9YPZ: Ribosomal protein L8
Vacant ribosome with P-site tRNA, substate 1, Structure Ia. Determined by electron microscopy at 2.9 Å resolution. Released 24 Dec 2025.
- Method
- Electron microscopy
- Resolution
- 2.9 Å
- Organisms
- Oryctolagus cuniculus, Homo sapiens
- Chains
- 82
- Atoms
- 213,916
- Mol. weight
- 3437.72 kDa
- Ligands
- SPD, ZN, ATP, MET
- Released
- 24 Dec 2025
Explore 9YPZ in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
9YPZ contains 602 α-helices and 545 β-strands across 75 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: 8 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-5 | 3 | |
| α-helix | 8-11 | 4 | |
| α-helix | 15-18 | 4 | |
| α-helix | 42-48 | 7 | |
| β-strand | 72-74 | 3 | 15 |
| α-helix | 78-80 | 3 | |
| α-helix | 84-92 | 9 | |
| β-strand | 97-98 | 2 | 92 |
| α-helix | 99 | 1 | |
| β-strand | 100-102 | 3 | 16 |
| β-strand | 110-112 | 3 | 15 |
| β-strand | 123-126 | 4 | 16 |
| β-strand | 128-129 | 2 | 15 |
| α-helix | 131-139 | 9 | |
| β-strand | 143-146 | 4 | 16 |
Chain A: 14 helices, 17 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-5 | 3 | |
| α-helix | 6-9 | 4 | |
| α-helix | 10-12 | 3 | |
| α-helix | 14-16 | 3 | |
| α-helix | 29-32 | 4 | |
| α-helix | 34-38 | 5 | |
| β-strand | 41-49 | 9 | 19 |
| β-strand | 58-64 | 7 | 19 |
| β-strand | 71-77 | 7 | 19 |
| α-helix | 78 | 1 | |
| β-strand | 79 | 1 | 20 |
| β-strand | 83 | 1 | 21 |
| β-strand | 87-90 | 4 | 19 |
| β-strand | 101-103 | 3 | 19 |
| α-helix | 104-106 | 3 | |
| β-strand | 112-114 | 3 | 19 |
| β-strand | 116 | 1 | 22 |
| β-strand | 126 | 1 | 22 |
| β-strand | 134-140 | 7 | 19 |
| α-helix | 141-143 | 3 | |
| β-strand | 145-149 | 5 | 19 |
| β-strand | 155-159 | 5 | 19 |
| β-strand | 163-166 | 4 | 19 |
| α-helix | 168 | 1 | |
| β-strand | 169 | 1 | 20 |
| α-helix | 174-176 | 3 | |
| α-helix | 182-190 | 9 | |
| α-helix | 201-203 | 3 | |
| β-strand | 224-225 | 2 | 23 |
| α-helix | 229-230 | 2 | |
| β-strand | 237-238 | 2 | 23 |
Chain aa: 5 helices, 5 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 20-22 | 3 | 121 |
| β-strand | 29-31 | 3 | 121 |
| β-strand | 36-43 | 8 | 122 |
| α-helix | 47-56 | 10 | |
| β-strand | 57 | 1 | 43 |
| α-helix | 62-65 | 4 | |
| β-strand | 66-73 | 8 | 122 |
| α-helix | 75-80 | 6 | |
| α-helix | 91-93 | 3 | |
| α-helix | 96-100 | 5 | |
Chain AA: 13 helices, 8 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-21 | 10 | |
| β-strand | 25 | 1 | 119 |
| α-helix | 35-37 | 3 | |
| β-strand | 38-41 | 4 | 119 |
| α-helix | 42 | 1 | |
| α-helix | 46 | 1 | |
| β-strand | 47-49 | 3 | 119 |
| α-helix | 51-66 | 16 | |
| α-helix | 71-73 | 3 | |
| β-strand | 74-78 | 5 | 120 |
| α-helix | 81-94 | 14 | |
| α-helix | 96 | 1 | |
| β-strand | 97-100 | 4 | 120 |
| α-helix | 102-104 | 3 | |
| β-strand | 121-124 | 4 | 120 |
| α-helix | 131-136 | 6 | |
| β-strand | 144-148 | 5 | 120 |
| β-strand | 159-162 | 4 | 120 |
| α-helix | 168-185 | 18 | |
| α-helix | 199-201 | 3 | |
| α-helix | 207-215 | 9 | |
Chain b: 7 helices, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-18 | 7 | |
| α-helix | 22-25 | 4 | |
| α-helix | 37-48 | 12 | |
| α-helix | 50-53 | 4 | |
| α-helix | 54-69 | 16 | |
| α-helix | 91-99 | 9 | |
| α-helix | 106-114 | 9 | |
Chain B: 18 helices, 20 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 9-10 | 2 | |
