6MKN
Structure of the Thermus thermophilus 30S ribosomal subunit complexed with an inosine (I34) modified anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 2 (TRNAARG2) 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 | 16S rRNA | polymer | 1507 | 489191.6 | 1 | GenBank (55771382) | Thermus thermophilus HB8 | |
2 | B | 30S ribosomal protein S2 | polymer | 256 | 29317.7 | 1 | UniProt (P80371) Pfam (PF00318) In PDB | Thermus thermophilus HB8 | |
3 | C | 30S ribosomal protein S3 | polymer | 239 | 26751.1 | 1 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) In PDB | Thermus thermophilus HB8 | |
4 | D | 30S ribosomal protein S4 | polymer | 209 | 24373.4 | 1 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) In PDB | Thermus thermophilus HB8 | |
5 | E | 30S ribosomal protein S5 | polymer | 162 | 17583.4 | 1 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) In PDB | Thermus thermophilus HB8 | |
6 | F | 30S ribosomal protein S6 | polymer | 101 | 11988.8 | 1 | UniProt (Q5SLP8) Pfam (PF01250) In PDB | Thermus thermophilus HB8 | TS9 |
7 | G | 30S ribosomal protein S7 | polymer | 156 | 18051.0 | 1 | UniProt (P17291) Pfam (PF00177) In PDB | Thermus thermophilus HB8 | |
8 | H | 30S ribosomal protein S8 | polymer | 138 | 15868.6 | 1 | UniProt (P0DOY9) Pfam (PF00410) In PDB | Thermus thermophilus HB8 | |
9 | I | 30S ribosomal protein S9 | polymer | 128 | 14429.7 | 1 | UniProt (P80374) Pfam (PF00380) In PDB | Thermus thermophilus HB8 | |
10 | J | 30S ribosomal protein S10 | polymer | 105 | 11955.0 | 1 | UniProt (Q5SHN7) Pfam (PF00338) In PDB | Thermus thermophilus HB8 | |
11 | K | 30S ribosomal protein S11 | polymer | 129 | 13737.9 | 1 | UniProt (P80376) Pfam (PF00411) In PDB | Thermus thermophilus HB8 | |
12 | L | 30S ribosomal protein S12 | polymer | 132 | 14637.4 | 1 | UniProt (Q5SHN3) Pfam (PF00164) In PDB | Thermus thermophilus HB8 | |
13 | M | 30S ribosomal protein S13 | polymer | 126 | 14338.9 | 1 | UniProt (P80377) Pfam (PF00416) In PDB | Thermus thermophilus HB8 | |
14 | N | 30S ribosomal protein S14 type Z | polymer | 61 | 7158.7 | 1 | UniProt (P0DOY6) Pfam (PF00253) In PDB | Thermus thermophilus HB8 | |
15 | O | 30S ribosomal protein S15 | polymer | 89 | 10578.4 | 1 | UniProt (Q5SJ76) Pfam (PF00312) In PDB | Thermus thermophilus HB8 | |
16 | P | 30S ribosomal protein S16 | polymer | 88 | 10410.0 | 1 | UniProt (Q5SJH3) Pfam (PF00886) In PDB | Thermus thermophilus HB8 | |
17 | Q | 30S ribosomal protein S17 | polymer | 105 | 12324.7 | 1 | UniProt (P0DOY7) Pfam (PF00366) In PDB | Thermus thermophilus HB8 | |
18 | R | 30S ribosomal protein S18 | polymer | 88 | 10244.3 | 1 | UniProt (Q5SLQ0) Pfam (PF01084) In PDB | Thermus thermophilus HB8 | |
19 | S | 30S ribosomal protein S19 | polymer | 93 | 10605.5 | 1 | UniProt (Q5SHP2) Pfam (PF00203) In PDB | Thermus thermophilus HB8 | |
20 | T | 30S ribosomal protein S20 | polymer | 106 | 11736.1 | 1 | UniProt (P80380) Pfam (PF01649) In PDB | Thermus thermophilus HB8 | |
21 | V | 30S ribosomal protein Thx | polymer | 27 | 3350.0 | 1 | UniProt (Q5SIH3) Pfam (PF17070) In PDB | Thermus thermophilus HB8 | S31 |
22 | X | tRNA ASL Escherichia coli Arg2 | polymer | 17 | 5442.3 | 1 | Escherichia coli | ||
23 | W | mRNA A-site fragment | polymer | 6 | 1899.2 | 1 | Escherichia coli | ||
24 | A | PAROMOMYCIN | non-polymer | 615.6 | 1 | Chemie (PAR) | |||
25 | A, E, J | MAGNESIUM ION | non-polymer | 24.3 | 78 | Chemie (MG) |
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 | 785973.5 | |
Non-Polymers* | Number of molecules | 79 |
Total formula weight | 2511.4 | |
All* | Total formula weight | 788484.9 |