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Structure of yeast Sec14p with NPPM244

Analyse Structure of yeast Sec14p with NPPM244 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7ZGD
Type: protein
Length: 297 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.08
Source: Saccharomyces cerevisiae S288C
Molecule: SEC14 cytosolic factor
UniProt: P24280
Ligands: IUC
Pockets: 6 · best druggability 0.66

Structure

x-ray diffraction · resolution 2.08 · 1 distinct chain · 52% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	SEC14 cytosolic factor	protein	297	52% helix, 10% strand	P24280

Ligands and binding sites

IUC · (4-bromanyl-3-nitro-phenyl)-[4-(2-fluorophenyl)piperazin-1-yl]methanone · ligand · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	311	0.66	0.81	38	empty
2	320	0.66	0.81	34	IUC
3	205	0.62	0.82	21	empty
4	96	0.44	0.79	16	empty
5	76	0.34	0.74	15	empty

Compared structures

P24280 · AlphaFold monomer V2.0 prediction for SEC14 cytosolic factor (P24280) · a predicted model of the same protein · chain A against A, TM-score 0.96

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 P24280
Elsewhere: RCSB PDB 7ZGD · PDBe 7ZGD · UniProt P24280

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