Research workbench

Structure of hantavirus envelope glycoprotein gc in complex with scfv A5

Analyse Structure of hantavirus envelope glycoprotein gc in complex with scfv A5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5LJY
Type: protein
Length: 594 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Envelopment polyprotein; SCFVA5
UniProt: P08668
Ligands: NCO, NAG
Pockets: 5 · best druggability 0.64

Structure

x-ray diffraction · 3 distinct chains · 4% helix, 56% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Envelopment polyprotein	protein	374	4% helix, 60% strand	P08668
H	SCFVA5	protein	113	0% helix, 49% strand	—
L	SCFVA5	protein	107	7% helix, 48% strand	—

Ligands and binding sites

NCO · Cobalt hexammine(iii) · ligand · chains A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 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, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	88	0.64	0.90	21	empty
2	81	0.42	0.79	18	empty
3	97	0.39	0.77	19	empty
4	54	0.35	0.79	15	empty
5	51	0.34	0.78	15	empty

Interfaces

3 interfaces between chains.

H–L · 699 Å² buried · 7 hydrogen bonds · protein-protein
A–L · 678 Å² buried · 7 hydrogen bonds · protein-protein
A–H · 471 Å² buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 12 disulfide, 1 glycan (disulfide, N-glycosylation).

Compared structures

5LJY · Structure of hantavirus envelope glycoprotein Gc in complex with scFv A5 · 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 P08668
Elsewhere: RCSB PDB 5LJY · PDBe 5LJY · UniProt P08668

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