MolNFT v1 · #152644 · protein

Crystal structure of human C4.4A

6IOM · LY6/PLAUR domain-containing protein 3: “Crystal structure of human C4.4A”. X-ray diffraction, 1 ligand (NAG), 3 pockets (best druggability 0.33). MolNFT v1 #152644 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6IOM
Type: protein
Length: 386 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: LY6/PLAUR domain-containing protein 3
UniProt: O95274
Ligands: NAG
Pockets: 3 · best druggability 0.33

Structure

x-ray diffraction · 2 distinct chains · 2% helix, 50% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	LY6/PLAUR domain-containing protein 3	protein	191	2% helix, 49% strand	O95274
B	LY6/PLAUR domain-containing protein 3	protein	195	3% helix, 51% strand	O95274

Ligands and binding sites

NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 9 copies · chains A, B

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

Pockets

3 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	75	0.33	0.75	18	NAG
2	68	0.31	0.75	16	NAG
3	73	0.30	0.73	16	empty

Interfaces

1 interface between chains.

A–B · 371 Å² buried · 6 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 18 disulfide, 7 glycan (disulfide, N-glycosylation).

Compared structures

6IOM · Crystal structure of human C4.4A · the same entry in another collection · chain A against A, TM-score 1.00
O95274 · AlphaFold monomer V2.0 prediction for LY6/PLAUR domain-containing protein 3 (O95274) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 O95274
Elsewhere: RCSB PDB 6IOM · PDBe 6IOM · UniProt O95274

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