2P3L: Dengue Methyltransferase

Crystal Structure of Dengue Methyltransferase in Complex with GpppA and S-Adenosyl-L-Homocysteine. Determined by X-ray diffraction at 2.2 Å resolution. Released 28 Aug 2007.

Method: X-ray diffraction
Resolution: 2.2 Å
Organism: Dengue virus 2
Chains: 1
Atoms: 2,265
Mol. weight: 36.32 kDa
Ligands: CIT, G3A, SAH
Released: 28 Aug 2007

Explore 2P3L in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

2P3L contains 13 α-helices and 9 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 13 helices, 9 β-strands

Element	Residues	Length	Sheet
α-helix	9-18	10
α-helix	22-30	9
β-strand	34-37	4	1
α-helix	39-47	9
α-helix	58-67	10
β-strand	75-80	6	2
α-helix	86-92	7
β-strand	97-103	7	2
α-helix	111-113	3
α-helix	121-123	3
β-strand	124-127	4	2
α-helix	132-134	3
α-helix	136-137	2
β-strand	142-145	4	2
α-helix	154-169	16
β-strand	177-182	6	2
α-helix	188-201	14
β-strand	204-206	3	2
β-strand	218-221	4	2
α-helix	228-242	15
β-strand	251-254	4	1
α-helix	255-256	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
type II methyltransferase	A	protein	305	Dengue virus 2	P12823

Sequence of entity 1 (A), FASTA

>2P3L_1 type II methyltransferase (chains A)
MRGSHHHHHHGSNIGETLGEKWKSRLNALGKSEFQIYKKSGIQEVDRTLAKEGIKRGETD
HHAVSRGSAKLRWFVERNLVTPEGKVVDLGCGRGGWSYYCGGLKNVREVKGLTKGGPGHE
EPIPMSTYGWNLVRLQSGVDVFFIPPERCDTLLCDIGESSPNPTVEAGRTLRVLNLVENW
LSNNTQFCVKVLNPYMSSVIEKMEALQRKHGGALVRNPLSRNSTHEMYWVSNASGNIVSS
VNMISRMLINRFTMRHKKATYEPDVDLGSGTRNIGIESETPNLDIIGKRIEKIKQEHETS
WHYDQ

Ligands and cofactors

ID	Name	Formula	Copies
CIT	Citric acid	C6 H8 O7	1
G3A	Guanosine-P3-adenosine-5',5'-triphosphate	C20 H27 N10 O17 P3	1
SAH	S-adenosyl-L-homocysteine	C14 H20 N6 O5 S	1

Water and common crystallization additives (GOL, SO4) are not listed.

Primary citation

Structural and functional analysis of methylation and 5'-RNA sequence requirements of short capped RNAs by the methyltransferase domain of dengue virus NS5. Egloff, M.P., Decroly, E., Malet, H. et al. J Mol Biol (2007) 372:723-736. DOI 10.1016/j.jmb.2007.07.005 · PubMed

Other PDB entries of the same protein (UniProt P12823), best resolution first:

4M9K 1.46 Å, NS2B-NS3 protease from dengue virus at pH 5.5
4M9M 1.53 Å, NS2B-NS3 protease from dengue virus at pH 8.5
4M9T 1.74 Å, NS2B-NS3 protease from dengue virus in the presence of DTNB, a covalent allosteric…
2P41 1.8 Å, Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and…
1OK8 2.0 Å, Crystal structure of the dengue 2 virus envelope glycoprotein in the postfusion…
5HHG 2.2 Å, Mouse importin alpha: Dengue 2 NS5 C-terminal NLS peptide complex
1L9K 2.4 Å, dengue methyltransferase
1OKE 2.4 Å, Crystal structure of the dengue 2 virus envelope protein in complex with…
4M9I 2.4 Å, A125C NS2B-NS3 protease from dengue virus at pH 5.5
1R6A 2.6 Å, Structure of the dengue virus 2'O methyltransferase in complex with s-adenosyl…
4M9F 2.7 Å, Dengue virus NS2B-NS3 protease A125C variant at pH 8.5
2P40 2.7 Å, Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG

Browse structure collections

About this viewer

MolViewer shows 2P3L directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.