MolNFT v1 · #81218 · protein

Crystal structure of arabidopsis thaliana dj-1D

3UK7 · Class I glutamine amidotransferase-like domain-containing…: “Crystal structure of arabidopsis thaliana dj-1D”. X-ray diffraction, 14 pockets (best druggability 0.72). MolNFT v1 #81218 on GenesisL1: 3D structure, binding sites and…

PDB: 3UK7
Type: protein
Length: 1,168 residues
Chains: 3
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Class I glutamine amidotransferase-like domain-containing protein
UniProt: Q9M8R4
Pockets: 14 · best druggability 0.72

Structure

x-ray diffraction · 2 distinct chains · 35% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Class I glutamine amidotransferase-like domain-containing protein	protein	386	35% helix, 25% strand	Q9M8R4
C	Class I glutamine amidotransferase-like domain-containing protein	protein	396	34% helix, 24% strand	Q9M8R4

Pockets

14 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	61	0.72	0.98	23	empty
2	117	0.71	0.92	33	empty
3	120	0.70	0.92	28	empty
4	391	0.61	0.77	44	empty
5	530	0.59	0.73	52	empty

Interfaces

3 interfaces between chains.

A–C · 1250 Å² buried · 14 hydrogen bonds · protein-protein
A–B · 1237 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 1236 Å² buried · 14 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 22 modified (engineered, oxidation).

Compared structures

3UK7 · Crystal Structure of Arabidopsis thaliana DJ-1D · the same entry in another collection · chain A against A, TM-score 1.00
Q9M8R4 · AlphaFold monomer V2.0 prediction for protein dj-1 homolog D (Q9M8R4) · a predicted model of the same protein · chain B 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 Q9M8R4
Elsewhere: RCSB PDB 3UK7 · PDBe 3UK7 · UniProt Q9M8R4

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