5YNI

Crystal structure of MERS-CoV nsp16/nsp10 complex bound to SAM and m7GpppG


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural insights into the molecular mechanism of MERS Coronavirus RNA ribose 2'-O-methylation by nsp16/nsp10 protein complex

Wei, S.M.Yang, L.Ke, Z.H.Liu, Q.Y.Yang, Z.Z.Chen, Y.Guo, D.Y.Fan, C.P.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
nsp16 protein
A
303Human betacoronavirus 2c EMC/2012Mutation(s): 0 
Gene Names: orf1ab
Find proteins for K0BWD0 (Human betacoronavirus 2c EMC/2012)
Go to UniProtKB:  K0BWD0
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
nsp10 protein
B
140Human betacoronavirus 2c EMC/2012Mutation(s): 0 
Gene Names: orf1ab
Find proteins for K4LC41 (Human betacoronavirus 2c EMC/2012)
Go to UniProtKB:  K4LC41
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GTG
Query on GTG

Download SDF File 
Download CCD File 
A
7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-GUANOSINE
MRNA CAP ANALOG N7-METHYL GPPPG
C21 H30 N10 O18 P3
FHHZHGZBHYYWTG-INFSMZHSSA-O
 Ligand Interaction
SAM
Query on SAM

Download SDF File 
Download CCD File 
A
S-ADENOSYLMETHIONINE
C15 H22 N6 O5 S
MEFKEPWMEQBLKI-FCKMPRQPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.07 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.194 
  • Space Group: P 21 2 21
Unit Cell:
Length (Å)Angle (°)
a = 66.954α = 90.00
b = 70.064β = 90.00
c = 119.762γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
NSFCChina31570762

Revision History 

  • Version 1.0: 2018-12-05
    Type: Initial release