MolNFT v1 · #153483 · protein

K4U bound crystal structure of class II peptide deformylase from methicillin resistant staphylococcus aureus

6JFS: “K4U bound crystal structure of class II peptide deformylase from methicillin resistant staphylococcus aureus”. X-ray diffraction, 2 ligands (LHY, NI), 1 pocket (best druggability 0.55). MolNFT v1 #153483 on GenesisL1: 3D structure…

PDB: 6JFS
Type: protein
Length: 183 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Peptide deformylase
EC: 3.5.1.88
UniProt: P68826
Ligands: LHY, NI
Pockets: 1 · best druggability 0.55

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Peptide deformylase (EC 3.5.1.88)	protein	183	28% helix, 25% strand	P68826

Ligands and binding sites

LHY · L-[(N-hydroxyamino)carbonyl]phenylalanine · ligand · chains A
NI · Nickel (II) 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	126	0.55	0.82	19	LHY

Compared structures

6JFS · K4U bound crystal structure of class II peptide deformylase from methicillin resistant… · the same entry in another collection · chain A against A, TM-score 1.00
P68826 · AlphaFold monomer V2.0 prediction for peptide deformylase (P68826) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P68826
Elsewhere: RCSB PDB 6JFS · PDBe 6JFS · UniProt P68826

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