Research workbench

Pro-concanavalin a: precursor of circularly permuted concanavalin a

Analyse Pro-concanavalin a: precursor of circularly permuted concanavalin a in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6XT6
Type: protein
Length: 482 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Concanavalin-a
UniProt: P02866
Ligands: CA, MN, ZN
Pockets: 2 · best druggability 0.37

Structure

x-ray diffraction · 2 distinct chains · 4% helix, 45% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Concanavalin-a	protein	241	5% helix, 44% strand	P02866
B	Concanavalin-a	protein	241	4% helix, 45% strand	P02866

Ligands and binding sites

CA · Calcium ion · metal · 4 copies · chains A, B
MN · Manganese (II) ion · metal · 2 copies · chains A, B
ZN · Zinc ion · metal · 2 copies · chains A, B
EDO · 1,2-ethanediol · additive · 15 copies · chains A, B

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

Pockets

2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	57	0.37	0.80	13	empty
2	64	0.34	0.77	17	empty

Interfaces

1 interface between chains.

A–B · 1082 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

6XT6 · pro-concanavalin A: Precursor of circularly permuted concanavalin A · the same entry in another collection · chain A against A, TM-score 1.00
P02866 · AlphaFold monomer V2.0 prediction for concanavalin-a (P02866) · a predicted model of the same protein · 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
Every structure of UniProt P02866
Elsewhere: RCSB PDB 6XT6 · PDBe 6XT6 · UniProt P02866

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