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Crystal structure of human mature meprin beta
Analyse Crystal structure of human mature meprin beta in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4GWN
- Type
- protein
- Length
- 533 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Meprin a subunit beta
- EC
- 3.4.24.63
- UniProt
- Q16820
- Ligands
- NAG, MAN, FUC, BMA, CD, NA
- Pockets
- 4 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 15% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Meprin a subunit beta (EC 3.4.24.63) | protein | 533 | 15% helix, 34% strand | Q16820 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 12 copies · chains A
- MAN · alpha-D-mannopyranose · sugar · 9 copies · chains A
- FUC · alpha-L-fucopyranose · sugar · 3 copies · chains A
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains A
- CD · Cadmium ion · metal · chains A
- NA · Sodium ion · metal · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 433 | 0.80 | 0.88 | 37 | empty |
| 2 | 395 | 0.65 | 0.79 | 52 | CD, GOL |
| 3 | 108 | 0.41 | 0.76 | 21 | empty |
| 4 | 52 | 0.26 | 0.73 | 16 | empty |
Modifications
Observed in the structure: 7 glycan, 4 disulfide (N-glycosylation, 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 Q16820
- Elsewhere: RCSB PDB 4GWN · PDBe 4GWN · UniProt Q16820
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