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Crystal structure of voltage sensing domain of ci-vsp with fragment antibody (wt, 3.8 a)
Analyse Crystal structure of voltage sensing domain of ci-vsp with fragment antibody… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4G80
- Type
- protein
- Length
- 2,271 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Voltage-sensor containing phosphatase; Fragment antibody heavy chain; Fragment antibody…
- UniProt
- Q4W8A1
- Pockets
- 20 · best druggability 0.80
Structure
x-ray diffraction · 5 distinct chains · 24% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| S | Voltage-sensor containing phosphatase | protein | 128 | 68% helix, 0% strand | Q4W8A1 |
| A, E, G | Fragment antibody heavy chain | protein | 221 | 5% helix, 48% strand | — |
| B, D, F, H | Fragment antibody light chain | protein | 211 | 7% helix, 52% strand | — |
| C | Fragment antibody heavy chain | protein | 219 | 5% helix, 48% strand | — |
| T, I, J | Voltage-sensor containing phosphatase | protein | 139 | 68% helix, 0% strand | Q4W8A1 |
Pockets
20 pockets found on a 1 Å grid, 11 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 911 | 0.80 | 0.82 | 130 | empty |
| 2 | 898 | 0.74 | 0.77 | 81 | empty |
| 3 | 618 | 0.72 | 0.80 | 69 | empty |
| 4 | 617 | 0.71 | 0.79 | 64 | empty |
| 5 | 854 | 0.67 | 0.74 | 87 | empty |
Interfaces
18 interfaces between chains.
- E–F · 1942 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1936 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1927 Ų buried · 13 hydrogen bonds · protein-protein
- G–H · 1918 Ų buried · 10 hydrogen bonds · protein-protein
- S–T · 817 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 4G80 · Crystal structure of voltage sensing domain of Ci-VSP with fragment antibody (WT, 3.8 A) · the same entry in another collection · chain S against S, 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 Q4W8A1
- Elsewhere: RCSB PDB 4G80 · PDBe 4G80 · UniProt Q4W8A1
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