MolNFT v1 · #141394 · protein

Crystal structure of cona-R4M

5Z5Y · Concanavalin-a: “Crystal structure of cona-R4M”. X-ray diffraction, 4 ligands (2KO, MN, CA). MolNFT v1 #141394 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5Z5Y
Type: protein
Length: 474 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Concanavalin-a
UniProt: P02866
Ligands: 2KO, MN, CA, CL

Structure

x-ray diffraction · 1 distinct chain · 4% helix, 46% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Concanavalin-a	protein	237	4% helix, 46% strand	P02866

Ligands and binding sites

2KO · 2-{2-[2-(2-{4-[(alpha-D-mannopyranosyloxy)methyl]-1H-1, 2,3-triazol-1-yl}ethoxy)ethoxy]ethoxy}ethyl 2-[3,6-bis(diethylamino)-9H-xanthen-9-yl]benzoate · ligand · 2 copies · chains A, B
MN · Manganese (II) ion · metal · 2 copies · chains A, B
CA · Calcium ion · metal · 2 copies · chains A, B
CL · Chloride ion · ion · chains A, B

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

Interfaces

1 interface between chains.

A–B · 1199 Å² buried · 24 hydrogen bonds · protein-protein

Compared structures

5Z5Y · Crystal structure of ConA-R4M · 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 B against A, TM-score 0.50

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 5Z5Y · PDBe 5Z5Y · UniProt P02866

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