5BR8
Ambient-temperature crystal structure of 30S ribosomal subunit from Thermus thermophilus in complex with 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 ribosomal RNA | polymer | 1522 | 494169.8 | 1 | GenBank (55771382) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 2 | B (B) | 30S ribosomal protein S2 | polymer | 256 | 29317.7 | 1 | UniProt (P80371) Pfam (PF00318) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 3 | C (C) | 30S ribosomal protein S3 | polymer | 239 | 26751.1 | 1 | UniProt (P80372) Pfam (PF07650) Pfam (PF00189) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 4 | D (D) | 30S ribosomal protein S4 | polymer | 209 | 24373.4 | 1 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 5 | E (E) | 30S ribosomal protein S5 | polymer | 162 | 17583.4 | 1 | UniProt (Q5SHQ5) Pfam (PF00333) Pfam (PF03719) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 6 | F (F) | 30S ribosomal protein S6 | polymer | 101 | 11988.8 | 1 | UniProt (Q5SLP8) Pfam (PF01250) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | TS9 |
| 7 | G (G) | 30S ribosomal protein S7 | polymer | 156 | 18051.0 | 1 | UniProt (P17291) Pfam (PF00177) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 8 | H (H) | 30S ribosomal protein S8 | polymer | 138 | 15868.6 | 1 | UniProt (Q5SHQ2) Pfam (PF00410) UniProt (by SIFTS) (P0DOY9) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 9 | I (I) | 30S ribosomal protein S9 | polymer | 128 | 14410.6 | 1 | UniProt (P80374) Pfam (PF00380) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 10 | J (J) | 30S ribosomal protein S10 | polymer | 105 | 11955.0 | 1 | UniProt (Q5SHN7) Pfam (PF00338) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 11 | K (K) | 30S ribosomal protein S11 | polymer | 129 | 13737.9 | 1 | UniProt (P80376) Pfam (PF00411) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 12 | L (L) | 30S ribosomal protein S12 | polymer | 135 | 14966.8 | 1 | UniProt (Q5SHN3) Pfam (PF00164) | Thermus thermophilus | |
| 13 | M (M) | 30S ribosomal protein S13 | polymer | 126 | 14338.9 | 1 | UniProt (P80377) Pfam (PF00416) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 14 | N (N) | 30S ribosomal protein S14 type Z | polymer | 61 | 7158.7 | 1 | UniProt (Q5SHQ1) Pfam (PF00253) UniProt (by SIFTS) (P0DOY6) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 15 | O (O) | 30S ribosomal protein S15 | polymer | 89 | 10578.4 | 1 | UniProt (Q5SJ76) Pfam (PF00312) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 16 | P (P) | 30S ribosomal protein S16 | polymer | 88 | 10410.0 | 1 | UniProt (Q5SJH3) Pfam (PF00886) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 17 | Q (Q) | 30S ribosomal protein S17 | polymer | 105 | 12324.7 | 1 | UniProt (Q5SHP7) Pfam (PF00366) UniProt (by SIFTS) (P0DOY7) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 18 | R (R) | 30S ribosomal protein S18 | polymer | 88 | 10258.3 | 1 | UniProt (Q5SLQ0) Pfam (PF01084) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 19 | S (S) | 30S ribosomal protein S19 | polymer | 93 | 10605.5 | 1 | UniProt (Q5SHP2) Pfam (PF00203) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 20 | T (T) | 30S ribosomal protein S20 | polymer | 106 | 11736.1 | 1 | UniProt (P80380) Pfam (PF01649) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | |
| 21 | U (U) | 30S ribosomal protein Thx | polymer | 27 | 3350.0 | 1 | UniProt (Q5SIH3) Pfam (PF17070) | Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) | S31 |
| 22 | AA, V, W, X, Y... (A) | PAROMOMYCIN | non-polymer | 615.6 | 6 | Chemie (PAR) | |||
| 23 | AB, AC, AD, AE, AF... (A, S, T, B, D...) | MAGNESIUM ION | non-polymer | 24.3 | 287 | Chemie (MG) | |||
| 24 | PK, XK (D, N) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
| 25 | EL, FL, GL, HL, IL... (A, D, E, H, K...) | water | water | 18.0 | 308 | Chemie (HOH) |
Sequence modifications
A: 0 - 1533 (GenBank: 55771382)
L: 5 - 135 (UniProt: Q5SHN3)
Q: 1 - 105 (UniProt: Q5SHP7)
| PDB | External Database | Details |
|---|---|---|
| C 1534 | - | expression tag |
| A 1535 | - | expression tag |
| C 1536 | - | expression tag |
| U 1537 | - | expression tag |
| C 1538 | - | expression tag |
| C 1539 | - | expression tag |
| Psu 1540 | - | expression tag |
| Psu 1541 | - | expression tag |
| U 1542 | - | expression tag |
| C 1543 | - | expression tag |
| U 1544 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | initiating methionine |
| Val 2 | - | expression tag |
| Ala 3 | - | expression tag |
| Leu 4 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Gln 96 | Glu 96 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 21 |
| Total formula weight | 783934.6 | |
| Non-Polymers* | Number of molecules | 295 |
| Total formula weight | 10800.1 | |
| All* | Total formula weight | 794734.7 |
