8R58 | pdb_00008r58

The RSK 2 N-terminal kinase domain in complex with BMF (1-19)

• PDB DOI: https://doi.org/10.2210/pdb8R58/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-11-16 Released: 2024-11-27 
• Deposition Author(s): Sok, P., Remenyi, A.
• Funding Organization(s): Hungarian National Research, Development and Innovation Office

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free: 
  0.263 (Depositor), 0.263 (DCC) 
• R-Value Work: 
  0.235 (Depositor), 0.234 (DCC) 
• R-Value Observed: 
  0.238 (Depositor) 

Starting Model: experimental

Literature

A new kinase docking system for RSK AGC kinase domain

Alexa, A., Sok, P., Remenyi, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: surface plasmon resonance

Macromolecule Content 

• Total Structure Weight: 39.12 kDa 
• Atom Count: 2,379 
• Modeled Residue Count: 292 
• Deposited Residue Count: 336 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal protein S6 kinase alpha-3	A	317	Homo sapiens	Mutation(s): 0  Gene Names: RPS6KA3, ISPK1, MAPKAPK1B, RSK2 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for P51812 (Homo sapiens) Explore P51812  Go to UniProtKB:  P51812
PHAROS:  P51812 GTEx:  ENSG00000177189

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Bcl-2-modifying factor	B	19	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q96LC9 (Homo sapiens) Explore Q96LC9  Go to UniProtKB:  Q96LC9
PHAROS:  Q96LC9 GTEx:  ENSG00000104081

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
QCT	C [auth A]	2-(3,4-dihydroxyphenyl)-5,7-dihydroxy-4-oxo-4H-chromen-3-yl 6-deoxy-alpha-L-mannopyranoside C21 H20 O11 OXGUCUVFOIWWQJ-HQBVPOQASA-N
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.31 Å
• R-Value Free:  0.263 (Depositor), 0.263 (DCC) 
• R-Value Work:  0.235 (Depositor), 0.234 (DCC) 
• R-Value Observed: 0.238 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 82.309	α = 90
b = 88.256	β = 90
c = 39.21	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
STARANISO	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-27 
Deposition Author(s): Sok, P., Remenyi, A.

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Funding Organization	Location	Grant Number
Hungarian National Research, Development and Innovation Office	Hungary	KKP 126963

Revision History  

• Version 1.0: 2024-11-27
  Type: Initial release