MolNFT v1 · #186826 · protein

IDO1 in complex with compound S-1

7RRD · Indoleamine 2,3-dioxygenase 1: “IDO1 in complex with compound S-1”. X-ray diffraction, 1 ligand (6IZ), 8 pockets (best druggability 0.79). MolNFT v1 #186826 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7RRD
Type: protein
Length: 748 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Indoleamine 2,3-dioxygenase 1
EC: 1.13.11.52
UniProt: P14902
Ligands: 6IZ
Pockets: 8 · best druggability 0.79

Structure

x-ray diffraction · 2 distinct chains · 61% helix, 4% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Indoleamine 2,3-dioxygenase 1 (EC 1.13.11.52)	protein	374	62% helix, 3% strand	P14902
B	Indoleamine 2,3-dioxygenase 1 (EC 1.13.11.52)	protein	374	60% helix, 4% strand	P14902

Ligands and binding sites

6IZ · 3-[4-(1H-benzimidazol-2-yl)phenyl]-N-(4-fluorophenyl) oxetane-3-carboxamide · ligand · 2 copies · chains A, B

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

Pockets

8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	598	0.79	0.84	63	6IZ
2	672	0.79	0.83	59	6IZ
3	802	0.77	0.81	78	empty
4	596	0.73	0.81	63	empty
5	65	0.69	0.96	16	empty

Interfaces

1 interface between chains.

A–B · 811 Å² buried · 12 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 disulfide (disulfide).

Compared structures

7RRD · IDO1 in complex with compound S-1 · the same entry in another collection · chain A against A, TM-score 1.00
P14902 · AlphaFold monomer V2.0 prediction for indoleamine 2,3-dioxygenase 1 (P14902) · 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 P14902
Elsewhere: RCSB PDB 7RRD · PDBe 7RRD · UniProt P14902

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