8I9V: Brix domain-containing protein
Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - State Dbp10-2. Determined by electron microscopy at 3.1 Å resolution. Released 17 May 2023.
- Method
- Electron microscopy
- Resolution
- 3.1 Å
- Organism
- Chaetomium thermophilum
- Chains
- 56
- Atoms
- 138,001
- Mol. weight
- 3255.72 kDa
- Ligands
- GTP, ZN
- Released
- 17 May 2023
Explore 8I9V in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
8I9V contains 564 α-helices and 437 β-strands across 53 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 CA: 7 helices, 17 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 26 | 1 | 26 |
| β-strand | 36-40 | 5 | 27 |
| α-helix | 46-56 | 11 | |
| β-strand | 62-66 | 5 | 27 |
| α-helix | 76-83 | 8 | |
| β-strand | 88-95 | 8 | 27 |
| β-strand | 99-106 | 8 | 27 |
| β-strand | 112-121 | 10 | 27 |
| β-strand | 133 | 1 | 28 |
| β-strand | 136 | 1 | 29 |
| α-helix | 137-138 | 2 | |
| β-strand | 139-141 | 3 | 27 |
| α-helix | 144-148 | 5 | |
| α-helix | 150-162 | 13 | |
| β-strand | 169 | 1 | 26 |
| β-strand | 173 | 1 | 29 |
| β-strand | 178-184 | 7 | 27 |
| β-strand | 189-198 | 10 | 27 |
| β-strand | 199 | 1 | 30 |
| β-strand | 229-233 | 5 | 27 |
| β-strand | 237-246 | 10 | 27 |
| β-strand | 254-257 | 4 | 27 |
| α-helix | 264-294 | 31 | |
| α-helix | 311-314 | 4 | |
Chain Cb: 37 helices, 26 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 18-22 | 5 | |
| α-helix | 92-95 | 4 | |
| α-helix | 99-108 | 10 | |
| α-helix | 115-125 | 11 | |
| β-strand | 129-133 | 5 | 1 |
| α-helix | 140-152 | 13 | |
| β-strand | 158 | 1 | 2 |
| β-strand | 163-166 | 4 | 1 |
| α-helix | 170-183 | 14 | |
| β-strand | 191-194 | 4 | 1 |
| α-helix | 202-208 | 7 | |
| β-strand | 213-216 | 4 | 1 |
| α-helix | 218-228 | 11 | |
| α-helix | 232-234 | 3 | |
| β-strand | 237-241 | 5 | 1 |
| α-helix | 243-248 | 6 | |
| α-helix | 252-261 | 10 | |
| β-strand | 267-272 | 6 | 1 |
| α-helix | 277-286 | 10 | |
| β-strand | 290-293 | 4 | 1 |
| β-strand | 305-311 | 7 | 3 |
| α-helix | 314-316 | 3 | |
| α-helix | 317-323 | 7 | |
| α-helix | 324-328 | 5 | |
| α-helix | 331-332 | 2 | |
| β-strand | 334 | 1 | 4 |
| β-strand | 369-372 | 4 | 3 |
| α-helix | 376-389 | 14 | |
| β-strand | 391 | 1 | 4 |
| β-strand | 393-395 | 3 | 3 |
| α-helix | 402-413 | 12 | |
| β-strand | 419-422 | 4 | 3 |
| α-helix | 425-429 | 5 | |
| α-helix | 431-432 | 2 | |
| β-strand | 435 | 1 | 5 |
| β-strand | 437-440 | 4 | 3 |
| α-helix | 447-454 | 8 | |
| β-strand | 457 | 1 | 5 |
| β-strand | 464-470 | 7 | 3 |
| α-helix | 475-485 | 11 | |
| β-strand | 489-491 | 3 | 3 |
| β-strand | 504-507 | 4 | 3 |
| β-strand | 508 | 1 | 6 |
| α-helix | 511-527 | 17 | |
| α-helix | 529-548 | 20 | |
| α-helix | 550-553 | 4 | |
| α-helix | 554-565 | 12 | |
| β-strand | 572 | 1 | 6 |
| α-helix | 573 | 1 | |
| α-helix | 574-576 | 3 | |
| α-helix | 579-595 | 17 | |
| α-helix | 616-627 | 12 | |
| α-helix | 630-631 | 2 | |
| β-strand | 795-797 | 3 | 7 |
| β-strand | 803-805 | 3 | 7 |
| α-helix | 812-819 | 8 | |
| α-helix | 824-826 | 3 | |
| β-strand | 831 | 1 | 2 |
