Research workbench
Crystal structure of xanthan lyase (N194A) with a substrate.
Analyse Crystal structure of xanthan lyase (N194A) with a substrate. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1X1J
- Type
- protein
- Length
- 752 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Xanthan lyase
- EC
- 4.2.2.12
- Ligands
- 46D, CA
- Pockets
- 3 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 32% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Xanthan lyase (EC 4.2.2.12) | protein | 752 | 32% helix, 28% strand | — |
Ligands and binding sites
- 46D · (4ar,6r,7s,8r,8ar)-8-((5R,6R)-3-carboxy-tetrahydro-4,5,6-trihydroxy-2H-pyran-2-yloxy)-hexahydro-6,7-dihydroxy-2-methylpyrano[3,2-d][1,3]dioxine-2-carboxylic acid) · ligand · chains A
- CA · Calcium ion · metal · chains A
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 | 1075 | 0.78 | 0.80 | 79 | 46D |
| 2 | 170 | 0.44 | 0.74 | 32 | empty |
| 3 | 115 | 0.39 | 0.75 | 19 | empty |
Compared structures
- 1X1J · Crystal Structure of Xanthan Lyase (N194A) with a Substrate. · 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
- Elsewhere: RCSB PDB 1X1J · PDBe 1X1J
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