6QZP
High-resolution cryo-EM structure of the human 80S ribosome
This is a non-PDB format compatible entry.
Replaces: 6EK0Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (L5) | 28S rRNA (3773-MER) | polymer | 3773 | 1223355.8 | 1 | Homo sapiens | ||
| 2 | B (L7) | 5S rRNA (120-MER) | polymer | 120 | 38691.9 | 1 | GenBank (23898) | Homo sapiens | |
| 3 | C (L8) | 5.8S rRNA (156-MER) | polymer | 156 | 50157.7 | 1 | Homo sapiens | ||
| 4 | D (LA) | 60S ribosomal protein L8 | polymer | 248 | 26998.6 | 1 | UniProt (P62917) Pfam (PF03947) Pfam (PF00181) | Homo sapiens (Human) | Large ribosomal subunit protein uL2 |
| 5 | E (LB) | 60S ribosomal protein L3 | polymer | 402 | 46079.9 | 1 | UniProt (P39023) Pfam (PF00297) | Homo sapiens (Human) | HIV-1 TAR RNA-binding protein B,TARBP-B,Large ribosomal subunit protein uL3 |
| 6 | F (LC) | 60S ribosomal protein L4 | polymer | 368 | 41760.2 | 1 | UniProt (P36578) Pfam (PF00573) Pfam (PF14374) | Homo sapiens (Human) | 60S ribosomal protein L1,Large ribosomal subunit protein uL4 |
| 7 | G (LD) | 60S ribosomal protein L5 | polymer | 293 | 34008.3 | 1 | UniProt (P46777) Pfam (PF17144) Pfam (PF14204) | Homo sapiens (Human) | Large ribosomal subunit protein uL18 |
| 8 | H (LE) | 60S ribosomal protein L6 | polymer | 236 | 27030.1 | 1 | UniProt (Q02878) Pfam (PF03868) Pfam (PF01159) | Homo sapiens (Human) | Large ribosomal subunit protein eL6,Neoplasm-related protein C140,Tax-responsive enhancer element-binding protein 107,TaxREB107 |
| 9 | I (LF) | 60S ribosomal protein L7 | polymer | 225 | 26590.7 | 1 | UniProt (P18124) Pfam (PF08079) Pfam (PF00327) | Homo sapiens (Human) | Large ribosomal subunit protein uL30 |
| 10 | J (LG) | 60S ribosomal protein L7a | polymer | 241 | 27452.5 | 1 | UniProt (P62424) Pfam (PF01248) | Homo sapiens (Human) | Large ribosomal subunit protein eL8,PLA-X polypeptide,Surfeit locus protein 3 |
| 11 | K (LH) | 60S ribosomal protein L9 | polymer | 190 | 21655.3 | 1 | UniProt (P32969) Pfam (PF00347) | Homo sapiens (Human) | Large ribosomal subunit protein uL6 |
| 12 | L (LI) | 60S ribosomal protein L10-like | polymer | 213 | 24439.8 | 1 | UniProt (Q96L21) Pfam (PF00252) | Homo sapiens (Human) | Large ribosomal subunit protein uL16-like |
| 13 | M (LJ) | 60S ribosomal protein L11 | polymer | 176 | 20086.2 | 1 | UniProt (P62913) Pfam (PF00281) Pfam (PF00673) | Homo sapiens (Human) | CLL-associated antigen KW-12,Large ribosomal subunit protein uL5 |
| 14 | N (LL) | 60S ribosomal protein L13 | polymer | 210 | 24190.5 | 1 | UniProt (P26373) Pfam (PF01294) | Homo sapiens (Human) | Breast basic conserved protein 1,Large ribosomal subunit protein eL13 |
| 15 | O (LM) | 60S ribosomal protein L14 | polymer | 139 | 16220.3 | 1 | UniProt (P50914) Pfam (PF01929) | Homo sapiens (Human) | CAG-ISL 7,Large ribosomal subunit protein eL14 |
