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Crystal structure of purine nucleoside phosphorylase from streptococcus agalactiae 2603V/R, nysgrc target 030935

Analyse Crystal structure of purine nucleoside phosphorylase from streptococcus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4TYM
Type: protein
Length: 235 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Purine nucleoside phosphorylase deod-type
EC: 2.4.2.1
UniProt: S9I310
Ligands: SO4
Pockets: 2 · best druggability 0.58

Structure

x-ray diffraction · 1 distinct chain · 37% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Purine nucleoside phosphorylase deod-type (EC 2.4.2.1)	protein	235	37% helix, 29% strand	S9I310

Ligands and binding sites

SO4 · Sulfate ion · ion · 3 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	290	0.58	0.77	41	SO4
2	66	0.32	0.75	13	empty

Modifications

Observed in the structure: 12 modified (engineered, oxidation).

Compared structures

4TYM · Crystal structure of purine nucleoside phosphorylase from Streptococcus agalactiae… · 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 S9I310
Elsewhere: RCSB PDB 4TYM · PDBe 4TYM · UniProt S9I310

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