MolNFT v1 · #73901 · protein
Kcsa E71A variant in presence of na+
3OGC · Antibody Fab fragment heavy chain: “Kcsa E71A variant in presence of na+”. X-ray diffraction, 1 ligand (NA), 5 pockets (best druggability 0.68). MolNFT v1 #73901 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3OGC
- Type
- protein
- Length
- 534 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Antibody Fab fragment heavy chain; Antibody Fab fragment light chain; Voltage-gated…
- UniProt
- P0A334
- Ligands
- NA
- Pockets
- 5 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 17% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Antibody Fab fragment heavy chain | protein | 219 | 1% helix, 48% strand | — |
| B | Antibody Fab fragment light chain | protein | 212 | 6% helix, 51% strand | — |
| C | Voltage-gated potassium channel | protein | 103 | 74% helix, 0% strand | P0A334 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 688 | 0.68 | 0.76 | 56 | empty |
| 2 | 60 | 0.54 | 0.88 | 18 | empty |
| 3 | 163 | 0.50 | 0.78 | 31 | empty |
| 4 | 130 | 0.43 | 0.76 | 29 | empty |
| 5 | 62 | 0.35 | 0.78 | 14 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1966 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 476 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 449 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 3OGC · KcsA E71A variant in presence of Na+ · 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 P0A334
- Elsewhere: RCSB PDB 3OGC · PDBe 3OGC · UniProt P0A334
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