Research workbench
Crystal structure of a putative lipoprotein (BF2707) from bacteroides fragilis nctc 9343 at 2.75 a resolution
Analyse Crystal structure of a putative lipoprotein (BF2707) from bacteroides fragilis… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4GBS
- Type
- protein
- Length
- 371 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative lipoprotein
- UniProt
- Q5LBW5
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.62
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative lipoprotein | protein | 185 | 8% helix, 49% strand | Q5LBW5 |
| B | Putative lipoprotein | protein | 186 | 6% helix, 49% strand | Q5LBW5 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 505 | 0.62 | 0.75 | 46 | empty |
| 2 | 140 | 0.44 | 0.76 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 335 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 33 modified (methylation, engineered).
Compared structures
- 4GBS · Crystal structure of a putative lipoprotein (BF2707) from Bacteroides fragilis NCTC 9343… · 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 Q5LBW5
- Elsewhere: RCSB PDB 4GBS · PDBe 4GBS · UniProt Q5LBW5
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