| α-helix | 832-833 | 2 | |
| α-helix | 834-839 | 6 | |
| α-helix | 855-860 | 6 | |
| β-strand | 863 | 1 | 117 |
| α-helix | 866-879 | 14 | |
Chain CB: 13 helices, 11 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 20-39 | 20 | |
| β-strand | 46-48 | 3 | 33 |
| α-helix | 53-59 | 7 | |
| β-strand | 61-68 | 8 | 34 |
| α-helix | 75-78 | 4 | |
| β-strand | 81-83 | 3 | 35 |
| β-strand | 97-101 | 5 | 36 |
| α-helix | 106-112 | 7 | |
| α-helix | 120-123 | 4 | |
| β-strand | 124-129 | 6 | 36 |
| α-helix | 130-135 | 6 | |
| α-helix | 140-149 | 10 | |
| β-strand | 152-156 | 5 | 36 |
| α-helix | 159-161 | 3 | |
| α-helix | 163-166 | 4 | |
| α-helix | 179 | 1 | |
| β-strand | 180-182 | 3 | 36 |
| α-helix | 217-219 | 3 | |
| α-helix | 220-228 | 9 | |
| β-strand | 231-233 | 3 | 35 |
| β-strand | 240-247 | 8 | 34 |
| α-helix | 252-269 | 18 | |
| β-strand | 278-284 | 7 | 34 |
| β-strand | 290-294 | 5 | 34 |
Chain Cc: 13 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 11-14 | 4 | |
| α-helix | 19-34 | 16 | |
| α-helix | 36-40 | 5 | |
| α-helix | 44-59 | 16 | |
| α-helix | 64-75 | 12 | |
| α-helix | 76-78 | 3 | |
| α-helix | 83-85 | 3 | |
| α-helix | 86-99 | 14 | |
| α-helix | 106-125 | 20 | |
| β-strand | 128 | 1 | 8 |
| β-strand | 150 | 1 | 8 |
| α-helix | 152-162 | 11 | |
| β-strand | 172-175 | 4 | 9 |
| β-strand | 179 | 1 | 10 |
| β-strand | 182 | 1 | 10 |
| β-strand | 185-188 | 4 | 9 |
| α-helix | 191-208 | 18 | |
| α-helix | 216-235 | 20 | |
| α-helix | 239-249 | 11 | |
Chain CC: 17 helices, 6 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 123-125 | 3 | |
| β-strand | 138-140 | 3 | 41 |
| β-strand | 148-150 | 3 | 41 |
| α-helix | 152-154 | 3 | |
| α-helix | 157-159 | 3 | |
| β-strand | 185-188 | 4 | 42 |
| β-strand | 194-196 | 3 | 42 |
| α-helix | 203-211 | 9 | |
| β-strand | 217-221 | 5 | 43 |
| β-strand | 228-230 | 3 | 43 |
| α-helix | 233-244 | 12 | |
| α-helix | 275-277 | 3 | |
| α-helix | 278-280 | 3 | |
| α-helix | 285-300 | 16 | |
| α-helix | 309-315 | 7 | |
| α-helix | 334-336 | 3 | |
| α-helix | 341-348 | 8 | |
| α-helix | 350-352 | 3 | |
| α-helix | 358-360 | 3 | |
| α-helix | 364-372 | 9 | |
| α-helix | 374 | 1 | |
| α-helix | 390-392 | 3 | |
| α-helix | 399-411 | 13 | |
Chain Cd: 14 helices, 15 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 14-17 | 4 | |
| α-helix | 21-52 | 32 | |
| α-helix | 55-63 | 9 | |
| α-helix | 89-97 | 9 | |
| α-helix | 181-186 | 6 | |
| β-strand | 201-205 | 5 | 17 |
| α-helix | 212-221 | 10 | |
| β-strand | 225-227 | 3 | 17 |
| α-helix | 241-250 | 10 | |
| β-strand | 255-262 | 8 | 17 |
| β-strand | 265-273 | 9 | 17 |
| α-helix | 280-281 | 2 | |
| β-strand | 284-289 | 6 | 17 |
| β-strand | 293 | 1 | 18 |
| α-helix | 295-297 | 3 | |
| α-helix | 308-309 | 2 | |
| β-strand | 310-314 | 5 | 17 |
| α-helix | 319-331 | 13 | |
| β-strand | 342-349 | 8 | 17 |
| β-strand | 352-364 | 13 | 17 |
| β-strand | 373 | 1 | 19 |
| α-helix | 375-377 | 3 | |
| β-strand | 379 | 1 | 19 |
| α-helix | 380 | 1 | |
| β-strand | 386-392 | 7 | 17 |
| β-strand | 396 | 1 | 18 |
