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Crystal structure of staphylococcal nuclease variant DELTA+NVIAGLA V23E/L36E at cryogenic temperature

Analyse Crystal structure of staphylococcal nuclease variant DELTA+NVIAGLA V23E/L36E at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3TP5
Type: protein
Length: 129 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Thermonuclease
EC: 3.1.31.1
UniProt: P00644
Ligands: THP
Pockets: 2 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Thermonuclease (EC 3.1.31.1)	protein	129	28% helix, 29% strand	P00644

Ligands and binding sites

THP · Thymidine-3',5'-diphosphate · ligand · chains A
MPD · (4S)-2-methyl-2,4-pentanediol · additive · 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	346	0.65	0.79	28	MPD
2	87	0.44	0.80	16	THP

Compared structures

3TP5 · Crystal structure of Staphylococcal nuclease variant Delta+NVIAGLA V23E/L36E at cryogenic… · 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 P00644
Elsewhere: RCSB PDB 3TP5 · PDBe 3TP5 · UniProt P00644

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