MolNFT v1 · #176218 · protein

Full length HNPC1L1-apo

7DF8 · NPC1-like intracellular cholesterol transporter 1: “Full length HNPC1L1-apo”. Electron microscopy, 2 ligands (CLR, NAG), 8 pockets (best druggability 0.88). MolNFT v1 #176218 on GenesisL1: 3D structure, binding sites and pockets in…

PDB: 7DF8
Type: protein
Length: 918 residues
Chains: 1
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: NPC1-like intracellular cholesterol transporter 1
UniProt: A0A0C4DFX6
Ligands: CLR, NAG
Pockets: 8 · best druggability 0.88

Structure

electron microscopy · 1 distinct chain · 50% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	NPC1-like intracellular cholesterol transporter 1	protein	918	50% helix, 9% strand	A0A0C4DFX6

Ligands and binding sites

CLR · Cholesterol · ligand · 4 copies · chains A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 15 copies · chains A
LMT · Dodecyl-beta-D-maltoside · additive · chains A

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

Pockets

8 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	1157	0.88	0.88	121	LMT
2	321	0.55	0.75	44	empty
3	157	0.52	0.78	18	empty
4	141	0.44	0.76	18	empty
5	68	0.44	0.81	16	empty

Modifications

Observed in the structure: 10 glycan, 5 disulfide (N-glycosylation, disulfide).

Compared structures

7DF8 · full length hNPC1L1-Apo · 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 A0A0C4DFX6
Elsewhere: RCSB PDB 7DF8 · PDBe 7DF8 · UniProt A0A0C4DFX6

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