MolNFT v1 · #175585 · protein

RNA methyltransferase METTL4

7CV9 · Methyltransferase-like protein 2: “RNA methyltransferase METTL4”. X-ray diffraction, 1 ligand (SAH), 10 pockets (best druggability 0.88). MolNFT v1 #175585 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7CV9
Type: protein
Length: 707 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Methyltransferase-like protein 2
EC: 2.1.1.-
UniProt: Q8LFA9
Ligands: SAH
Pockets: 10 · best druggability 0.88

Structure

x-ray diffraction · 2 distinct chains · 29% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
C	Methyltransferase-like protein 2 (EC 2.1.1.-)	protein	351	29% helix, 26% strand	Q8LFA9
A	Methyltransferase-like protein 2 (EC 2.1.1.-)	protein	356	29% helix, 24% strand	Q8LFA9

Ligands and binding sites

SAH · S-adenosyl-L-homocysteine · ligand · 2 copies · chains C, A
GOL · Glycerol · additive · 3 copies · chains A

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

Pockets

10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1025	0.88	0.89	127	SAH, GOL
2	232	0.70	0.86	34	empty
3	164	0.55	0.81	31	empty
4	111	0.45	0.78	22	empty
5	68	0.42	0.80	18	empty

Interfaces

1 interface between chains.

C–A · 1524 Å² buried · 17 hydrogen bonds · protein-protein

Compared structures

7CV9 · RNA methyltransferase METTL4 · the same entry in another collection · chain C against C, TM-score 1.00
Q8LFA9 · AlphaFold monomer V2.0 prediction for methyltransferase-like protein 2 (Q8LFA9) · a predicted model of the same protein · chain C against A, TM-score 0.97

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 Q8LFA9
Elsewhere: RCSB PDB 7CV9 · PDBe 7CV9 · UniProt Q8LFA9

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