| α-helix | 20-22 | 3 | |
| α-helix | 32-36 | 5 | |
| α-helix | 40-41 | 2 | |
| β-strand | 42-43 | 2 | 25 |
| β-strand | 45-59 | 15 | 26 |
| β-strand | 71-80 | 10 | 26 |
| α-helix | 82-83 | 2 | |
| β-strand | 84-95 | 12 | 27 |
| β-strand | 98-106 | 9 | 27 |
| α-helix | 112-115 | 4 | |
| α-helix | 116-118 | 3 | |
| α-helix | 134-138 | 5 | |
| α-helix | 140-156 | 17 | |
| β-strand | 159-165 | 7 | 27 |
| α-helix | 168-170 | 3 | |
| β-strand | 180-184 | 5 | 27 |
| β-strand | 185-186 | 2 | 25 |
| α-helix | 190-199 | 10 | |
| β-strand | 204-205 | 2 | 27 |
| α-helix | 207-209 | 3 | |
| β-strand | 216-222 | 7 | 26 |
| α-helix | 223-224 | 2 | |
| β-strand | 225-229 | 5 | 28 |
| α-helix | 231-234 | 4 | |
| α-helix | 237-241 | 5 | |
| β-strand | 270-273 | 4 | 28 |
| β-strand | 276-288 | 13 | 26 |
| β-strand | 292-294 | 3 | 29 |
| β-strand | 297-299 | 3 | 29 |
| α-helix | 316 | 1 | |
| β-strand | 320 | 1 | 30 |
| β-strand | 324 | 1 | 30 |
| β-strand | 330-334 | 5 | 26 |
| β-strand | 344-349 | 6 | 26 |
| α-helix | 357-360 | 4 | |
| β-strand | 365-368 | 4 | 26 |
| α-helix | 382-389 | 8 | |
Chain bb: 4 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 12-17 | 6 | |
| β-strand | 32-36 | 5 | 127 |
| β-strand | 44-47 | 4 | 127 |
| β-strand | 54-55 | 2 | 128 |
| α-helix | 57-59 | 3 | |
| β-strand | 62-65 | 4 | 128 |
| α-helix | 71 | 1 | |
| β-strand | 72-73 | 2 | 128 |
| α-helix | 74 | 1 | |
| β-strand | 78-82 | 5 | 127 |
Chain BB: 12 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 24-27 | 4 | |
| β-strand | 28-34 | 7 | 124 |
| β-strand | 43-50 | 8 | 124 |
| α-helix | 51-52 | 2 | |
| β-strand | 53 | 1 | 125 |
| β-strand | 56 | 1 | 125 |
| α-helix | 58-62 | 5 | |
| β-strand | 66-70 | 5 | 124 |
| α-helix | 71-73 | 3 | |
| β-strand | 82-92 | 11 | 124 |
| β-strand | 95-105 | 11 | 124 |
| α-helix | 107-113 | 7 | |
| β-strand | 120-128 | 9 | 124 |
| β-strand | 134-142 | 9 | 124 |
| β-strand | 143 | 1 | 126 |
| α-helix | 144-146 | 3 | |
| α-helix | 155-157 | 3 | |
| α-helix | 158-177 | 20 | |
| α-helix | 181-188 | 8 | |
| α-helix | 192-201 | 10 | |
| β-strand | 207 | 1 | 126 |
| β-strand | 211-219 | 9 | 124 |
| α-helix | 220-223 | 4 | |
| α-helix | 225-232 | 8 | |
67 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 |
|---|
| 28S ribosomal RNA | 5 | RNA | 3601 | Oryctolagus cuniculus | |
| 5S ribosomal RNA | 7 | RNA | 120 | Oryctolagus cuniculus | |
| 5.8S ribosomal RNA | 8 | RNA | 156 | Oryctolagus cuniculus | |
| 18S ribosomal RNA | 9 | RNA | 1869 | Oryctolagus cuniculus | |
| Ribosomal protein L8 | A | protein | 257 | Oryctolagus cuniculus | G1TT27 (AlphaFold model) |
| Ribosomal protein L3 | B | protein | 403 | Oryctolagus cuniculus | G1TL06 (AlphaFold model) |
| 60S ribosomal protein L4 | C | protein | 425 | Oryctolagus cuniculus | G1SVW5 (AlphaFold model) |
| Large ribosomal subunit protein uL18 | D | protein | 297 | Oryctolagus cuniculus | P19949 (AlphaFold model) |
| 60S ribosomal protein L6 | E | protein | 291 | Oryctolagus cuniculus | G1SKF7 |
| 60S ribosomal protein L7a | G | protein | 319 | Oryctolagus cuniculus | G1STW0 |
| 60S ribosomal protein L9 | H | protein | 192 | Oryctolagus cuniculus | G1SWI6 |
| 60S ribosomal protein L10 | I | protein | 214 | Oryctolagus cuniculus | B7NZQ2 |
69 more molecules are not listed.
