MolNFT v1 · #139115 · protein

Prefusion structure of MERS-cov spike glycoprotein, conformation 1

5X5C · S protein: “Prefusion structure of MERS-cov spike glycoprotein, conformation 1”. Electron microscopy, 20 pockets (best druggability 0.86). MolNFT v1 #139115 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5X5C
Type: protein
Length: 3,423 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: S protein
UniProt: W6A028
Pockets: 20 · best druggability 0.86

Structure

electron microscopy · 1 distinct chain · 20% helix, 22% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C	S protein	protein	1141	20% helix, 22% strand	W6A028

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1027	0.86	0.87	109	empty
2	1053	0.83	0.84	92	empty
3	353	0.81	0.91	71	empty
4	367	0.81	0.90	74	empty
5	890	0.80	0.83	106	empty

Interfaces

3 interfaces between chains.

B–C · 5673 Å² buried · 85 hydrogen bonds · protein-protein
A–B · 4584 Å² buried · 56 hydrogen bonds · protein-protein
A–C · 4486 Å² buried · 55 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 33 disulfide (disulfide).

Compared structures

5X5C · Prefusion structure of MERS-CoV spike glycoprotein, conformation 1 · 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 W6A028
Elsewhere: RCSB PDB 5X5C · PDBe 5X5C · UniProt W6A028

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