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Structure of T. gondii PLP1 beta-rich domain

Analyse Structure of T. gondii PLP1 beta-rich domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6D7A
Type: protein
Length: 531 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Perforin-like protein 1
UniProt: A1E348
Ligands: NA
Pockets: 2 · best druggability 0.63

Structure

x-ray diffraction · 2 distinct chains · 6% helix, 47% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Perforin-like protein 1	protein	266	6% helix, 47% strand	A1E348
B	Perforin-like protein 1	protein	265	6% helix, 47% strand	A1E348

Ligands and binding sites

NA · Sodium ion · metal · 4 copies · chains A, B

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

Pockets

2 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	466	0.63	0.77	48	empty
2	57	0.32	0.77	14	empty

Interfaces

1 interface between chains.

A–B · 318 Å² buried · 5 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide (disulfide).

Compared structures

6D7A · Structure of T. gondii PLP1 beta-rich domain · the same entry in another collection · chain A against A, 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 A1E348
Elsewhere: RCSB PDB 6D7A · PDBe 6D7A · UniProt A1E348

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