Research workbench
Pyrrolysyl-tRNA synthetase from canditatus methanomethylophilus alvus (mmapylrs)
Analyse Pyrrolysyl-tRNA synthetase from canditatus methanomethylophilus alvus (mmapylrs) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6EZD
- Type
- protein
- Length
- 1,093 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pyrrolysyl-tRNA synthetase
- EC
- 6.1.1.26
- UniProt
- M9SC49
- Pockets
- 9 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 38% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Pyrrolysyl-tRNA synthetase (EC 6.1.1.26) | protein | 274 | 39% helix, 22% strand | M9SC49 |
| C | Pyrrolysyl-tRNA synthetase (EC 6.1.1.26) | protein | 272 | 38% helix, 23% strand | M9SC49 |
| D | Pyrrolysyl-tRNA synthetase (EC 6.1.1.26) | protein | 273 | 38% helix, 24% strand | M9SC49 |
Pockets
9 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 402 | 0.76 | 0.86 | 63 | empty |
| 2 | 436 | 0.75 | 0.84 | 67 | empty |
| 3 | 519 | 0.70 | 0.79 | 53 | empty |
| 4 | 849 | 0.70 | 0.76 | 77 | empty |
| 5 | 528 | 0.70 | 0.79 | 56 | empty |
Interfaces
4 interfaces between chains.
- B–D · 2323 Ų buried · 29 hydrogen bonds · protein-protein
- A–C · 2299 Ų buried · 35 hydrogen bonds · protein-protein
- A–B · 199 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 50 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6EZD · Pyrrolysyl-tRNA synthetase from Canditatus Methanomethylophilus alvus (MmaPylRS) · 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 M9SC49
- Elsewhere: RCSB PDB 6EZD · PDBe 6EZD · UniProt M9SC49
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.