Sequence of entity 1 (5), FASTA
>9YPZ_1 28S ribosomal RNA (chains 5)
CGCGACCUCAGAUCAGACGUGGCGACCCGCUGAAUUUAAGCAUAUUAGUCAGCGGAGGAA
AAGAAACUAACCAGGAUUCCCUCAGUAACGGCGAGUGAACAGGGAAGAGCCCAGCGCCGA
AUCCCCGCCCCGCGGCGGGGCGCGGGAAAUGUGGCGUACGGAAGACCCACUCCCCGGCGC
CGGGGGGCCCAAGUCCUUCUGAUCGAGGCCCAGCCCGUGGACGGUGUGAGGCCGGUAGCG
GCCCCCGGCGCGCCGGGCCCGGGUCUUCCCGGAGUCGGGUUGCUUGGGAAUGCAGCCCAA
AGCGGGUGGUAAACUCCAUCUAAGGCUAAAUACCGGCACGAGACCGAUAGUCAACAAGUA
CCGUAAGGGAAAGUUGAAAAGAACUUUGAAGAGAGAGUUCAAGAGGGCGUGAAACCGUUA
AGAGGUAAACGGGUGGGGUCCGCGCAGUCCGCCCGGAGGAUUCAACCCGGCGGCGCGGUC
CGGCCGUGCCGGCGGGGCGGAUCUCCCGCUCCCGUCGGCGGGGGACCGCCCCCCGGCCGG
CGACCGGCCGCCGCCGGGCGCAUUUCCACCGCGGCGGUGCGCCGCGACCGGCUCCGGGAC
GGCUGGGAAGGCCCCGGCGGGGAAGGUGGCCCGGGGGCCCCGGGUGUUACAGCCCCGCCC
CGGCAGCAGCAGCUCGCCGAAUCCCGGGGCCGAGGGAGCGAGACCCGUGCGCCGCGCUCU
CCCCCCUCGGGGGGGCCGGGCCACCCCUCCCACGGCGCGACCGCUGGGGCGGACUGUCCA
GUGCGCCCCGGGCGGGUCGCGCCGUCGGGCCCGGGGGGCCACGCGUCCCCCGCGAGCGCA
CGGGGUCGGCGGCGAUGUCGGCUACCCACCCGACCCGUCUUGAAACACGGACCAAGGAGU
CUAACACGUGCGCGAGUCGGGGGCUACGAAAGCCGCCGUGGCGCAAUGAAGGUGAAGGCC
GGCGGCGCGCCGCCGGCCGAGGUGGGAUCCCGAGGCCUUCCAGUCCGCCGAGGGCGCACC
ACCGGCCCGUCUCGCCCGCCGCGCCGGGGAGGUGGAGCACGAGCGCACGUGUUAGGACCC
GAAAGAUGGUGAACUAUGCCUGGGCAGGGCGAAGCCAGAGGAAACUCUGGUGGAGGUCCG
UAGCGGUCCUGACGUGCGAAUCGGUCGUCCGACCUGGGUAUAGGGGCGAAAGACUAAUCG
AACCAUCUAGUAGCUGGUUCCCUCCAAAGUUUCCCUCAGGAUAGCUGGCGCUCUCCGCAG
UUUUAUCCGGUAAAGCGAAUGAUUAGAGGUCUUGGGGCCGAAACGAUCUCAACCUAUUCU
CAAACUUUAAAUGGGUAAGAAGCCCGGCUCGCUGGUGUGGAGCCGGGCGUGGAAUGCGAG
UGCCUAGUGGGCCACUUUUGGUAAGCAGAACUGGCGCUGCGGGAUGAACCGAACGCCGGG
UUAAGGCGCCCGAUGCCGACGCUCAUCAGACCCCAGAAAAGGUGUUGGUUGAUAUAGACA
GCAGGAUGGUGGCCAUGGAAGUCGGAAUCCGCUAAGGAGUGUGUAACAACUCACCUGCCG
AAUCAACUAGCCCUGAAAAUGGAUGGCGCUGGAGCGUCGGGCCCAUACCCGGCCGUCGCU
GGCAGUCGGCAGAGCGAGAAAGAGAGUGGCGCGGACGCUACGCCGCGACGAGUAGGAGGG
CCGCUGCGGUGAGCCUUGAAGCCUAGGGCGCGGGCCCGGGUGGAGCCGCCGCAGGUGCAG
AUCUUGGUGGUAGUAGCAAAUAUUCAAACGAGAACUUUGAAGGCCGAAGUGGAGAAGGGU
UCCAUGUGAACAGCAGUUGAACAUGGGUCAGUCGGUCCUGAGAGAUGGGCGAGCGCCGUU
