2WEL

CRYSTAL STRUCTURE OF SU6656-BOUND CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE II DELTA IN COMPLEX WITH CALMODULIN

Structural Biology Knowledgebase: 2WEL SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.161

Literature

Macromolecules
Sequence Display for 2WEL

Classification: TRANSFERASE

Total Structure Weight: 55040.65

Macromolecule Entities
Molecule Chains Length Organism Details
CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE II DELTA CHAIN A 327 Homo sapiens EC#: 2.7.11.17 IUBMB
Fragment: KINASE DOMAIN, RESIDUES 11-335
Gene Name(s): CAMK2D Gene View CAMKD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CALMODULIN D 150 Homo sapiens Gene Name(s): CALM1 Gene View CALM CAM CAM1 CALM2 Gene View CAM2 CAMB CALM3 Gene View CALML2 CAM3 CAMC CAMIII
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
K88
Query on K88

A (3Z)-N,N-DIMETHYL-2-OXO-3-(4,5,6,7-TETRAHYDRO- 1H-INDOL-2-YLMETHYLIDENE)-2,3-DIHYDRO-1H- INDOLE-5-SULFONAMIDE
C19 H21 N3 O3 S
LOGJQOUIVKBFGH-YBEGLDIGSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.161
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.26 α = 90.00
b = 68.85 β = 90.00
c = 121.98 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-03-31
  • Released Date: 2009-04-14
  • Deposition author(s): Pike, A.C.W., Rellos, P., Salah, E., Burgess-Brown, N., Keates, T., Muniz, J., Sethi, R., Roos, A., Filippakopoulos, P., Von Delft, F., Edwards, A., Weigelt, J., Arrowsmith, C.H., Bountra, C., Knapp, S.

Revision History

  • 2011-08-10
    Type: Refinement description | Details: REMARK 3
  • 2011-08-10
    Type: Non-polymer description | Details: HETSYN
  • 2011-08-10
    Type: Citation | Details: JRNL
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor