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Crystal structure of methanoperedens nitroreducens elongation factor 2 H595N bound to gmppcp and magnesium (triclinic crystal form)
Analyse Crystal structure of methanoperedens nitroreducens elongation factor 2 H595N… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6U43
- Type
- protein
- Length
- 723 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Elongation factor 2
- UniProt
- A0A062V290
- Ligands
- GCP, MG, SO4, CL
- Pockets
- 7 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 39% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Elongation factor 2 | protein | 723 | 39% helix, 27% strand | A0A062V290 |
Ligands and binding sites
- GCP · Phosphomethylphosphonic acid guanylate ester · ligand · chains A
- MG · Magnesium ion · metal · chains A
- SO4 · Sulfate ion · ion · 2 copies · chains A
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1138 | 0.76 | 0.79 | 113 | empty |
| 2 | 519 | 0.73 | 0.82 | 47 | empty |
| 3 | 569 | 0.70 | 0.79 | 66 | empty |
| 4 | 106 | 0.54 | 0.83 | 20 | empty |
| 5 | 103 | 0.44 | 0.79 | 24 | GCP, MG |
Compared structures
- 6U43 · Crystal structure of Methanoperedens nitroreducens elongation factor 2 H595N bound to… · 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 A0A062V290
- Elsewhere: RCSB PDB 6U43 · PDBe 6U43 · UniProt A0A062V290
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