6XA1
Structure of a drug-like compound stalled human translation termination complex
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 | LA | 60S ribosomal protein L8 | polymer | 248 | 26998.6 | 1 | UniProt (P62917) Pfam (PF00181) Pfam (PF03947) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL2 |
| 2 | LB | 60S ribosomal protein L3 | polymer | 396 | 45493.3 | 1 | UniProt (P39023) Pfam (PF00297) In PDB | Homo sapiens (Human) | HIV-1 TAR RNA-binding protein B,TARBP-B,Large ribosomal subunit protein uL3 |
| 3 | L5 | 28S rRNA | polymer | 3510 | 1138224.8 | 1 | Homo sapiens (Human) | ||
| 4 | L7 | 5S rRNA | polymer | 120 | 38691.9 | 1 | GenBank (23898) | Homo sapiens (Human) | |
| 5 | L8 | 5.8S rRNA | polymer | 155 | 49852.5 | 1 | Homo sapiens (Human) | ||
| 6 | LC | 60S ribosomal protein L4 | polymer | 358 | 40716.1 | 1 | UniProt (P36578) Pfam (PF00573) Pfam (PF14374) In PDB | Homo sapiens (Human) | 60S ribosomal protein L1,Large ribosomal subunit protein uL4 |
| 7 | LD | 60S ribosomal protein L5 | polymer | 290 | 33650.9 | 1 | UniProt (P46777) Pfam (PF17144) Pfam (PF14204) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL18 |
| 8 | LE | 60S ribosomal protein L6 | polymer | 247 | 28378.8 | 1 | UniProt (Q02878) Pfam (PF03868) Pfam (PF01159) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL6,Neoplasm-related protein C140,Tax-responsive enhancer element-binding protein 107,TaxREB107 |
| 9 | LF | 60S ribosomal protein L7 | polymer | 225 | 26590.7 | 1 | UniProt (P18124) Pfam (PF08079) Pfam (PF00327) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL30 |
| 10 | LG | 60S ribosomal protein L7a | polymer | 241 | 27452.5 | 1 | UniProt (P62424) Pfam (PF01248) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL8,PLA-X polypeptide,Surfeit locus protein 3 |
| 11 | LH | 60S ribosomal protein L9 | polymer | 190 | 21655.3 | 1 | UniProt (P32969) Pfam (PF00347) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL6 |
| 12 | LI | 60S ribosomal protein L10-like | polymer | 213 | 24439.8 | 1 | UniProt (Q96L21) Pfam (PF00252) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL16-like |
| 13 | LJ | 60S ribosomal protein L11 | polymer | 176 | 20086.2 | 1 | UniProt (P62913) Pfam (PF00281) Pfam (PF00673) In PDB | Homo sapiens (Human) | CLL-associated antigen KW-12,Large ribosomal subunit protein uL5 |
| 14 | LL | 60S ribosomal protein L13 | polymer | 204 | 23459.6 | 1 | UniProt (P26373) Pfam (PF01294) In PDB | Homo sapiens (Human) | Breast basic conserved protein 1,Large ribosomal subunit protein eL13 |
| 15 | LM | 60S ribosomal protein L14 | polymer | 139 | 16220.3 | 1 | UniProt (P50914) Pfam (PF01929) In PDB | Homo sapiens (Human) | CAG-ISL 7,Large ribosomal subunit protein eL14 |
| 16 | LN | 60S ribosomal protein L15 | polymer | 203 | 24076.1 | 1 | UniProt (P61313) Pfam (PF00827) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL15 |
| 17 | LO | 60S ribosomal protein L13a | polymer | 201 | 23431.1 | 1 | UniProt (P40429) Pfam (PF00572) In PDB | Homo sapiens (Human) | 23 kDa highly basic protein,Large ribosomal subunit protein uL13 |
| 18 | LP | 60S ribosomal protein L17 | polymer | 153 | 17757.6 | 1 | UniProt (P18621) Pfam (PF00237) In PDB | Homo sapiens (Human) | 60S ribosomal protein L23,Large ribosomal subunit protein uL22,PD-1 |
| 19 | LQ | 60S ribosomal protein L18 | polymer | 187 | 21556.5 | 1 | UniProt (Q07020) Pfam (PF17135) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL18 |
| 20 | LR | 60S ribosomal protein L19 | polymer | 187 | 22441.0 | 1 | UniProt (P84098) Pfam (PF01280) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL19 |
| 21 | LS | 60S ribosomal protein L18a | polymer | 175 | 20677.3 | 1 | UniProt (Q02543) Pfam (PF01775) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL20 |
