1J1B

Binary complex structure of human tau protein kinase I with AMPPNP

• PDB DOI:  https://doi.org/10.2210/pdb1J1B/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-12-03 Released: 2003-12-03 
• Deposition Author(s): Aoki, M., Yokota, T., Sugiura, I., Sasaki, C., Hasegawa, T., Okumura, C., Kohno, T., Sugio, S., Matsuzaki, T.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.242 
• R-Value Work: 0.216 

Literature

Structural insight into nucleotide recognition in tau-protein kinase I/glycogen synthase kinase 3 beta.

Aoki, M., Yokota, T., Sugiura, I., Sasaki, C., Hasegawa, T., Okumura, C., Ishiguro, K., Kohno, T., Sugio, S., Matsuzaki, T.

(2004) Acta Crystallogr D Biol Crystallogr 60: 439-446

• PubMed: 14993667 
• DOI: https://doi.org/10.1107/S090744490302938X
• Primary Citation of Related Structures:  
  1J1B, 1J1C


• PubMed Abstract: 
  

Human tau-protein kinase I (TPK I; also known as glycogen synthase kinase 3 beta; GSK3 beta) is a serine/threonine protein kinase that participates in Alzheimer's disease. Here, binary complex structures of full-length TPK I/GSK3 beta with the ATP analogues ADP and AMPPNP solved by the X-ray diffraction method at 2.1 and 1.8 A resolution, respectively, are reported. TPK I/GSK3 beta is composed of three domains: an N-terminal domain consisting of a closed beta-barrel structure, a C-terminal domain containing a 'kinase fold' structure and a small extra-domain subsequent to the C-terminal domain. The catalytic site is between the two major domains and has an ATP-analogue molecule in its ATP-binding site. The adenine ring is buried in the hydrophobic pocket and interacts specifically with the main-chain atoms of the hinge loop. The overall structure and substrate-binding residues are similar to those observed in other Ser/Thr protein kinases, while Arg141 (which is not conserved among other Ser/Thr protein kinases) is one of the key residues for specific ATP/ADP recognition by TPK I/GSK3 beta. No residues are phosphorylated, while the orientation of the activation loop in TPK I/GSK3 beta is similar to that in phosphorylated CDK2 and ERK2, suggesting that TPK I/GSK3 beta falls into a conformation that enables it to be constitutively active.

---

Related Citations: 

• Expression, purification and crystallization of human tau-protein kinase I/glycogen synthase kinase-3beta
  Aoki, M., Iwamoto-Sugai, M., Sugiura, I., Sasaki, C., Hasegawa, T., Okumura, C., Sugio, S., Kohno, T., Matsuzaki, T.
  (2000) Acta Crystallogr D Biol Crystallogr 56: 1464

---

Organizational Affiliation: 

Mitsubishi Kagaku Institute of Life Sciences (MITILS), 11 Minamiohya, Machida, Tokyo 194-8511, Japan.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 94.61 kDa 
• Atom Count: 6,218 
• Modelled Residue Count: 718 
• Deposited Residue Count: 840 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycogen synthase kinase-3 beta	A, B	420	Homo sapiens	Mutation(s): 0  Gene Names: GSK3B EC: 2.7.1.37 (PDB Primary Data), 2.7.11.26 (UniProt), 2.7.11.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P49841 (Homo sapiens) Explore P49841  Go to UniProtKB:  P49841
PHAROS:  P49841

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP	C [auth A], D [auth B]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.242 
• R-Value Work: 0.216 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.8	α = 90
b = 86.3	β = 90
c = 178.4	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALEPACK	data scaling
X-PLOR	model building
X-PLOR	refinement
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-12-03 
Deposition Author(s): Aoki, M., Yokota, T., Sugiura, I., Sasaki, C., Hasegawa, T., Okumura, C., Kohno, T., Sugio, S., Matsuzaki, T.

Revision History  

• Version 1.0: 2003-12-03
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance