3DVL

Crystal Structure of Full Length Circadian Clock Protein KaiC with Correct Geometry at Phosphorylation Sites

Structural Biology Knowledgebase: 3DVL SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.239

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3DVL

Classification: CIRCADIAN CLOCK PROTEIN Transferase

Total Structure Weight: 355632.09

Macromolecule Entities
Molecule Chains Length Organism Details
Circadian clock protein kinase kaiC A, B, C..., D, E, FA, B, C, D, E, F 519 Synechococcus elongatus EC#: 2.7.11.1 IUBMB
Gene Name(s): kaiC Synpcc7942_1216 see0011

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

A, B, C, D, E, F ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D, E, F MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
SEP
Query on SEP
A, B, C, D, E, F L-PEPTIDE LINKING C3 H8 N O6 P SER
TPO
Query on TPO
A, B, C, D, E, F L-PEPTIDE LINKING C4 H10 N O6 P THR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.288
  • R-Value Work: 0.239
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 132.87 α = 90.00
b = 135.58 β = 90.00
c = 204.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-07-18
  • Released Date: 2009-07-28
  • Deposition author(s): Pattanayek, R., Egli, M.

Revision History

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