Research workbench

ODINPROFILIN/RABBIT actin complex

Analyse ODINPROFILIN/RABBIT actin complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5ZZA
Type: protein
Length: 492 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Uncharacterized protein; Actin, alpha skeletal muscle
UniProt: A0A1Q9N7W7, P68135
Ligands: LAB, ATP, CA
Pockets: 3 · best druggability 0.73

Structure

x-ray diffraction · 2 distinct chains · 38% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
P	Uncharacterized protein	protein	119	28% helix, 38% strand	A0A1Q9N7W7
A	Actin, alpha skeletal muscle	protein	373	41% helix, 20% strand	P68135

Ligands and binding sites

LAB · Latrunculin B · ligand · 2 copies · chains P, A
ATP · Adenosine-5'-triphosphate · ligand · chains A
CA · Calcium ion · metal · chains A

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

Pockets

3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	443	0.73	0.83	52	LAB, ATP, CA
2	502	0.73	0.82	52	LAB
3	60	0.40	0.81	18	empty

Interfaces

1 interface between chains.

P–A · 878 Å² buried · 11 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (methylation).

Compared structures

5ZZA · OdinProfilin/Rabbit Actin Complex · the same entry in another collection · chain P against P, TM-score 1.00
P68135 · AlphaFold monomer V2.0 prediction for actin, alpha skeletal muscle (P68135) · a predicted model of the same protein · chain A against A, TM-score 0.96

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 A0A1Q9N7W7
Every structure of UniProt P68135
Elsewhere: RCSB PDB 5ZZA · PDBe 5ZZA · UniProt A0A1Q9N7W7 · UniProt P68135

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