| 22 | LT | 60S ribosomal protein L21 | polymer | 159 | 18478.8 | 1 | UniProt (P46778) Pfam (PF01157) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL21 |
| 23 | LU | Heparin-binding protein HBp15 | polymer | 101 | 11722.5 | 1 | UniProt (Q7Z4W8) Pfam (PF01776) In PDB | Homo sapiens (Human) | |
| 24 | LV | 60S ribosomal protein L23 | polymer | 131 | 13972.4 | 1 | UniProt (P62829) Pfam (PF00238) In PDB | Homo sapiens (Human) | 60S ribosomal protein L17,Large ribosomal subunit protein uL14 |
| 25 | LW | 60S ribosomal protein L24 | polymer | 124 | 14477.0 | 1 | UniProt (P83731) Pfam (PF01246) In PDB | Homo sapiens (Human) | 60S ribosomal protein L30,Large ribosomal subunit protein eL24 |
| 26 | LX | 60S ribosomal protein L23a | polymer | 120 | 13985.5 | 1 | UniProt (P62750) Pfam (PF03939) Pfam (PF00276) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL23 |
| 27 | LY | 60S ribosomal protein L26 | polymer | 134 | 15891.8 | 1 | UniProt (P61254) Pfam (PF16906) Pfam (PF00467) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL24 |
| 28 | LZ | 60S ribosomal protein L27 | polymer | 135 | 15704.6 | 1 | UniProt (P61353) Pfam (PF00467) Pfam (PF01777) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL27 |
| 29 | La | 60S ribosomal protein L27a | polymer | 147 | 16473.3 | 1 | UniProt (P46776) Pfam (PF00828) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL15 |
| 30 | Lb | 60S ribosomal protein L29 | polymer | 121 | 13937.8 | 1 | UniProt (P47914) Pfam (PF01779) In PDB | Homo sapiens (Human) | Cell surface heparin-binding protein HIP,Large ribosomal subunit protein eL29 |
| 31 | Lc | 60S ribosomal protein L30 | polymer | 98 | 10954.9 | 1 | UniProt (P62888) Pfam (PF01248) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL30 |
| 32 | Ld | 60S ribosomal protein L31 | polymer | 107 | 12635.7 | 1 | UniProt (P62899) Pfam (PF01198) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL31 |
| 33 | Le | 60S ribosomal protein L32 | polymer | 128 | 15022.0 | 1 | UniProt (P62910) Pfam (PF01655) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL32 |
| 34 | Lf | 60S ribosomal protein L35a | polymer | 109 | 12433.5 | 1 | UniProt (P18077) Pfam (PF01247) In PDB | Homo sapiens (Human) | Cell growth-inhibiting gene 33 protein,Large ribosomal subunit protein eL33 |
| 35 | Lg | 60S ribosomal protein L34 | polymer | 114 | 12994.6 | 1 | UniProt (P49207) Pfam (PF01199) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL34 |
| 36 | Lh | 60S ribosomal protein L35 | polymer | 122 | 14462.4 | 1 | UniProt (P42766) Pfam (PF00831) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein uL29 |
| 37 | Li | 60S ribosomal protein L36 | polymer | 102 | 11915.4 | 1 | UniProt (Q9Y3U8) Pfam (PF01158) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL36 |
| 38 | Lj | 60S ribosomal protein L37 | polymer | 86 | 10090.9 | 1 | UniProt (P61927) Pfam (PF01907) In PDB | Homo sapiens (Human) | G1.16,Large ribosomal subunit protein eL37 |
| 39 | Lk | 60S ribosomal protein L38 | polymer | 69 | 8107.8 | 1 | UniProt (P63173) Pfam (PF01781) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL38 |
| 40 | Ll | 60S ribosomal protein L39 | polymer | 50 | 6295.6 | 1 | UniProt (P62891) Pfam (PF00832) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL39 |
| 41 | Lm | 60S ribosomal protein L40 | polymer | 52 | 6212.6 | 1 | UniProt (P62987) Pfam (PF01020) In PDB | Homo sapiens (Human) | CEP52,Ubiquitin A-52 residue ribosomal protein fusion product 1 |
| 42 | Ln | 60S ribosomal protein L41 | polymer | 24 | 3344.3 | 1 | UniProt (P62945) Pfam (PF05162) In PDB | Homo sapiens (Human) | HG12,Large ribosomal subunit protein eL41 |
| 43 | Lo | 60S ribosomal protein L36a | polymer | 105 | 12345.8 | 1 | UniProt (P83881) Pfam (PF00935) In PDB | 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 | Lp | 60S ribosomal protein L37a | polymer | 91 | 10168.2 | 1 | UniProt (P61513) Pfam (PF01780) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL43 |
