Research workbench

Viral capsid protein shp at pH 5.5

Analyse Viral capsid protein shp at pH 5.5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1TD0
Type: protein
Length: 408 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Head decoration protein
UniProt: P36275
Pockets: 4 · best druggability 0.38

Structure

x-ray diffraction · 3 distinct chains · 5% helix, 36% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Head decoration protein	protein	102	5% helix, 36% strand	P36275
C	Head decoration protein	protein	101	5% helix, 37% strand	P36275
D	Head decoration protein	protein	103	5% helix, 36% strand	P36275

Pockets

4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	115	0.38	0.75	22	empty
2	55	0.38	0.80	16	empty
3	56	0.35	0.78	18	empty
4	52	0.33	0.78	17	empty

Interfaces

3 interfaces between chains.

A–B · 676 Å² buried · 4 hydrogen bonds · protein-protein
C–D · 646 Å² buried · 3 hydrogen bonds · protein-protein
A–C · 160 Å² buried · 0 hydrogen bonds · protein-protein

Compared structures

1TD0 · Viral capsid protein SHP at pH 5.5 · 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 P36275
Elsewhere: RCSB PDB 1TD0 · PDBe 1TD0 · UniProt P36275

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