Research workbench

Structure of ATP-free human ABCA4

Analyse Structure of ATP-free human ABCA4 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7LKP
Type: protein
Length: 1,941 residues
Chains: 1
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Retinal-specific phospholipid-transporting ATPase ABCA4
EC: 7.6.2.1
UniProt: P78363
Ligands: CLR, POV, AJP, NAG, BMA
Pockets: 20 · best druggability 0.84

Structure

electron microscopy · 1 distinct chain · 49% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Retinal-specific phospholipid-transporting ATPase ABCA4 (EC 7.6.2.1)	protein	1941	49% helix, 10% strand	P78363

Ligands and binding sites

CLR · Cholesterol · ligand · 7 copies · chains A
POV · (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate · ligand · 7 copies · chains A
AJP · Digitonin · ligand · chains A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 10 copies · chains A
BMA · beta-D-mannopyranose · sugar · 4 copies

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

Pockets

20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1030	0.84	0.85	87	empty
2	916	0.79	0.81	93	empty
3	389	0.70	0.82	53	empty
4	214	0.69	0.86	35	empty
5	226	0.68	0.85	37	empty

Modifications

Observed in the structure: 9 glycan, 6 disulfide, 1 covalent (N-glycosylation, disulfide, covalent ligand, glycosylation).

Compared structures

7LKP · Structure of ATP-free human ABCA4 · the same entry in another collection · chain A against A, TM-score 1.00
P78363 · AlphaFold monomer V2.0 prediction for retinal-specific phospholipid- transporting ATPase… · 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 P78363
Elsewhere: RCSB PDB 7LKP · PDBe 7LKP · UniProt P78363

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.