1E98

Wild type human thymidylate kinase complexed with AZTMP and ADP

Structural Biology Knowledgebase: 1E98 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1E98

Classification: TRANSFERASE

Total Structure Weight: 25046.04

Macromolecule Entities
Molecule Chains Length Organism Details
THYMIDYLATE KINASE A 215 Homo sapiens EC#: 2.7.4.9 IUBMB
Mutation: S183R, D190E
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)
ATM
Query on ATM

A 3'-AZIDO-3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE
C10 H14 N5 O7 P
OIFWQOKDSPDILA-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: 1.9 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.191
  • Space Group: P 43 21 2

Unit Cell:

Length (Å) Angle (°)
a = 101.05 α = 90.00
b = 101.05 β = 90.00
c = 49.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-10-10
  • Released Date: 2001-10-05
  • Deposition author(s): Ostermann, N., Lavie, A., Padiyar, S., Brundiers, R., Veit, T., Reintein, J., Goody, R.S., Konrad, M., Schlichting, I.

Revision History

  • 2013-05-15
    Type: Geometry validation | Details: REMARK 500
  • 2013-05-15
    Type: Function and keywords | Details: KEYWDS
  • 2013-05-15
    Type: Sequence database correspondence | Details: SEQADV,DBREF
  • 2013-05-15
    Type: Entry title | Details: TITLE
  • 2013-05-15
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2013-05-15
    Type: Version format compliance | Details: REMARK 4
  • 2013-05-15
    Type: Polymer description | Details: COMPND
  • 2013-05-15
    Type: Citation | Details: REMARK 1
  • 2013-05-15
    Type: Other | Details: REMARK 375,REMARK 999,REMARK 525,HEADER,REMARK 280
  • 2013-05-15
    Type: Non-polymer description | Details: FORMUL