MolNFT v1 · #54217 · protein

N-terminal endonuclease domain of la crosse virus L-protein

2XI5 · RNA polymerase L: “N-terminal endonuclease domain of la crosse virus L-protein”. X-ray diffraction, 1 ligand (MN), 3 pockets (best druggability 0.74). MolNFT v1 #54217 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2XI5
Type: protein
Length: 735 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA polymerase L
UniProt: A5HC98
Ligands: MN
Pockets: 3 · best druggability 0.74

Structure

x-ray diffraction · 2 distinct chains · 50% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, D	RNA polymerase L	protein	184	50% helix, 14% strand	A5HC98
C	RNA polymerase L	protein	183	50% helix, 14% strand	A5HC98

Ligands and binding sites

MN · Manganese (II) ion · metal · 4 copies · chains A, B, C, D

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

Pockets

3 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	779	0.74	0.79	70	empty
2	119	0.37	0.74	19	empty
3	89	0.33	0.74	17	empty

Interfaces

4 interfaces between chains.

A–B · 1268 Å² buried · 16 hydrogen bonds · protein-protein
B–D · 429 Å² buried · 4 hydrogen bonds · protein-protein
B–C · 424 Å² buried · 4 hydrogen bonds · protein-protein
A–C · 282 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

2XI5 · N-terminal endonuclease domain of La Crosse virus L-protein · the same entry in another collection · chain A 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 A5HC98
Elsewhere: RCSB PDB 2XI5 · PDBe 2XI5 · UniProt A5HC98

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.