Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 42.11 kDa 
• Atom Count: 2,872 
• Modelled Residue Count: 337 
• Deposited Residue Count: 360 
• Unique protein chains: 1

 1ZZ2

Two Classes of p38alpha MAP Kinase Inhibitors Having a Common Diphenylether Core but Exhibiting Divergent Binding Modes

• PDB DOI: 10.2210/pdb1ZZ2/pdb

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


• Deposited: 2005-06-13 Released: 2005-10-18 
• Deposition Author(s): Michelotti, E.L., Moffett, K.K., Springman, E.B., Karpusas, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.290 
• R-Value Work: 0.256 
• R-Value Observed: 0.262 

Literature

Two classes of p38alpha MAP kinase inhibitors having a common diphenylether core but exhibiting divergent binding modes.

Michelotti, E.L., Moffett, K.K., Nguyen, D., Kelly, M.J., Shetty, R., Chai, X., Northrop, K., Namboodiri, V., Campbell, B., Flynn, G.A., Fujimoto, T., Hollinger, F.P., Bukhtiyarova, M., Springman, E.B., Karpusas, M.

(2005) Bioorg Med Chem Lett 15: 5274-5279

• PubMed: 16169718 
• DOI: 10.1016/j.bmcl.2005.08.038
• Primary Citation of Related Structures:  
  1ZYJ, 1ZZ2


• PubMed Abstract: 
  

Two new classes of diphenylether inhibitors of p38alpha MAP kinase are described. Both chemical classes are based on a common diphenylether core that is identified by simulated fragment annealing as one of the most favored chemotypes within a prominent hydrophobic pocket of the p38alpha ATP-binding site. In the fully elaborated molecules, the diphenylether moiety acts as an anchor occupying the deep pocket, while polar extensions make specific interactions with either the adenine binding site or the phosphate binding site of ATP. The synthesis, crystallographic analysis, and biological activity of these p38alpha inhibitors are discussed.

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Organizational Affiliation: 

Department of Chemistry, Locus Pharmaceuticals, Inc., Four Valley Square, 512 Township Line Rd, Blue Bell, PA 19422, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase 14	A	360	Homo sapiens	Mutation(s): 0  Gene Names: MAPK14, CSBP, CSBP1, CSBP2, MXI2, CSPB1, SAPK2A EC: 2.7.1.37 (PDB Primary Data), 2.7.11.24 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q16539 (Homo sapiens) Explore Q16539  Go to UniProtKB:  Q16539
PHAROS:  Q16539

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
B11	C [auth A]	N-[3-(4-FLUOROPHENOXY)PHENYL]-4-[(2-HYDROXYBENZYL)AMINO]PIPERIDINE-1-SULFONAMIDE C24 H26 F N3 O4 S JHHBGNIRSUTQAS-UHFFFAOYSA-N
BOG	B [auth A]	octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
B11	BindingDB:  1ZZ2	IC50: 6000 (nM) from 1 assay(s)
	PDBBind:  1ZZ2	IC50: 6000 (nM) from 1 assay(s)
	Binding MOAD:  1ZZ2	IC50: 6000 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.290 
• R-Value Work: 0.256 
• R-Value Observed: 0.262 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.29	α = 90
b = 74.23	β = 90
c = 74.42	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	refinement
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-10-18 
Deposition Author(s): Michelotti, E.L., Moffett, K.K., Springman, E.B., Karpusas, M.

Revision History  

• Version 1.0: 2005-10-18
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Data collection, Derived calculations, Structure summary