Research workbench
Crystal structure of a DUF5037 family protein (RUMGNA_01148) from ruminococcus gnavus atcc 29149 at 2.55 a resolution
Analyse Crystal structure of a DUF5037 family protein (RUMGNA_01148) from ruminococcus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4GL6
- Type
- protein
- Length
- 478 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein
- UniProt
- A7B0S2
- Pockets
- 4 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein | protein | 237 | 40% helix, 24% strand | A7B0S2 |
| B | Hypothetical protein | protein | 241 | 43% helix, 24% strand | A7B0S2 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1035 | 0.82 | 0.83 | 101 | GOL |
| 2 | 134 | 0.57 | 0.84 | 28 | empty |
| 3 | 282 | 0.53 | 0.75 | 29 | empty |
| 4 | 50 | 0.27 | 0.74 | 13 | GOL |
Interfaces
1 interface between chains.
- A–B · 997 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 4GL6 · Crystal structure of a DUF5037 family protein (RUMGNA_01148) from Ruminococcus gnavus… · 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 A7B0S2
- Elsewhere: RCSB PDB 4GL6 · PDBe 4GL6 · UniProt A7B0S2
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