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Crystal structure of human transthyretin in complex with perfluorooctanoic acid (pfoa)

Analyse Crystal structure of human transthyretin in complex with perfluorooctanoic acid… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5JID
Type: protein
Length: 232 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Transthyretin
UniProt: P02766
Ligands: 8PF, NA
Pockets: 2 · best druggability 0.31

Structure

x-ray diffraction · 1 distinct chain · 6% helix, 53% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Transthyretin	protein	116	6% helix, 53% strand	P02766

Ligands and binding sites

8PF · pentadecafluorooctanoic acid · ligand · 2 copies · chains A, B
NA · Sodium ion · metal · chains 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	64	0.31	0.75	14	empty
2	61	0.31	0.76	16	empty

Interfaces

1 interface between chains.

A–B · 938 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

5JID · Crystal Structure of Human Transthyretin in Complex with Perfluorooctanoic acid (PFOA) · the same entry in another collection · chain A against A, TM-score 1.00

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P02766
Elsewhere: RCSB PDB 5JID · PDBe 5JID · UniProt P02766

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