Research workbench
Crystal structure of DH270.UCA3 (unliganded) from the DH270 broadly neutralizing N332-glycan dependent lineage
Analyse Crystal structure of DH270.UCA3 (unliganded) from the DH270 broadly… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5U15
- Type
- protein
- Length
- 838 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DH270.UCA3 heavy chain; DH270.UCA3 light chain
- Pockets
- 10 · best druggability 0.62
Structure
x-ray diffraction · 4 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DH270.UCA3 heavy chain | protein | 207 | 7% helix, 46% strand | — |
| B | DH270.UCA3 light chain | protein | 199 | 2% helix, 55% strand | — |
| H | DH270.UCA3 heavy chain | protein | 221 | 8% helix, 49% strand | — |
| L | DH270.UCA3 light chain | protein | 211 | 6% helix, 52% strand | — |
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 586 | 0.62 | 0.74 | 76 | empty |
| 2 | 272 | 0.52 | 0.75 | 39 | empty |
| 3 | 84 | 0.43 | 0.80 | 23 | empty |
| 4 | 133 | 0.43 | 0.77 | 34 | empty |
| 5 | 107 | 0.41 | 0.76 | 26 | empty |
Interfaces
6 interfaces between chains.
- A–B · 1692 Ų buried · 19 hydrogen bonds · protein-protein
- H–L · 1674 Ų buried · 16 hydrogen bonds · protein-protein
- B–H · 437 Ų buried · 5 hydrogen bonds · protein-protein
- A–L · 356 Ų buried · 4 hydrogen bonds · protein-protein
- A–H · 155 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 5U15 · Crystal Structure of DH270.UCA3 (unliganded) from the DH270 Broadly Neutralizing… · 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
- Elsewhere: RCSB PDB 5U15 · PDBe 5U15
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