Research workbench
Crystal structures of zinc containing adenylate kinase from desulfovibrio gigas
Analyse Crystal structures of zinc containing adenylate kinase from desulfovibrio gigas in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2XB4
- Type
- protein
- Length
- 223 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenylate kinase
- EC
- 2.7.4.3
- UniProt
- C7U112
- Ligands
- SRT, ZN
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenylate kinase (EC 2.7.4.3) | protein | 223 | 50% helix, 15% strand | C7U112 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 193 | 0.48 | 0.76 | 28 | empty |
| 2 | 91 | 0.48 | 0.81 | 16 | empty |
| 3 | 50 | 0.27 | 0.74 | 12 | empty |
Compared structures
- 2XB4 · Crystal structures of zinc containing Adenylate kinase from Desulfovibrio gigas · 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 C7U112
- Elsewhere: RCSB PDB 2XB4 · PDBe 2XB4 · UniProt C7U112
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.