5LK6 | pdb_00005lk6

Crystal structure of a lipase carboxylesterase from Sulfolobus islandicus

• PDB DOI: https://doi.org/10.2210/pdb5LK6/pdb

• Classification: HYDROLASE
• Organism(s): Saccharolobus islandicus REY15A
• Expression System: Saccharolobus islandicus REY15A
• Mutation(s): No 


• Deposited: 2016-07-21 Released: 2017-08-02 
• Deposition Author(s): Schwarz-Linnet, T., Teilum, K., Olsen, J.G.
• Funding Organization(s): The Danish Council for Independent Research

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 
  0.194 (Depositor), 0.198 (DCC) 
• R-Value Work: 
  0.157 (Depositor), 0.165 (DCC) 
• R-Value Observed: 
  0.159 (Depositor) 

Starting Model: experimental

Literature

EstA from Sufolobus islandicus is stabilized by mono-methylation of lysine residues

Schwarz-Linnet, T., Stiefler-Jensen, D., de Lichetenberg, C., Olsen, J.G., Nguyen, T.T.T.N., Rand, K.D., Teilum, K.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 138.93 kDa 
• Atom Count: 9,846 
• Modeled Residue Count: 1,208 
• Deposited Residue Count: 1,256 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha/beta hydrolase fold-3 domain protein	A, B, C, D	314	Saccharolobus islandicus REY15A	Mutation(s): 0  Gene Names: SiRe_0290
UniProt
Find proteins for F0NDQ1 (Saccharolobus islandicus (strain REY15A)) Explore F0NDQ1  Go to UniProtKB:  F0NDQ1

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free:  0.194 (Depositor), 0.198 (DCC) 
• R-Value Work:  0.157 (Depositor), 0.165 (DCC) 
• R-Value Observed: 0.159 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 166.41	α = 90
b = 166.41	β = 90
c = 185.78	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2017-08-02 
Deposition Author(s): Schwarz-Linnet, T., Teilum, K., Olsen, J.G.

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Funding Organization	Location	Grant Number
The Danish Council for Independent Research	Denmark	11-106683

Revision History  

• Version 1.0: 2017-08-02
  Type: Initial release
  
• Version 1.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-06
  Changes: Structure summary