| 16 | P (LN) | 60S ribosomal protein L15 | polymer | 203 | 24076.1 | 1 | UniProt (P61313) Pfam (PF00827) | Homo sapiens (Human) | Large ribosomal subunit protein eL15 |
| 17 | Q (LO) | 60S ribosomal protein L13a | polymer | 201 | 23431.1 | 1 | UniProt (P40429) Pfam (PF00572) | Homo sapiens (Human) | 23 kDa highly basic protein,Large ribosomal subunit protein uL13 |
| 18 | R (LP) | 60S ribosomal protein L17 | polymer | 153 | 17757.6 | 1 | UniProt (P18621) Pfam (PF00237) | Homo sapiens (Human) | 60S ribosomal protein L23,Large ribosomal subunit protein uL22,PD-1 |
| 19 | S (LQ) | 60S ribosomal protein L18 | polymer | 187 | 21556.5 | 1 | UniProt (Q07020) Pfam (PF17135) | Homo sapiens (Human) | Large ribosomal subunit protein eL18 |
| 20 | T (LR) | 60S ribosomal protein L19 | polymer | 187 | 22441.0 | 1 | UniProt (P84098) Pfam (PF01280) Pfam (PF25476) | Homo sapiens (Human) | Large ribosomal subunit protein eL19 |
| 21 | U (LS) | 60S ribosomal protein L18a | polymer | 175 | 20677.3 | 1 | UniProt (Q02543) Pfam (PF01775) | Homo sapiens (Human) | Large ribosomal subunit protein eL20 |
| 22 | V (LT) | 60S ribosomal protein L21 | polymer | 159 | 18478.8 | 1 | UniProt (P46778) Pfam (PF01157) | Homo sapiens (Human) | Large ribosomal subunit protein eL21 |
| 23 | W (LU) | 60S ribosomal protein L22 | polymer | 101 | 11722.5 | 1 | UniProt (P35268) Pfam (PF01776) | Homo sapiens (Human) | EBER-associated protein,EAP,Epstein-Barr virus small RNA-associated protein,Heparin-binding protein HBp15,Large ribosomal subunit protein eL22 |
| 24 | X (LV) | 60S ribosomal protein L23 | polymer | 131 | 13972.4 | 1 | UniProt (P62829) Pfam (PF00238) | Homo sapiens (Human) | 60S ribosomal protein L17,Large ribosomal subunit protein uL14 |
| 25 | Y (LW) | 60S ribosomal protein L24 | polymer | 124 | 14477.0 | 1 | UniProt (P83731) Pfam (PF01246) | Homo sapiens (Human) | 60S ribosomal protein L30,Large ribosomal subunit protein eL24 |
| 26 | Z (LX) | 60S ribosomal protein L23a | polymer | 120 | 13985.5 | 1 | UniProt (P62750) Pfam (PF03939) Pfam (PF00276) | Homo sapiens (Human) | Large ribosomal subunit protein uL23 |
| 27 | AA (LY) | 60S ribosomal protein L26 | polymer | 134 | 15891.8 | 1 | UniProt (P61254) Pfam (PF16906) Pfam (PF00467) | Homo sapiens (Human) | Large ribosomal subunit protein uL24 |
| 28 | BA (LZ) | 60S ribosomal protein L27 | polymer | 135 | 15704.6 | 1 | UniProt (P61353) Pfam (PF00467) Pfam (PF01777) | Homo sapiens (Human) | Large ribosomal subunit protein eL27 |
| 29 | CA (La) | 60S ribosomal protein L27a | polymer | 147 | 16473.3 | 1 | UniProt (P46776) Pfam (PF00828) | Homo sapiens (Human) | Large ribosomal subunit protein uL15 |
| 30 | DA (Lb) | 60S ribosomal protein L29 | polymer | 109 | 12602.1 | 1 | UniProt (P47914) Pfam (PF01779) | Homo sapiens (Human) | Cell surface heparin-binding protein HIP,Large ribosomal subunit protein eL29 |
