5YN8

Crystal structure of MERS-CoV nsp16/nsp10 complex bound to SAH


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


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:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
nsp16 proteinA303Human betacoronavirus 2c EMC/2012Mutation(s): 0 
Gene Names: orf1ab
EC: 2.7.7.48 (UniProt), 3.4.19.12 (UniProt), 3.4.22.69 (UniProt), 3.6.4.12 (UniProt), 3.6.4.13 (UniProt)
UniProt
Find proteins for K0BWD0 (Human betacoronavirus 2c EMC/2012)
Explore K0BWD0 
Go to UniProtKB:  K0BWD0
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
nsp10 proteinB140Human betacoronavirus 2c EMC/2012Mutation(s): 0 
Gene Names: orf1ab
EC: 3.4.19.12 (UniProt), 3.4.22.69 (UniProt)
UniProt
Find proteins for K4LC41 (Human betacoronavirus 2c EMC/2012)
Explore K4LC41 
Go to UniProtKB:  K4LC41
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SAH (Subject of Investigation/LOI)
Query on SAH

Download Ideal Coordinates CCD File 
C [auth A]S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
 Ligand Interaction
ZN
Query on ZN

Download Ideal Coordinates CCD File 
D [auth B], E [auth B]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.97 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 
  • Space Group: P 21 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 66.399α = 90
b = 70.233β = 90
c = 119.203γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
NSFCChina31570762

Revision History  (Full details and data files)

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