MolNFT v1 · #170049 · protein
Crystal structure of megabody mb-NB207-CYGJK_NO
6XUX · NANOBODY,GLUCOSIDASE YGJK,GLUCOSIDASE YGJK,NANOBODY: “Crystal structure of megabody mb-NB207-CYGJK_NO”. X-ray diffraction, 1 ligand (CA), 5 pockets (best druggability 0.72). MolNFT v1 #170049 on GenesisL1: 3D structure, binding…
- PDB
- 6XUX
- Type
- protein
- Length
- 879 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NANOBODY,GLUCOSIDASE YGJK,GLUCOSIDASE YGJK,NANOBODY
- EC
- 3.2.1.-
- UniProt
- P42592
- Ligands
- CA
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | NANOBODY,GLUCOSIDASE YGJK,GLUCOSIDASE YGJK,NANOBODY (EC 3.2.1.-) | protein | 879 | 31% helix, 28% strand | P42592 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 626 | 0.72 | 0.79 | 58 | empty |
| 2 | 407 | 0.64 | 0.78 | 40 | empty |
| 3 | 73 | 0.37 | 0.77 | 17 | empty |
| 4 | 50 | 0.29 | 0.76 | 18 | empty |
| 5 | 50 | 0.28 | 0.75 | 12 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
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 P42592
- Elsewhere: RCSB PDB 6XUX · PDBe 6XUX · UniProt P42592
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