MolNFT v1 · #106067 · protein

An 3'-5'-exoribonuclease that specifically recognizes rnas.

4RO1 · DIS3-like exonuclease 2: “An 3'-5'-exoribonuclease that specifically recognizes rnas.”. X-ray diffraction, 15 pockets (best druggability 0.76). MolNFT v1 #106067 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4RO1
Type: protein
Length: 1,134 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DIS3-like exonuclease 2
EC: 3.1.13.-
UniProt: O14040
Pockets: 15 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 34% helix, 20% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	DIS3-like exonuclease 2 (EC 3.1.13.-)	protein	566	33% helix, 20% strand	O14040
B	DIS3-like exonuclease 2 (EC 3.1.13.-)	protein	568	34% helix, 21% strand	O14040

Pockets

15 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	770	0.76	0.80	67	empty
2	847	0.76	0.80	78	empty
3	54	0.73	0.99	15	empty
4	97	0.70	0.92	21	empty
5	220	0.64	0.83	36	empty

Interfaces

1 interface between chains.

A–B · 73 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

4RO1 · An 3'-5'-exoribonuclease that specifically recognizes RNAs. · the same entry in another collection · chain B against B, TM-score 1.00
O14040 · AlphaFold monomer V2.0 prediction for DIS3-like exonuclease 2 (O14040) · a predicted model of the same protein · chain A against A, TM-score 0.87

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 O14040
Elsewhere: RCSB PDB 4RO1 · PDBe 4RO1 · UniProt O14040

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