| β-strand | 397-405 | 9 | 17 |
| β-strand | 419-422 | 4 | 17 |
| α-helix | 425-428 | 4 | |
Chain Ce: 8 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-12 | 10 | |
| β-strand | 18-20 | 3 | 24 |
| β-strand | 26-28 | 3 | 24 |
| β-strand | 37 | 1 | 24 |
| β-strand | 50-55 | 6 | 25 |
| β-strand | 61-66 | 6 | 25 |
| α-helix | 74-76 | 3 | |
| β-strand | 78-82 | 5 | 25 |
| α-helix | 83-84 | 2 | |
| α-helix | 87-97 | 11 | |
| α-helix | 103-133 | 31 | |
| β-strand | 136-139 | 4 | 127 |
| α-helix | 143-160 | 18 | |
| α-helix | 162-175 | 14 | |
| α-helix | 188-194 | 7 | |
Chain CE: 26 helices, 16 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 112 | 1 | 45 |
| α-helix | 120-129 | 10 | |
| β-strand | 133 | 1 | 45 |
| α-helix | 134-135 | 2 | |
| α-helix | 136-147 | 12 | |
| β-strand | 151-154 | 4 | 46 |
| α-helix | 161-176 | 16 | |
| α-helix | 180-182 | 3 | |
| β-strand | 186-189 | 4 | 46 |
| α-helix | 193-206 | 14 | |
| β-strand | 214-217 | 4 | 46 |
| α-helix | 223-232 | 10 | |
| β-strand | 236-239 | 4 | 46 |
| α-helix | 241-250 | 10 | |
| β-strand | 260-263 | 4 | 46 |
| α-helix | 266-272 | 7 | |
| α-helix | 275-284 | 10 | |
| β-strand | 291-295 | 5 | 46 |
| α-helix | 301-310 | 10 | |
| β-strand | 317-319 | 3 | 46 |
| β-strand | 334-338 | 5 | 33 |
| α-helix | 341-343 | 3 | |
| α-helix | 344-354 | 11 | |
| β-strand | 359-364 | 6 | 33 |
| α-helix | 367-379 | 13 | |
| β-strand | 385-387 | 3 | 33 |
| α-helix | 393-404 | 12 | |
| β-strand | 409-414 | 6 | 33 |
| β-strand | 428-431 | 4 | 33 |
| α-helix | 434-435 | 2 | |
| α-helix | 438-439 | 2 | |
| α-helix | 440-445 | 6 | |
| α-helix | 446-450 | 5 | |
| β-strand | 457-462 | 6 | 33 |
| α-helix | 464-466 | 3 | |
| α-helix | 468-476 | 9 | |
| β-strand | 480-484 | 5 | 33 |
| α-helix | 494-503 | 10 | |
| α-helix | 505-523 | 19 | |
| α-helix | 533-535 | 3 | |
| α-helix | 538-545 | 8 | |
| α-helix | 550-552 | 3 | |
45 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 |
|---|
| RNA (3341-mer) | C1 | RNA | 3341 | Chaetomium thermophilum | |
| RNA (256-mer) | C2 | RNA | 256 | Chaetomium thermophilum | |
| RNA (161-mer) | C3 | RNA | 161 | Chaetomium thermophilum | |
| Brix domain-containing protein | CA | protein | 316 | Chaetomium thermophilum | G0RXZ3 (AlphaFold model) |
| Ribosome biogenesis protein C8F11.04 | CB | protein | 391 | Chaetomium thermophilum | G0S7X0 (AlphaFold model) |
| Ribosome biogenesis protein ERB1 | CC | protein | 801 | Chaetomium thermophilum | G0SCK6 (AlphaFold model) |
| RNA helicase | CE | protein | 598 | Chaetomium thermophilum | G0RYU9 (AlphaFold model) |
| Ribosome assembly factor mrt4 | CF | protein | 270 | Chaetomium thermophilum | G0S616 |
| 60S ribosome subunit biogenesis protein NIP7 | CG | protein | 184 | Chaetomium thermophilum | G0S435 |
| Nucleolar GTP-binding protein 1 | CH | protein | 661 | Chaetomium thermophilum | G0S8F1 |
| Putative RNA-binding protein | CI | protein | 414 | Chaetomium thermophilum | G0S1H0 |
| Pescadillo homolog | CJ | protein | 679 | Chaetomium thermophilum | G0SHX6 |
43 more molecules are not listed.
