MolNFT v1 · #148220 · protein
Crystal structure of a llama vhh antibody BCD090-M2 against human ERBB3 in space group P1 with cadmium ions
6F0D: “Crystal structure of a llama vhh antibody BCD090-M2 against human ERBB3 in space group P1 with cadmium ions”. X-ray diffraction, 1 ligand (CD), 1 pocket (best druggability 0.46). MolNFT v1 #148220 on GenesisL1: 3D structure, binding…
- PDB
- 6F0D
- Type
- protein
- Length
- 256 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vhh antibody BCD090-M2
- Ligands
- CD
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 9% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | Vhh antibody BCD090-M2 | protein | 128 | 9% helix, 48% strand | — |
Ligands and binding sites
- CD · Cadmium ion · metal · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 174 | 0.46 | 0.76 | 28 | empty |
Interfaces
1 interface between chains.
- B–A · 318 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6F0D · Crystal structure of a llama VHH antibody BCD090-M2 against human ErbB3 in space group P1… · the same entry in another collection · chain B against B, 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 6F0D · PDBe 6F0D
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