CCGAAGGGACGGGCGAUGGCCUCCGUUGCCCUCAGCCGAUCGAAAGGGAGUCGGGUUCAG
AUCCCCGAAUCCGGAGUGGCGGAGAUGGGCGCCGCGAGGCGUCCAGUGCGGUAACGCGAC
CGAUCCCGGAGAAGCCGGCGGGAGCCCCGGGGAGAGUUCUCUUUUCUUUGUGAAGGGCAG
GGCGCCCUGGAAUGGGUUCGCCCCGAGAGAGGGGCCCGUGCCUUGGAAAGCGUCGCGGUU
CCGGCGGCGUCCGGUGAGCUCUCGCUGGCCCUUGAAAAUCCGGGGGAGAGGGUGUAAAUC
UCGCGCCGGGCCGUACCCAUAUCCGCAGCAGGUCUCCAAGGUGAACAGCCUCUGGCAUGU
UGGAACAAUGUAGGUAAGGGAAGUCGGCAAGCCGGAUCCGUAACUUCGGGAUAAGGAUUG
GCUCUAAGGGCUGGCAGCCGACUUAGAACUGGUGCGGACCAGGGGAAUCCGACUGUUUAA
UUAAAACAAAGCAUCGCGAAGGCCCGCGGCGGGUGUUGACGCGAUGUGAUUUCUGCCCAG
UGCUCUGAAUGUCAAAGUGAAGAAAUUCAAUGAAGCGCGGGUAAACGGCGGGAGUAACUA
UGACUCUCUUAAGGUAGCCAAAUGCCUCGUCAUCUAAUUAGUGACGCGCAUGAAUGGAUG
AACGAGAUUCCCACUGUCCCUACCUACUAUCCAGCGAAACCACAGCCAAGGGAACGGGCU
UGGCGGAAUCAGCGGGGAAAGAAGACCCUGUUGAGCUUGACUCUAGUCUGGCACGGUGAA
GAGACAUGAGAGGUGUAGAAUAAGUGGGAGGCCGGCCGCCGGUGAAAUACCACUACUCUG
AUCGUUUUUUCACUGACCCGGUGAGGCGGGGGGGCGAGCCGGGCUCUCGCUUCUGGCGCC
AAGCGCCCGGCCGGCCGGGCGCGACCCGCUCCGGGGACAGUGCCAGGUGGGGAGUUUGAC
UGGGGCGGUACACCUGUCAAACGGUAACGCAGGUGUCCUAAGGCGAGCUCAGGGAGGACA
GAAACCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUACGAAUA
CAGACCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAGGUG
UCAGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCG
CUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUU
GGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUUA
GUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACC
GCAGGUUCAGACAUUUGGUGUAUGUGCUUGGCUGAGGAGCCAAUGGGGCGAAGCUACCAU
CUGUGGGAUUAUGACUGAACGCCUCUAAGUCAGAAUCCCGCCCAGGCGGAACGAUAGCGC
CGGAGCCUCGGUUGGCCUCGGAUAGCCGGUCCCCCGCCGGGGUCCGGUGCGGAGAGCCCU
UCGUCCCGGGAAACGGGGCGGCCGGAAAGGGGGCCGCCCUCUCGCCCGUCACGCACCGCA
CGUUCGUGGGGAACCUGGCGCUAAACCAUUCGUAGACGACCUGCUUCUGGGUCGGGGUUU
CGUACGUAGCAGAGCAGCUGCUGCGAUCUAUUGAAAGUCAGCCCUCGACACAAGGGUUUG
U
Sequence of entity 2 (7), FASTA
>9YPZ_2 5S ribosomal RNA (chains 7)
GUCUACGGCCAUACCACCCUGAACGCGCCCGAUCUCGUCUGAUCUCGGAAGCUAAGCAGG
GUCGGGCCUGGUUAGUACUUGGAUGGGAGACCGCCUGGGAAUACCGGGUGCUGUAGGCUU
Sequence of entity 3 (8), FASTA
