4B3T
Crystal structure of the 30S ribosome in complex with compound 39
Entity
Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
1 | A | 16S RIBOSOMAL RNA | polymer | 1521 | 493652.2 | 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 | 208 | 24242.3 | 1 | UniProt (P80373) Pfam (PF00163) Pfam (PF01479) In PDB | THERMUS THERMOPHILUS HB8 | |
5 | E | 30S RIBOSOMAL PROTEIN S5 | polymer | 161 | 17452.2 | 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 | 155 | 17919.8 | 1 | UniProt (P17291) Pfam (PF00177) In PDB | THERMUS THERMOPHILUS HB8 | |
8 | H | 30S RIBOSOMAL PROTEIN S8 | polymer | 138 | 15868.6 | 1 | UniProt (Q5SHQ2) Pfam (PF00410) UniProt (by SIFTS) (P0DOY9) 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 | 104 | 11823.8 | 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 | 60 | 7027.5 | 1 | UniProt (Q5SHQ1) Pfam (PF00253) UniProt (by SIFTS) (P0DOY6) In PDB | THERMUS THERMOPHILUS HB8 | |
15 | O | 30S RIBOSOMAL PROTEIN S15 | polymer | 88 | 10447.2 | 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 | 104 | 12193.5 | 1 | UniProt (Q5SHP7) Pfam (PF00366) UniProt (by SIFTS) (P0DOY7) 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 | 92 | 10474.3 | 1 | UniProt (Q5SHP2) Pfam (PF00203) In PDB | THERMUS THERMOPHILUS HB8 | |
20 | T | 30S RIBOSOMAL PROTEIN S20 | polymer | 106 | 11722.1 | 1 | UniProt (P80380) Pfam (PF01649) In PDB | THERMUS THERMOPHILUS HB8 | |
21 | V | 30S RIBOSOMAL PROTEIN THX | polymer | 26 | 3218.8 | 1 | UniProt (Q5SIH3) Pfam (PF17070) In PDB | THERMUS THERMOPHILUS HB8 | |
22 | W | 5'-R(*UP*UP*CP*AP*AP*AP)-3' | polymer | 6 | 1860.2 | 1 | THERMUS THERMOPHILUS HB8 | MRNA | |
23 | Z | 5'-R(*GP*GP*GP*AP*UP*UP*GP*AP*AP*AP*AP*UP*CP*CP*CP)-3' | polymer | 16 | 5161.1 | 1 | THERMUS THERMOPHILUS HB8 | ANTICODON STEM LOOP ASL | |
24 | A, T, C, D, E... | MAGNESIUM ION | non-polymer | 24.3 | 219 | Chemie (MG) | |||
25 | A, E | POTASSIUM ION | non-polymer | 39.1 | 17 | Chemie (K) | |||
26 | A | (2S,3S,4R,5R,6R)-2-(aminomethyl)-5-azanyl-6-[(2R,3S,4R,5S)-5-[(1R,2R,3S,5R,6S)-3,5-bis(azanyl)-2-[(2S,3R,4R,5S,6R)-3-azanyl-5-[(4-chlorophenyl)methoxy]-6-(hydroxymethyl)-4-oxidanyl-oxan-2-yl]oxy-6-oxidanyl-cyclohexyl]oxy-2-(hydroxymethyl)-4-oxidanyl-oxolan-3-yl]oxy-oxane-3,4-diol | non-polymer | 740.2 | 1 | Chemie (3TS) | |||
27 | D, N | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
28 | water | water | 18.0 | 1 | Chemie (HOH) |
Sequence modifications
I: 0 - 127 (UniProt: P80374)
Q: 1 - 104 (UniProt: Q5SHP7)
R: -14 - 73 (UniProt: Q5SLQ0)
T: -6 - 99 (UniProt: P80380)
PDB | External Database | Details |
---|---|---|
Arg 57 | His 58 | conflict |
PDB | External Database | Details |
---|---|---|
Gln 95 | Glu 96 | conflict |
PDB | External Database | Details |
---|---|---|
Gly 45 | Ala 60 | conflict |
PDB | External Database | Details |
---|---|---|
Val 34 | Ile 41 | conflict |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 23 |
Total formula weight | 788919.1 | |
Non-Polymers* | Number of molecules | 239 |
Total formula weight | 6858.5 | |
All* | Total formula weight | 795777.5 |