Research workbench
Root induced secreted protein TSP1 from biocontrol fungi trichoderma virens
Analyse Root induced secreted protein TSP1 from biocontrol fungi trichoderma virens in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7CWJ
- Type
- protein
- Length
- 515 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Root induced effector protein TSP1
- UniProt
- G9MQD3
- Pockets
- 4 · best druggability 0.61
Structure
x-ray diffraction · 4 distinct chains · 8% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Root induced effector protein TSP1 | protein | 127 | 8% helix, 48% strand | G9MQD3 |
| B | Root induced effector protein TSP1 | protein | 131 | 8% helix, 47% strand | G9MQD3 |
| C | Root induced effector protein TSP1 | protein | 128 | 10% helix, 49% strand | G9MQD3 |
| D | Root induced effector protein TSP1 | protein | 129 | 8% helix, 49% strand | G9MQD3 |
Ligands and binding sites
- GOL · Glycerol · additive · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 193 | 0.61 | 0.83 | 34 | GOL |
| 2 | 58 | 0.35 | 0.78 | 14 | empty |
| 3 | 51 | 0.29 | 0.76 | 16 | empty |
| 4 | 65 | 0.27 | 0.73 | 20 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1779 Ų buried · 21 hydrogen bonds · protein-protein
- A–D · 269 Ų buried · 1 hydrogen bond · protein-protein
- B–C · 220 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 137 Ų buried · 0 hydrogen bonds · protein-protein
- B–D · 32 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide, 8 modified (disulfide, engineered).
Compared structures
- 7CWJ · Root induced Secreted protein Tsp1 from Biocontrol fungi Trichoderma virens · 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 G9MQD3
- Elsewhere: RCSB PDB 7CWJ · PDBe 7CWJ · UniProt G9MQD3
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