Macromolecule Content

Total Structure Weight: 43124.08
Atom Count: 2961
Residue Count: 370
Unique protein chains: 2

3DND

cAMP-dependent protein kinase PKA catalytic subunit with PKI-5-24

DOI: 10.2210/pdb3DND/pdb

Classification: TRANSFERASE/TRANSFERASE INHIBITOR
Organism(s): Bos taurus, Oryctolagus cuniculus
Expression System: Escherichia coli

Deposited: 2008-07-02 Released: 2009-06-23
Deposition Author(s): Schiffer, A., Wendt, K.U.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.26 Å
R-Value Free: 0.253
R-Value Work: 0.189

wwPDB Validation3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Crystallography-independent determination of ligand binding modes

Orts, J., Tuma, J., Reese, M., Grimm, S.K., Monecke, P., Bartoschek, S., Schiffer, A., Wendt, K.U., Griesinger, C., Carlomagno, T.

(2008) Angew.Chem.Int.Ed.Engl. 47: 7736-7740

PubMed: 18767090 Search on PubMed
DOI: 10.1002/anie.200801792
Primary Citation of Related Structures:
3DNE

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
cAMP-dependent protein kinase catalytic subunit alpha	A	350	Bos taurus	Mutation(s): 0 Gene Names: PRKACA EC: 2.7.11.11
Find proteins for P00517 (Bos taurus) Go to Gene View: PRKACA Go to UniProtKB: P00517
Protein Feature View Full Protein Feature View for P00517

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
cAMP-dependent protein kinase inhibitor alpha	I	20	Oryctolagus cuniculus	Mutation(s): 0 Gene Names: PKIA (PRKACN1)
Find proteins for P61926 (Oryctolagus cuniculus) Go to Gene View: PKIA Go to UniProtKB: P61926
Protein Feature View Full Protein Feature View for P61926

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
LL2 Query on LL2 Download SDF File Download CCD File	A	5-benzyl-1,3-thiazol-2-amine 5-Benzyl-thiazol-2-ylmaine C₁₀ H₁₀ N₂ S FJIMLXBJUVLMMN-UHFFFAOYSA-N		Ligand Interaction

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP Query on SEP	A	L-PEPTIDE LINKING	C₃ H₈ N O₆ P		SER
TPO Query on TPO	A	L-PEPTIDE LINKING	C₄ H₁₀ N O₆ P		THR

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
LL2	Ki: 16000 nM PDBBIND

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.26 Å
R-Value Free: 0.253
R-Value Work: 0.189
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 73.045	α = 90.00
b = 77.649	β = 90.00
c = 80.088	γ = 90.00

Software Package:

Software Name	Purpose
XSCALE	data scaling
MxCuBE	data collection
REFMAC	phasing
REFMAC	refinement
XDS	data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History

Deposition Data

Deposited Date: 2008-07-02
Released Date: 2009-06-23
Deposition Author(s): Schiffer, A., Wendt, K.U.

Revision History

Version 1.0: 2009-06-23
Type: Initial release
Version 1.1: 2011-07-13
Type: Version format compliance
Version 1.2: 2013-10-09
Type: Derived calculations

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the National Institutes of Health, and the US Department of Energy (DE-SC0019749).