6MPI
Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a 2-thiocytidine (s2C32) and inosine (I34) modified anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 1 (TRNAARG1) bound to an mRNA with an CGU-codon in the A-site and paromomycin
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | 16S rRNA | polymer | 1507 | 489191.6 | 1 | GenBank (55771382) | Thermus thermophilus HB8 | |
| 2 | B (B) | 30S ribosomal protein S2 | polymer | 256 | 29317.7 | 1 | UniProt (P80371) Pfam (PF00318) | Thermus thermophilus HB8 | |
| 3 | C (C) | 30S ribosomal protein S3 | polymer | 239 | 26751.1 | 1 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) | Thermus thermophilus HB8 | |
| 4 | D (D) | 30S ribosomal protein S4 | polymer | 209 | 24373.4 | 1 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) | Thermus thermophilus HB8 | |
| 5 | E (E) | 30S ribosomal protein S5 | polymer | 162 | 17583.4 | 1 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) | Thermus thermophilus HB8 | |
| 6 | F (F) | 30S ribosomal protein S6 | polymer | 101 | 11988.8 | 1 | UniProt (Q5SLP8) Pfam (PF01250) | Thermus thermophilus HB8 | TS9 |
| 7 | G (G) | 30S ribosomal protein S7 | polymer | 156 | 18051.0 | 1 | UniProt (P17291) Pfam (PF00177) | Thermus thermophilus HB8 | |
| 8 | H (H) | 30S ribosomal protein S8 | polymer | 138 | 15868.6 | 1 | UniProt (P0DOY9) Pfam (PF00410) | Thermus thermophilus HB8 | |
| 9 | I (I) | 30S ribosomal protein S9 | polymer | 128 | 14429.7 | 1 | UniProt (P80374) Pfam (PF00380) | Thermus thermophilus HB8 | |
| 10 | J (J) | 30S ribosomal protein S10 | polymer | 105 | 11955.0 | 1 | UniProt (Q5SHN7) Pfam (PF00338) | Thermus thermophilus HB8 | |
| 11 | K (K) | 30S ribosomal protein S11 | polymer | 129 | 13737.9 | 1 | UniProt (P80376) Pfam (PF00411) | Thermus thermophilus HB8 | |
| 12 | L (L) | 30S ribosomal protein S12 | polymer | 132 | 14637.4 | 1 | UniProt (Q5SHN3) Pfam (PF00164) | Thermus thermophilus HB8 | |
| 13 | M (M) | 30S ribosomal protein S13 | polymer | 126 | 14338.9 | 1 | UniProt (P80377) Pfam (PF00416) | Thermus thermophilus HB8 | |
| 14 | N (N) | 30S ribosomal protein S14 type Z | polymer | 61 | 7158.7 | 1 | UniProt (P0DOY6) Pfam (PF00253) | Thermus thermophilus HB8 | |
| 15 | O (O) | 30S ribosomal protein S15 | polymer | 89 | 10578.4 | 1 | UniProt (Q5SJ76) Pfam (PF00312) | Thermus thermophilus HB8 | |
| 16 | P (P) | 30S ribosomal protein S16 | polymer | 88 | 10410.0 | 1 | UniProt (Q5SJH3) Pfam (PF00886) | Thermus thermophilus HB8 | |
| 17 | Q (Q) | 30S ribosomal protein S17 | polymer | 105 | 12324.7 | 1 | UniProt (P0DOY7) Pfam (PF00366) | Thermus thermophilus HB8 | |
| 18 | R (R) | 30S ribosomal protein S18 | polymer | 88 | 10244.3 | 1 | UniProt (Q5SLQ0) Pfam (PF01084) | Thermus thermophilus HB8 | |
| 19 | S (S) | 30S ribosomal protein S19 | polymer | 93 | 10605.5 | 1 | UniProt (Q5SHP2) Pfam (PF00203) | Thermus thermophilus HB8 | |
| 20 | T (T) | 30S ribosomal protein S20 | polymer | 106 | 11736.1 | 1 | UniProt (P80380) Pfam (PF01649) | Thermus thermophilus HB8 | |
| 21 | U (V) | 30S ribosomal protein Thx | polymer | 27 | 3350.0 | 1 | UniProt (Q5SIH3) Pfam (PF17070) | Thermus thermophilus HB8 | S31 |
| 22 | V (X) | tRNA ASL Escherichia coli Arg1 | polymer | 17 | 5458.4 | 1 | Escherichia coli | ||
| 23 | W (W) | mRNA A-site fragment | polymer | 6 | 1899.2 | 1 | Escherichia coli | ||
| 24 | AA, AB, AC, AD, BA... (A, J, N, W) | MAGNESIUM ION | non-polymer | 24.3 | 96 | Chemie (MG) | |||
| 25 | LD (A) | PAROMOMYCIN | non-polymer | 615.6 | 1 | Chemie (PAR) | |||
| 26 | ND (D) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) |
Sequence modifications
A: 5 - 1539 (GenBank: 55771382)
I: 1 - 128 (UniProt: P80374)
Q: 1 - 105 (UniProt: P0DOY7)
R: 1 - 88 (UniProt: Q5SLQ0)
| PDB | External Database | Details |
|---|---|---|
| - | G 132279 | deletion |
| - | G 132309 | deletion |
| - | C 132310 | deletion |
| - | G 132311 | deletion |
| - | A 132312 | deletion |
| - | C 132643 | deletion |
| U 1540 | - | insertion |
| U 1541 | - | insertion |
| U 1542 | - | insertion |
| C 1543 | - | insertion |
| U 1544 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| Arg 58 | His 58 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gln 96 | Glu 96 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Gly 60 | Ala 60 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 23 |
| Total formula weight | 785989.5 | |
| Non-Polymers* | Number of molecules | 98 |
| Total formula weight | 3014.3 | |
| All* | Total formula weight | 789003.9 |
