Research workbench

Actin filament pointed end

Analyse Actin filament pointed end in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2Y83
Type: protein
Length: 2,250 residues
Chains: 6
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Actin, alpha skeletal muscle
UniProt: P68135
Ligands: ADP, CA
Pockets: 19 · best druggability 0.80

Structure

electron microscopy · 1 distinct chain · 37% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
O, P, Q, R, S, T	Actin, alpha skeletal muscle	protein	375	37% helix, 16% strand	P68135

Ligands and binding sites

ADP · Adenosine-5'-diphosphate · ligand · 6 copies · chains O, P, Q, R, S, T
CA · Calcium ion · metal · 6 copies · chains O, P, Q, R, S, T

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

19 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	338	0.80	0.90	59	ADP, CA
2	1091	0.79	0.80	93	empty
3	958	0.78	0.80	93	empty
4	810	0.77	0.81	67	empty
5	948	0.77	0.79	70	empty

Interfaces

9 interfaces between chains.

Q–S · 1205 Å² buried · 28 hydrogen bonds · protein-protein
O–Q · 1187 Å² buried · 23 hydrogen bonds · protein-protein
P–R · 1166 Å² buried · 23 hydrogen bonds · protein-protein
R–T · 1140 Å² buried · 19 hydrogen bonds · protein-protein
S–T · 970 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

2Y83 · Actin filament pointed end · the same entry in another collection · chain T against T, TM-score 1.00
P68135 · AlphaFold monomer V2.0 prediction for actin, alpha skeletal muscle (P68135) · a predicted model of the same protein · chain P against A, TM-score 0.93

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 P68135
Elsewhere: RCSB PDB 2Y83 · PDBe 2Y83 · UniProt P68135

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