4GWL | pdb_00004gwl

Structure of three phase partition treated lipase from Thermomyces lanuginosa at 2.55A resolution

• PDB DOI: https://doi.org/10.2210/pdb4GWL/pdb

• Classification: HYDROLASE
• Organism(s): Thermomyces lanuginosus
• Mutation(s): No 


• Deposited: 2012-09-03 Released: 2012-09-19 
• Deposition Author(s): Shukla, P.K., Sinha, M., Mukherjee, J., Gupta, M.N., Kaur, P., Sharma, S., Singh, T.P.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.55 Å
• R-Value Free: 
  0.242 (Depositor), 0.247 (DCC) 
• R-Value Work: 
  0.190 (Depositor), 0.195 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

Structure of three phase partition treated lipase from Thermomyces lanuginosa at 2.55A resolution

Shukla, P.K., Sinha, M., Mukherjee, J., Gupta, M.N., Kaur, P., Sharma, S., Singh, T.P.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 59.13 kDa 
• Atom Count: 4,547 
• Modeled Residue Count: 538 
• Deposited Residue Count: 538 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipase	A, B	269	Thermomyces lanuginosus	Mutation(s): 0  EC: 3.1.1.3
UniProt
Find proteins for O59952 (Thermomyces lanuginosus) Explore O59952  Go to UniProtKB:  O59952
Glycosylation
Glycosylation Sites: 1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.55 Å
• R-Value Free:  0.242 (Depositor), 0.247 (DCC) 
• R-Value Work:  0.190 (Depositor), 0.195 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 139.868	α = 90
b = 139.868	β = 90
c = 80.488	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
AMoRE	phasing
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-09-19 
Deposition Author(s): Shukla, P.K., Sinha, M., Mukherjee, J., Gupta, M.N., Kaur, P., Sharma, S., Singh, T.P.

Revision History  

• Version 1.0: 2012-09-19
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 1.3: 2024-10-16
  Changes: Structure summary