>9YPZ_3 5.8S ribosomal RNA (chains 8)
CGACUCUUAGCGGUGGAUCACUCGGCUCGUGCGUCGAUGAAGAACGCAGCUAGCUGCGAG
AAUUAAUGUGAAUUGCAGGACACAUUGAUCAUCGACACUUCGAACGCACUUGCGGCCCCG
GGUUCCUCCCGGGGCUACGCCUGUCUGAGCGUCGCU
Sequence of entity 4 (9), FASTA
>9YPZ_4 18S ribosomal RNA (chains 9)
UACCUGGUUGAUCCUGCCAGUAGCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAUGUCUA
AGUACGCACGGCCGGUACAGUGAAACUGCGAAUGGCUCAUUAAAUCAGUUAUGGUUCCUU
UGGUCGCUCGCUCCUCUCCCACUUGGAUAACUGUGGUAAUUCUAGAGCUAAUACAUGCCG
ACGGGCGCUGACCCCCUUCGCGGGGGGGAUGCGUGCAUUUAUCAGAUCAAAACCAACCCG
GUCAGCCCCUCUCCGGCCCCGGCCGGGGGGCGGGCGCCGGCGGCUUUGGUGACUCUAGAU
AACCUCGGGCCGAUCGCACGCCCCCCGUGGCGGCGACGACCCAUUCGAACGUCUGCCCUA
UCAACUUUCGAUGGUAGUCGCCGUGCCUACCAUGGUGACCACGGGUGACGGGGAAUCAGG
GUUCGAUUCCGGAGAGGGAGCCUGAGAAACGGCUACCACAUCCAAGGAAGGCAGCAGGCG
CGCAAAUUACCCACUCCCGACCCGGGGAGGUAGUGACGAAAAAUAACAAUACAGGACUCU
UUCGAGGCCCUGUAAUUGGAAUGAGUCCACUUUAAAUCCUUUAACGAGGAUCCAUUGGAG
GGCAAGUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAAUAGCGUAUAUUAAAGUUGC
UGCAGUUAAAAAGCUCGUAGUUGGAUCUUGGGAGCGGGCGGGCGGUCCGCCGCGAGGCGA
GCCACCGCCCGUCCCCGCCCCUUGCCUCUCGGCGCCCCCUCGAUGCUCUUAGCUGAGUGU
CCCGCGGGGCCCGAAGCGUUUACUUUGAAAAAAUUAGAGUGUUCAAAGCAGGCCCGAGCC
GCCUGGAUACCGCAGCUAGGAAUAAUGGAAUAGGACCGCGGUUCUAUUUUGUUGGUUUUC
GGAACUGAGGCCAUGAUUAAGAGGGACGGCCGGGGGCAUUCGUAUUGCGCCGCUAGAGGU
GAAAUUCUUGGACCGGCGCAAGACGGACCAGAGCGAAAGCAUUUGCCAAGAAUGUUUUCA
UUAAUCAAGAACGAAAGUCGGAGGUUCGAAGACGAUCAGAUACCGUCGUAGUUCCGACCA
UAAACGAUGCCGACCGGCGAUGCGGCGGCGUUAUUCCCAUGACCCGCCGGGCAGCUUCCG
GGAAACCAAAGUCUUUGGGUUCCGGGGGGAGUAUGGUUGCAAAGCUGAAACUUAAAGGAA
UUGACGGAAGGGCACCACCAGGAGUGGAGCCUGCGGCUUAAUUUGACUCAACACGGGAAA
CCUCACCCGGCCCGGACACGGACAGGAUUGACAGAUUGAUAGCUCUUUCUCGAUUCCGUG
GGUGGUGGUGCAUGGCCGUUCUUAGUUGGUGGAGCGAUUUGUCUGGUUAAUUCCGAUAAC
GAACGAGACUCUGGCAUGCUAACUAGUUACGCGACCCCCGAGCGGUCGGCGUCCCCCAAC
UUCUUAGAGGGACAAGUGGCGUUCAGCCACCCGAGAUUGAGCAAUAACAGGUCUGUGAUG
CCCUUAGAUGUCCGGGGCUGCACGCGCGCUACACUGACUGGCUCAGCGUGUGCCUACCCU
ACGCCGGCAGGCGCGGGUAACCCGUUGAACCCCAUUCGUGAUGGGGAUCGGGGAUUGCAA
