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Strep peptide deformylase with a time dependent dichlorobenzamide- reverse hydroxamic acid

Analyse Strep peptide deformylase with a time dependent dichlorobenzamide- reverse… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3SW8
Type: protein
Length: 194 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Peptide deformylase 3
EC: 3.5.1.88
UniProt: Q939R9
Ligands: 5LI, NI, SO4
Pockets: 1 · best druggability 0.52

Structure

x-ray diffraction · 1 distinct chain · 30% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
P	Peptide deformylase 3 (EC 3.5.1.88)	protein	194	30% helix, 26% strand	Q939R9

Ligands and binding sites

5LI · 2,3-dichloro-N-{2-[formyl(hydroxy)amino]ethyl}benzamide · ligand · chains P
NI · Nickel (II) ion · metal · chains P
SO4 · Sulfate ion · ion · 3 copies · chains P

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	168	0.52	0.78	25	5LI

Compared structures

3SW8 · Strep Peptide Deformylase with a time dependent dichlorobenzamide-reverse hydroxamic acid · the same entry in another collection · chain P against P, 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 Q939R9
Elsewhere: RCSB PDB 3SW8 · PDBe 3SW8 · UniProt Q939R9

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