MolNFT v1 · #41241 · protein

Structure of globular heads of M-ficolin complexed with N-acetyl-D- glucosamine

2JHK · Ficolin-1: “Structure of globular heads of M-ficolin complexed with N-acetyl-D- glucosamine”. X-ray diffraction, 2 ligands (NAG, CA), 1 pocket (best druggability 0.45). MolNFT v1 #41241 on GenesisL1: 3D structure, binding sites and…

PDB: 2JHK
Type: protein
Length: 217 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ficolin-1
UniProt: O00602
Ligands: NAG, CA
Pockets: 1 · best druggability 0.45

Structure

x-ray diffraction · 1 distinct chain · 16% helix, 33% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
F	Ficolin-1	protein	217	16% helix, 33% strand	O00602

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains F
CA · Calcium ion · metal · chains F

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	63	0.45	0.83	17	empty

Modifications

Observed in the structure: 3 disulfide (disulfide).

Compared structures

2JHK · Structure of globular heads of M-ficolin complexed with N-acetyl-D- glucosamine · the same entry in another collection · chain F against F, TM-score 1.00
O00602 · AlphaFold monomer V2.0 prediction for ficolin-1 (O00602) · a predicted model of the same protein · chain F 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 O00602
Elsewhere: RCSB PDB 2JHK · PDBe 2JHK · UniProt O00602

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