30ZP | pdb_000030zp

Prescottella amidase WT

PDB DOI: https://doi.org/10.2210/pdb30ZP/pdb

Classification: HYDROLASE
Organism(s): Prescottella equi
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2026-05-19 Released: 2026-09-16
Deposition Author(s): Bloch, Y., Panneerselvam, S.
Funding Organization(s): H2020 Marie Curie Actions of the European Commission

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.25 Å
R-Value Free:
0.175 (Depositor), 0.167 (DCC)
R-Value Work:
0.145 (Depositor), 0.140 (DCC)
R-Value Observed:
0.146 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Validation slider image for 30ZP

This is version 1.0 of the entry. See complete history.

Literature

Crystallographic exploration of a Prescottella amidase as a model system for urethanase activity.

Bloch, Y., Panneerselvam, S., Schneider, T.R.

To be published.

Macromolecule Content

Total Structure Weight: 106.08 kDa
Atom Count: 8,539
Modeled Residue Count: 938
Deposited Residue Count: 982
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
amidase	A, B	491	Prescottella equi	Mutation(s): 0 Gene Names: ABEU19_000766 EC: 3.5.1.4
UniProt
Find proteins for A0ABW9FQ31 (Prescottella soli) Explore A0ABW9FQ31 Go to UniProtKB: A0ABW9FQ31
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0ABW9FQ31
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
DMS Query on DMS Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain C [auth A]	C [auth A], E [auth B]	DIMETHYL SULFOXIDE C₂ H₆ O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain G [auth B] MOL2 format, chain G [auth B] mmCIF format, chain G [auth B]	G [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain G [auth B] Interactions & Density Focus chain G [auth B]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain D [auth A] MOL2 format, chain F [auth B] MOL2 format, chain D [auth A] mmCIF format, chain F [auth B] mmCIF format, chain D [auth A]	D [auth A], F [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain F [auth B] Interactions & Density Focus chain D [auth A] Focus chain F [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.25 Å
R-Value Free: 0.175 (Depositor), 0.167 (DCC)
R-Value Work: 0.145 (Depositor), 0.140 (DCC)
R-Value Observed: 0.146 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.46	α = 101.81
b = 66.05	β = 88.6
c = 67.56	γ = 111.28

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XSCALE	data scaling
STARANISO	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-16

Deposition Author(s):

Panneerselvam, S.

Funding Organization	Location	Grant Number
H2020 Marie Curie Actions of the European Commission	European Union	945405

Revision History (Full details and data files)

Version 1.0: 2026-09-16
Type: Initial release

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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.