Å resolution. Released 30 Jul 2025.
- Method
- Electron microscopy
- Resolution
- 2.9 Å
- Organism
- Oryctolagus cuniculus
- Chains
- 84
- Atoms
- 221,459
- Mol. weight
- 3540.45 kDa
- Ligands
- GDP, ZN, SPD, ANM
- Released
- 30 Jul 2025
Explore 8VVT in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8VVT contains 612 α-helices and 610 β-strands across 80 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.
Chain A: 13 helices, 19 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-5 | 3 | |
| α-helix | 6-10 | 5 | |
| α-helix | 29-32 | 4 | |
| α-helix | 34-38 | 5 | |
| β-strand | 40-50 | 11 | 1 |
| β-strand | 57-64 | 8 | 1 |
| β-strand | 71-77 | 7 | 1 |
| α-helix | 78 | 1 | |
| β-strand | 79 | 1 | 2 |
| β-strand | 80 | 1 | 3 |
| β-strand | 82 | 1 | 3 |
| β-strand | 83 | 1 | 4 |
| β-strand | 87-91 | 5 | 1 |
| β-strand | 101-103 | 3 | 1 |
| α-helix | 108 | 1 | |
| β-strand | 112-114 | 3 | 1 |
| β-strand | 116 | 1 | 5 |
| β-strand | 126 | 1 | 5 |
| β-strand | 134-140 | 7 | 1 |
| α-helix | 142-144 | 3 | |
| β-strand | 145-149 | 5 | 1 |
| β-strand | 155-159 | 5 | 1 |
| β-strand | 163-166 | 4 | 1 |
| α-helix | 168 | 1 | |
| β-strand | 169 | 1 | 2 |
| α-helix | 174-176 | 3 | |
| α-helix | 182-190 | 9 | |
| α-helix | 198-200 | 3 | |
| α-helix | 201-203 | 3 | |
| β-strand | 225 | 1 | 6 |
| α-helix | 229-230 | 2 | |
| β-strand | 238 | 1 | 6 |
Chain AA: 6 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-18 | 7 | |
| α-helix | 22-24 | 3 | |
| α-helix | 37-48 | 12 | |
| α-helix | 54-75 | 22 | |
| α-helix | 91-100 | 10 | |
| α-helix | 106-115 | 10 | |
Chain AB: 11 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 6-8 | 3 | |
| α-helix | 12-21 | 10 | |
| β-strand | 25 | 1 | 7 |
| α-helix | 32-37 | 6 | |
| β-strand | 38-41 | 4 | 7 |
| β-strand | 47-49 | 3 | 7 |
| α-helix | 51-67 | 17 | |
| β-strand | 74-78 | 5 | 8 |
| α-helix | 84-94 | 11 | |
| α-helix | 96 | 1 | |
| β-strand | 97-100 | 4 | 8 |
| β-strand | 121-124 | 4 | 8 |
| α-helix | 131-139 | 9 | |
| β-strand | 144-146 | 3 | 8 |
| β-strand | 159-160 | 2 | 8 |
| α-helix | 168-184 | 17 | |
| α-helix | 194-195 | 2 | |
| α-helix | 199-202 | 4 | |
| α-helix | 207-217 | 11 | |
Chain AC: 4 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 20-22 | 3 | 188 |
| β-strand | 29-31 | 3 | 188 |
| β-strand | 36-43 | 8 | 189 |
| α-helix | 49-56 | 8 | |
| β-strand | 57 | 1 | 114 |
| α-helix | 62-64 | 3 | |
| β-strand | 66-73 | 8 | 189 |
| α-helix | 75-80 | 6 | |
| α-helix | 89-92 | 4 | |
Chain b: 12 helices, 18 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 15-38 | 24 | |
| β-strand | 44 | 1 | 67 |
| α-helix | 45-60 | 16 | |
| α-helix | 64-66 | 3 | |
| β-strand | 72-82 | 11 | 68 |
| α-helix | 96-97 | 2 | |
| β-strand | 99 | 1 | 67 |
| β-strand | 105-114 | 10 | 68 |
| β-strand | 118 | 1 | 68 |
| β-strand | 121-126 | 6 | 68 |
| α-helix | 138-155 | 18 | |
| α-helix | 163-177 | 15 | |
| β-strand | 180 | 1 | 69 |
| β-strand | 189-190 | 2 | 70 |
| β-strand | 191 | 1 | 71 |
| β-strand | 194 | 1 | 71 |
| α-helix | 207-211 | 5 | |
| β-strand | 223-225 | 3 | 70 |
| β-strand | 230-231 | 2 | 69 |
| β-strand | 246-249 | 4 | 72 |
| α-helix | 260-272 | 13 | |
| β-strand | 278-279 | 2 | 72 |
