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Crystal structure of a succinylglutamate desuccinylase (TM1040_2694) from silicibacter sp. TM1040 at 2.00 a resolution
Analyse Crystal structure of a succinylglutamate desuccinylase (TM1040_2694) from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3NA6
- Type
- protein
- Length
- 329 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Succinylglutamate DESUCCINYLASE/ASPARTOACYLASE
- UniProt
- Q1GD40
- Ligands
- CA, CL
- Pockets
- 3 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 23% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Succinylglutamate DESUCCINYLASE/ASPARTOACYLASE | protein | 329 | 23% helix, 29% strand | Q1GD40 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A
- CL · Chloride ion · ion · 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
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 | 472 | 0.72 | 0.81 | 48 | CL |
| 2 | 58 | 0.28 | 0.74 | 12 | empty |
| 3 | 51 | 0.27 | 0.75 | 17 | empty |
Modifications
Observed in the structure: 11 modified, 1 disulfide (engineered, disulfide).
Compared structures
- 3NA6 · Crystal structure of a succinylglutamate desuccinylase (TM1040_2694) from SILICIBACTER… · 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 Q1GD40
- Elsewhere: RCSB PDB 3NA6 · PDBe 3NA6 · UniProt Q1GD40
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