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Crystal structure of Staphylococcal nuclease variant Delta+PHS T62D / V104E at cryogenic temperature

Analyse Crystal structure of Staphylococcal nuclease variant Delta+PHS T62D / V104E at… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5C5M
Type: protein
Length: 129 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.7
Source: Staphylococcus aureus
Molecule: Thermonuclease
EC: 3.1.31.1
UniProt: P00644
Ligands: THP, CA
Pockets: 1 · best druggability 0.44

Structure

x-ray diffraction · resolution 1.7 · 1 distinct chain · 29% helix, 30% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Thermonuclease (EC 3.1.31.1)	protein	129	29% helix, 30% strand	P00644

Ligands and binding sites

THP · Thymidine-3',5'-diphosphate · ligand · chains A
CA · Calcium ion · metal · 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.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	80	0.44	0.80	15	THP

Compared structures

5C5M · Crystal structure of staphylococcal nuclease variant DELTA+PHS T62D / V104E 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 5C5M · PDBe 5C5M · UniProt P00644

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