UUAUUCCCCAUGAACGAGGAAUUCCCAGUAAGUGCGGGUCAUAAGCUUGCGUUGAUUAAG
UCCCUGCCCUUUGUACACACCGCCCGUCGCUACUACCGAUUGGAUGGUUUAGUGAGGCCC
UCGGAUCGGCCCCGCCGGGGUCGGCCCACGGCCCUGGCGGAGCGCUGAGAAGACGGUCGA
ACUUGACUAUCUAGAGGAAGUAAAAGUCGUAACAAGGUUUCCGUAGGUGAACCUGCGGAA
GGAUCAUUA
Sequence of entity 5 (A), FASTA
>9YPZ_5 Ribosomal protein L8 (chains A)
MGRVIRGQRKGAGSVFRAHVKHRKGAARLRAVDFAERHGYIKGIVKDIIHDPGRGAPLAK
VVFRDPYRFKKRTELFIAAEGIHTGQFVYCGKKAQLNIGNVLPVGTMPEGTIVCCLEEKP
GDRGKLARASGNYATVISHNPETKKTRVKLPSGSKKVISSANRAVVGVVAGGGRIDKPIL
KAGRAYHKYKAKRNCWPRVRGVAMNPVEHPFGGGNHQHIGKPSTIRRDAPAGRKVGLIAA
RRTGRLRGTKTVQEKEN
Sequence of entity 6 (B), FASTA
>9YPZ_6 Ribosomal protein L3 (chains B)
MSHRKFSAPRHGSLGFLPRKRSSRHRGKVKSFPKDDPSKPVHLTAFLGYKAGMTHIVREV
DRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRTFKTVFAEHISDECKRRFYK
NWHKSKKKAFTKYCKKWQDDAGKRQLDKDFSSMKKYCQVIRVLAHTQMRLLPLRQKKAHL
MEIQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKL
PRKTHRGLRKVACIGAWHPARVAFSVARAGQKGYHHRTEINKKIYKIGQGYLIKDGKLIK
NNASTDYDLSDKSINPLGGFVHYGEVTNDFVMLKGCVVGTKKRVLTLRKSLLVQTKRRAL
EKIDLKFIDTTSKFGHGRFQTVEEKKAFMGPLKKDRIAKEEGA
Sequence of entity 7 (C), FASTA
>9YPZ_7 60S ribosomal protein L4 (chains C)
MACARPLISVYSEKGESSGKNVTLPAVFKAPIRPDIVNFVHTNLRKNNRQPYAVSELAGH
QTSAESWGTGRAVARIPRVRGGGTHRSGQGAFGNMCRGGRMFAPTKTWRRWHRRVNTTQK
RYAICSALAASALPALVMSKGHRIEEVPELPLVVEDKVEGYKKTKEAVLLLKKLKAWNDI
KKVYASQRMRAGKGKMRNRRRIQRRGPCVIYNEDNGIVKAFRNIPGITLLNVTKLNILKL
APGGHVGRFCIWTESAFRKLDDLYGTWRKAASLKSNYNLPMHKMLNTDLSRILKSPEIQR
ALRAPRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQARNHKLRVERAAAALAA
KSDPKEAPAKKKPVVGKKVKKPRAVGIKQKKKPVVGRKAAAAKKPAADKKAADKRAGPED
KKPAA
Sequence of entity 8 (D), FASTA
>9YPZ_8 Large ribosomal subunit protein uL18 (chains D)
MGFVKVVKNKAYFKRYQVKFRRRREGKTDYYARKRLVIQDKNKYNTPKYRMIVRVTNRDI
ICQIAYARIEGDMIVCAAYAHELPKYGVKVGLTNYAAAYCTGLLLARRLLNRFGMDKIYE
GQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALKGAVDGGLSIPHSTKRF
PGYDSESKEFNAEVHRKHIMGQNVADYMRYLMEEDEDAYKKQFSQYIKNNVTPDMMEEMY
