MolNFT v1 · #159638 · protein

X-ray structure of polypeptide deformylase

6OW2: “X-ray structure of polypeptide deformylase”. X-ray diffraction, 2 ligands (NB4, NI), 1 pocket (best druggability 0.50). MolNFT v1 #159638 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6OW2
Type: protein
Length: 191 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Peptide deformylase
EC: 3.5.1.88
UniProt: Q939R9
Ligands: NB4, NI
Pockets: 1 · best druggability 0.50

Structure

x-ray diffraction · 1 distinct chain · 31% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
P	Peptide deformylase (EC 3.5.1.88)	protein	191	31% helix, 26% strand	Q939R9

Ligands and binding sites

NB4 · (2R)-2-(cyclopentylmethyl)-N'-{5-fluoro-6-[(9AS)-hexahydropyrazino[2,1-c][1,4]oxazin-8(1H)-yl]-2-methylpyrimidin-4-yl}-3-[hydroxy(hydroxymethyl) amino]propanehydrazide · ligand · chains P
NI · Nickel (II) ion · metal · 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	149	0.50	0.79	21	NB4

Compared structures

6OW2 · X-ray Structure of Polypeptide Deformylase · 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 6OW2 · PDBe 6OW2 · UniProt Q939R9

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