Sequence of entity 1 (C1), FASTA
>8I9V_1 RNA (3341-MER) (chains C1)
GGUUGACCUCGGAUCAGGUAGGAGGACCCGCUGAACUUAAGCAUAUCAAUAAGCGGAGGA
AAAGAAACCAACAGGGAUUGCCCUAGUAACGGCGAGUGAAGCGGCAACAGCUCAAAUUUG
AAAGCUGGCUUCGGCCCGCGUUGUAAUUUGGAGAGGAUGCUUUGGGCGAGGCUCCUUCUG
AGUUCCCUGGAACGGGACGCCACAGAGGGUGAGAGCCCCGUAUAGUUGGAAGCCAAGCCU
GUGUAAAGCUCCUUCGACGAGUCGAGUAGUUUGGGAAUGCUGCUCAAAAUGGGAGGUAAA
UUUCUUCUAAAGCUAAAUACCGGCCAGAGACCGAUAGCGCACAAGUAGAGUGAUCGAAAG
AUGAAAAGCACUUUGAAAAGAGGGUUAAAUAGCACGUGAAAUUGUUGAAAGGGAAGCGCU
UGUGACCAGACUUGCGCCCGGCGGAUCAUCCGGUGUUCUCACCGGUGCACUCCGCCGGGC
UCAGGCCAGCAUCGGUUCUGGCGGGGGGAUAAAGGCCCAGGGAAUGUGGCUCCUCCGGGA
GUGUUAUAGCCCUGGGUGUAAUACCCUCGCCGGGACCGAGGACCGCGCUCUGCAAGGAUG
CUGGCGUAAUGGUCACCAGCGACCCGUCUUGAAACACGGACCAAGGAGUCAAGGUUUUGC
GCGAGUGUUUGGGUGUAAAACCCGCACGCGUAAUGAAAGUGAACGUAGGUGAGAGCUUCG
GCGCAUCAUCGACCGAUCCUGAUGUAUUCGGAUGGAUUUGAGUAGGAGCGUUAAGCCUUG
GACCCGAAAGAUGGUGAACUAUGCUUGGAUAGGGUGAAGCCAGAGGAAACUCUGGUGGAG
GCUCGCAGCGGUUCUGACGUGCAAAUCGAUCGUCAAAUCUGAGCAUGGGGGCGAAAGACU
AAUCGAACCAUCUAGUAGCUGGUUACCGCCGAAGUUUCCCUCAGGAUAGCAGUGUCGACC
UUCAGUUUUAUGAGGUAAAGCGAAUGAUUAGGGACUCGGGGGCGAUUUUUAGCCUUCAUC
CAUUCUCAAACUUUAAAUAUGUAAGAAGCCCUUGUUACUUAACUGAACGUGGGCAUUCGA
AUGUAUCGACACUAGUGGGCCAUUUUUGGUAAGCAGAACUGGCGAUGCGGGAUGAACCGA
ACGCGGGGUUAAGGUGCCGGAGUGGACGCUCAUCAGACACCACAAAAGGCGUUAGUACAU
CUUGACAGCAGGACGGUGGCCAUGGAAGUCGGAAUCCGCUAAGGACUGUGUAACAACUCA
CCUGCCGAAUGUACUAGCCCUGAAAAUGGAUGGCGCUCAAGCGUCCCACCCAUACCCCGC
CCUCAGGGUAGAAACGAUGCCCUGAGGAGUAGGCGGCCGUGGAGGUCAGUGACGAAGCCU
AGGGCGUGAGCCCGGGUCGAACGGCCUCUAGUGCAGAUCUUGGUGGUAGUAGCAAAUACU
UCAAUGAGAACUUGAAGGACCGAAGUGGGGAAAGGUUCCAUGUGAACAGCGGUUGGACAU
GGGUUAGUCGAUCCUAAGCCAUAGGGAAGUUCCGUUUCAAAGGGGCACUCGUGCCCCGUG
UGGCGAAAGGGAAGCCGGUUAAUAUUCCGGCACCUGGAUGUGGGUUUUGCGCGGCAACGC
AACUGAACGCGGAGACGACGGCGGGGGCCCCGGGCAGAGUUCUCUUUUCUUCUUAACGGU
CUAUCACCCUGGAAACAGUUUGUCUGGAGAUAGGGUUUAAUGGCCGGAAGAGCCCGACAC
UUCUGUCGGGUCCGGUGCGCUCUCGACGUCCCUUGAAAAUCCGCGGGAGGGAAUAAUUCU
CACGCCAGGUCGUACUCAUAACCGCAGCAGGUCCCCAAGGUGAACAGCCUCUGGUUGAUA
GAACAAUGUAGAUAAGGGAAGUCGGCAAAAUAGAUCCGUAACUUCGGGAAAAGGAUUGGC
UCUAAGGGUUGGGCACGUUGGGCUUUGGGCGGACGCCCUGGGAGCAGAGGGCCUCUAGCC
