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Dengue virus NS5 RNA dependent RNA polymerase domain

Analyse Dengue virus NS5 RNA dependent RNA polymerase domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2J7U
Type: protein
Length: 573 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA dependent RNA polymerase
UniProt: Q6DLV0
Ligands: ZN, MG, CL
Pockets: 4 · best druggability 0.63

Structure

x-ray diffraction · 1 distinct chain · 51% helix, 9% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNA dependent RNA polymerase	protein	573	51% helix, 9% strand	Q6DLV0

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A
MG · Magnesium ion · metal · chains A
CL · Chloride ion · ion · chains A
PGE · Triethylene glycol · additive · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	525	0.63	0.75	60	empty
2	197	0.50	0.76	25	empty
3	66	0.43	0.82	19	empty
4	57	0.42	0.82	15	empty

Compared structures

2J7U · Dengue virus NS5 RNA dependent RNA polymerase domain · 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 Q6DLV0
Elsewhere: RCSB PDB 2J7U · PDBe 2J7U · UniProt Q6DLV0

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