9VXN
Human cytosolic ribosome in a rotated state, with multiple neomycin molecules bound, featuring A/P-site and P/E-site tRNAs
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 | A (L5) | 28S rRNA | polymer | 5069 | 1640842.5 | 1 | Homo sapiens (human) | ||
| 2 | B (L7) | 5S rRNA | polymer | 120 | 38691.9 | 1 | GenBank (2322126018) | Homo sapiens (human) | |
| 3 | C (L8) | 5.8S rRNA | polymer | 157 | 50477.9 | 1 | GenBank (555853) | Homo sapiens (human) | |
| 4 | D (LA) | Large ribosomal subunit protein uL2 | polymer | 257 | 28088.9 | 1 | UniProt (P62917) | Homo sapiens (human) | 60S ribosomal protein L8 |
| 5 | E (LB) | Large ribosomal subunit protein uL3 | polymer | 403 | 46224.1 | 1 | UniProt (P39023) | Homo sapiens (human) | 60S ribosomal protein L3,HIV-1 TAR RNA-binding protein B,TARBP-B |
| 6 | F (LC) | Large ribosomal subunit protein uL4 | polymer | 368 | 41747.2 | 1 | UniProt (P36578) | Homo sapiens (human) | 60S ribosomal protein L1,60S ribosomal protein L4 |
| 7 | G (LD) | Large ribosomal subunit protein uL18 | polymer | 294 | 34139.5 | 1 | UniProt (P46777) | Homo sapiens (human) | 60S ribosomal protein L5 |
| 8 | H (LE) | Large ribosomal subunit protein eL6 | polymer | 288 | 32810.2 | 1 | UniProt (Q02878) | Homo sapiens (human) | 60S ribosomal protein L6,Neoplasm-related protein C140,Tax-responsive enhancer element-binding protein 107,TaxREB107 |
| 9 | I (LF) | Large ribosomal subunit protein uL30 | polymer | 248 | 29291.0 | 1 | UniProt (P18124) | Homo sapiens (human) | 60S ribosomal protein L7 |
| 10 | J (LG) | Large ribosomal subunit protein eL8 | polymer | 266 | 30061.8 | 1 | UniProt (P62424) | Homo sapiens (human) | 60S ribosomal protein L7a,PLA-X polypeptide,Surfeit locus protein 3 |
| 11 | K (LH) | Large ribosomal subunit protein uL6 | polymer | 192 | 21899.5 | 1 | UniProt (P32969) | Homo sapiens (human) | 60S ribosomal protein L9 |
| 12 | L (LI) | Ribosomal protein uL16-like | polymer | 214 | 24617.0 | 1 | UniProt (Q96L21) | Homo sapiens (human) | 60S ribosomal protein L10-like,Large ribosomal subunit protein uL16-like |
| 13 | M (LJ) | Large ribosomal subunit protein uL5 | polymer | 178 | 20288.5 | 1 | UniProt (P62913) | Homo sapiens (human) | 60S ribosomal protein L11,CLL-associated antigen KW-12 |
| 14 | N (LL) | Large ribosomal subunit protein eL13 | polymer | 211 | 24321.7 | 1 | UniProt (P26373) | Homo sapiens (human) | 60S ribosomal protein L13,Breast basic conserved protein 1 |
| 15 | O (LM) | Large ribosomal subunit protein eL14 | polymer | 215 | 23485.0 | 1 | UniProt (P50914) | Homo sapiens (human) | 60S ribosomal protein L14,CAG-ISL 7 |
| 16 | P (LN) | Large ribosomal subunit protein eL15 | polymer | 204 | 24207.3 | 1 | UniProt (P61313) | Homo sapiens (human) | 60S ribosomal protein L15 |
| 17 | Q (LO) | Large ribosomal subunit protein uL13 | polymer | 203 | 23633.4 | 1 | UniProt (P40429) | Homo sapiens (human) | 23 kDa highly basic protein,60S ribosomal protein L13a |
