Research workbench
Complex of rice blast (magnaporthe oryzae) effector protein avr-pike with the hma domain of pikm-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
- 6FUB
- Type
- protein
- Length
- 174 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Avr-pik protein; Nbs-lrr class disease resistance protein
- UniProt
- C4B8C2, B5UBC1
- Pockets
- 2 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Avr-pik protein | protein | 93 | 3% helix, 41% strand | C4B8C2 |
| A | Nbs-lrr class disease resistance protein | protein | 81 | 28% helix, 32% strand | B5UBC1 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 54 | 0.67 | 0.96 | 25 | empty |
| 2 | 56 | 0.31 | 0.75 | 14 | empty |
Interfaces
1 interface between chains.
- B–A · 1011 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6FUB · Complex of rice blast (Magnaporthe oryzae) effector protein AVR-PikE with the HMA domain… · the same entry in another collection · chain B against B, TM-score 1.00
- B5UBC1 · AlphaFold monomer V2.0 prediction for disease resistance protein PIKM1-ts (B5UBC1) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 B5UBC1
- Elsewhere: RCSB PDB 6FUB · PDBe 6FUB · UniProt C4B8C2 · UniProt B5UBC1
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