5C70 | pdb_00005c70

The structure of Aspergillus oryzae beta-glucuronidase

PDB DOI: https://doi.org/10.2210/pdb5C70/pdb

Classification: HYDROLASE
Organism(s): Aspergillus oryzae
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2015-06-24 Released: 2016-06-15
Deposition Author(s): Sun, H.L., Lv, B., Huang, S., Sun, Q.F., Li, C., Jiang, T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free:
0.254 (Depositor), 0.260 (DCC)
R-Value Work:
0.198 (Depositor), 0.209 (DCC)
R-Value Observed:
0.200 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5C70

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

Literature

Enhancing the Thermostability of beta-Glucuronidase by Rationally Redesigning the Catalytic Domain Based on Sequence Alignment Strategy

Feng, X.D., Tang, H., Han, B.J., Lv, B., Li, C.

(2016) Ind Eng Chem Res 55: 5474-5483

DOI: https://doi.org/10.1021/acs.iecr.6b00535

Macromolecule Content

Total Structure Weight: 136.96 kDa
Atom Count: 9,320
Modeled Residue Count: 1,172
Deposited Residue Count: 1,224
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glucuronidase	A, B	612	Aspergillus oryzae	Mutation(s): 0 Gene Names: Pgus EC: 3.2.1.25 (PDB Primary Data), 3.2.1.31 (UniProt)
UniProt
Find proteins for A7XS03 (Aspergillus oryzae) Explore A7XS03 Go to UniProtKB: A7XS03
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A7XS03
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.10 Å
R-Value Free: 0.254 (Depositor), 0.260 (DCC)
R-Value Work: 0.198 (Depositor), 0.209 (DCC)
R-Value Observed: 0.200 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 110.32	α = 90
b = 110.32	β = 90
c = 480.722	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data processing
HKL-2000	data scaling
AMoRE	phasing
REFMAC	refinement
Coot	model building

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-06-15

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-06-15
Type: Initial release
Version 1.1: 2023-03-01
Changes: Database references, Derived calculations, Structure summary
Version 1.2: 2024-05-29
Changes: Data collection

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.