MolNFT v1 · #82032 · protein
Crystal structure of the kluyveromyces lactis urea carboxylase
3VA7 · KLLA0E08119P: “Crystal structure of the kluyveromyces lactis urea carboxylase”. X-ray diffraction, 3 ligands (BTI, URE, NA), 12 pockets (best druggability 0.76). MolNFT v1 #82032 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 3VA7
- Type
- protein
- Length
- 1,130 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- KLLA0E08119P
- EC
- 6.3.4.6
- UniProt
- Q6CP22
- Ligands
- BTI, URE, NA
- Pockets
- 12 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 25% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | KLLA0E08119P (EC 6.3.4.6) | protein | 1130 | 25% helix, 31% strand | Q6CP22 |
Ligands and binding sites
- BTI · 5-(hexahydro-2-oxo-1H-thieno[3,4-d]imidazol-6-yl) pentanal · ligand · chains A
- URE · Urea · ligand · chains A
- NA · Sodium ion · metal · chains A
- GOL · Glycerol · additive · 7 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
12 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 310 | 0.76 | 0.88 | 64 | BTI, URE, GOL |
| 2 | 543 | 0.76 | 0.83 | 68 | GOL |
| 3 | 321 | 0.70 | 0.83 | 49 | empty |
| 4 | 445 | 0.69 | 0.81 | 60 | GOL |
| 5 | 185 | 0.59 | 0.82 | 24 | GOL |
Modifications
Observed in the structure: 1 cofactor (biotinylation).
Compared structures
- 3VA7 · Crystal structure of the Kluyveromyces lactis Urea Carboxylase · 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 Q6CP22
- Elsewhere: RCSB PDB 3VA7 · PDBe 3VA7 · UniProt Q6CP22
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.