| 31 | EA (Lc) | 60S ribosomal protein L30 | polymer | 98 | 10954.9 | 1 | UniProt (P62888) Pfam (PF01248) | Homo sapiens (Human) | Large ribosomal subunit protein eL30 |
| 32 | FA (Ld) | 60S ribosomal protein L31 | polymer | 107 | 12635.7 | 1 | UniProt (P62899) Pfam (PF01198) | Homo sapiens (Human) | Large ribosomal subunit protein eL31 |
| 33 | GA (Le) | 60S ribosomal protein L32 | polymer | 128 | 15022.0 | 1 | UniProt (P62910) Pfam (PF01655) | Homo sapiens (Human) | Large ribosomal subunit protein eL32 |
| 34 | HA (Lf) | 60S ribosomal protein L35a | polymer | 109 | 12433.5 | 1 | UniProt (P18077) Pfam (PF01247) | Homo sapiens (Human) | Cell growth-inhibiting gene 33 protein,Large ribosomal subunit protein eL33 |
| 35 | IA (Lg) | 60S ribosomal protein L34 | polymer | 114 | 12994.6 | 1 | UniProt (P49207) Pfam (PF01199) | Homo sapiens (Human) | Large ribosomal subunit protein eL34 |
| 36 | JA (Lh) | 60S ribosomal protein L35 | polymer | 122 | 14462.4 | 1 | UniProt (P42766) Pfam (PF00831) | Homo sapiens (Human) | Large ribosomal subunit protein uL29 |
| 37 | KA (Li) | 60S ribosomal protein L36 | polymer | 102 | 11915.4 | 1 | UniProt (Q9Y3U8) Pfam (PF01158) | Homo sapiens (Human) | Large ribosomal subunit protein eL36 |
| 38 | LA (Lj) | 60S ribosomal protein L37 | polymer | 86 | 10090.9 | 1 | UniProt (P61927) Pfam (PF01907) | Homo sapiens (Human) | G1.16,Large ribosomal subunit protein eL37 |
| 39 | MA (Lk) | 60S ribosomal protein L38 | polymer | 69 | 8107.8 | 1 | UniProt (P63173) Pfam (PF01781) | Homo sapiens (Human) | Large ribosomal subunit protein eL38 |
| 40 | NA (Ll) | 60S ribosomal protein L39 | polymer | 50 | 6295.6 | 1 | UniProt (P62891) Pfam (PF00832) | Homo sapiens (Human) | Large ribosomal subunit protein eL39 |
| 41 | OA (Lm) | Ubiquitin-60S ribosomal protein L40 | polymer | 52 | 6212.6 | 1 | UniProt (P62987) Pfam (PF01020) | Homo sapiens (Human) | CEP52,Ubiquitin A-52 residue ribosomal protein fusion product 1 |
| 42 | PA (Ln) | 60S ribosomal protein L41 | polymer | 24 | 3344.3 | 1 | UniProt (P62945) Pfam (PF05162) | Homo sapiens (Human) | HG12,Large ribosomal subunit protein eL41 |
| 43 | QA (Lo) | 60S ribosomal protein L36a | polymer | 105 | 12345.8 | 1 | UniProt (P83881) Pfam (PF00935) | Homo sapiens (Human) | 60S ribosomal protein L44,Cell growth-inhibiting gene 15 protein,Cell migration-inducing gene 6 protein,Large ribosomal subunit protein eL42 |
| 44 | RA (Lp) | 60S ribosomal protein L37a | polymer | 91 | 10168.2 | 1 | UniProt (P61513) Pfam (PF01780) | Homo sapiens (Human) | Large ribosomal subunit protein eL43 |
| 45 | SA (Lr) | 60S ribosomal protein L28 | polymer | 125 | 14320.8 | 1 | UniProt (P46779) Pfam (PF01778) | Homo sapiens (Human) | Large ribosomal subunit protein eL28 |
