MolNFT v1 · #113512 · protein

Crystal structure of human 5' exonuclease apollo

5AHO: “Crystal structure of human 5' exonuclease apollo”. X-ray diffraction, 1 ligand (ZN), 2 pockets (best druggability 0.62). MolNFT v1 #113512 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5AHO
Type: protein
Length: 314 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5' exonuclease apollo
EC: 3.1.-.-
UniProt: Q9H816
Ligands: ZN
Pockets: 2 · best druggability 0.62

Structure

x-ray diffraction · 1 distinct chain · 27% helix, 24% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	5' exonuclease apollo (EC 3.1.-.-)	protein	314	27% helix, 24% strand	Q9H816

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A
EDO · 1,2-ethanediol · additive · 6 copies · chains A
TLA · L(+)-tartaric acid · additive · 2 copies · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	297	0.62	0.80	44	TLA, EDO
2	109	0.36	0.74	22	EDO

Compared structures

5AHO · Crystal structure of human 5' exonuclease Apollo · the same entry in another collection · chain A against A, TM-score 1.00
Q9H816 · AlphaFold monomer V2.0 prediction for 5' exonuclease apollo (Q9H816) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 Q9H816
Elsewhere: RCSB PDB 5AHO · PDBe 5AHO · UniProt Q9H816

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