7OYA
Cryo-EM structure of the 1 hpf zebrafish embryo 80S ribosome
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | 22 | 18S rRNA | polymer | 1939 | 625968.5 | 1 | GenBank (LR812041.1) | Danio rerio (Zebrafish Brachydanio rerio) | |
| 2 | A2 | 40S ribosomal protein SA | polymer | 308 | 34043.2 | 1 | UniProt (Q803F6) Pfam (PF00318) Pfam (PF16122) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | 37 kDa laminin receptor precursor,37LRP,37/67 kDa laminin receptor,LRP/LR,67 kDa laminin receptor,67LR,Laminin receptor 1,LamR,Laminin-binding protein precursor p40,LBP/p40 |
| 3 | B2 | 40S ribosomal protein S3a | polymer | 267 | 30256.4 | 1 | UniProt (Q6PBY1) Pfam (PF01015) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 4 | C2 | 40S ribosomal protein S2 | polymer | 280 | 30342.3 | 1 | UniProt (Q6NWC3) Pfam (PF00333) Pfam (PF03719) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 5 | E2 | 40S ribosomal protein S4, X isoform | polymer | 263 | 29746.1 | 1 | UniProt (Q642H9) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 6 | G2 | 40S ribosomal protein S6 | polymer | 249 | 28778.9 | 1 | UniProt (Q6DHL6) Pfam (PF01092) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 7 | H2 | 40S ribosomal protein S7 | polymer | 194 | 22293.1 | 1 | UniProt (P62084) Pfam (PF01251) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 8 | I2 | 40S ribosomal protein S8 | polymer | 208 | 24151.4 | 1 | UniProt (P62247) Pfam (PF01201) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 9 | J2 | 40S ribosomal protein S9 | polymer | 194 | 22515.4 | 1 | UniProt (Q6P5M3) Pfam (PF00163) Pfam (PF01479) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 10 | L2 | 40S ribosomal protein S11 | polymer | 159 | 18444.7 | 1 | UniProt (Q7ZV05) Pfam (PF16205) Pfam (PF00366) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 11 | N2 | 40S ribosomal protein S13 | polymer | 151 | 17231.3 | 1 | UniProt (Q6IMW6) Pfam (PF08069) Pfam (PF00312) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 12 | O2 | Ribosomal protein S14 | polymer | 151 | 16274.8 | 1 | UniProt (Q6PBW3) Pfam (PF00411) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 13 | R2 | 40S ribosomal protein S17 | polymer | 134 | 15481.0 | 1 | UniProt (Q5BJA1) Pfam (PF00833) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 14 | V2 | 40S ribosomal protein S21 | polymer | 81 | 8915.2 | 1 | UniProt (Q7ZUG5) Pfam (PF01249) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 15 | W2 | 40S ribosomal protein S15a | polymer | 130 | 14865.6 | 1 | UniProt (Q6Q420) Pfam (PF00410) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 16 | X2 | 40S ribosomal protein S23 | polymer | 143 | 15885.7 | 1 | UniProt (A8KB78) Pfam (PF00164) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 17 | Y2 | 40S ribosomal protein S24 | polymer | 132 | 15383.3 | 1 | UniProt (B7ZD34) Pfam (PF01282) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 18 | a2 | 40S ribosomal protein S26 | polymer | 115 | 13053.5 | 1 | UniProt (Q6P6E2) Pfam (PF01283) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 19 | b2 | 40S ribosomal protein S27 | polymer | 84 | 9550.2 | 1 | UniProt (Q4VBV2) Pfam (PF01667) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 20 | e2 | 40S ribosomal protein S30 | polymer | 133 | 14652.0 | 1 | UniProt (Q6PC01) Pfam (PF00240) Pfam (PF04758) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 21 | D2 | DNA-(apurinic or apyrimidinic site) lyase | polymer | 245 | 26879.5 | 1 | UniProt (Q7ZVD9) Pfam (PF07650) Pfam (PF00189) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 22 | F2 | Ribosomal protein S5 | polymer | 204 | 22909.4 | 1 | UniProt (Q6PC80) Pfam (PF00177) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 23 | K2 | Ribosomal protein S10 | polymer | 166 | 18919.8 | 1 | UniProt (Q7T1J9) Pfam (PF03501) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 24 | P2 | 40S ribosomal protein S15 | polymer | 145 | 17040.1 | 1 | UniProt (Q6Q421) Pfam (PF00203) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 25 | Q2 | Ribosomal protein S16 | polymer | 146 | 16387.3 | 1 | UniProt (Q1LWH1) Pfam (PF00380) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Rps16 protein |
| 26 | U2 | 40S ribosomal protein S20 | polymer | 119 | 13315.7 | 1 | UniProt (Q6P6E7) Pfam (PF00338) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 27 | c2 | 40S ribosomal protein S28 | polymer | 69 | 7838.0 | 1 | UniProt (Q6PBK3) Pfam (PF01200) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 28 | d2 | 40S ribosomal protein S29 | polymer | 56 | 6692.8 | 1 | UniProt (Q6Q419) Pfam (PF00253) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 29 | g2 | Guanine nucleotide-binding protein subunit beta-2-like 1 | polymer | 317 | 35161.7 | 1 | UniProt (O42248) Pfam (PF00400) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Receptor of activated protein kinase C,RACK |
| 30 | Z2 | 40S ribosomal protein S25 | polymer | 124 | 13894.3 | 1 | UniProt (Q6PBI5) Pfam (PF03297) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 31 | T2 | 40S ribosomal protein S19 | polymer | 146 | 15971.7 | 1 | UniProt (Q6PBW7) Pfam (PF01090) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 32 | S2 | 40S ribosomal protein S18 | polymer | 152 | 17772.8 | 1 | UniProt (Q8JGS9) Pfam (PF00416) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 33 | i2 | Zgc:103482 | polymer | 347 | 38616.8 | 1 | UniProt (B0R085) Pfam (PF16174) Pfam (PF04774) UniProt (by SIFTS) (Q5XJA5) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 34 | Z1 | 60S ribosomal protein L27 | polymer | 136 | 15819.9 | 1 | UniProt (Q7ZV82) Pfam (PF00467) Pfam (PF01777) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 35 | b1 | 60S ribosomal protein L29 | polymer | 64 | 7596.9 | 1 | UniProt (Q6DGL4) Pfam (PF01779) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 36 | c1 | 60S ribosomal protein L30 | polymer | 117 | 13004.2 | 1 | UniProt (Q7ZUG6) Pfam (PF01248) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 37 | d1 | 60S ribosomal protein L31 | polymer | 123 | 14369.8 | 1 | UniProt (Q24JV3) Pfam (PF01198) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 38 | e1 | Ribosomal protein L32 | polymer | 135 | 15851.9 | 1 | UniProt (Q24JV1) Pfam (PF01655) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Zgc:136952 |
| 39 | f1 | 60S ribosomal protein L35a | polymer | 110 | 12503.8 | 1 | UniProt (Q6DGM0) Pfam (PF01247) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 40 | g1 | 60S ribosomal protein L34 | polymer | 117 | 13401.1 | 1 | UniProt (Q7ZWJ7) Pfam (PF01199) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 41 | h1 | 60S ribosomal protein L35 | polymer | 123 | 14470.5 | 1 | UniProt (Q8JHJ1) Pfam (PF00831) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 42 | i1 | 60S ribosomal protein L36 | polymer | 105 | 12216.8 | 1 | UniProt (Q6Q415) Pfam (PF01158) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 43 | j1 | Ribosomal protein L37 | polymer | 97 | 11074.0 | 1 | UniProt (Q6IQJ7) Pfam (PF01907) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 44 | k1 | 60S ribosomal protein L38 | polymer | 70 | 8238.9 | 1 | UniProt (Q6DGL9) Pfam (PF01781) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 45 | o1 | 60S ribosomal protein L36a | polymer | 106 | 12565.1 | 1 | UniProt (P61485) Pfam (PF00935) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 46 | p1 | Zgc:171772 | polymer | 92 | 10229.3 | 1 | UniProt (A7YY10) Pfam (PF01780) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Zgc:171772 protein |
| 47 | A1 | 60S ribosomal protein L8 | polymer | 257 | 28132.0 | 1 | UniProt (Q6P0V6) Pfam (PF00181) Pfam (PF03947) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 48 | B1 | Ribosomal protein L3 | polymer | 403 | 46358.3 | 1 | UniProt (Q5BJJ2) Pfam (PF00297) UniProt (by SIFTS) (A0A2R8Q924) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Rpl3 protein |
| 49 | C1 | Ribosomal protein L4 | polymer | 375 | 42644.5 | 1 | UniProt (Q7ZW95) Pfam (PF00573) Pfam (PF14374) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 50 | D1 | Ribosomal protein L5b | polymer | 296 | 34118.4 | 1 | UniProt (Q6IQB1) Pfam (PF17144) Pfam (PF14204) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 51 | E1 | 60S ribosomal protein L6 | polymer | 265 | 30618.5 | 1 | UniProt (Q567N5) Pfam (PF03868) Pfam (PF01159) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 52 | F1 | Ribosomal protein L7 | polymer | 246 | 28505.9 | 1 | UniProt (Q6Q417) Pfam (PF08079) Pfam (PF00327) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 53 | G1 | 60S ribosomal protein L7a | polymer | 266 | 30077.7 | 1 | UniProt (Q6PBZ1) Pfam (PF01248) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 54 | H1 | 60S ribosomal protein L9 | polymer | 192 | 21689.3 | 1 | UniProt (Q5BKV9) Pfam (PF00347) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 55 | J1 | 60S ribosomal protein L11 | polymer | 178 | 20415.7 | 1 | UniProt (Q6IQI6) Pfam (PF00281) Pfam (PF00673) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 56 | L1 | 60S ribosomal protein L13 | polymer | 211 | 24426.9 | 1 | UniProt (Q90Z10) Pfam (PF01294) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 57 | M1 | 60S ribosomal protein L14 | polymer | 139 | 16166.3 | 1 | UniProt (A8E526) Pfam (PF01929) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 58 | N1 | Ribosomal protein L15 | polymer | 204 | 24124.2 | 1 | UniProt (Q6DHS3) Pfam (PF00827) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 59 | O1 | 60S ribosomal protein L13a | polymer | 205 | 23731.5 | 1 | UniProt (Q1LYB7) Pfam (PF00572) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 60 | P1 | 60S ribosomal protein L17 | polymer | 184 | 21476.2 | 1 | UniProt (Q7T1K0) Pfam (PF00237) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 61 | Q1 | Ribosomal protein L18 | polymer | 182 | 21045.0 | 1 | UniProt (Q6DGL0) Pfam (PF17135) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Zgc:92872,Zgc:92872 protein |
