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Structure of alginate lyase ALYC3

Analyse Structure of alginate lyase ALYC3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7C8G
Type: protein
Length: 528 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alginate lyase ALYC3
Pockets: 5 · best druggability 0.67

Structure

x-ray diffraction · 1 distinct chain · 11% helix, 45% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Alginate lyase ALYC3	protein	264	11% helix, 45% strand	—

Ligands and binding sites

SIN · Succinic acid · additive · 2 copies · chains A, B
GOL · Glycerol · additive · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	184	0.67	0.86	34	empty
2	275	0.50	0.74	40	SIN, GOL
3	258	0.50	0.74	38	SIN, GOL
4	104	0.38	0.75	17	empty
5	67	0.34	0.76	15	empty

Interfaces

1 interface between chains.

A–B · 758 Å² buried · 18 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

7C8G · Structure of alginate lyase AlyC3 · 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
Elsewhere: RCSB PDB 7C8G · PDBe 7C8G

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