3AUK | pdb_00003auk

Crystal structure of a lipase from Geobacillus sp. SBS-4S

• PDB DOI: https://doi.org/10.2210/pdb3AUK/pdb

• Classification: HYDROLASE
• Organism(s): Geobacillus sp. SBS-4S
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-02-08 Released: 2012-02-08 
• Deposition Author(s): Angkawidjaja, C., Tayyab, M., Rashid, N., Kanaya, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 
  0.190 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.162 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.164 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a lipase from Geobacillus sp. SBS-4S

Tayyab, M., Angkawidjaja, C., Kanaya, S., Rashid, N.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 43.52 kDa 
• Atom Count: 3,650 
• Modeled Residue Count: 386 
• Deposited Residue Count: 389 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipase	A	389	Geobacillus sp. SBS-4S	Mutation(s): 0  Gene Names: Lip EC: 3.1.1.3
UniProt
Find proteins for B9ZZP0 (Geobacillus sp. SBS-4S) Explore B9ZZP0  Go to UniProtKB:  B9ZZP0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	D [auth A], E [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free:  0.190 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.162 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.164 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.131	α = 90
b = 71.745	β = 90
c = 126.262	γ = 90

Software Package:

Software Name	Purpose
BL38	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-08 
Deposition Author(s): Angkawidjaja, C., Tayyab, M., Rashid, N., Kanaya, S.

Revision History  

• Version 1.0: 2012-02-08
  Type: Initial release
  
• Version 1.1: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description