| α-helix | 280-282 | 3 | |
| α-helix | 286-298 | 13 | |
| β-strand | 302-304 | 3 | 72 |
| α-helix | 306-308 | 3 | |
| β-strand | 316-317 | 2 | 69 |
| β-strand | 322-324 | 3 | 70 |
| β-strand | 331-332 | 2 | 70 |
| α-helix | 354-358 | 5 | |
Chain B: 17 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-10 | 2 | |
| α-helix | 32-35 | 4 | |
| α-helix | 40-41 | 2 | |
| β-strand | 42-43 | 2 | 10 |
| β-strand | 45-60 | 16 | 11 |
| β-strand | 70-80 | 11 | 11 |
| α-helix | 82-83 | 2 | |
| β-strand | 84-95 | 12 | 12 |
| β-strand | 98-106 | 9 | 12 |
| α-helix | 112-115 | 4 | |
| α-helix | 116-118 | 3 | |
| α-helix | 133-137 | 5 | |
| α-helix | 140-155 | 16 | |
| β-strand | 159-165 | 7 | 12 |
| α-helix | 168-170 | 3 | |
| α-helix | 177-179 | 3 | |
| β-strand | 180-184 | 5 | 12 |
| β-strand | 185-186 | 2 | 10 |
| α-helix | 190-199 | 10 | |
| β-strand | 204-205 | 2 | 12 |
| α-helix | 207-209 | 3 | |
| β-strand | 216-222 | 7 | 11 |
| β-strand | 225-229 | 5 | 13 |
| α-helix | 231-234 | 4 | |
| α-helix | 237-241 | 5 | |
| β-strand | 270-273 | 4 | 13 |
| β-strand | 276-288 | 13 | 11 |
| β-strand | 292-293 | 2 | 14 |
| β-strand | 298-299 | 2 | 14 |
| α-helix | 316 | 1 | |
| β-strand | 320 | 1 | 15 |
| β-strand | 324 | 1 | 15 |
| β-strand | 330-335 | 6 | 11 |
| β-strand | 344-349 | 6 | 11 |
| α-helix | 357-360 | 4 | |
| β-strand | 365-368 | 4 | 11 |
| α-helix | 382-389 | 8 | |
Chain BA: 4 helices, 4 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 11-24 | 14 | |
| β-strand | 28 | 1 | 85 |
| α-helix | 31-40 | 10 | |
| β-strand | 45-48 | 4 | 85 |
| α-helix | 54-67 | 14 | |
| β-strand | 70-73 | 4 | 85 |
| α-helix | 78-84 | 7 | |
| β-strand | 93-95 | 3 | 85 |
Chain BB: 8 helices, 10 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 24-27 | 4 | |
| β-strand | 28-34 | 7 | 16 |
| β-strand | 43-50 | 8 | 16 |
| β-strand | 53 | 1 | 17 |
| β-strand | 56 | 1 | 17 |
| α-helix | 58-62 | 5 | |
| β-strand | 66-70 | 5 | 16 |
| α-helix | 71-74 | 4 | |
| β-strand | 82-91 | 10 | 16 |
| β-strand | 95-105 | 11 | 16 |
| α-helix | 107-113 | 7 | |
| β-strand | 120-128 | 9 | 16 |
| β-strand | 134-143 | 10 | 16 |
| α-helix | 158-177 | 20 | |
| α-helix | 181-188 | 8 | |
| α-helix | 192-201 | 10 | |
| β-strand | 207-217 | 11 | 16 |
| α-helix | 226-231 | 6 | |
72 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| L8 | A | protein | 257 | Oryctolagus cuniculus | G1TT27 (AlphaFold model) |
| uL3 | B | protein | 403 | Oryctolagus cuniculus | G1TL06 (AlphaFold model) |
| uL4 | C | protein | 425 | Oryctolagus cuniculus | A0A5F9C3C5 (AlphaFold model) |
| L5 | D | protein | 297 | Oryctolagus cuniculus | P19949 (AlphaFold model) |
| L6 | E | protein | 291 | Oryctolagus cuniculus | G1SKF7 |
| uL30 | F | protein | 247 | Oryctolagus cuniculus | G1TUB1 |
| eL8 | G | protein | 319 | Oryctolagus cuniculus | G1STW0 |
| uL6 | H | protein | 192 | Oryctolagus cuniculus | G1SWI6 |
| L10 | I | protein | 214 | Oryctolagus cuniculus | B7NZQ2 |
| L11 | J | protein | 178 | Oryctolagus cuniculus | G1TUB8 |
| L14 | L | protein | 218 | Oryctolagus cuniculus | G1SZ12 |
| L15 | M | protein | 204 | Oryctolagus cuniculus | G1T0C1 |
72 more molecules are not listed.
