MolNFT v1 · #12953 · protein
Rat mannose binding protein a (native, mpd)
1KWT · Mannose-binding protein a: “Rat mannose binding protein a (native, mpd)”. X-ray diffraction, 2 ligands (CA, CL), 4 pockets (best druggability 0.66). MolNFT v1 #12953 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1KWT
- Type
- protein
- Length
- 447 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mannose-binding protein a
- UniProt
- P19999
- Ligands
- CA, CL
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Mannose-binding protein a | protein | 149 | 36% helix, 26% strand | P19999 |
Ligands and binding sites
- CA · Calcium ion · metal · 10 copies · chains A, B, C
- CL · Chloride ion · ion · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 662 | 0.66 | 0.75 | 61 | empty |
| 2 | 285 | 0.59 | 0.78 | 33 | empty |
| 3 | 254 | 0.55 | 0.76 | 30 | empty |
| 4 | 202 | 0.50 | 0.76 | 26 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1097 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 1077 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 1066 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 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 P19999
- Elsewhere: RCSB PDB 1KWT · PDBe 1KWT · UniProt P19999
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