MolNFT v1 · #29830 · protein
Crystal structure of glycine cleavage system H protein (TM0212) from thermotoga maritima at 1.65 a resolution
1ZKO: “Crystal structure of glycine cleavage system H protein (TM0212) from thermotoga maritima at 1.65 a resolution”. X-ray diffraction, 1 ligand (NA), 3 pockets (best druggability 0.62). MolNFT v1 #29830 on GenesisL1: 3D structure…
- PDB
- 1ZKO
- Type
- protein
- Length
- 256 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycine cleavage system H protein
- UniProt
- Q9WY55
- Ligands
- NA
- Pockets
- 3 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 23% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Glycine cleavage system H protein | protein | 128 | 23% helix, 38% strand | Q9WY55 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 338 | 0.62 | 0.78 | 27 | empty |
| 2 | 134 | 0.48 | 0.78 | 20 | empty |
| 3 | 52 | 0.32 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 293 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 1ZKO · Crystal structure of Glycine cleavage system H protein (tm0212) from Thermotoga maritima… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9WY55 · AlphaFold monomer V2.0 prediction for glycine cleavage system H protein (Q9WY55) · a predicted model of the same protein · chain B against A, TM-score 0.95
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 Q9WY55
- Elsewhere: RCSB PDB 1ZKO · PDBe 1ZKO · UniProt Q9WY55
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