MolNFT v1 · #114749 · protein

Crystal structure of sodium proton antiporter napa in outward-facing conformation.

5BZ3 · NA(+)/H(+) antiporter: “Crystal structure of sodium proton antiporter napa in outward-facing conformation.”. X-ray diffraction, 1 ligand (7E8), 5 pockets (best druggability 0.70). MolNFT v1 #114749 on GenesisL1: 3D structure…

PDB: 5BZ3
Type: protein
Length: 384 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: NA(+)/H(+) antiporter
UniProt: Q72IM4
Ligands: 7E8
Pockets: 5 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 78% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	NA(+)/H(+) antiporter	protein	384	78% helix, 0% strand	Q72IM4

Ligands and binding sites

7E8 · (2R)-2,3-dihydroxypropyl (7Z)-tetradec-7-enoate · ligand · 7 copies · chains A

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

Pockets

5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	446	0.70	0.81	58	7E8
2	140	0.52	0.80	23	empty
3	59	0.42	0.81	17	empty
4	68	0.31	0.74	12	empty
5	50	0.28	0.76	14	7E8

Compared structures

5BZ3 · Crystal structure of sodium proton antiporter napa in outward-facing conformation. · 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 Q72IM4
Elsewhere: RCSB PDB 5BZ3 · PDBe 5BZ3 · UniProt Q72IM4

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