MolNFT v1 · #140678 · protein

Crystal structure of 45 amino acid deleted from N-terminal of phosphoserine aminotransferase (psat) of entamoeba histolytica

5YII: “Crystal structure of 45 amino acid deleted from N-terminal of phosphoserine aminotransferase (psat) of…”. X-ray diffraction, 1 ligand (SCN), 4 pockets (best druggability 0.65). MolNFT v1 #140678 on GenesisL1: 3D structure, binding…

PDB: 5YII
Type: protein
Length: 311 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Phosphoserine aminotransferase
EC: 2.6.1.52
UniProt: Q60I38
Ligands: SCN
Pockets: 4 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain · 43% helix, 18% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Phosphoserine aminotransferase (EC 2.6.1.52)	protein	311	43% helix, 18% strand	Q60I38

Ligands and binding sites

SCN · Thiocyanate ion · ion · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	367	0.65	0.80	41	empty
2	106	0.53	0.83	26	SCN
3	60	0.37	0.78	14	empty
4	55	0.28	0.74	11	empty

Compared structures

5YII · Crystal Structure of 45 amino acid deleted from N-terminal of Phosphoserine… · 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 Q60I38
Elsewhere: RCSB PDB 5YII · PDBe 5YII · UniProt Q60I38

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