| 18 | R (LP) | Large ribosomal subunit protein uL22 | polymer | 184 | 21443.2 | 1 | UniProt (P18621) | Homo sapiens (human) | 60S ribosomal protein L17,60S ribosomal protein L23,PD-1 |
| 19 | S (LQ) | Large ribosomal subunit protein eL18 | polymer | 188 | 21687.7 | 1 | UniProt (Q07020) | Homo sapiens (human) | 60S ribosomal protein L18 |
| 20 | T (LR) | Large ribosomal subunit protein eL19 | polymer | 196 | 23535.3 | 1 | UniProt (P84098) | Homo sapiens (human) | 60S ribosomal protein L19 |
| 21 | U (LS) | Large ribosomal subunit protein eL20 | polymer | 176 | 20808.5 | 1 | UniProt (Q02543) | Homo sapiens (human) | 60S ribosomal protein L18a |
| 22 | V (LT) | Large ribosomal subunit protein eL21 | polymer | 160 | 18610.0 | 1 | UniProt (P46778) | Homo sapiens (human) | 60S ribosomal protein L21 |
| 23 | W (LU) | Large ribosomal subunit protein eL22 | polymer | 128 | 14813.0 | 1 | UniProt (P35268) | Homo sapiens (human) | 60S ribosomal protein L22,EBER-associated protein,EAP,Epstein-Barr virus small RNA-associated protein,Heparin-binding protein HBp15 |
| 24 | X (LV) | Large ribosomal subunit protein uL14 | polymer | 140 | 14892.5 | 1 | UniProt (P62829) | Homo sapiens (human) | 60S ribosomal protein L17,60S ribosomal protein L23 |
| 25 | Y (LW) | Large ribosomal subunit protein eL24 | polymer | 157 | 17825.1 | 1 | UniProt (P83731) | Homo sapiens (human) | 60S ribosomal protein L24,60S ribosomal protein L30 |
| 26 | Z (LX) | Large ribosomal subunit protein uL23 | polymer | 156 | 17740.2 | 1 | UniProt (P62750) | Homo sapiens (human) | 60S ribosomal protein L23a |
| 27 | AA (LY) | Large ribosomal subunit protein uL24 | polymer | 145 | 17303.4 | 1 | UniProt (P61254) | Homo sapiens (human) | 60S ribosomal protein L26 |
| 28 | BA (LZ) | Large ribosomal subunit protein eL27 | polymer | 136 | 15835.8 | 1 | UniProt (P61353) | Homo sapiens (human) | 60S ribosomal protein L27 |
| 29 | CA (La) | Large ribosomal subunit protein uL15 | polymer | 148 | 16619.5 | 1 | UniProt (P46776) | Homo sapiens (human) | 60S ribosomal protein L27a |
| 30 | DA (Lb) | Large ribosomal subunit protein eL29 | polymer | 159 | 17804.3 | 1 | UniProt (P47914) | Homo sapiens (human) | 60S ribosomal protein L29,Cell surface heparin-binding protein HIP |
| 31 | EA (Lc) | Large ribosomal subunit protein eL30 | polymer | 115 | 12805.1 | 1 | UniProt (P62888) | Homo sapiens (human) | 60S ribosomal protein L30 |
| 32 | FA (Ld) | Large ribosomal subunit protein eL31 | polymer | 125 | 14494.9 | 1 | UniProt (P62899) | Homo sapiens (human) | 60S ribosomal protein L31 |
| 33 | GA (Le) | Large ribosomal subunit protein eL32 | polymer | 135 | 15898.9 | 1 | UniProt (P62910) | Homo sapiens (human) | 60S ribosomal protein L32 |
| 34 | HA (Lf) | Large ribosomal subunit protein eL33 | polymer | 110 | 12564.7 | 1 | UniProt (P18077) | Homo sapiens (human) | 60S ribosomal protein L35a,Cell growth-inhibiting gene 33 protein |
