Research workbench
In situ structures of the genome and genome-delivery apparatus in ssrna bacteriophage MS2
Analyse In situ structures of the genome and genome-delivery apparatus in ssrna… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5TC1
- Type
- protein + RNA
- Length
- 1,594 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein; Maturation protein; Phage MS2 genome
- UniProt
- P03612, P03610
- Pockets
- 15 · best druggability 0.73
Structure
electron microscopy · 4 distinct chains · 27% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, H | Capsid protein | protein | 129 | 17% helix, 47% strand | P03612 |
| G | Capsid protein | protein | 119 | 22% helix, 37% strand | P03612 |
| M | Maturation protein | protein | 330 | 33% helix, 24% strand | P03610 |
| R | Phage MS2 genome | rna | 242 | — | — |
Pockets
15 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1089 | 0.73 | 0.76 | 111 | empty |
| 2 | 512 | 0.70 | 0.80 | 48 | empty |
| 3 | 343 | 0.67 | 0.82 | 56 | empty |
| 4 | 357 | 0.67 | 0.82 | 29 | empty |
| 5 | 529 | 0.67 | 0.78 | 51 | empty |
Interfaces
22 interfaces between chains.
- E–F · 3389 Ų buried · 41 hydrogen bonds · protein-protein
- B–D · 3343 Ų buried · 34 hydrogen bonds · protein-protein
- M–R · 1299 Ų buried · 48 hydrogen bonds · protein-nucleic
- H–M · 1139 Ų buried · 11 hydrogen bonds · protein-protein
- D–E · 630 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 5TC1 · In situ structures of the genome and genome-delivery apparatus in ssRNA bacteriophage MS2 · the same entry in another collection · chain A against A, TM-score 1.00
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 P03612
- Every structure of UniProt P03610
- Elsewhere: RCSB PDB 5TC1 · PDBe 5TC1 · UniProt P03612 · UniProt P03610
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.