Research workbench
Crystal structure of arthrobacter aurescens chondroitin ac lyase
Analyse Crystal structure of arthrobacter aurescens chondroitin ac lyase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1RWC
- Type
- protein
- Length
- 754 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chondroitin ac lyase
- EC
- 4.2.2.5
- UniProt
- P84141
- Ligands
- GAD, NAG, NA, PO4
- Pockets
- 6 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 32% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chondroitin ac lyase (EC 4.2.2.5) | protein | 754 | 32% helix, 27% strand | P84141 |
Ligands and binding sites
- GAD · 2,6-anhydro-3-deoxy-L-threo-hex-2-enonic acid · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- NA · Sodium ion · metal · chains A
- PO4 · Phosphate ion · ion · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1187 | 0.73 | 0.77 | 106 | NAG, GAD, PO4 |
| 2 | 64 | 0.45 | 0.83 | 17 | empty |
| 3 | 72 | 0.37 | 0.78 | 14 | empty |
| 4 | 60 | 0.35 | 0.78 | 17 | empty |
| 5 | 92 | 0.33 | 0.73 | 17 | empty |
Compared structures
- 1RWC · Crystal structure of Arthrobacter aurescens chondroitin AC lyase · 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 P84141
- Elsewhere: RCSB PDB 1RWC · PDBe 1RWC · UniProt P84141
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