| 35 | IA (Lg) | Large ribosomal subunit protein eL34 | polymer | 117 | 13326.1 | 1 | UniProt (P49207) | Homo sapiens (human) | 60S ribosomal protein L34 |
| 36 | JA (Lh) | Large ribosomal subunit protein uL29 | polymer | 123 | 14593.6 | 1 | UniProt (P42766) | Homo sapiens (human) | 60S ribosomal protein L35 |
| 37 | KA (Li) | Large ribosomal subunit protein eL36 | polymer | 105 | 12290.9 | 1 | UniProt (Q9Y3U8) | Homo sapiens (human) | 60S ribosomal protein L36 |
| 38 | LA (Lj) | Large ribosomal subunit protein eL37 | polymer | 97 | 11111.0 | 1 | UniProt (P61927) | Homo sapiens (human) | 60S ribosomal protein L37,G1.16 |
| 39 | MA (Lk) | Large ribosomal subunit protein eL38 | polymer | 70 | 8238.9 | 1 | UniProt (P63173) | Homo sapiens (human) | 60S ribosomal protein L38 |
| 40 | NA (Ll) | Large ribosomal subunit protein eL39 | polymer | 51 | 6426.8 | 1 | UniProt (P62891) | Homo sapiens (human) | 60S ribosomal protein L39 |
| 41 | OA (Lm) | Ubiquitin-ribosomal protein eL40 fusion protein | polymer | 128 | 14758.4 | 1 | UniProt (P62987) | Homo sapiens (human) | CEP52,Ubiquitin A-52 residue ribosomal protein fusion product 1 |
| 42 | PA (Ln) | Small ribosomal subunit protein eS32 | polymer | 25 | 3473.5 | 1 | UniProt (P62945) | Homo sapiens (human) | 60S ribosomal protein L41,HG12,Large ribosomal subunit protein eL41 |
| 43 | QA (Lo) | Large ribosomal subunit protein eL42 | polymer | 106 | 12477.0 | 1 | UniProt (P83881) | Homo sapiens (human) | 60S ribosomal protein L36a,60S ribosomal protein L44,Cell growth-inhibiting gene 15 protein,Cell migration-inducing gene 6 protein |
| 44 | RA (Lp) | Large ribosomal subunit protein eL43 | polymer | 92 | 10299.4 | 1 | UniProt (P61513) | Homo sapiens (human) | 60S ribosomal protein L37a |
| 45 | SA (Lr) | Large ribosomal subunit protein eL28 | polymer | 137 | 15784.6 | 1 | UniProt (P46779) | Homo sapiens (human) | 60S ribosomal protein L28 |
| 46 | TA (S2) | 18S rRNA | polymer | 1869 | 603565.1 | 1 | Homo sapiens (human) | ||
| 47 | UA (SA) | Small ribosomal subunit protein uS2 | polymer | 295 | 32883.9 | 1 | UniProt (P08865) | Homo sapiens (human) | 37 kDa laminin receptor precursor,37LRP,37/67 kDa laminin receptor,LRP/LR,40S ribosomal protein SA,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 |
| 48 | VA (SB) | Small ribosomal subunit protein eS1 | polymer | 264 | 30002.1 | 1 | UniProt (P61247) | Homo sapiens (human) | 40S ribosomal protein S3a,v-fos transformation effector protein,Fte-1 |
| 49 | WA (SC) | Small ribosomal subunit protein uS5 | polymer | 293 | 31376.5 | 1 | UniProt (P15880) | Homo sapiens (human) | 40S ribosomal protein S2,40S ribosomal protein S4,Protein LLRep3 |
| 50 | XA (SD) | Small ribosomal subunit protein uS3 | polymer | 243 | 26729.4 | 1 | UniProt (P23396) | Homo sapiens (human) | 40S ribosomal protein S3 |
| 51 | YA (SE) | Small ribosomal subunit protein eS4, X isoform | polymer | 263 | 29654.9 | 1 | UniProt (P62701) | Homo sapiens (human) | 40S ribosomal protein S4,SCR10,Single copy abundant mRNA protein |
