3MIL

Crystal structure of isoamyl acetate-hydrolyzing esterase from Saccharomyces cerevisiae

PDB DOI: https://doi.org/10.2210/pdb3MIL/pdb

Classification: HYDROLASE
Organism(s): Saccharomyces cerevisiae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-04-11 Released: 2010-11-24
Deposition Author(s): Ma, J., Lu, Q., Yuan, Y., Li, K., Ge, H., Go, Y., Niu, L., Teng, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.218
R-Value Work: 0.193
R-Value Observed: 0.194

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal structure of isoamyl acetate-hydrolyzing esterase from Saccharomyces cerevisiae reveals a novel active site architecture and the basis of substrate specificity

Ma, J., Lu, Q., Yuan, Y., Ge, H., Li, K., Zhao, W., Gao, Y., Niu, L., Teng, M.

(2011) Proteins 79: 662-668

PubMed: 21069734 Search on PubMed
DOI: https://doi.org/10.1002/prot.22865
Primary Citation of Related Structures:
3MIL

Organizational Affiliation

Hefei National Laboratory for Physical Sciences at Microscale, School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230026, China.

Macromolecule Content

Total Structure Weight: 55.43 kDa
Atom Count: 4,591
Modelled Residue Count: 478
Deposited Residue Count: 480
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoamyl acetate-hydrolyzing esterase	A, B	240	Saccharomyces cerevisiae	Mutation(s): 0 Gene Names: EST2, IAH1, O3287, YOR126C, YOR3287C EC: 3.1 (PDB Primary Data), 3.1.1.112 (UniProt)
UniProt
Find proteins for P41734 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P41734 Go to UniProtKB: P41734
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P41734
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth B]	C [auth A], D [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.218
R-Value Work: 0.193
R-Value Observed: 0.194
Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.565	α = 90
b = 44.644	β = 114.44
c = 81.842	γ = 90

Software Package:

Software Name	Purpose
MAR345dtb	data collection
SOLVE	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2010-11-24

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-11-24
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2014-02-19
Changes: Database references
Version 1.3: 2024-03-20
Changes: Data collection, Database references, Derived calculations