4XCX

METHYLTRANSFERASE DOMAIN OF SMALL RNA 2'-O-METHYLTRANSFERASE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.226 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.4 of the entry. See complete history


Literature

Crystal structure of human C1ORF59 in complex with SAH

Walker, J.R.Zeng, H.Dong, A.Li, Y.Wernimont, A.Bountra, C.Arrowsmith, C.H.Edwards, A.M.Brown, P.J.Wu, H.Structural Genomics Consortium (SGC)

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Small RNA 2'-O-methyltransferase249Homo sapiensMutation(s): 0 
Gene Names: HENMT1C1orf59
EC: 2.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q5T8I9 (Homo sapiens)
Explore Q5T8I9 
Go to UniProtKB:  Q5T8I9
PHAROS:  Q5T8I9
GTEx:  ENSG00000162639 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5T8I9
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SAH
Query on SAH

Download Ideal Coordinates CCD File 
B [auth A]S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.249 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.226 
  • Space Group: P 63 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 166.025α = 90
b = 166.025β = 90
c = 74.478γ = 120
Software Package:
Software NamePurpose
HKL-3000data reduction
BUSTER-TNTrefinement
PDB_EXTRACTdata extraction
HKL-3000data scaling
BALBESphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2015-01-14
    Type: Initial release
  • Version 1.1: 2015-02-11
    Changes: Database references
  • Version 1.2: 2015-02-25
    Changes: Database references
  • Version 1.3: 2018-01-24
    Changes: Database references, Derived calculations, Source and taxonomy, Structure summary
  • Version 1.4: 2023-09-27
    Changes: Data collection, Database references, Refinement description