Research workbench
Capsid model of M13 bacteriophage virus from magic-angle spinning NMR and rosetta modeling
Analyse Capsid model of M13 bacteriophage virus from magic-angle spinning NMR and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2MJZ
- Type
- protein
- Length
- 1,750 residues
- Chains
- 35
- Method
- solid-state nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Capsid protein G8P
- UniProt
- P69541
- Pockets
- 20 · best druggability 0.55
Structure
solid-state nmr · 1 distinct chain · 86% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i | Capsid protein G8P | protein | 50 | 86% helix, 0% strand | P69541 |
Pockets
20 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 324 | 0.55 | 0.74 | 34 | empty |
| 2 | 284 | 0.53 | 0.74 | 28 | empty |
| 3 | 280 | 0.52 | 0.74 | 33 | empty |
| 4 | 278 | 0.52 | 0.74 | 30 | empty |
| 5 | 260 | 0.52 | 0.74 | 32 | empty |
Interfaces
105 interfaces between chains.
- D–h · 677 Ų buried · 2 hydrogen bonds · protein-protein
- Q–V · 676 Ų buried · 2 hydrogen bonds · protein-protein
- T–Y · 676 Ų buried · 2 hydrogen bonds · protein-protein
- P–U · 675 Ų buried · 2 hydrogen bonds · protein-protein
- K–P · 675 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 2MJZ · Capsid model of M13 bacteriophage virus from Magic-angle spinning NMR and Rosetta modeling · 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 P69541
- Elsewhere: RCSB PDB 2MJZ · PDBe 2MJZ · UniProt P69541
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