4G2O

Human Thymidylate Synthase M190K with bound Purpurogallin

Structural Biology Knowledgebase: 4G2O SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.224

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4G2O

Classification: TRANSFERASE / TRANSFERASE INHIBITOR

Total Structure Weight: 36281.60

Macromolecule Entities
Molecule Chains Length Organism Details
Thymidylate synthase X 313 Homo sapiens EC#: 2.1.1.45 IUBMB
Mutation: M190K
Gene Name(s): TYMS Gene View TS OK/SW-cl.29

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

X 2,3,4,6-tetrahydroxy-5H-benzo[7]annulen-5- one
Purpurogallin (Synonym)
C11 H8 O5
WDGFFVCWBZVLCE-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

X SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
CME
Query on CME
X L-PEPTIDE LINKING C5 H11 N O3 S2 CYS
CSD
Query on CSD
X L-PEPTIDE LINKING C3 H7 N O4 S CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.224
  • Space Group: P 31 2 1

Unit Cell:

Length (Å) Angle (°)
a = 95.73 α = 90.00
b = 95.73 β = 90.00
c = 80.41 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-12
  • Released Date: 2013-07-17
  • Deposition author(s): Celeste, L.R., Lebioda, L.

Revision History

  • 2014-11-19
    Type: Polymer description | Details: CSW to CSD remediation