| 46 | TA (Lz) | 60S ribosomal protein L10a | polymer | 217 | 24879.4 | 1 | UniProt (P62906) Pfam (PF00687) | Homo sapiens (Human) | CSA-19,Large ribosomal subunit protein uL1,Neural precursor cell expressed developmentally down-regulated protein 6,NEDD-6 |
| 47 | UA (S2) | 18S rRNA (1740-MER) | polymer | 1740 | 561898.2 | 1 | Homo sapiens | ||
| 48 | VA (S6) | E site tRNA (75-MER) | polymer | 75 | 24231.5 | 1 | GenBank (174924) | Homo sapiens | |
| 49 | WA (SA) | 40S ribosomal protein SA | polymer | 221 | 24774.4 | 1 | UniProt (P08865) Pfam (PF00318) | Homo sapiens (Human) | 37 kDa laminin receptor precursor,37LRP,37/67 kDa laminin receptor,LRP/LR,67 kDa laminin receptor,67LR,Colon carcinoma laminin-binding protein,Laminin receptor 1,LamR,Laminin-binding protein precursor p40,LBP/p40,Multidrug resistance-associated protein MGr1-Ag,NEM/1CHD4,Small ribosomal subunit protein uS2 |
| 50 | XA (SB) | 40S ribosomal protein S3a | polymer | 214 | 24888.3 | 1 | UniProt (P61247) Pfam (PF01015) | Homo sapiens (Human) | Small ribosomal subunit protein eS1,v-fos transformation effector protein,Fte-1 |
| 51 | YA (SD) | 40S ribosomal protein S3 | polymer | 227 | 25172.6 | 1 | UniProt (P23396) Pfam (PF07650) Pfam (PF00189) | Homo sapiens (Human) | Small ribosomal subunit protein uS3 |
| 52 | ZA (SE) | 40S ribosomal protein S4, X isoform | polymer | 262 | 29523.7 | 1 | UniProt (P62701) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) | Homo sapiens (Human) | SCR10,Single copy abundant mRNA protein,Small ribosomal subunit protein eS4 |
| 53 | AB (SF) | 40S ribosomal protein S5 | polymer | 189 | 21327.7 | 1 | UniProt (P46782) Pfam (PF00177) | Homo sapiens (Human) | Small ribosomal subunit protein uS7 |
| 54 | BB (SH) | 40S ribosomal protein S7 | polymer | 186 | 21257.9 | 1 | UniProt (P62081) Pfam (PF01251) | Homo sapiens (Human) | Small ribosomal subunit protein eS7 |
| 55 | CB (SI) | 40S ribosomal protein S8 | polymer | 206 | 24003.0 | 1 | UniProt (P62241) Pfam (PF01201) | Homo sapiens (Human) | Small ribosomal subunit protein eS8 |
| 56 | DB (SK) | 40S ribosomal protein S10 | polymer | 98 | 11774.0 | 1 | UniProt (P46783) Pfam (PF03501) | Homo sapiens (Human) | Small ribosomal subunit protein eS10 |
| 57 | EB (SL) | 40S ribosomal protein S11 | polymer | 153 | 17786.0 | 1 | UniProt (P62280) Pfam (PF16205) Pfam (PF00366) | Homo sapiens (Human) | Small ribosomal subunit protein uS17 |
| 58 | FB (SP) | 40S ribosomal protein S15 | polymer | 127 | 14931.6 | 1 | UniProt (P62841) Pfam (PF00203) | Homo sapiens (Human) | RIG protein,Small ribosomal subunit protein uS19 |
| 59 | GB (SQ) | 40S ribosomal protein S16 | polymer | 141 | 15975.8 | 1 | UniProt (P62249) Pfam (PF00380) | Homo sapiens (Human) | Small ribosomal subunit protein uS9 |
| 60 | HB (SR) | 40S ribosomal protein S17 | polymer | 135 | 15578.2 | 1 | UniProt (P08708) Pfam (PF00833) | Homo sapiens (Human) | Small ribosomal subunit protein eS17 |
