MolNFT v1 · #175625 · protein

SARS-cov-2 spike protein rbd and P17 Fab complex

7CWO · Spike glycoprotein: “SARS-cov-2 spike protein rbd and P17 Fab complex”. Electron microscopy, 2 pockets (best druggability 0.57). MolNFT v1 #175625 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7CWO
Type: protein
Length: 422 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spike glycoprotein; Heavy chain of P17 Fab; Light chain of P17 Fab
UniProt: P0DTC2
Pockets: 2 · best druggability 0.57

Structure

electron microscopy · 3 distinct chains · 8% helix, 37% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Spike glycoprotein	protein	194	13% helix, 22% strand	P0DTC2
H	Heavy chain of P17 Fab	protein	120	5% helix, 45% strand	—
L	Light chain of P17 Fab	protein	108	0% helix, 54% strand	—

Pockets

2 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	278	0.57	0.77	39	empty
2	78	0.32	0.74	19	empty

Interfaces

3 interfaces between chains.

H–L · 874 Å² buried · 8 hydrogen bonds · protein-protein
A–H · 699 Å² buried · 5 hydrogen bonds · protein-protein
A–L · 269 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

7CWO · SARS-CoV-2 spike protein RBD and P17 fab complex · 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 P0DTC2
Elsewhere: RCSB PDB 7CWO · PDBe 7CWO · UniProt P0DTC2

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