MolNFT v1 · #110938 · protein

Rat GLUT5 with fv in the outward-open form

4YBQ · Solute carrier family 2, facilitated glucose transporter…: “Rat GLUT5 with fv in the outward-open form”. X-ray diffraction, 15 pockets (best druggability 0.86). MolNFT v1 #110938 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 4YBQ
Type: protein
Length: 1,383 residues
Chains: 6
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Solute carrier family 2, facilitated glucose transporter member 5; Antibody fv fragment…
UniProt: P43427
Pockets: 15 · best druggability 0.86

Structure

x-ray diffraction · 5 distinct chains · 61% helix, 15% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Solute carrier family 2, facilitated glucose transporter member 5	protein	452	85% helix, 0% strand	P43427
B	Solute carrier family 2, facilitated glucose transporter member 5	protein	462	83% helix, 0% strand	P43427
C, E	Antibody fv fragment light chain	protein	115	3% helix, 49% strand	—
D	Antibody fv fragment heavy chain	protein	120	5% helix, 53% strand	—
F	Antibody fv fragment heavy chain	protein	119	5% helix, 54% strand	—

Pockets

15 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1164	0.86	0.87	115	empty
2	914	0.82	0.83	78	empty
3	1058	0.71	0.75	77	empty
4	360	0.64	0.79	32	empty
5	110	0.64	0.88	22	empty

Interfaces

8 interfaces between chains.

E–F · 977 Å² buried · 11 hydrogen bonds · protein-protein
C–D · 956 Å² buried · 13 hydrogen bonds · protein-protein
B–D · 630 Å² buried · 12 hydrogen bonds · protein-protein
A–F · 597 Å² buried · 14 hydrogen bonds · protein-protein
C–E · 438 Å² buried · 2 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

4YBQ · Rat GLUT5 with Fv in the outward-open form · the same entry in another collection · chain F against F, TM-score 1.00
P43427 · AlphaFold monomer V2.0 prediction for solute carrier family 2, facilitated glucose… · a predicted model of the same protein · chain A against A, TM-score 0.96

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 P43427
Elsewhere: RCSB PDB 4YBQ · PDBe 4YBQ · UniProt P43427

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