KKAHAAIRENPVYEKKPKREVKKKRWNRPKMSLAQKKDRVAQKKASFLRAQERAAES
Sequence of entity 9 (E), FASTA
>9YPZ_9 60S ribosomal protein L6 (chains E)
MAGEKAPAAKPDATKKSPAKKADHARGKAKKKTLAEKKPKKGKPHCSRNPVLVRGIGRYS
RSAMYSRKALYKRKYAAPKSRIERKKKREKVLATVTKPVGGDKNGGTRVVKLRKMPRYYP
TEDVPRKLLSHGKKPFSQHVRKLRASITPGTILIILTGRHRGKRVVFLKQLSSGLLLVTG
PLSLNRVPLRRTHQKFVIATSTKIDISGVKIPKHLTDAYFKKKKLRKPRHQEGEIFDTEK
EKYEITEQRKVDQKAVDSQILPKIKAVPQLQGYLRSVFALTNGVYPHKLVF
Sequence of entity 10 (G), FASTA
>9YPZ_10 60S ribosomal protein L7a (chains G)
MSSYRLGYCMKEERHNLVLCLWSQSPGILNSKCLWPFTNIHLLVGALPREGAGGAWGGGR
SEQLPTCSTTHHDFTWDKKVVNPLFEKRPKNFGIGQDIQPKRDLTRFVKWPRYIRLQRQR
AILYKRLKVPPAINQFTQVLDRQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGD
VPTKRPPVLRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCILKGK
ARLGRLVHRKTCTTVAFTQVNSEDKGALAKLVEAIRTNYNDRYDEIRRHWGGNVLGPKSV
ARIAKLEKAKAKELATKLG
Sequence of entity 11 (H), FASTA
>9YPZ_11 60S ribosomal protein L9 (chains H)
MKTILSNQTVDIPENVDISLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKW
WGNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGE
KYIRRVRMRPGVACSVSQAQKDELVLEGNDIELVSNSAALIQQATTVKNKDIRKFLDGIY
VSEKGTVQQADE
Sequence of entity 12 (I), FASTA
>9YPZ_12 60S ribosomal protein L10 (chains I)
MGRRPARCYRYCKNKPYPKSRFCRGVPDAKIRIFDLGRKKAKVDEFPLCGHMVSDEYEQL
SSEALEAARICANKYMVKSCGKDGFHIRVRLHPFHVIRINKMLSCAGADRLQTGMRGAFG
KPQGTVARVHIGQVIMSIRTKLQNKEHVVEALRRAKFKFPGRQKIHISKKWGFTKFNADE
FEDMVAEKRLIPDGCGVKYIPNRGPLDKWRALHS
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| SPD | Spermidine | C7 H19 N3 | 1 |
| ZN | Zinc ion | Zn | 6 |
| ATP | Adenosine-5'-triphosphate | C10 H16 N5 O13 P3 | 2 |
| MET | Methionine | C5 H11 N O2 S | 1 |
Primary citation
Structural mechanism of mRNA decoding by mammalian GTPase GTPBP1. Susorov, D., Miscicka, A., Golovenko, D. et al. Nat Commun (2025) 17:148-148. DOI 10.1038/s41467-025-66833-2 · PubMed
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
Browse structure collections
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