Research workbench
Cryo-EM reconstruction of neisseria meningitidis type IV pilus
Analyse Cryo-EM reconstruction of neisseria meningitidis type IV pilus in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5KUA
- Type
- protein
- Length
- 4,186 residues
- Chains
- 26
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pilin
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 1 distinct chain · 32% helix, 17% 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 | Pilin | protein | 161 | 32% helix, 17% strand | — |
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1079 | 0.89 | 0.89 | 153 | empty |
| 2 | 940 | 0.88 | 0.90 | 134 | empty |
| 3 | 638 | 0.86 | 0.90 | 94 | empty |
| 4 | 578 | 0.85 | 0.90 | 90 | empty |
| 5 | 388 | 0.82 | 0.90 | 64 | empty |
Interfaces
89 interfaces between chains.
- C–G · 963 Ų buried · 21 hydrogen bonds · protein-protein
- A–E · 963 Ų buried · 21 hydrogen bonds · protein-protein
- F–J · 962 Ų buried · 21 hydrogen bonds · protein-protein
- U–Y · 960 Ų buried · 21 hydrogen bonds · protein-protein
- N–R · 960 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 26 disulfide (disulfide).
Compared structures
- 5KUA · Cryo-EM reconstruction of Neisseria meningitidis Type IV pilus · the same entry in another collection · chain C against C, 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
- Elsewhere: RCSB PDB 5KUA · PDBe 5KUA
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