MolNFT v1 · #135126 · protein
Crystal structure of DH270.5 (unliganded) from the DH270 broadly neutralizing N332-glycan dependent lineage
5TPP · DH270.5 Fab heavy chain: “Crystal structure of DH270.5 (unliganded) from the DH270 broadly neutralizing N332-glycan dependent lineage”. X-ray diffraction, 1 ligand (NA), 5 pockets (best druggability 0.50). MolNFT v1 #135126 on…
- PDB
- 5TPP
- Type
- protein
- Length
- 440 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DH270.5 Fab heavy chain; DH270.5 Fab light chain
- Ligands
- NA
- Pockets
- 5 · best druggability 0.50
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | DH270.5 Fab heavy chain | protein | 212 | 7% helix, 49% strand | — |
| H | DH270.5 Fab light chain | protein | 228 | 8% helix, 51% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 228 | 0.50 | 0.75 | 33 | NA |
| 2 | 84 | 0.36 | 0.76 | 19 | empty |
| 3 | 77 | 0.35 | 0.76 | 21 | empty |
| 4 | 56 | 0.32 | 0.76 | 15 | empty |
| 5 | 74 | 0.27 | 0.72 | 16 | empty |
Interfaces
1 interface between chains.
- L–H · 1735 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide (disulfide).
Compared structures
- 5TPP · Crystal Structure of DH270.5 (unliganded) from the DH270 Broadly Neutralizing N332-glycan… · the same entry in another collection · chain L against L, 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 5TPP · PDBe 5TPP
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