Sequence of entity 1 (A), FASTA
>8VVT_1 L8 (chains A)
MGRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHDPGRGAPLAK
VVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNVLPVGTMPEGTIVCCLEEKP
GDRGKLARASGNYATVISHNPETKKTRVKLPSGSKKVISSANRAVVGVVAGGGRIDKPIL
KAGRAYHKYKAKRNCWPRVRGVAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAA
RRTGRLRGTKTVQEKEN
Sequence of entity 2 (B), FASTA
>8VVT_2 uL3 (chains B)
MSHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIVREV
DRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRTFKTVFAEHISDECKRRFYK
NWHKSKKKAFTKYCKKWQDDAGKRQLDKDFSSMKKYCQVIRVLAHTQMRLLPLRQKKAHL
MEIQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKL
PRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIK
NNASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRAL
EKIDLKFIDTTSKFGHGRFQTVEEKKAFMGPLKKDRIAKEEGA
Sequence of entity 3 (C), FASTA
>8VVT_3 uL4 (chains C)
MACARPLISVYSEKGESSGKNVTLPAVFKAPIRPDIVNFVHTNLRKNNRQPYAVSELAGH
QTSAESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRGGRMFAPTKTWRRWHRRVNTTQK
RYAICSALAASALPALVMSKGHRIEEVPELPLVVEDKVEGYKKTKEAVLLLKKLKAWNDI
KKVYASQRMRAGKGKMRNRRRIQRRGPCVIYNEDNGIVKAFRNIPGITLLNVTKLNILKL
APGGHVGRFCIWTESAFRKLDDLYGTWRKAASLKSNYNLPMHKMLNTDLSRILKSPEIQR
ALRAPRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQARNHKLRVERAAAALAA
KSDPKEAPAKKKPVVGKKVKKPRAVGIKQKKKPVVGRKAAAAKKPAADKKAADKRAGPED
KKPAA
Sequence of entity 4 (D), FASTA
>8VVT_4 L5 (chains D)
MGFVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDI
ICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIYE
GQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALKGAVDGGLSIPHSTKRF
PGYDSESKEFNAEVHRKHIMGQNVADYMRYLMEEDEDAYKKQFSQYIKNNVTPDMMEEMY
KKAHAAIRENPVYEKKPKREVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERAAES
Sequence of entity 5 (E), FASTA
>8VVT_5 L6 (chains E)
MAGEKAPAAKPDATKKSPAKKADHARGKAKKKTLAEKKPKKGKPHCSRNPVLVRGIGRYS
RSAMYSRKALYKRKYAAPKSRIERKKKREKVLATVTKPVGGDKNGGTRVVKLRKMPRYYP
TEDVPRKLLSHGKKPFSQHVRKLRASITPGTILIILTGRHRGKRVVFLKQLSSGLLLVTG
PLSLNRVPLRRTHQKFVIATSTKIDISGVKIPKHLTDAYFKKKKLRKPRHQEGEIFDTEK
EKYEITEQRKVDQKAVDSQILPKIKAVPQLQGYLRSVFALTNGVYPHKLVF
Sequence of entity 6 (F), FASTA
>8VVT_6 uL30 (chains F)
MEGAEEKKKVPAVPETLKKKRRNFAELKIKRLRKKFAQKMLRKARRKLIYEKAKHYHKEY
RQMYRTEIRMARMARKAGNFYVPAEPKLAFVIRIRGINGVSPKVRKVLQLLRLRQIFNGT
FVKLNKASINMLRIVEPYIAWGYPNLKSVNELIYKRGYGKINKKRIALTDNTLIARSLGK
YNIICMEDLIHEIYTVGKHFKEANNFLWPFKLSSPRGGMKKKTTHFVEGGDAGNREDQIN
RLIRRMN
Sequence of entity 7 (G), FASTA
>8VVT_7 eL8 (chains G)
MSSYRLGYCMKEERHNLVLCLWSQSPGILNSKCLWPFTNIHLLVGALPREGAGGAWGGGR
SEQLPTCSTTHHDFTWDKKVVNPLFEKRPKNFGIGQDIQPKRDLTRFVKWPRYIRLQRQR
AILYKRLKVPPAINQFTQVLDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGD
VPTKRPPVLRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCILKGK
ARLGRLVHRKTCTTVAFTQVNSEDKGALAKLVEAIRTNYNDRYDEIRRHWGGNVLGPKSV