GGGCAACCGGCCGGCGGCCCUCAGCACCCGGGGUUGAAGCCCUUAGCAGGCUUCGGCCGU
CCGGCGUGCGGUUAACAACCAACUUAGAACUGGUACGGACAGGGGGAAUCUGACUGUCUA
AUUAAAACAUAGCAUUGCGAUGGCCAGAAAGUGGUGUUGACGCAAUGUGAUUUCUGCCCA
GUGCUCUGAAUGUCAAAGUGAAGAAAUUCAACCAAGCGCGGGUAAACGGCGGGAGUAACU
AUGACUCUCUUAAGGUAGCCAAAUGCCUCGUCAUCUAAUUAGUGACGCGCAUGAAUGGAU
UAACGAGAUUCCCACUGUCCCUAUCUACUAUCUAGCGAAACCACAGCCAAGGGAACGGGC
UUGGCAAAAUCAGCGGGGAAAGAAGACCCUGUUGAGCUUGACUCUAGUUUGACAUUGUGA
AAAGACAUAGGAGGUGUAGAAUAGGUGGGAGCUUCGGCGCCAGUGAAAUACCACUACUCC
UAUUGUUUUUUUACUUAUUCAAUGAAGCGGGGCUGGACUUGCGUCCAACUUCUGGAGUUA
AGGUCCUUCGCGGGCCGACCCGGGUUGAAGACAUUGUCAGGUGGGGAGUUUGGCUGGGGC
GGCACAUCUGUUAAACCAUAACGCAGGUGUCCUAAGGGGGGCUCAUGGAGAACAGAAAUC
UCCAGUAGAACAAAAGGGUAAAAGUCCCCUUGAUUUUGAUUUUCAGUGUGAAUACAAACC
AUGAAAGUGUGGCCUAUCGAUCCUUUAGUCCCUCGAAAUUUGAGGCUAGAGGUGCCAGAA
AAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUU
GAUCCUUCGAUGUCGGCUCUUCCUAUCAUACCGAAGCAGAAUUCGGUAAGCGUUGGAUUG
UUCACCCACUAAUAGGGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUUAGUUUUA
CCCUACUGAUGAACUCGUCGCAAUGGUAAUUCAGCUUAGUACGAGAGGAACCGCUGAUUC
AGAUAAUUGGUUUUUGCGGUUGUCCGACCGGGCAGUGCCGCGAAGCUACCAUCUGCUGGA
UAAUGGCUGAACGCCUCUAAGUCAGAAUCCAUGCCAGAACGCGACGAUACUACCCGCACG
UUGUAGACGUAUAAGAAUAGGCUCCGGCCUCGUAUCCUAGCAGGCGAUUCCUCCGCCGGC
CUCGAAGUGGCCGUCGGUAAUUCGCGUAUUGCAAUUUAGACACGCGCGGGAUCAAAUCCU
UUGCAGACGACUUAGAUGUGCGAAAGGGUCCUGUAAGCAGUAGAGUAGCCUUGUUGUUAC
GAUCUGCUGAGGGUAAGCCCUCCUUCGCCUAGAUUUCCCAG
Sequence of entity 2 (C2), FASTA
>8I9V_2 RNA (256-MER) (chains C2)
AAACUUUCAACAACGGAUCUCUUGGUUCUGGCAUCGAUGAAGAACGCAGCGAAAUGCGAU
AAGUAAUGUGAAUUGCAGAAUUCCGUGAAUCAUCGAAUCUUUGAACGCACAUUGCGCCCG
CCGGUAUUCCGGCGGGCAUGCCUGUUCGAGCGUCAUUUCAACCAUCAAGCCCUGGGCUUG
UGUUGGGGACCCGCGGCUGCUCGCGGGCCCUGAAAAGCAGUGGCGGGCUCGCUGGCGGGU
GCCAGCCGUAAAACCC
Sequence of entity 3 (C3), FASTA
>8I9V_3 RNA (161-MER) (chains C3)
CAACCAUCAAGCCCUGGGCUUGUGUUGGGGACCCGCGGCUGCUCGCGGGCCCUGAAAAGC
AGUGGCGGGCUCGCUAGUCACACCGAGCGUAGUAGAACUUCUAUUCGAUCUCGCUCAGGG
CGUGCGGCGGGUGCCAGCCGUAAAACCCCAGCUUCUUCUAA
Sequence of entity 4 (CA), FASTA
>8I9V_4 Brix domain-containing protein (chains CA)
MAAVYKTIAKVTGSKEDKDKEDRSNIIAERKNKQRVLVLSSRGVTYRHRHLLNDLASMLP