| 61 | IB (SS) | 40S ribosomal protein S18 | polymer | 145 | 17029.8 | 1 | UniProt (P62269) Pfam (PF00416) | Homo sapiens (Human) | Ke-3,Ke3,Small ribosomal subunit protein uS13 |
| 62 | JB (ST) | 40S ribosomal protein S19 | polymer | 143 | 15822.2 | 1 | UniProt (P39019) Pfam (PF01090) | Homo sapiens (Human) | Small ribosomal subunit protein eS19 |
| 63 | KB (SU) | 40S ribosomal protein S20 | polymer | 103 | 11694.8 | 1 | UniProt (P60866) Pfam (PF00338) | Homo sapiens (Human) | Small ribosomal subunit protein uS10 |
| 64 | LB (SV) | 40S ribosomal protein S21 | polymer | 83 | 9124.4 | 1 | UniProt (P63220) Pfam (PF01249) | Homo sapiens (Human) | Small ribosomal subunit protein eS21 |
| 65 | MB (SX) | 40S ribosomal protein S23 | polymer | 141 | 15626.4 | 1 | UniProt (P62266) Pfam (PF00164) | Homo sapiens (Human) | Small ribosomal subunit protein uS12 |
| 66 | NB (Sa) | 40S ribosomal protein S26 | polymer | 102 | 11742.9 | 1 | UniProt (P62854) Pfam (PF01283) | Homo sapiens (Human) | Small ribosomal subunit protein eS26 |
| 67 | OB (Sc) | 40S ribosomal protein S28 | polymer | 64 | 7263.4 | 1 | UniProt (P62857) Pfam (PF01200) | Homo sapiens (Human) | Small ribosomal subunit protein eS28 |
| 68 | PB (Sd) | 40S ribosomal protein S29 | polymer | 55 | 6559.6 | 1 | UniProt (P62273) Pfam (PF00253) | Homo sapiens (Human) | Small ribosomal subunit protein uS14 |
| 69 | QB (Sg) | Receptor of activated protein C kinase 1 | polymer | 313 | 34669.1 | 1 | UniProt (P63244) Pfam (PF00400) | Homo sapiens (Human) | Cell proliferation-inducing gene 21 protein,Guanine nucleotide-binding protein subunit beta-2-like 1,Guanine nucleotide-binding protein subunit beta-like protein 12.3,Human lung cancer oncogene 7 protein,HLC-7,Receptor for activated C kinase,Small ribosomal subunit protein RACK1 |
| 70 | RB (SC) | 40S ribosomal protein S2 | polymer | 222 | 24587.0 | 1 | UniProt (P15880) Pfam (PF00333) Pfam (PF03719) | Homo sapiens (Human) | 40S ribosomal protein S4,Protein LLRep3,Small ribosomal subunit protein uS5 |
| 71 | SB (SG) | 40S ribosomal protein S6 | polymer | 237 | 27471.5 | 1 | UniProt (P62753) Pfam (PF01092) | Homo sapiens (Human) | Phosphoprotein NP33,Small ribosomal subunit protein eS6 |
| 72 | TB (SJ) | 40S ribosomal protein S9 | polymer | 185 | 21649.6 | 1 | UniProt (P46781) Pfam (PF00163) Pfam (PF01479) | Homo sapiens (Human) | Small ribosomal subunit protein uS4 |
| 73 | UB (SM) | 40S ribosomal protein S12 | polymer | 122 | 13652.0 | 1 | UniProt (P25398) Pfam (PF01248) | Homo sapiens (Human) | Small ribosomal subunit protein eS12 |
| 74 | VB (SN) | 40S ribosomal protein S13 | polymer | 150 | 17128.2 | 1 | UniProt (P62277) Pfam (PF08069) Pfam (PF00312) | Homo sapiens (Human) | Small ribosomal subunit protein uS15 |
| 75 | WB (SO) | 40S ribosomal protein S14 | polymer | 140 | 15014.2 | 1 | UniProt (P62263) Pfam (PF00411) | Homo sapiens (Human) | Small ribosomal subunit protein uS11 |
