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Streptomyces PAC13 with uridine

Analyse Streptomyces PAC13 with uridine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5OO4
Type: protein
Length: 121 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 1.6
Source: Streptomyces coeruleorubidus
Molecule: Putative cupin_2 domain-containing isomerase
UniProt: E2EKP5
Ligands: URI
Pockets: 1 · best druggability 0.61

Structure

x-ray diffraction · resolution 1.6 · 1 distinct chain · 5% helix, 58% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Putative cupin_2 domain-containing isomerase	protein	121	5% helix, 58% strand	E2EKP5

Ligands and binding sites

URI · Uridine · ligand · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	113	0.61	0.86	23	URI

Compared structures

5OO4 · Streptomyces PAC13 with uridine · 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 E2EKP5
Elsewhere: RCSB PDB 5OO4 · PDBe 5OO4 · UniProt E2EKP5

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