HGRKDAKFDTKSRLYELCELAELYNCNNVLFFEARKGKDLYMWFSKVPNGPTVKFYAQNL
HTMEELHFQGNCLKGSRPILSFDAAFEQEPYLKVIKELFLHTFGVPQGHKKSKPFIDHVL
SFSVADGKIWVRNYEIREVEKVKGEADKREEGETEKPKAAKPGSKDTDINLIEIGPRFVL
TPIIIQEGSFGGPILYENKRFISPNKIRAELRKAKAARHHARMEQQRDLLARKRQLGLDE
STPKKKDDLDTRELFA
Sequence of entity 5 (CB), FASTA
>8I9V_5 Ribosome biogenesis protein C8F11.04 (chains CB)
MAPSTAVAKKETDAVIPVDPDQTLKACKALLAHIKKAAAAPRPDGKQNLLADEESTVAET
PIWLTLTTKKHIHDSHRLQPGKIILPHPLNTSEEISVCLITADPQRFYKNAVADEFPEDL
RAKIGRVIDISHLKAKFKAYEAQRKLFSEHDVFLADTRIINRLPKALGKTFYKTTTKRPI
PVVLMAQREKVNGKRVPAPKGKKEKRDPLENANARPIPEIVAEIRKAIGAALVHLSPSTN
TAIKVGYANWEPEKLAANIETVIRELVERFVPQKWQNVRNFYVKGPETAALPIYQTDELW
LDESKVVPDGQEPARALPGKREKANIGKKRKPLEDASQPALEETGKDERPKKKAKKTLPE
SNDDKLDKAIAERKEQLKKQKAAAKKVAADI
Sequence of entity 6 (CC), FASTA
>8I9V_6 Ribosome biogenesis protein ERB1 (chains CC)
MGSKIVEKKRKSRDSDSESDNELGDGLFDGVLSQSEDEEDYIPSSEVDEDDDDDADESAS
EDSDDSNDSEDDEVEEDDEALLSDEIPSEGESEKDQDLAESKESKQDQDKEPSEPEILEP
FVDPPRKEDEELEDRNYRIEKDANGGIRYVYDEIDPVYDSDDTDYNVPVNTIGNIPLSFY
DSYPHIGYDINGKKIMRPATGDALQNLLDSIEVPEGWTGLTDPNTGKPLNLSRDELELIR
KVQQGLIPDDVEDPYPDTVEWFTSVEEKMPLSAAPEPKRRFIPSKNEAKQIMKLVRAIRE
GRILPYKPPEEREREELEKEEEFYDLWQNEEPQPPNPMHIPAPKLPPPGYDLSYNPPPEY
LPTKEEREEWEKMDPEDREKDYLPTKYDSLRKVPAWGNFVKERFERCMDLYLAPRVRKNR
LNIDPNSLLPKLPSPDELKPFPTVQQTIFRGHEGRVRSVAIDPTGVALATGGDDGTVRVW
ELLTGRQVWSVKLNGDEAVNTVRWRPTKDTFILAAAAGEDIFLMIPTHPSVTPALDQASR
DILNAGFGHATNGKQQANLPPGKEPPGKWARPGTRLEDEGVLLRITVRSTIKAISWHRRG
DHFATVSPSGQRSSVAIHTLSKHLTQIPFRKLNGLAQTASFHPLRPLFFVATQRSIRCYD
LQKLELVKIVQPGAKWISSFDVHPGGDNLVVGSYDKRLLWHDLDLSNRPYKTMRFHTEAI
RAVRFHKGGLPLFADASDDGSLQIFHGKVPNDQLENPTIVPVKMLKGHKVVNKLGVLDID
WHPREPWCVSAGADGTARLWM
Sequence of entity 7 (CE), FASTA
>8I9V_7 RNA helicase (chains CE)
MASESSKKRKFKDSKGPKPDEAVAKPSKFKKLKRDPTPEERETSDSESGNSDGQHEPDQV
DSDGEDAVSDDGSFDEKVAHQDEDGSRPENGTDLEDVPKNDNLLPPPTNAQEFSELNLSE
KTTKAIAEMGFTKMTEIQRRAIPPALAGKDVLGAAKTGSGKTLAFLIPAVEMLSSLRFKP
RNGTGAIVVTPTRELALQIFGVARELMKYHSQTYGVVIGGANRRAEAEKLGKGVNLLIAT
PGRLLDHLQNTPFVFKNLKSLIIDEADRILEIGFEDEMRQIVKILPKEDRQTMLFSATQT
TKVEDLARISLRPGPLYINVDEEKKYSTVEGLEQGYVVVEADKRFLLLFSFLKKMAKKKI