ARIAKLEKAKAKELATKLG
Sequence of entity 8 (H), FASTA
>8VVT_8 uL6 (chains H)
MKTILSNQTVDIPENVDISLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKW
WGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGE
KYIRRVRMRPGVACSVSQAQKDELVLEGNDIELVSNSAALIQQATTVKNKDIRKFLDGIY
VSEKGTVQQADE
Sequence of entity 9 (I), FASTA
>8VVT_9 L10 (chains I)
MGRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQL
SSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFG
KPQGTVARVHIGQVIMSIRTKLQNKEHVVEALRRAKFKFPGRQKIHISKKWGFTKFNADE
FEDMVAEKRLIPDGCGVKYIPNRGPLDKWRALHS
Sequence of entity 10 (J), FASTA
>8VVT_10 L11 (chains J)
MAQDQGEKENPMRELRIRKLCLNICVGESGDRLTRAAKVLEQLTGQTPVFSKARYTVRSF
GIRRNEKIAVHCTVRGAKAEEILEKGLKVREYELRKNNFSDTGNFGFGIQEHIDLGIKYD
PSIGIYGLDFYVVLGRPGFSIADKKRRTGCIGAKHRISKEEAMRWFQQKYDGIILPGK
Sequence of entity 11 (L), FASTA
>8VVT_11 L14 (chains L)
MVFRRFVEVGRVAYVSFGPHAGKLVAIVDVIDQNRALVDGPCTRVRRQAMPFKCMQLTDF
ILKFPHSARQKYVRKAWEKADINTKWAATRWAKKIEARERKAKMTDFDRYKVMKAKKMRN
RIIKNEVKKLQRAALLKASPKKAPVAKGAVAAAAAAAKVPAKKATAAGKKAAAQKAPAQK
APAQKAAGQKAAQPPKAQKGQKPPAQKAPAPKASGKKA
Sequence of entity 12 (M), FASTA
>8VVT_12 L15 (chains M)
MGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYV
IYRIRVRRGGRKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYW
VGEDSTYKFFEVILIDPFHKAIRRNPDTQWITKPVHKHREMRGLTSAGRKSRGLGKGHKF
HHTIGGSRRAAWRRRNTLQLHRYR
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| GDP | Guanosine-5'-diphosphate | C10 H15 N5 O11 P2 | 1 |
| ZN | Zinc ion | Zn | 8 |
| SPD | Spermidine | C7 H19 N3 | 1 |
| ANM | Anisomycin | C14 H19 N O4 | 1 |
| MG | Magnesium ion | Mg | 144 |
Primary citation
Rapid purification reveals structural insights into transient ribosome states. Loerch, S., Petrossian, E., Smith, P.R. et al. To be published.
Other PDB entries of the same protein (UniProt G1TT27 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 11IQ 2.4 Å, Rabbit 80S with eEF2,eIF5A and SERBP1
- 8SCB 2.5 Å, Terminating ribosome with SRI-41315
- 9MR4 2.65 Å, NAC: Ribosome nascent chain complex(Oxa1L)
- 9RHU 2.65 Å, Rabbit 80S ribosome in complex with eRF1-AAQ, stalled at the Stop codon in mutated F2A…
- 8RJB 2.69 Å, Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in…
- 8VVQ 2.7 Å, Codon sampling state of elongation inhibitor-treated mammalian ribosomes obtained from…
- 8RJD 2.79 Å, Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in…
- 8B6C 2.79 Å, Cryo-EM structure of ribosome-Sec61 in complex with cyclotriazadisulfonamide derivative…
- 6SGC 2.8 Å, Rabbit 80S ribosome stalled on a poly(A) tail
- 7UCK 2.8 Å, 80S translation initiation complex with ac4c(-1) mRNA and Harringtonine
- 9BDL 2.8 Å, 80S ribosome with angiogenin
- 9QQA 2.8 Å, Ternary complex of translating ribosome, NAC and NMT1
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