Research workbench
Acinetobacter baumannii ribosome-amikacin complex - 30S subunit body
Analyse Acinetobacter baumannii ribosome-amikacin complex - 30S subunit body in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YPU
- Type
- protein + RNA
- Length
- 2,536 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- D0CC74, D0CD21, D0CD14, D0C5Z0, D0CD11, D0CD20, D0C9P6, D0CAU9, D0CCR5, D0CD06, D0C5Y9, D0C7N1, D0C5Q3
- Ligands
- AKN, MG
Structure
electron microscopy · 15 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 2 | — | rna | 894 | — | — |
| 4 | — | rna | 146 | — | — |
| c | — | protein | 219 | — | D0CC74 |
| e | — | protein | 207 | — | D0CD21 |
| f | — | protein | 155 | — | D0CD14 |
| g | — | protein | 103 | — | D0C5Z0 |
| i | — | protein | 130 | — | D0CD11 |
| l | — | protein | 114 | — | D0CD20 |
| m | — | protein | 122 | — | D0C9P6 |
| p | — | protein | 88 | — | D0CAU9 |
| q | — | protein | 80 | — | D0CCR5 |
| r | — | protein | 79 | — | D0CD06 |
| s | — | protein | 53 | — | D0C5Y9 |
| u | — | protein | 86 | — | D0C7N1 |
| v | — | protein | 60 | — | D0C5Q3 |
Ligands and binding sites
- AKN · (2S)-N-[(1R,2S,3S,4R,5S)-4-[(2R,3R,4S,5S,6R)-6-(aminomethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]oxy-5-azanyl-2-[(2S,3R,4S,5S,6R)-4-azanyl-6-(hydroxymethyl)-3,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-cyclohexyl]-4-azanyl-2-oxidanyl-butanamide · ligand · chains 4
- MG · Magnesium ion · metal · 59 copies · chains 2, u, 4
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt D0CC74
- Every structure of UniProt D0CD21
- Every structure of UniProt D0CD14
- Every structure of UniProt D0C5Z0
- Every structure of UniProt D0CD11
- Every structure of UniProt D0CD20
- Every structure of UniProt D0C9P6
- Every structure of UniProt D0CAU9
- Every structure of UniProt D0CCR5
- Every structure of UniProt D0CD06
- Every structure of UniProt D0C5Y9
- Every structure of UniProt D0C7N1
- Every structure of UniProt D0C5Q3
- Elsewhere: RCSB PDB 6YPU · PDBe 6YPU · UniProt D0CC74 · UniProt D0CD21 · UniProt D0CD14 · UniProt D0C5Z0 · UniProt D0CD11 · UniProt D0CD20 · UniProt D0C9P6 · UniProt D0CAU9 · UniProt D0CCR5 · UniProt D0CD06 · UniProt D0C5Y9 · UniProt D0C7N1 · UniProt D0C5Q3
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