MolNFT v1 · #184125 · protein + RNA

Lassa virus L protein bound to 3' promoter RNA (well-resolved endonuclease) [3END-endo]

7OEB · RNA-directed RNA polymerase L: “Lassa virus L protein bound to 3' promoter RNA (well-resolved endonuclease) [3END-endo]”. Electron microscopy, 2 ligands (MG, ZN), 20 pockets (best druggability 0.74). MolNFT v1 #184125 on GenesisL1…

PDB: 7OEB
Type: protein + RNA
Length: 1,440 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA-directed RNA polymerase L; 3' vrna
EC: 2.7.7.48, 3.1.-.-
UniProt: A0A3S8NV63
Ligands: MG, ZN
Pockets: 20 · best druggability 0.74

Structure

electron microscopy · 2 distinct chains · 52% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
L	RNA-directed RNA polymerase L (EC 2.7.7.48, 3.1.-.-)	protein	1434	52% helix, 10% strand	A0A3S8NV63
E	3' vrna	rna	6	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains L
ZN · Zinc ion · metal · chains L

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

Pockets

20 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	918	0.74	0.78	91	empty
2	527	0.69	0.79	57	empty
3	288	0.60	0.79	29	empty
4	125	0.55	0.82	19	empty
5	191	0.55	0.79	28	empty

Interfaces

1 interface between chains.

L–E · 1017 Å² buried · 22 hydrogen bonds · protein-nucleic

Compared structures

7OEB · Lassa virus L protein bound to 3' promoter RNA (well-resolved endonuclease) [3END-ENDO] · the same entry in another collection · chain L against L, 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 A0A3S8NV63
Elsewhere: RCSB PDB 7OEB · PDBe 7OEB · UniProt A0A3S8NV63

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