MolNFT v1 · #78012 · protein

Crystal structure of the navab voltage-gated sodium channel (ILE217CYS, 2.8 a)

3RVZ · Ion transport protein: “Crystal structure of the navab voltage-gated sodium channel (ILE217CYS, 2.8 a)”. X-ray diffraction, 1 ligand (PX4), 7 pockets (best druggability 0.69). MolNFT v1 #78012 on GenesisL1: 3D structure, binding…

PDB: 3RVZ
Type: protein
Length: 438 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ion transport protein
UniProt: A8EVM5
Ligands: PX4
Pockets: 7 · best druggability 0.69

Structure

x-ray diffraction · 1 distinct chain · 80% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Ion transport protein	protein	219	80% helix, 0% strand	A8EVM5

Ligands and binding sites

PX4 · 1,2-dimyristoyl-sn-glycero-3-phosphocholine · ligand · 14 copies · chains A, B

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

Pockets

7 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	606	0.69	0.77	54	PX4
2	125	0.47	0.79	19	empty
3	168	0.46	0.76	30	empty
4	110	0.44	0.78	21	empty
5	123	0.40	0.74	17	PX4

Interfaces

1 interface between chains.

A–B · 1491 Å² buried · 10 hydrogen bonds · protein-protein

Compared structures

3RVZ · Crystal structure of the NavAb voltage-gated sodium channel (Ile217Cys, 2.8 A) · 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 A8EVM5
Elsewhere: RCSB PDB 3RVZ · PDBe 3RVZ · UniProt A8EVM5

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