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YSD1 major tail protein

Analyse YSD1 major tail protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6XGR
Type: protein
Length: 4,950 residues
Chains: 18
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: YSD1_22 major tail protein
UniProt: A0A498U5Z3
Pockets: 20 · best druggability 0.75

Structure

electron microscopy · 1 distinct chain · 4% helix, 41% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R	YSD1_22 major tail protein	protein	275	4% helix, 41% strand	A0A498U5Z3

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	984	0.75	0.78	103	empty
2	984	0.74	0.78	105	empty
3	1167	0.74	0.77	126	empty
4	1193	0.74	0.77	124	empty
5	701	0.74	0.80	86	empty

Interfaces

84 interfaces between chains.

G–Q · 2667 Å² buried · 36 hydrogen bonds · protein-protein
A–F · 2658 Å² buried · 36 hydrogen bonds · protein-protein
M–O · 2658 Å² buried · 36 hydrogen bonds · protein-protein
B–C · 2658 Å² buried · 35 hydrogen bonds · protein-protein
N–P · 2657 Å² buried · 36 hydrogen bonds · protein-protein

Compared structures

6XGR · YSD1 major tail protein · the same entry in another collection · chain J against J, 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 A0A498U5Z3
Elsewhere: RCSB PDB 6XGR · PDBe 6XGR · UniProt A0A498U5Z3

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