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Crystal structure of platelet factor 4

Analyse Crystal structure of platelet factor 4 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1F9Q
Type: protein
Length: 254 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Platelet factor 4
UniProt: P02776
Pockets: 3 · best druggability 0.79

Structure

x-ray diffraction · 3 distinct chains · 22% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Platelet factor 4	protein	64	20% helix, 31% strand	P02776
B, C	Platelet factor 4	protein	62	23% helix, 32% strand	P02776
D	Platelet factor 4	protein	66	23% helix, 33% strand	P02776

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	491	0.79	0.86	66	empty
2	105	0.50	0.81	19	empty
3	107	0.49	0.81	21	empty

Interfaces

6 interfaces between chains.

A–B · 835 Å² buried · 7 hydrogen bonds · protein-protein
C–D · 828 Å² buried · 7 hydrogen bonds · protein-protein
A–D · 697 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 630 Å² buried · 6 hydrogen bonds · protein-protein
A–C · 142 Å² buried · 1 hydrogen bond · protein-protein

Modifications

Observed in the structure: 8 disulfide (disulfide).

Compared structures

1F9Q · Crystal structure of platelet factor 4 · the same entry in another collection · chain A against A, TM-score 1.00
P02776 · AlphaFold monomer V2.0 prediction for platelet factor 4 (P02776) · a predicted model of the same protein · chain B against A, TM-score 0.89

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 P02776
Elsewhere: RCSB PDB 1F9Q · PDBe 1F9Q · UniProt P02776

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