Research workbench
Crystal structure of the peptidase domain of collagenase T from clostridium tetani at 1.69 ångström resolution.
Analyse Crystal structure of the peptidase domain of collagenase T from clostridium… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4AR9
- Type
- protein
- Length
- 784 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Collagenase colt
- EC
- 3.4.24.3
- UniProt
- Q899Y1
- Ligands
- ZN, CA
- Pockets
- 7 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Collagenase colt (EC 3.4.24.3) | protein | 392 | 49% helix, 17% strand | Q899Y1 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1171 | 0.77 | 0.79 | 94 | empty |
| 2 | 238 | 0.61 | 0.81 | 29 | empty |
| 3 | 165 | 0.60 | 0.83 | 27 | empty |
| 4 | 261 | 0.56 | 0.77 | 33 | empty |
| 5 | 80 | 0.54 | 0.85 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 406 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 4AR9 · Crystal structure of the peptidase domain of collagenase T from Clostridium tetani at… · the same entry in another collection · chain A against A, TM-score 1.00
- Q899Y1 · AlphaFold monomer V2.0 prediction for collagenase colt (Q899Y1) · a predicted model of the same protein · 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 Q899Y1
- Elsewhere: RCSB PDB 4AR9 · PDBe 4AR9 · UniProt Q899Y1
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.