Research workbench
The structure of CBM51-2 in complex with glcnac and int domains from clostridium perfringens zmpb
Analyse The structure of CBM51-2 in complex with glcnac and int domains from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JRL
- Type
- protein
- Length
- 457 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- F5/8 type C domain protein
- UniProt
- A0A0H2YN38
- Ligands
- NAG, CA, PO4
- Pockets
- 2 · best druggability 0.41
Structure
x-ray diffraction · 1 distinct chain · 18% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | F5/8 type C domain protein | protein | 457 | 18% helix, 40% strand | A0A0H2YN38 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- CA · Calcium ion · metal · chains A
- PO4 · Phosphate ion · ion · chains A
- EDO · 1,2-ethanediol · additive · 4 copies · chains A
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 99 | 0.41 | 0.77 | 20 | empty |
| 2 | 93 | 0.33 | 0.73 | 16 | empty |
Compared structures
- 7JRL · The structure of CBM51-2 in complex with GlcNAc and INT domains from Clostridium… · the same entry in another collection · chain A against A, 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
- Every structure of UniProt A0A0H2YN38
- Elsewhere: RCSB PDB 7JRL · PDBe 7JRL · UniProt A0A0H2YN38
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