MolNFT v1 · #185999 · protein
Complex of rice blast (magnaporthe oryzae) effector protein avr-pikc with an engineered hma domain of pikp-1 (pikp-snk-eke) from rice (oryza sativa)
7QPX · Resistance protein pikp-1: “Complex of rice blast (magnaporthe oryzae) effector protein avr-pikc with an engineered hma domain of pikp-1…”. X-ray diffraction, 5 pockets (best druggability 0.38). MolNFT v1 #185999 on GenesisL1: 3D…
- PDB
- 7QPX
- Type
- protein
- Length
- 450 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Resistance protein pikp-1; Avr-pik protein
- UniProt
- E9KPB5, G4MXW3
- Pockets
- 5 · best druggability 0.38
Structure
x-ray diffraction · 6 distinct chains · 20% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Resistance protein pikp-1 | protein | 72 | 31% helix, 40% strand | E9KPB5 |
| B | Resistance protein pikp-1 | protein | 73 | 30% helix, 38% strand | E9KPB5 |
| C | Avr-pik protein | protein | 81 | 4% helix, 46% strand | G4MXW3 |
| D | Resistance protein pikp-1 | protein | 70 | 30% helix, 43% strand | E9KPB5 |
| E | Resistance protein pikp-1 | protein | 72 | 29% helix, 39% strand | E9KPB5 |
| F | Avr-pik protein | protein | 82 | 4% helix, 46% strand | G4MXW3 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 105 | 0.38 | 0.75 | 17 | empty |
| 2 | 51 | 0.36 | 0.80 | 16 | empty |
| 3 | 72 | 0.35 | 0.77 | 15 | empty |
| 4 | 59 | 0.29 | 0.74 | 13 | empty |
| 5 | 50 | 0.29 | 0.76 | 13 | empty |
Interfaces
8 interfaces between chains.
- E–F · 1094 Ų buried · 22 hydrogen bonds · protein-protein
- B–C · 1085 Ų buried · 22 hydrogen bonds · protein-protein
- D–E · 516 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 513 Ų buried · 13 hydrogen bonds · protein-protein
- A–F · 335 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7QPX · Complex of rice blast (Magnaporthe oryzae) effector protein AVR-PikC with an engineered… · 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 E9KPB5
- Every structure of UniProt G4MXW3
- Elsewhere: RCSB PDB 7QPX · PDBe 7QPX · UniProt E9KPB5 · UniProt G4MXW3
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