IVFFSSCNSVKYYSELLQYIDLPVLDLHGKQKQQKRTNTFFEFCNAKSGTLICTDVAARG
LDIPQVDWIVQFDPPDDPRDYIHRVGRTARGNNGKGRSLLFLQPCELGFLAHLKAAKVPV
VEYDFPKNKILNVQSQLEKLISTNYYLNQSAKEGYRSYIHAYASHSLRSVFDVHKLDLVK
VAKSFGFSTPPRVDITLSASLSRDKKPQGRRAYGSQPRQGGRYKKVGDIPDPQPNTFG
Sequence of entity 8 (CF), FASTA
>8I9V_8 Ribosome assembly factor mrt4 (chains CF)
MPKSKRARVYHLIQVNKKGREAKERLFSNIRETIPKYQHCFVFSVDNMRNNYLKDVRHEL
NDCRIFFGKTKLMARALGTTPEEEQADGLHRLTRYLTGTVGLLFTNRDPADIESYFSNLS
QVDFARAGTVAPRTVTVPTGIVYSTGGEVPPEHDVPVSHTLEPELRRLGMPVRMIKGKVC
LGDEKGEASEGYTICKEGEVLDSRQTRLLKLFSICLSEFKVSLLGYWNSASGEVTELEAG
KTRPKREGNRRQAMNGDEIDEDQSSDEDSD
Sequence of entity 9 (CG), FASTA
>8I9V_9 60S ribosome subunit biogenesis protein NIP7 (chains CG)
MRPLTDQEMKIVLDKLANYMTDLKSLIAPLEDGDRYVFRMQKDRVYYVKLSIANIATCVA
RDKLLSLGTCLGKMTKSGKFRLHITALPILAQNARYKIWVKDNGAQPFLYGSNIVKAHVG
RWTEDCPEHSGCVVYNMADIPLGFGVTARSTAEARRLDPTGIVCFRQADCGEYLRDEDTL
FTGA
Sequence of entity 10 (CH), FASTA
>8I9V_10 Nucleolar GTP-binding protein 1 (chains CH)
MTGWKDIPPVPTAQEFIDIVLSRTQRRLPTQIRPGFKISRIRAFYTRKVKFTQETCSEKF
GAIISSFPVLSDQHPFHRDLMNILYDADHFKVALGQISTAKNLIETISRDYVRLLKYAQS
LYQCKQLKRAALGRMATLIKRLKDPLIYLDQVRQHLARLPDINPTTRTLLVAGFPNVGKS
SFVRSVTRADTPVEPYAFTTKSLFVGHLDYKYLRYQVIDTPGILDHPLEEMNTIEMQSVT
ALAHLRAAVLYFMDISEQCGFSLKAQINLFKSIKPLFANKMVFIVLNKMDIKKFEELDPE
MQQEINDLTKSGEVEILRASCATQEGVQEVKNHVCERLLVERVSQKLKAGTHSNGNIGTR
LQEVMARIHVATPMDGTTRETFIPEAVKNLKKYDKNDPNRRVLARDIEEANGGAGVFNVD
LRKDWILENPEWKYDKIPEIFDGKNVYDYIDPDIDAKLQALEEEEERLEKEGFYDEDDDL
PDEEEEEILQKAEYIREQHALIRNEAKMRKSLKNRAIIPRKAVKKPLSQLEDHLDQLGVD
TEAIGLRARAQTAQSSRGRSLVRSRGTTADPDAMDIDDGAASAKERLARSRSRARSVAAT
NRLQDGVQGTTLRSKAERQAKLAQRKMNRMARQGEADRHIHASMPKHLFSGKRTIGKTDR
R
Sequence of entity 11 (CI), FASTA
>8I9V_11 Putative RNA-binding protein (chains CI)
MAAELRKKKSKSAVADADAAISKKEKATKVTKATPKAEKRKAPEEASPVAIKKQKADKDA
VVKKAAVAAEDKIAEKPVKSVLKKETSAKAKEAAKPKKKQEKVEEEEEEALENADAAFGS
DEESELDEQTKALMDTLDDGEESDEDESKQVSTFKKGQDVGKIPTPKKAPQKQTNGDSKP
AGDSQPGVMYIARLPHGFYEHELRGYFSQFGEITRLRVVRNKKTGASRHRAFIEFADAEV
ADIAARTMDKYLLFGHILTCKIVPPAQVHPDLFKGANRRFKVVPWNKMAGRQLERPLSES
QWQVKVAKEEQRRAARAEKLKEMGYEFEAPALKVPKAKPVLENGEEEKKAIETAPAPAVE
