MolNFT v1 · #165319 · protein

Ruminococcus gnavus GH29 fucosidase E1_10125 in complex with fucose

6TR3 · F5/8 type C domain-containing protein: “Ruminococcus gnavus GH29 fucosidase E1_10125 in complex with fucose”. X-ray diffraction, 3 ligands (FUL, MG, CA), 5 pockets (best druggability 0.48). MolNFT v1 #165319 on GenesisL1: 3D…

PDB: 6TR3
Type: protein
Length: 505 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: F5/8 type C domain-containing protein
UniProt: A0A2N5PIE7
Ligands: FUL, MG, CA
Pockets: 5 · best druggability 0.48

Structure

x-ray diffraction · 1 distinct chain · 24% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	F5/8 type C domain-containing protein	protein	505	24% helix, 26% strand	A0A2N5PIE7

Ligands and binding sites

FUL · beta-L-fucopyranose · sugar · chains A
MG · Magnesium ion · metal · 4 copies · chains A
CA · Calcium ion · metal · 2 copies · chains A

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

Pockets

5 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	208	0.48	0.75	26	MG
2	62	0.42	0.81	16	FUL
3	120	0.41	0.75	20	empty
4	77	0.33	0.75	14	empty
5	61	0.27	0.73	15	empty

Compared structures

6TR3 · Ruminococcus gnavus GH29 fucosidase E1_10125 in complex with fucose · 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
Every structure of UniProt A0A2N5PIE7
Elsewhere: RCSB PDB 6TR3 · PDBe 6TR3 · UniProt A0A2N5PIE7

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