| 45 | Lr | 60S ribosomal protein L28 | polymer | 125 | 14320.8 | 1 | UniProt (P46779) Pfam (PF01778) In PDB | Homo sapiens (Human) | Large ribosomal subunit protein eL28 |
| 46 | S2 | 18S rRNA | polymer | 1590 | 514092.6 | 1 | Homo sapiens (Human) | ||
| 47 | SA | 40S ribosomal protein SA | polymer | 216 | 24260.8 | 1 | UniProt (P08865) Pfam (PF00318) In PDB | 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 |
| 48 | SB | 40S ribosomal protein S3a | polymer | 211 | 24603.0 | 1 | UniProt (P61247) Pfam (PF01015) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS1,v-fos transformation effector protein,Fte-1 |
| 49 | SD | 40S ribosomal protein S3 | polymer | 224 | 24871.2 | 1 | UniProt (P23396) Pfam (PF07650) Pfam (PF00189) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS3 |
| 50 | SE | 40S ribosomal protein S4, X isoform | polymer | 258 | 29164.3 | 1 | UniProt (P62701) Pfam (PF08071) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) In PDB | Homo sapiens (Human) | SCR10,Single copy abundant mRNA protein,Small ribosomal subunit protein eS4 |
| 51 | SF | 40S ribosomal protein S5 | polymer | 189 | 21327.7 | 1 | UniProt (P46782) Pfam (PF00177) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS7 |
| 52 | SH | 40S ribosomal protein S7 | polymer | 189 | 21629.3 | 1 | UniProt (P62081) Pfam (PF01251) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS7 |
| 53 | SI | 40S ribosomal protein S8 | polymer | 205 | 23946.0 | 1 | UniProt (P62241) Pfam (PF01201) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS8 |
| 54 | SK | 40S ribosomal protein S10 | polymer | 95 | 11372.5 | 1 | UniProt (P46783) Pfam (PF03501) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS10 |
| 55 | SL | 40S ribosomal protein S11 | polymer | 150 | 17399.5 | 1 | UniProt (P62280) Pfam (PF16205) Pfam (PF00366) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS17 |
| 56 | SP | 40S ribosomal protein S15 | polymer | 131 | 15353.1 | 1 | UniProt (P62841) Pfam (PF00203) In PDB | Homo sapiens (Human) | RIG protein,Small ribosomal subunit protein uS19 |
| 57 | SQ | 40S ribosomal protein S16 | polymer | 140 | 15878.6 | 1 | UniProt (P62249) Pfam (PF00380) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS9 |
| 58 | SR | 40S ribosomal protein S17 | polymer | 131 | 15193.7 | 1 | UniProt (P08708) Pfam (PF00833) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS17 |
| 59 | SS | 40S ribosomal protein S18 | polymer | 143 | 16811.6 | 1 | UniProt (P62269) Pfam (PF00416) In PDB | Homo sapiens (Human) | Ke-3,Ke3,Small ribosomal subunit protein uS13 |
| 60 | ST | 40S ribosomal protein S19 | polymer | 141 | 15563.9 | 1 | UniProt (P39019) Pfam (PF01090) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS19 |
| 61 | SU | 40S ribosomal protein S20 | polymer | 100 | 11437.6 | 1 | UniProt (P60866) Pfam (PF00338) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS10 |
| 62 | SV | 40S ribosomal protein S21 | polymer | 84 | 9150.4 | 1 | UniProt (P63220) Pfam (PF01249) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS21 |
| 63 | SX | 40S ribosomal protein S23 | polymer | 139 | 15372.1 | 1 | UniProt (P62266) Pfam (PF00164) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS12 |
| 64 | Sa | 40S ribosomal protein S26 | polymer | 99 | 11341.4 | 1 | UniProt (P62854) Pfam (PF01283) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS26 |
| 65 | Sc | 40S ribosomal protein S28 | polymer | 61 | 6878.9 | 1 | UniProt (P62857) Pfam (PF01200) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS28 |
| 66 | Sd | 40S ribosomal protein S29 | polymer | 55 | 6559.6 | 1 | UniProt (P62273) Pfam (PF00253) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS14 |
