2Q0N | pdb_00002q0n

Structure of human p21 activating kinase 4 (PAK4) in complex with a consensus peptide

• PDB DOI: https://doi.org/10.2210/pdb2Q0N/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-05-22 Released: 2007-06-26 
• Deposition Author(s): Filippakopoulos, P., Eswaran, J., Turnbull, A., Papagrigoriou, E., Pike, A.W., von Delft, F., Sundstrom, M., Edwards, A., Arrowsmith, C.H., Weigelt, J., Knapp, S., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.228 (Depositor), 0.235 (DCC) 
• R-Value Work: 
  0.182 (Depositor), 0.189 (DCC) 
• R-Value Observed: 
  0.185 (Depositor) 

Starting Model: experimental

Literature

Structure of human p21 activating kinase 4 (PAK4) in complex with a consensus peptide.

Filippakopoulos, P., Eswaran, J., Turnbull, A., Papagrigoriou, E., Pike, A.W., von Delft, F., Sundstrom, M., Edwards, A., Arrowsmith, C.H., Weigelt, J., Knapp, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 36.24 kDa 
• Atom Count: 2,729 
• Modeled Residue Count: 305 
• Deposited Residue Count: 312 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase PAK 4	A	301	Homo sapiens	Mutation(s): 1  Gene Names: PAK4, KIAA1142 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for O96013 (Homo sapiens) Explore O96013  Go to UniProtKB:  O96013
PHAROS:  O96013 GTEx:  ENSG00000130669

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Synthetic peptide	B	11	N/A	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
SEP	A	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.228 (Depositor), 0.235 (DCC) 
• R-Value Work:  0.182 (Depositor), 0.189 (DCC) 
• R-Value Observed: 0.185 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.678	α = 90
b = 145.678	β = 90
c = 39.577	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-06-26 
Deposition Author(s): Filippakopoulos, P., Eswaran, J., Turnbull, A., Papagrigoriou, E., Pike, A.W., von Delft, F., Sundstrom, M., Edwards, A., Arrowsmith, C.H., Weigelt, J., Knapp, S., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2007-06-26
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2017-10-18
  Changes: Advisory, Refinement description
• Version 1.4: 2018-01-31
  Changes: Database references, Structure summary
• Version 1.5: 2023-08-30
  Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description
• Version 1.6: 2024-10-16
  Changes: Structure summary