1E9E

Mutant human thymidylate kinase (F105Y) complexed with dTMP and ADP

Structural Biology Knowledgebase: 1E9E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.179

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1E9E

Classification: TRANSFERASE

Total Structure Weight: 24938.92

Macromolecule Entities
Molecule Chains Length Organism Details
THYMIDYLATE KINASE A 215 Homo sapiens EC#: 2.7.4.9 IUBMB
Mutation: R200A, F105Y, L184I, L191I, G208K, E190D, R183S
Gene Name(s): DTYMK Gene View CDC8 TMPK TYMK

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

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TMP
Query on TMP

A THYMIDINE-5'-PHOSPHATE
C10 H15 N2 O8 P
GYOZYWVXFNDGLU-XLPZGREQSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.179
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 100.90 α = 90.00
b = 100.90 β = 90.00
c = 48.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-10-11
  • Released Date: 2001-10-11
  • Deposition author(s): Ostermann, N., Lavie, A., Padiyar, S., Brundiers, R., Veit, T., Reintein, J., Goody, R.S., Konrad, M., Schlichting, I.

Revision History

  • 2014-02-19
    Type: Function and keywords | Details: KEYWDS
  • 2014-02-19
    Type: Non-polymer description | Details: FORMUL
  • 2014-02-19
    Type: Biological assembly | Details: REMARK 350
  • 2014-02-19
    Type: Citation | Details: REMARK 1
  • 2014-02-19
    Type: Other | Details: REMARK 280,HEADER
  • 2014-02-19
    Type: Version format compliance | Details: REMARK 4