Research workbench
Complex of rice blast (magnaporthe oryzae) effector protein avr-pike with the hma domain of pikp-1 from rice (oryza sativa)
Analyse Complex of rice blast (magnaporthe oryzae) effector protein avr-pike with the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6G11
- Type
- protein
- Length
- 450 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Avr-pik protein; Resistance protein pikp-1
- UniProt
- C4B8C2, E9KPB5
- Pockets
- 6 · best druggability 0.42
Structure
x-ray diffraction · 3 distinct chains · 20% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, F | Avr-pik protein | protein | 82 | 4% helix, 46% strand | C4B8C2 |
| A, D | Resistance protein pikp-1 | protein | 70 | 30% helix, 40% strand | E9KPB5 |
| B, E | Resistance protein pikp-1 | protein | 73 | 29% helix, 37% strand | E9KPB5 |
Pockets
6 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 69 | 0.42 | 0.80 | 15 | empty |
| 2 | 66 | 0.36 | 0.78 | 16 | empty |
| 3 | 68 | 0.34 | 0.77 | 18 | empty |
| 4 | 78 | 0.33 | 0.75 | 17 | empty |
| 5 | 57 | 0.31 | 0.76 | 16 | empty |
Interfaces
8 interfaces between chains.
- C–B · 1015 Ų buried · 16 hydrogen bonds · protein-protein
- F–E · 1012 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 491 Ų buried · 9 hydrogen bonds · protein-protein
- D–E · 490 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 263 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6G11 · Complex of rice blast (Magnaporthe oryzae) effector protein AVR-PikE with the HMA domain… · the same entry in another collection · chain C against C, 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 C4B8C2
- Every structure of UniProt E9KPB5
- Elsewhere: RCSB PDB 6G11 · PDBe 6G11 · UniProt C4B8C2 · UniProt E9KPB5
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.