| 76 | XB (SW) | 40S ribosomal protein S15a | polymer | 129 | 14734.4 | 1 | UniProt (P62244) Pfam (PF00410) | Homo sapiens (Human) | Small ribosomal subunit protein uS8 |
| 77 | YB (SY) | 40S ribosomal protein S24 | polymer | 131 | 15203.0 | 1 | UniProt (P62847) Pfam (PF01282) | Homo sapiens (Human) | Small ribosomal subunit protein eS24 |
| 78 | ZB (SZ) | 40S ribosomal protein S25 | polymer | 75 | 8526.1 | 1 | UniProt (P62851) Pfam (PF03297) | Homo sapiens (Human) | Small ribosomal subunit protein eS25 |
| 79 | AC (Sb) | 40S ribosomal protein S27 | polymer | 83 | 9349.0 | 1 | UniProt (P42677) Pfam (PF01667) | Homo sapiens (Human) | Metallopan-stimulin 1,MPS-1,Small ribosomal subunit protein eS27 |
| 80 | BC (Se) | 40S ribosomal protein S30 | polymer | 58 | 6539.8 | 1 | UniProt (P62861) Pfam (PF04758) | Homo sapiens (Human) | Small ribosomal subunit protein eS30 |
| 81 | CC (Sf) | Ubiquitin-40S ribosomal protein S27a | polymer | 67 | 7884.3 | 1 | UniProt (P62979) Pfam (PF01599) | Homo sapiens (Human) | Ubiquitin carboxyl extension protein 80 |
| 82 | AD, AE, AF, AG, AH... (L5, L8, S2, SF, LA...) | MAGNESIUM ION | non-polymer | 24.3 | 438 | Chemie (MG) | |||
| 83 | QM (L5) | (3beta)-O~3~-[(2R)-2,6-dihydroxy-2-(2-methoxy-2-oxoethyl)-6-methylheptanoyl]cephalotaxine | non-polymer | 545.6 | 1 | Chemie (HMT) | |||
| 84 | GT, HT, IT, PN, QN... (Sa, Sd, Sf, Lg, Lj...) | ZINC ION | non-polymer | 65.4 | 8 | Chemie (ZN) | |||
| 85 | CT (S2) | HYGROMYCIN B | non-polymer | 527.5 | 1 | Chemie (HYG) | |||
| 86 | AU, BU, CU, DU, EU... (SS, SV, SC, SG, SN...) | water | water | 18.0 | 44 | Chemie (HOH) |
Sequence modifications
LE: 42 - 288 (UniProt: Q02878)
Lb: 2 - 122 (UniProt: P47914)
SH: 5 - 193 (UniProt: P62081)
| PDB | External Database | Details |
|---|---|---|
| - | Lys 77 | deletion |
| - | Ser 78 | deletion |
| - | Lys 79 | deletion |
| - | Val 80 | deletion |
| - | Glu 81 | deletion |
| - | Lys 82 | deletion |
| - | Lys 83 | deletion |
| - | Lys 84 | deletion |
| - | Lys 85 | deletion |
| - | Glu 86 | deletion |
| - | Lys 87 | deletion |
| PDB | External Database | Details |
|---|---|---|
| - | Lys 77 | deletion |
| - | Pro 78 | deletion |
| - | Lys 79 | deletion |
| - | Glu 80 | deletion |
| - | Val 81 | deletion |
| - | Lys 82 | deletion |
| - | Pro 83 | deletion |
| - | Lys 84 | deletion |
| - | Ile 85 | deletion |
| - | Pro 86 | deletion |
| - | Lys 87 | deletion |
| - | Gly 88 | deletion |
| Ala 89 | Val 89 | conflict |
| PDB | External Database | Details |
|---|---|---|
| - | Ser 108 | deletion |
| - | Arg 109 | deletion |
| - | Thr 110 | deletion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 81 |
| Total formula weight | 3242543.8 | |
| Non-Polymers* | Number of molecules | 448 |
| Total formula weight | 12242.0 | |
| All* | Total formula weight | 3254785.8 |
