MolNFT v1 · #115026 · protein
Crystal structure of the rice topless related protein 2 (TPR2) N- terminal domain (1-209) in complex with arabidopsis IAA10 peptide
5C7E · ASPR2 protein: “Crystal structure of the rice topless related protein 2 (TPR2) N- terminal domain (1-209) in complex with…”. X-ray diffraction, 1 ligand (ZN), 16 pockets (best druggability 0.51). MolNFT v1 #115026 on GenesisL1: 3D…
- PDB
- 5C7E
- Type
- protein
- Length
- 1,281 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ASPR2 protein; Auxin-responsive protein IAA10
- UniProt
- Q5NBT9, Q38828
- Ligands
- ZN
- Pockets
- 16 · best druggability 0.51
Structure
x-ray diffraction · 7 distinct chains · 57% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E, F | ASPR2 protein | protein | 205 | 63% helix, 0% strand | Q5NBT9 |
| C, D | ASPR2 protein | protein | 206 | 63% helix, 0% strand | Q5NBT9 |
| G | Auxin-responsive protein IAA10 | protein | 10 | 0% helix, 0% strand | Q38828 |
| H | Auxin-responsive protein IAA10 | protein | 6 | 0% helix, 0% strand | Q38828 |
| I, J | Auxin-responsive protein IAA10 | protein | 9 | 0% helix, 0% strand | Q38828 |
| K | Auxin-responsive protein IAA10 | protein | 7 | 0% helix, 0% strand | Q38828 |
| L | Auxin-responsive protein IAA10 | protein | 8 | 0% helix, 0% strand | Q38828 |
Ligands and binding sites
- ZN · Zinc ion · metal · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 134 | 0.51 | 0.80 | 18 | empty |
| 2 | 133 | 0.48 | 0.79 | 15 | empty |
| 3 | 159 | 0.48 | 0.77 | 21 | empty |
| 4 | 149 | 0.46 | 0.77 | 19 | empty |
| 5 | 126 | 0.44 | 0.77 | 17 | empty |
Interfaces
12 interfaces between chains.
- C–D · 2113 Ų buried · 51 hydrogen bonds · protein-protein
- E–F · 2075 Ų buried · 48 hydrogen bonds · protein-protein
- A–B · 2049 Ų buried · 52 hydrogen bonds · protein-protein
- A–C · 671 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 665 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 5C7E · Crystal structure of the rice Topless related protein 2 (TPR2) N-terminal domain (1-209)… · the same entry in another collection · chain L against L, 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 Q5NBT9
- Every structure of UniProt Q38828
- Elsewhere: RCSB PDB 5C7E · PDBe 5C7E · UniProt Q5NBT9 · UniProt Q38828
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