MolNFT v1 · #175893 · protein
Structure of human wild-type peptidylarginine deiminase type III (PAD3)
7D4Y · Protein-arginine deiminase type-3: “Structure of human wild-type peptidylarginine deiminase type III (PAD3)”. X-ray diffraction, 15 pockets (best druggability 0.84). MolNFT v1 #175893 on GenesisL1: 3D structure, binding sites and…
- PDB
- 7D4Y
- Type
- protein
- Length
- 1,197 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein-arginine deiminase type-3
- EC
- 3.5.3.15
- UniProt
- Q9ULW8
- Pockets
- 15 · best druggability 0.84
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein-arginine deiminase type-3 (EC 3.5.3.15) | protein | 596 | 17% helix, 38% strand | Q9ULW8 |
| B | Protein-arginine deiminase type-3 (EC 3.5.3.15) | protein | 601 | 17% helix, 38% strand | Q9ULW8 |
Pockets
15 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 992 | 0.84 | 0.85 | 99 | empty |
| 2 | 776 | 0.81 | 0.84 | 72 | empty |
| 3 | 501 | 0.75 | 0.83 | 54 | empty |
| 4 | 406 | 0.72 | 0.83 | 46 | empty |
| 5 | 387 | 0.68 | 0.81 | 40 | empty |
Interfaces
1 interface between chains.
- A–B · 3122 Ų buried · 32 hydrogen bonds · protein-protein
Compared structures
- 7D4Y · Structure of human wild-type peptidylarginine deiminase type III (PAD3) · the same entry in another collection · chain A against A, TM-score 1.00
- Q9ULW8 · AlphaFold monomer V2.0 prediction for protein-arginine deiminase type-3 (Q9ULW8) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q9ULW8
- Elsewhere: RCSB PDB 7D4Y · PDBe 7D4Y · UniProt Q9ULW8
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