Research workbench
Crystal structure of cblc (mmachc) (1-238), a human B12 processing enzyme, complexed with an antivitamin B12
Analyse Crystal structure of cblc (mmachc) (1-238), a human B12 processing enzyme… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5UOS
- Type
- protein
- Length
- 239 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methylmalonic aciduria and homocystinuria type C protein
- EC
- 1.16.1.-
- UniProt
- Q9Y4U1
- Ligands
- B12, 8FS, GSH, 171, NA, SO4
- Pockets
- 1 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Methylmalonic aciduria and homocystinuria type C protein (EC 1.16.1.-) | protein | 239 | 40% helix, 17% strand | Q9Y4U1 |
Ligands and binding sites
- B12 · Cobalamin · ligand · chains A
- 8FS · 1-ethynyl-2,4-difluorobenzene · ligand
- GSH · Glutathione · ligand · chains A
- 171 · 2-phenylamino-ethanesulfonic acid · ligand · chains A
- NA · Sodium ion · metal
- SO4 · Sulfate ion · ion · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 391 | 0.58 | 0.75 | 41 | B12, GSH |
Compared structures
- 5UOS · Crystal Structure of CblC (MMACHC) (1-238), a human B12 processing enzyme, complexed with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y4U1 · AlphaFold monomer V2.0 prediction for cyanocobalamin reductase / alkylcobalamin… · a predicted model of the same protein · chain A against A, TM-score 0.95
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 Q9Y4U1
- Elsewhere: RCSB PDB 5UOS · PDBe 5UOS · UniProt Q9Y4U1
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