1BKY

VACCINIA METHYLTRANSFERASE VP39 COMPLEXED WITH M1CYT AND S-ADENOSYLHOMOCYSTEINE

Structural Biology Knowledgebase: 1BKY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.227

Literature

Macromolecules
Sequence Display for 1BKY

Classification: MRNA PROCESSING

Total Structure Weight: 36431.32

Macromolecule Entities
Molecule Chains Length Organism Details
VP39 A 307 Vaccinia virus EC#: 2.1.1.57 IUBMB
Gene Name(s): PAPS VACWR095 J3R
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SAH
Query on SAH

A S-ADENOSYL-L-HOMOCYSTEINE
C14 H20 N6 O5 S
ZJUKTBDSGOFHSH-WFMPWKQPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
1MC
Query on 1MC

A 1-METHYLCYTOSINE
C5 H7 N3 O
HWPZZUQOWRWFDB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1MC N/A in BindingDB
Kd: 144000 nM  BindingMOAD
Kd: 144000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.261
  • R-Value Work: 0.227
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 84.50 α = 90.00
b = 67.21 β = 117.30
c = 79.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-07-13
  • Released Date: 1999-07-22
  • Deposition author(s): Hu, G., Hodel, A.E., Gershon, P.D., Quiocho, F.A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4