7COF | pdb_00007cof

Cholesterol esterase from Burkholderia stabilis (orthorhombic crystal form)

  • Classification: HYDROLASE
  • Organism(s): Burkholderia stabilis
  • Mutation(s): No 
  • Membrane Protein: Yes  OPM

  • Deposited: 2020-08-04 Released: 2020-12-16 
  • Deposition Author(s): Yasutake, Y., Tamura, T.
  • Funding Organization(s): New Energy and Industrial Technology Development Organization (NEDO)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.08 Å
  • R-Value Free: 
    0.118 (Depositor), 0.120 (DCC) 
  • R-Value Work: 
    0.098 (Depositor), 0.100 (DCC) 
  • R-Value Observed: 
    0.099 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Bacterial triacylglycerol lipase is a potential cholesterol esterase: Identification of a key determinant for sterol-binding specificity.

Yasutake, Y., Konishi, K., Muramatsu, S., Yoshida, K., Aburatani, S., Sakasegawa, S.I., Tamura, T.

(2021) Int J Biol Macromol 167: 578-586


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Alpha/beta hydrolase320Burkholderia stabilisMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A1Y1BQV9 (Burkholderia stabilis)
Explore A0A1Y1BQV9 
Go to UniProtKB:  A0A1Y1BQV9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1Y1BQV9
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL
Download Ideal Coordinates CCD File 
C [auth A],
D [auth A]		GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
IMD
Query on IMD
Download Ideal Coordinates CCD File 
E [auth A]IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
IPA
Query on IPA
Download Ideal Coordinates CCD File 
F [auth A],
G [auth A]		ISOPROPYL ALCOHOL
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
CA
Query on CA
Download Ideal Coordinates CCD File 
B [auth A]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.08 Å
  • R-Value Free:  0.118 (Depositor), 0.120 (DCC) 
  • R-Value Work:  0.098 (Depositor), 0.100 (DCC) 
  • R-Value Observed: 0.099 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.241α = 90
b = 61.365β = 90
c = 147.177γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
New Energy and Industrial Technology Development Organization (NEDO)Japan--

Revision History  (Full details and data files)

  • Version 1.0: 2020-12-16
    Type: Initial release
  • Version 1.1: 2023-11-29
    Changes: Data collection, Database references, Refinement description
  • Version 1.2: 2024-11-13
    Changes: Structure summary