Research workbench
Human nuclear pore complex
Analyse Human nuclear pore complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5A9Q
- Type
- protein
- Length
- 19,350 residues
- Chains
- 38
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nucleoporin NUP43; Nuclear pore complex protein NUP160; Nucleoporin NUP37; Nuclear pore…
- UniProt
- Q8NFH3, Q12769, Q8NFH4, Q8WUM0, P57740, P52948, P55735, Q96EE3, Q9BW27, O75694
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 10 distinct chains · 41% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 0, 9, I, R | Nucleoporin NUP43 | protein | 316 | 0% helix, 51% strand | Q8NFH3 |
| 1, J, S, a | Nuclear pore complex protein NUP160 | protein | 1009 | 45% helix, 18% strand | Q12769 |
| 2, K, T, b | Nucleoporin NUP37 | protein | 318 | 0% helix, 52% strand | Q8NFH4 |
| 3, C, L, U | Nuclear pore complex protein NUP133 | protein | 528 | 51% helix, 0% strand | Q8WUM0 |
| 4, D, M, V | Nuclear pore complex protein NUP107 | protein | 660 | 69% helix, 1% strand | P57740 |
| 5, E, N, W | Nuclear pore complex protein NUP96 | protein | 417 | 62% helix, 3% strand | P52948 |
| 6, F, O, X | Protein SEC13 homolog | protein | 285 | 2% helix, 46% strand | P55735 |
| 7, G, P, Y | Nucleoporin SEH1 | protein | 322 | 1% helix, 46% strand | Q96EE3 |
| 8, H, Q, Z | Nuclear pore complex protein NUP85 | protein | 434 | 63% helix, 4% strand | Q9BW27 |
| A, B | Nuclear pore complex protein NUP155 | protein | 1097 | 45% helix, 15% strand | O75694 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 996 | 0.82 | 0.83 | 102 | empty |
| 2 | 1225 | 0.81 | 0.82 | 121 | empty |
| 3 | 1057 | 0.81 | 0.82 | 89 | empty |
| 4 | 2068 | 0.80 | 0.82 | 216 | empty |
| 5 | 1099 | 0.80 | 0.82 | 115 | empty |
Interfaces
32 interfaces between chains.
- 7–8 · 1190 Ų buried · 14 hydrogen bonds · protein-protein
- G–H · 1188 Ų buried · 14 hydrogen bonds · protein-protein
- Y–Z · 1187 Ų buried · 14 hydrogen bonds · protein-protein
- P–Q · 1186 Ų buried · 14 hydrogen bonds · protein-protein
- W–X · 815 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5A9Q · Human nuclear pore complex · the same entry in another collection · chain 9 against 9, 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 Q8NFH3
- Every structure of UniProt Q12769
- Every structure of UniProt Q8NFH4
- Every structure of UniProt Q8WUM0
- Every structure of UniProt P57740
- Every structure of UniProt P52948
- Every structure of UniProt P55735
- Every structure of UniProt Q96EE3
- Every structure of UniProt Q9BW27
- Every structure of UniProt O75694
- Elsewhere: RCSB PDB 5A9Q · PDBe 5A9Q · UniProt Q8NFH3 · UniProt Q12769 · UniProt Q8NFH4 · UniProt Q8WUM0 · UniProt P57740 · UniProt P52948 · UniProt P55735 · UniProt Q96EE3 · UniProt Q9BW27 · UniProt O75694
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