1YPV

Structure of human thymidylate synthase at low salt conditions

Structural Biology Knowledgebase: 1YPV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.227

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1YPV

Classification: TRANSFERASE

Total Structure Weight: 36227.64

Macromolecule Entities
Molecule Chains Length Organism Details
Thymidylate synthase A 313 Homo sapiens EC#: 2.1.1.45 IUBMB
Mutation: C43X, C180X, C195X, C199X
Details: UNBLOCKED, N-TERMINUS NOT ACETYLATED
Gene Name(s): TYMS Gene View TS OK/SW-cl.29

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
SCH
Query on SCH
A L-PEPTIDE LINKING C4 H9 N O2 S2 CYS
CME
Query on CME
A L-PEPTIDE LINKING C5 H11 N O3 S2 CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.227
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 95.77 α = 90.00
b = 95.77 β = 90.00
c = 81.85 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-01-31
  • Released Date: 2005-04-26
  • Deposition author(s): Lovelace, L.L., Minor, W., Lebioda, L.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4