MolNFT v1 · #187771 · protein
Crystal structure of spaa-SLH/G109A in complex with 4,6-pyr-beta-D- mannac-(1->4)-beta-D-glcnacome
7SV5 · Surface (S-) layer glycoprotein: “Crystal structure of spaa-SLH/G109A in complex with 4,6-pyr-beta-D- mannac-(1->4)-beta-D-glcnacome”. X-ray diffraction, 1 ligand (D2Y), 3 pockets (best druggability 0.71). MolNFT v1 #187771 on…
- PDB
- 7SV5
- Type
- protein
- Length
- 329 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Surface (S-) layer glycoprotein
- UniProt
- C1JZ07
- Ligands
- D2Y
- Pockets
- 3 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 41% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Surface (S-) layer glycoprotein | protein | 165 | 42% helix, 5% strand | C1JZ07 |
| B | Surface (S-) layer glycoprotein | protein | 164 | 41% helix, 5% strand | C1JZ07 |
Ligands and binding sites
- D2Y · methyl 2-acetamido-4-O-{2-acetamido-4,6-O-[(1S)-1-carboxyethylidene]-2-deoxy-beta-D-mannopyranosyl}-2-deoxy-beta-D-glucopyranoside · ligand · 2 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 793 | 0.71 | 0.77 | 66 | GOL, D2Y |
| 2 | 144 | 0.42 | 0.75 | 18 | empty |
| 3 | 82 | 0.41 | 0.79 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 495 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7SV5 · Crystal structure of SpaA-SLH/G109A in complex with… · 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 C1JZ07
- Elsewhere: RCSB PDB 7SV5 · PDBe 7SV5 · UniProt C1JZ07
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.