5WAX | pdb_00005wax

Crystal Structure of Sugarcane SAPK10 (serine/threonine-protein kinase 10)

• PDB DOI: https://doi.org/10.2210/pdb5WAX/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Saccharum officinarum species complex
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-06-27 Released: 2018-08-15 
• Deposition Author(s): Righetto, G.L., Counago, R.M., Halabelian, L., Santiago, A.S., Massirer, K.B., Arruda, P., Gileadi, O., Menossi, M., Edwards, A.M., Elkins, J.M., Structural Genomics Consortium (SGC)
• Funding Organization(s): Sao Paulo Research Foundation (FAPESP)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.237 (Depositor), 0.244 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Sugarcane SAPK10 (serine/threonine-protein kinase 10)

Righetto, G.L., Counago, R.M., Halabelian, L., Santiago, A.S., Massirer, K.B., Arruda, P., Gileadi, O., Menossi, M., Edwards, A.M., Elkins, J.M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 71.17 kDa 
• Atom Count: 4,771 
• Modeled Residue Count: 553 
• Deposited Residue Count: 620 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SAPK10 (serine/threonine-protein kinase 10)	A, B	310	Saccharum officinarum species complex	Mutation(s): 0  EC: 2.7.11.1
UniProt
Find proteins for A0A238LNS4 (Saccharum officinarum x Saccharum spontaneum) Explore A0A238LNS4  Go to UniProtKB:  A0A238LNS4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth A], E [auth A], F [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.237 (Depositor), 0.244 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.42	α = 90
b = 214.63	β = 90
c = 93.801	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2018-08-15 
Deposition Author(s): Righetto, G.L., Counago, R.M., Halabelian, L., Santiago, A.S., Massirer, K.B., Arruda, P., Gileadi, O., Menossi, M., Edwards, A.M., Elkins, J.M., Structural Genomics Consortium (SGC)

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Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	13/50724-5

Revision History  

• Version 1.0: 2018-08-15
  Type: Initial release
  
• Version 1.1: 2020-01-01
  Changes: Author supporting evidence
• Version 1.2: 2023-10-04
  Changes: Data collection, Database references, Refinement description