| 62 | R1 | 60S ribosomal protein L19 | polymer | 196 | 23522.2 | 1 | UniProt (Q6P5L3) Pfam (PF01280) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 63 | T1 | 60S ribosomal protein L21 | polymer | 160 | 18574.9 | 1 | UniProt (Q6IQQ0) Pfam (PF01157) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 64 | U1 | Ribosomal protein L22 | polymer | 141 | 16316.8 | 1 | UniProt (F1QG80) Pfam (PF01776) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 65 | V1 | 60S ribosomal protein L23 | polymer | 140 | 14908.5 | 1 | UniProt (Q6PC14) Pfam (PF00238) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 66 | W1 | 60S ribosomal protein L24 | polymer | 157 | 17929.1 | 1 | UniProt (A0A0R4IMS3) Pfam (PF01246) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 67 | X1 | Ribosomal protein L23a | polymer | 155 | 17686.1 | 1 | UniProt (F1QGI3) Pfam (PF03939) Pfam (PF00276) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 68 | Y1 | ATPase H+ transporting V0 subunit e1 | polymer | 145 | 17387.5 | 1 | UniProt (Q7SXA1) Pfam (PF16906) Pfam (PF00467) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Ribosomal protein L26,Rpl26 protein |
| 69 | l1 | Ribosomal protein L39 | polymer | 51 | 6410.8 | 1 | UniProt (Q6IMW8) Pfam (PF00832) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Zgc:92371 |
| 70 | n1 | 60S ribosomal protein L41 | polymer | 25 | 3473.5 | 1 | UniProt (A0A0R4ILF4) Pfam (PF05162) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 71 | r1 | 60S ribosomal protein L28 | polymer | 138 | 15661.5 | 1 | UniProt (F1QFV6) Pfam (PF01778) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 72 | I1 | 60S ribosomal protein L10 | polymer | 215 | 24664.1 | 1 | UniProt (Q7ZV96) Pfam (PF00252) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Protein QM,Ribosomal protein L10 |
| 73 | S1 | 60S ribosomal protein L18a | polymer | 176 | 20725.5 | 1 | UniProt (Q7ZWJ4) Pfam (PF01775) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 74 | m1 | 60S ribosomal protein L40 | polymer | 128 | 14786.4 | 1 | UniProt (Q3B7P7) Pfam (PF00240) Pfam (PF01020) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | CEP52,Ubiquitin,Ubiquitin-60S ribosomal protein L40 |
| 75 | a1 | 60S ribosomal protein L27a | polymer | 148 | 16621.5 | 1 | UniProt (Q6P2M0) Pfam (PF00828) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | |
| 76 | 51 | 28S rRNA | polymer | 4269 | 1382249.1 | 1 | GenBank (AL935186.22) | Danio rerio (Zebrafish Brachydanio rerio) | |
| 77 | 71 | 5S rRNA | polymer | 120 | 38739.0 | 1 | Danio rerio (Zebrafish Brachydanio rerio) | ||
| 78 | 81 | 5.8S rRNA | polymer | 158 | 50823.1 | 1 | GenBank (LR812041.1) | Danio rerio (Zebrafish Brachydanio rerio) | |
| 79 | q1 | Novel protein similar to human proliferation-associated 2G4 protein (PA2G4) | polymer | 392 | 43391.6 | 1 | UniProt (Q8AW82) Pfam (PF00557) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Proliferation-associated 2G4,a |
| 80 | v2 | Eukaryotic translation elongation factor 2 | polymer | 858 | 95623.5 | 1 | UniProt (Q6P3J5) Pfam (PF00009) Pfam (PF03144) Pfam (PF14492) Pfam (PF03764) Pfam (PF00679) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Eukaryotic translation elongation factor 2,like,Eukaryotic translation elongation factor 2b |
| 81 | 11 | Eukaryotic translation initiation factor 5A | polymer | 155 | 16987.4 | 1 | UniProt (Q6NX89) Pfam (PF21485) Pfam (PF01287) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | eIF-5A |
| 82 | s1 | Dap1b | polymer | 109 | 12128.1 | 1 | UniProt (Q9I9N0) Pfam (PF15228) In PDB | Danio rerio (Zebrafish Brachydanio rerio) | Death-associated protein 1b |
| 83 | a2, d2, g1, j1, o1... | ZINC ION | non-polymer | 65.4 | 7 | Chemie (ZN) | |||
| 84 | 51, 81, b1, A1, B1... | MAGNESIUM ION | non-polymer | 24.3 | 202 | Chemie (MG) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 82 |
| Total formula weight | 3702715.3 | |
| Non-Polymers* | Number of molecules | 209 |
| Total formula weight | 5367.5 | |
| All* | Total formula weight | 3708082.8 |