| 52 | ZA (SF) | Small ribosomal subunit protein uS7 | polymer | 204 | 22913.5 | 1 | UniProt (P46782) | Homo sapiens (human) | 40S ribosomal protein S5 |
| 53 | AB (SG) | Small ribosomal subunit protein eS6 | polymer | 249 | 28751.9 | 1 | UniProt (P62753) | Homo sapiens (human) | 40S ribosomal protein S6,Phosphoprotein NP33 |
| 54 | BB (SH) | Small ribosomal subunit protein eS7 | polymer | 194 | 22168.9 | 1 | UniProt (P62081) | Homo sapiens (human) | 40S ribosomal protein S7 |
| 55 | CB (SI) | Small ribosomal subunit protein eS8 | polymer | 208 | 24263.4 | 1 | UniProt (P62241) | Homo sapiens (human) | 40S ribosomal protein S8 |
| 56 | DB (SJ) | Small ribosomal subunit protein uS4 | polymer | 194 | 22641.6 | 1 | UniProt (P46781) | Homo sapiens (human) | 40S ribosomal protein S9 |
| 57 | EB (SK) | Small ribosomal subunit protein eS10 | polymer | 165 | 18933.8 | 1 | UniProt (P46783) | Homo sapiens (human) | 40S ribosomal protein S10 |
| 58 | FB (SL) | Small ribosomal subunit protein uS17 | polymer | 158 | 18468.8 | 1 | UniProt (P62280) | Homo sapiens (human) | 40S ribosomal protein S11 |
| 59 | GB (SM) | Small ribosomal subunit protein eS12 | polymer | 132 | 14539.0 | 1 | UniProt (P25398) | Homo sapiens (human) | 40S ribosomal protein S12 |
| 60 | HB (SN) | Small ribosomal subunit protein uS15 | polymer | 151 | 17259.4 | 1 | UniProt (P62277) | Homo sapiens (human) | 40S ribosomal protein S13 |
| 61 | IB (SO) | Small ribosomal subunit protein uS11 | polymer | 151 | 16302.8 | 1 | UniProt (P62263) | Homo sapiens (human) | 40S ribosomal protein S14 |
| 62 | JB (SP) | Small ribosomal subunit protein uS19 | polymer | 145 | 17076.2 | 1 | UniProt (P62841) | Homo sapiens (human) | 40S ribosomal protein S15,RIG protein |
| 63 | KB (SQ) | Small ribosomal subunit protein uS9 | polymer | 146 | 16477.4 | 1 | UniProt (P62249) | Homo sapiens (human) | 40S ribosomal protein S16 |
| 64 | LB (SR) | Small ribosomal subunit protein eS17 | polymer | 135 | 15578.2 | 1 | UniProt (P08708) | Homo sapiens (human) | 40S ribosomal protein S17 |
| 65 | MB (SS) | Small ribosomal subunit protein uS13 | polymer | 152 | 17759.8 | 1 | UniProt (P62269) | Homo sapiens (human) | 40S ribosomal protein S18,Ke-3,Ke3 |
| 66 | NB (ST) | Small ribosomal subunit protein eS19 | polymer | 145 | 16104.6 | 1 | UniProt (P39019) | Homo sapiens (human) | 40S ribosomal protein S19 |
| 67 | OB (SU) | Small ribosomal subunit protein uS10 | polymer | 119 | 13398.8 | 1 | UniProt (P60866) | Homo sapiens (human) | 40S ribosomal protein S20 |
| 68 | PB (SV) | Small ribosomal subunit protein eS21 | polymer | 83 | 9124.4 | 1 | UniProt (P63220) | Homo sapiens (human) | 40S ribosomal protein S21 |
| 69 | QB (SW) | Small ribosomal subunit protein uS8 | polymer | 130 | 14865.6 | 1 | UniProt (P62244) | Homo sapiens (human) | 40S ribosomal protein S15a |
