MolNFT v1 · #119957 · protein

Structure of PL6 family alginate lyase alygc mutant-R241A

5GKQ · Alygc mutant - R241A: “Structure of PL6 family alginate lyase alygc mutant-R241A”. X-ray diffraction, 2 ligands (BEM, CA), 10 pockets (best druggability 0.86). MolNFT v1 #119957 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 5GKQ
Type: protein
Length: 1,452 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alygc mutant - R241A
Ligands: BEM, CA
Pockets: 10 · best druggability 0.86

Structure

x-ray diffraction · 1 distinct chain · 3% helix, 44% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Alygc mutant - R241A	protein	726	3% helix, 44% strand	—

Ligands and binding sites

BEM · beta-D-mannopyranuronic acid · sugar · 4 copies · chains A
CA · Calcium ion · metal · 2 copies · chains A, B

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	901	0.86	0.88	147	CA
2	51	0.65	0.95	16	empty
3	308	0.63	0.80	37	empty
4	223	0.54	0.77	23	empty
5	187	0.48	0.76	28	empty

Interfaces

1 interface between chains.

A–B · 1071 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

5GKQ · Structure of PL6 family alginate lyase AlyGC mutant-R241A · 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 5GKQ · PDBe 5GKQ

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