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Influenza virus (VN1194) H5 ha with lstc

Analyse Influenza virus (VN1194) H5 ha with lstc in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3ZP1
Type: protein
Length: 479 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Haemagglutinin
UniProt: Q6DQ34
Ligands: GAL, SIA
Pockets: 5 · best druggability 0.59

Structure

x-ray diffraction · 2 distinct chains · 24% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
E	Haemagglutinin	protein	321	10% helix, 39% strand	Q6DQ34
F	Haemagglutinin	protein	158	52% helix, 15% strand	Q6DQ34

Ligands and binding sites

GAL · beta-D-galactopyranose · sugar · chains E
SIA · N-acetyl-alpha-neuraminic acid · sugar · chains E

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	309	0.59	0.78	41	empty
2	58	0.43	0.82	15	empty
3	57	0.34	0.78	16	empty
4	55	0.29	0.74	15	empty
5	59	0.27	0.73	19	empty

Interfaces

1 interface between chains.

E–F · 2427 Å² buried · 34 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 6 disulfide (disulfide).

Compared structures

3ZP1 · INFLUENZA VIRUS (VN1194) H5 HA with LSTc · the same entry in another collection · chain E against E, 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 Q6DQ34
Elsewhere: RCSB PDB 3ZP1 · PDBe 3ZP1 · UniProt Q6DQ34

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