5Z3G
Cryo-EM structure of a nucleolar pre-60S ribosome (Rpf1-TAP)
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | 25S rRNA | polymer | 3396 | 1097493.9 | 1 | GenBank (834774822) | Saccharomyces cerevisiae (Baker's yeast) | |
2 | B | 5.8S rRNA | polymer | 158 | 50682.9 | 1 | GenBank (1267176494) | Saccharomyces cerevisiae (Baker's yeast) | |
3 | C | ITS2 RNA | polymer | 232 | 74308.4 | 1 | GenBank (1104417410) | Saccharomyces cerevisiae (Baker's yeast) | |
4 | D | Ribosome biogenesis protein RLP7 | polymer | 322 | 36621.1 | 1 | UniProt (P40693) Pfam (PF00327) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Ribosomal protein L7-like |
5 | E | Ribosome biogenesis protein 15 | polymer | 220 | 25499.2 | 1 | UniProt (P53927) Pfam (PF00076) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Nucleolar protein 15 |
6 | F | 60S ribosomal protein L3 | polymer | 387 | 43850.8 | 1 | UniProt (P14126) Pfam (PF00297) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1 |
7 | G | 60S ribosomal protein L4-A | polymer | 362 | 39159.1 | 1 | UniProt (P10664) Pfam (PF00573) Pfam (PF14374) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L2,Large ribosomal subunit protein uL4-A,RP2,YL2 |
8 | H | Proteasome-interacting protein CIC1 | polymer | 376 | 42596.7 | 1 | UniProt (P38779) Pfam (PF00687) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Core interacting component 1 |
9 | I | 60S ribosomal protein L6-A | polymer | 176 | 20000.6 | 1 | UniProt (Q02326) Pfam (PF01159) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L17,Large ribosomal subunit protein eL6-A,RP18,YL16 |
10 | J | 60S ribosomal protein L7-A | polymer | 244 | 27686.3 | 1 | UniProt (P05737) Pfam (PF08079) Pfam (PF00327) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L6,Large ribosomal subunit protein uL30-A,RP11,YL8 |
11 | K | 60S ribosomal protein L8-A | polymer | 256 | 28175.8 | 1 | UniProt (P17076) Pfam (PF01248) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5 |
12 | L | 60S ribosomal protein L9-A | polymer | 191 | 21605.1 | 1 | UniProt (P05738) Pfam (PF00347) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L8,Large ribosomal subunit protein uL6-A,RP24,YL11 |
13 | M | Nucleolar protein 7 | polymer | 605 | 69984.1 | 1 | UniProt (P53261) Pfam (PF06732) Pfam (PF16589) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Pescadillo homolog,Ribosomal RNA-processing protein 13 |
14 | N | Eukaryotic translation initiation factor 6 | polymer | 245 | 26476.6 | 1 | UniProt (Q12522) Pfam (PF01912) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | eIF-6 |
15 | O | Ribosome production factor 1 | polymer | 295 | 35184.4 | 1 | UniProt (P38805) Pfam (PF04427) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Ribosome biogenesis protein RPF1 |
16 | P | 60S ribosomal protein L13-A | polymer | 199 | 22604.2 | 1 | UniProt (Q12690) Pfam (PF01294) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Large ribosomal subunit protein eL13-A |
17 | Q | 60S ribosomal protein L14-A | polymer | 138 | 15195.1 | 1 | UniProt (P36105) Pfam (PF00467) Pfam (PF01929) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Large ribosomal subunit protein eL14-A |
18 | R | 60S ribosomal protein L15-A | polymer | 204 | 24482.4 | 1 | UniProt (P05748) Pfam (PF00827) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18 |
19 | S | 60S ribosomal protein L16-A | polymer | 199 | 22247.2 | 1 | UniProt (P26784) Pfam (PF00572) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15 |
20 | T | 60S ribosomal protein L17-A | polymer | 184 | 20589.5 | 1 | UniProt (P05740) Pfam (PF00237) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L20A,Large ribosomal subunit protein uL22-A,YL17 |
21 | U | 60S ribosomal protein L18-A | polymer | 186 | 20609.3 | 1 | UniProt (P0CX49) Pfam (PF17135) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Large ribosomal subunit protein eL18-A,RP28 |
22 | V | Ribosome biogenesis protein NSA1 | polymer | 463 | 51982.5 | 1 | UniProt (P53136) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | NOP7-associated protein 1 |
23 | W | 60S ribosomal protein L20-A | polymer | 172 | 20478.9 | 1 | UniProt (P0CX23) Pfam (PF01775) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L18a,Large ribosomal subunit protein eL20-A |
24 | X | Ribosomal RNA-processing protein 1 | polymer | 278 | 33250.5 | 1 | UniProt (P35178) Pfam (PF05997) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
25 | Y | ATP-dependent RNA helicase HAS1 | polymer | 505 | 56798.3 | 1 | UniProt (Q03532) Pfam (PF00270) Pfam (PF00271) Pfam (PF13959) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Helicase associated with SET1 protein 1 |
26 | Z | Protein MAK16 | polymer | 306 | 35754.6 | 1 | UniProt (P10962) Pfam (PF01778) Pfam (PF04874) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Maintenance of killer protein 16 |
27 | a | Ribosome biogenesis protein BRX1 | polymer | 291 | 33585.4 | 1 | UniProt (Q08235) Pfam (PF04427) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
28 | b | rRNA-processing protein EBP2 | polymer | 427 | 49842.6 | 1 | UniProt (P36049) Pfam (PF05890) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | EBNA1-binding protein homolog |
29 | c | 60S ribosomal protein L26-A | polymer | 127 | 14265.8 | 1 | UniProt (P05743) Pfam (PF16906) Pfam (PF00467) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L33,Large ribosomal subunit protein uL24-A,YL33 |
30 | d | Unassigned | polymer | 154 | 13124.2 | 1 | Saccharomyces cerevisiae (Baker's yeast) | ||
31 | i | 60S ribosomal protein L32 | polymer | 130 | 14809.4 | 1 | UniProt (P38061) Pfam (PF01655) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Large ribosomal subunit protein eL32 |
32 | j | 60S ribosomal protein L33-A | polymer | 107 | 12177.1 | 1 | UniProt (P05744) Pfam (PF01247) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L37,Large ribosomal subunit protein eL33-A,RP47,YL37 |
33 | l | 60S ribosomal protein L35-A | polymer | 120 | 13942.6 | 1 | UniProt (P0CX84) Pfam (PF00831) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Large ribosomal subunit protein uL29-A |
34 | m | 60S ribosomal protein L36-A | polymer | 100 | 11151.3 | 1 | UniProt (P05745) Pfam (PF01158) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L39,Large ribosomal subunit protein eL36-A,YL39 |
35 | n | 60S ribosomal protein L37-A | polymer | 88 | 9877.4 | 1 | UniProt (P49166) Pfam (PF01907) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | L43,Large ribosomal subunit protein eL37-A,YL35,YP55 |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 35 |
Total formula weight | 2136093.1 | |
All* | Total formula weight | 2136093.1 |