EKESKEVAKRQAEEEVEEKAPAPKTKKVKEDKPAKEAATISAPKKGKKSKKTKS
Sequence of entity 12 (CJ), FASTA
>8I9V_12 Pescadillo homolog (chains CJ)
MGKAKKKGKSGAARNYMTRTQAVKKLQLSLPDFRKLCIWKGIYPREPRDRRKVNKSATAS
TTFYYTKDIQYLLHEPLLQKFREQKALEKKISRALGRGDVSNAARLERNANLPEKTGKPR
YTLNHIIRERYPTFQDALRDLDDCLSMLFLFANLPSTTAVPAKMIARCERLCHEFQHYLI
VTHSLRKSFLSIKGIYYQANIQGEDILWLVPYKFNQRIVGDVDFRIMGTFVEFYMTLLGF
VNYRLYTSIGLKYPPKFDQVKDDQGAELAAFSLEGLNLASQNGEQKAITNGEEHGPDPKV
QAEVDKLVAKLREEEQQANGDKTDEKGEENEGDDKPSDAIDKFEPVAPGGDVLPQPSYSS
SDPSQLFANFTFFLSRETPRQPLEFILRAFGCKRIGWDAVLGEGAFTTDESDPRITHQII
DRPVIRAAVSEDGDGEDNQTSQKLAPNGRYPGRIYVQPQWVWDSINDEELKPPELYAPGA
QLPPHLSPFVKPTQGQYDPTKPLEEQQTEAEALEAELEDAQAQQEGSDEESGSEVENDMS
VASDEEDEQEDDFGGFSDEDEEQSDEGSEEGDEEEDDDEEEEATLERQRELEAELAGKAV
SKGKPLDPKVKAKLEAKKALERKKKQEAEELERAKGMLSKKKRKLFEQMQYSNAKKNAED
AKLRAKRRRIEKEMAAKKA
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| GTP | Guanosine-5'-triphosphate | C10 H16 N5 O14 P3 | 1 |
| ZN | Zinc ion | Zn | 3 |
Primary citation
Mechanism of 5S RNP recruitment and helicase-surveilled rRNA maturation during pre-60S biogenesis. Lau, B., Huang, Z., Kellner, N. et al. EMBO Rep (2023) 24:e56910-e56910. DOI 10.15252/embr.202356910 · PubMed
Other PDB entries of the same protein (UniProt G0RXZ3 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 8I9Z 2.7 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - State Spb4
- 8IA0 2.7 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - State Puf6
- 8I9X 2.8 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - Ytm1-1
- 8I9P 3.0 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - State Mak16
- 8I9R 3.1 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - State 5S RNP
- 8I9W 3.1 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - Dbp10-3
- 8I9Y 3.1 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - Ytm1-2
- 8I9T 3.6 Å, Cryo-EM structure of a Chaetomium thermophilum pre-60S ribosomal subunit - State Dbp10-1
Browse structure collections
About this viewer
MolViewer shows 8I9V directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.