3ZH8

A novel small molecule aPKC inhibitor

Structural Biology Knowledgebase: 3ZH8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.74 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.210

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3ZH8

Classification: TRANSFERASE

Total Structure Weight: 124449.66

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEIN KINASE C IOTA TYPE A, B, C 349 Homo sapiens EC#: 2.7.11.13 IUBMB
Fragment: KINASE DOMAIN, RESIDUES 248-596
Mutation: C586S
Gene Name(s): PRKCI Gene View DXS1179E

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
C58
Query on C58

A, B, C (2S)-3-phenyl-N~1~-[2-(pyridin-4-yl)-5,6,7,8- tetrahydro[1]benzothieno[2,3-d]pyrimidin- 4-yl]propane-1,2-diamine
C24 H25 N5 S
NRHASZRDWOUMFD-SFHVURJKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IOD
Query on IOD

A, B, C IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

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

A, B, C CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
C58 N/A in BindingDB
N/A in BindingMoad
Kd: 341 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
TPO
Query on TPO
A, B, C L-PEPTIDE LINKING C4 H10 N O6 P THR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.74 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.210
  • Space Group: P 31
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 113.58 α = 90.00
b = 113.58 β = 90.00
c = 82.41 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-20
  • Released Date: 2013-02-27
  • Deposition author(s): Kjaer, S., Purkiss, A.G., Kostelecky, B., Knowles, P.P., Soriano, E., Murray-Rust, J., McDonald, N.Q.

Revision History

  • 2013-04-17
    Type: Citation | Details: JRNL