Research workbench
Crystal structure of mycobacterium avium SERB2 in complex with serine at catalytic (psp) domain
Analyse Crystal structure of mycobacterium avium SERB2 in complex with serine at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JMA
- Type
- protein
- Length
- 396 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoserine phosphatase
- EC
- 3.1.3.3
- UniProt
- A0QJI1
- Ligands
- SER, MG
- Pockets
- 1 · best druggability 0.41
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphoserine phosphatase (EC 3.1.3.3) | protein | 396 | 40% helix, 28% strand | A0QJI1 |
Ligands and binding sites
- SER · Serine · ligand · chains A
- MG · Magnesium ion · metal · chains A
- EDO · 1,2-ethanediol · additive · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 78 | 0.41 | 0.79 | 18 | empty |
Compared structures
- 5JMA · Crystal structure of Mycobacterium avium SerB2 in complex with serine at catalytic (PSP)… · the same entry in another collection · chain A against A, TM-score 1.00
- A0QJI1 · AlphaFold monomer V2.0 prediction for phosphoserine phosphatase (A0QJI1) · a predicted model of the same protein · 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 A0QJI1
- Elsewhere: RCSB PDB 5JMA · PDBe 5JMA · UniProt A0QJI1
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