Research workbench
Alternative composite structure of the inner ring of the human nuclear pore complex (16 copies of NUP188, 16 copies of NUP205)
Analyse Alternative composite structure of the inner ring of the human nuclear pore… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5IJO
- Type
- protein
- Length
- 15,444 residues
- Chains
- 26
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear pore complex protein NUP155; Nuclear pore complex protein NUP93; Nuclear pore…
- UniProt
- O75694, Q8N1F7, Q92621, Q7Z3B4, Q9BVL2, P37198, Q5SRE5
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 8 distinct chains · 58% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Nuclear pore complex protein NUP155 | protein | 650 | 30% helix, 26% strand | O75694 |
| C, I, O, U | Nuclear pore complex protein NUP93 | protein | 636 | 58% helix, 1% strand | Q8N1F7 |
| D, P | Nuclear pore complex protein NUP205 | protein | 1028 | 73% helix, 0% strand | Q92621 |
| E, K, Q, W | Nuclear pore complex protein NUP155 | protein | 1083 | 46% helix, 16% strand | O75694 |
| F, L, R, X | Nucleoporin P54 | protein | 335 | 62% helix, 12% strand | Q7Z3B4 |
| G, M, S, Y | Nucleoporin P58/P45 | protein | 171 | 86% helix, 0% strand | Q9BVL2 |
| H, N, T, Z | Nuclear pore glycoprotein P62 | protein | 169 | 85% helix, 0% strand | P37198 |
| J, V | Nucleoporin NUP188 homolog | protein | 1256 | 64% helix, 2% strand | Q5SRE5 |
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 | 1193 | 0.83 | 0.84 | 130 | empty |
| 2 | 1182 | 0.83 | 0.84 | 129 | empty |
| 3 | 705 | 0.82 | 0.86 | 125 | empty |
| 4 | 1001 | 0.82 | 0.84 | 149 | empty |
| 5 | 955 | 0.82 | 0.84 | 144 | empty |
Interfaces
35 interfaces between chains.
- C–D · 860 Ų buried · 27 hydrogen bonds · protein-protein
- L–N · 784 Ų buried · 0 hydrogen bonds · protein-protein
- F–H · 784 Ų buried · 0 hydrogen bonds · protein-protein
- X–Z · 784 Ų buried · 0 hydrogen bonds · protein-protein
- R–T · 780 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5IJO · Alternative composite structure of the inner ring of the human nuclear pore complex (16… · the same entry in another collection · chain J against J, 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 O75694
- Every structure of UniProt Q8N1F7
- Every structure of UniProt Q92621
- Every structure of UniProt Q7Z3B4
- Every structure of UniProt Q9BVL2
- Every structure of UniProt P37198
- Every structure of UniProt Q5SRE5
- Elsewhere: RCSB PDB 5IJO · PDBe 5IJO · UniProt O75694 · UniProt Q8N1F7 · UniProt Q92621 · UniProt Q7Z3B4 · UniProt Q9BVL2 · UniProt P37198 · UniProt Q5SRE5
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