Research workbench
Structure of a thr-rich interface in an azami green tetramer
Analyse Structure of a thr-rich interface in an azami green tetramer in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6CIU
- Type
- protein
- Length
- 877 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Azami-green
- UniProt
- Q60I25
- Ligands
- CRQ
- Pockets
- 8 · best druggability 0.86
Structure
x-ray diffraction · 4 distinct chains · 3% helix, 57% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Azami-green | protein | 220 | 4% helix, 56% strand | Q60I25 |
| B | Azami-green | protein | 219 | 3% helix, 57% strand | Q60I25 |
| C | Azami-green | protein | 220 | 4% helix, 56% strand | Q60I25 |
| D | Azami-green | protein | 218 | 3% helix, 57% strand | Q60I25 |
Ligands and binding sites
- CRQ · [2-(3-carbamoyl-1-imino-propyl)-4-(4-hydroxy-benzylidene)-5-oxo-4,5-dihydro-imidazol-1-yl]-acetic acid · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1041 | 0.86 | 0.87 | 127 | empty |
| 2 | 72 | 0.75 | 0.99 | 26 | CRQ |
| 3 | 65 | 0.73 | 0.98 | 24 | CRQ |
| 4 | 66 | 0.72 | 0.97 | 25 | CRQ |
| 5 | 66 | 0.72 | 0.97 | 27 | CRQ |
Interfaces
6 interfaces between chains.
- A–C · 1666 Ų buried · 36 hydrogen bonds · protein-protein
- B–D · 1647 Ų buried · 37 hydrogen bonds · protein-protein
- C–D · 1059 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1057 Ų buried · 14 hydrogen bonds · protein-protein
- B–C · 117 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 8 cofactor (chromophore).
Compared structures
- 6CIU · Structure of a Thr-rich interface in an Azami Green tetramer · 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 Q60I25
- Elsewhere: RCSB PDB 6CIU · PDBe 6CIU · UniProt Q60I25
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.