| 67 | Sg | Receptor of activated protein C kinase 1 | polymer | 313 | 34669.1 | 1 | UniProt (P63244) Pfam (PF00400) In PDB | 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 |
| 68 | SC | 40S ribosomal protein S2 | polymer | 220 | 24330.7 | 1 | UniProt (P15880) Pfam (PF00333) Pfam (PF03719) In PDB | Homo sapiens (Human) | 40S ribosomal protein S4,Protein LLRep3,Small ribosomal subunit protein uS5 |
| 69 | SG | 40S ribosomal protein S6 | polymer | 228 | 26399.2 | 1 | UniProt (P62753) Pfam (PF01092) In PDB | Homo sapiens (Human) | Phosphoprotein NP33,Small ribosomal subunit protein eS6 |
| 70 | SJ | 40S ribosomal protein S9 | polymer | 180 | 21279.3 | 1 | UniProt (P46781) Pfam (PF00163) Pfam (PF01479) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS4 |
| 71 | SM | 40S ribosomal protein S12 | polymer | 120 | 13421.7 | 1 | UniProt (P25398) Pfam (PF01248) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS12 |
| 72 | SN | 40S ribosomal protein S13 | polymer | 150 | 17128.2 | 1 | UniProt (P62277) Pfam (PF08069) Pfam (PF00312) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS15 |
| 73 | SO | 40S ribosomal protein S14 | polymer | 135 | 14457.6 | 1 | UniProt (P62263) Pfam (PF00411) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS11 |
| 74 | SW | 40S ribosomal protein S15a | polymer | 129 | 14734.4 | 1 | UniProt (P62244) Pfam (PF00410) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein uS8 |
| 75 | SY | 40S ribosomal protein S24 | polymer | 122 | 14304.0 | 1 | UniProt (P62847) Pfam (PF01282) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS24 |
| 76 | SZ | 40S ribosomal protein S25 | polymer | 70 | 7966.5 | 1 | UniProt (P62851) Pfam (PF03297) In PDB | Homo sapiens (Human) | Small ribosomal subunit protein eS25 |
| 77 | Sb | 40S ribosomal protein S27 | polymer | 82 | 9210.8 | 1 | UniProt (P42677) Pfam (PF01667) In PDB | Homo sapiens (Human) | Metallopan-stimulin 1,MPS-1,Small ribosomal subunit protein eS27 |
| 78 | Se | 40S ribosomal protein S30 | polymer | 54 | 6158.4 | 1 | UniProt (E9PR30) Pfam (PF04758) In PDB | Homo sapiens (Human) | |
| 79 | Sf | 40S ribosomal protein S27a | polymer | 63 | 7421.8 | 1 | UniProt (P62979) Pfam (PF01599) In PDB | Homo sapiens (Human) | Ubiquitin carboxyl extension protein 80 |
| 80 | Bv | P-tRNA | polymer | 76 | 24641.8 | 1 | Homo sapiens (Human) | ||
| 81 | j | Eukaryotic peptide chain release factor subunit 1 | polymer | 411 | 46149.8 | 1 | UniProt (P62495) Pfam (PF03463) Pfam (PF03464) Pfam (PF03465) In PDB | Homo sapiens (Human) | eRF1,Protein Cl1,TB3-1 |
| 82 | k | mRNA | polymer | 13 | 4047.4 | 1 | Homo sapiens (Human) | ||
| 83 | NC | Stalled Nascent chain | polymer | 25 | 2523.2 | 1 | Homo sapiens (Human) | ||
| 84 | L5, L8, S2, Bv, L7... | MAGNESIUM ION | non-polymer | 24.3 | 190 | Chemie (MG) | |||
| 85 | L5 | N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide | non-polymer | 433.9 | 1 | Chemie (MVM) | |||
| 86 | Lg, Lj, Lm, Lo, Lp... | ZINC ION | non-polymer | 65.4 | 8 | Chemie (ZN) | |||
| 87 | Bv | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) |
Sequence modifications
Lb: 2 - 122 (UniProt: P47914)
SV: 1 - 83 (UniProt: P63220)
SO: 17 - 151 (UniProt: P62263)
j: 11 - 421 (UniProt: P62495)
| PDB | External Database | Details |
|---|---|---|
| Ala 89 | Val 89 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Ace 0 | - | acetylation |
| PDB | External Database | Details |
|---|---|---|
| Ias 138 | Asp 138 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Uxy 63 | Lys 63 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 83 |
| Total formula weight | 3128850.6 | |
| Non-Polymers* | Number of molecules | 201 |
| Total formula weight | 5653.3 | |
| All* | Total formula weight | 3134503.9 |
