Research workbench
Crystal structure of SPGH29
Analyse Crystal structure of SPGH29 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6ORG
- Type
- protein
- Length
- 900 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glycoside hydrolase
- UniProt
- A0A0H2US78
- Ligands
- CA
- Pockets
- 9 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 29% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glycoside hydrolase | protein | 450 | 29% helix, 26% strand | A0A0H2US78 |
| B | Glycoside hydrolase | protein | 450 | 29% helix, 26% strand | A0A0H2US78 |
Ligands and binding sites
- CA · Calcium ion · metal · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 8 copies · chains A, B
- BTB · 2-[bis-(2-hydroxy-ethyl)-amino]-2-hydroxymethyl-propane-1,3-diol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1074 | 0.81 | 0.83 | 101 | EDO, BTB |
| 2 | 347 | 0.60 | 0.77 | 40 | BTB |
| 3 | 148 | 0.50 | 0.79 | 23 | empty |
| 4 | 137 | 0.44 | 0.76 | 25 | empty |
| 5 | 71 | 0.39 | 0.79 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 656 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 6ORG · Crystal structure of SpGH29 · 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 A0A0H2US78
- Elsewhere: RCSB PDB 6ORG · PDBe 6ORG · UniProt A0A0H2US78
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.