| 70 | RB (SX) | Small ribosomal subunit protein uS12 | polymer | 143 | 15844.7 | 1 | UniProt (P62266) | Homo sapiens (human) | 40S ribosomal protein S23 |
| 71 | SB (SY) | Small ribosomal subunit protein eS24 | polymer | 133 | 15463.3 | 1 | UniProt (P62847) | Homo sapiens (human) | 40S ribosomal protein S24 |
| 72 | TB (SZ) | Small ribosomal subunit protein eS25 | polymer | 125 | 13776.2 | 1 | UniProt (P62851) | Homo sapiens (human) | 40S ribosomal protein S25 |
| 73 | UB (Sa) | Small ribosomal subunit protein eS26 | polymer | 115 | 13047.5 | 1 | UniProt (P62854) | Homo sapiens (human) | 40S ribosomal protein S26 |
| 74 | VB (Sb) | Small ribosomal subunit protein eS27 | polymer | 84 | 9480.2 | 1 | UniProt (P42677) | Homo sapiens (human) | 40S ribosomal protein S27,Metallopan-stimulin 1,MPS-1 |
| 75 | WB (Sc) | Small ribosomal subunit protein eS28 | polymer | 69 | 7855.1 | 1 | UniProt (P62857) | Homo sapiens (human) | 40S ribosomal protein S28 |
| 76 | XB (Sd) | Small ribosomal subunit protein uS14 | polymer | 56 | 6690.8 | 1 | UniProt (P62273) | Homo sapiens (human) | 40S ribosomal protein S29 |
| 77 | YB (Se) | Ubiquitin-like FUBI-ribosomal protein eS30 fusion protein | polymer | 133 | 14415.7 | 1 | UniProt (P62861) | Homo sapiens (human) | FAU ubiquitin like and ribosomal protein S30 fusion |
| 78 | ZB (Sf) | Ubiquitin | polymer | 156 | 18004.0 | 1 | UniProt (P62979) | Homo sapiens (human) | |
| 79 | AC (Sg) | Small ribosomal subunit protein RACK1 | polymer | 317 | 35115.7 | 1 | UniProt (P63244) | 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,Receptor of activated protein C kinase 1 |
| 80 | BC (u) | A/P-tRNA | polymer | 76 | 24414.5 | 1 | Homo sapiens (human) | ||
| 81 | CC (v) | P/E-tRNA | polymer | 76 | 24436.5 | 1 | Homo sapiens (human) | ||
| 82 | DC (w) | mRNA | polymer | 10 | 3193.9 | 1 | Homo sapiens (human) | ||
| 83 | AD, AE, AF, AG, AH... (L5, S2, L7, ST, L8...) | MAGNESIUM ION | non-polymer | 24.3 | 292 | Chemie (MG) PubChem (888) | |||
| 84 | AK, AL, AM, AQ, AS... (L5, S2, Lo, SO, L7...) | POTASSIUM ION | non-polymer | 39.1 | 108 | Chemie (K) PubChem (813) | |||
| 85 | SM, TM, UM (L5) | SPERMIDINE | non-polymer | 145.2 | 3 | Chemie (SPD) PubChem (1102) | |||
| 86 | AN, BN, CN, CR, DN... (L5, S2, L7) | NEOMYCIN | non-polymer | 614.6 | 17 | Chemie (NMY) PubChem (8378) | |||
| 87 | AO, BO, CO, EO, FO... (Lg, Lj, Lm, Lo, Lp...) | ZINC ION | non-polymer | 65.4 | 8 | Chemie (ZN) PubChem (32051) | |||
| 88 | JS (SO) | BETA-L-ASPARTIC ACID | non-polymer | 133.1 | 1 | Chemie (IAS) PubChem (5960) |
Sequence modifications
LI: 1 - 214 (UniProt: Q96L21)
SO: 1 - 151 (UniProt: P62263)
| PDB | External Database | Details |
|---|---|---|
| Cys 49 | Gly 49 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ias 138 | Asp 138 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 82 |
| Total formula weight | 3834867.4 | |
| Non-Polymers* | Number of molecules | 429 |
| Total formula weight | 22860.7 | |
| All* | Total formula weight | 3857728.1 |
