5UBL | pdb_00005ubl

A circularly permuted version of PvdQ (cpPvdQ)

PDB DOI: https://doi.org/10.2210/pdb5UBL/pdb

Classification: HYDROLASE
Organism(s): Pseudomonas aeruginosa
Expression System: Escherichia coli K-12
Mutation(s): No

Deposited: 2016-12-20 Released: 2017-03-01
Deposition Author(s): Wu, R., Mascarenhas, R., Catlin, D., Clevenger, K., Fast, W., Liu, D.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.202 (Depositor), 0.202 (DCC)
R-Value Work:
0.179 (Depositor), 0.180 (DCC)
R-Value Observed:
0.180 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5UBL

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

Literature

Circular Permutation Reveals a Chromophore Precursor Binding Pocket of the Siderophore Tailoring Enzyme PvdQ

Clevenger, K., Mascarenhas, R., Catlin, D., Wu, R., Fast, W., Liu, D.

To be published.

Macromolecule Content

Total Structure Weight: 81.01 kDa
Atom Count: 6,362
Modeled Residue Count: 718
Deposited Residue Count: 732
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acyl-homoserine lactone acylase PvdQ	A	732	Pseudomonas aeruginosa	Mutation(s): 0 Gene Names: pvdQ EC: 3.5.1.97
UniProt
Find proteins for Q9I194 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9I194 Go to UniProtKB: Q9I194
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9I194
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.202 (Depositor), 0.202 (DCC)
R-Value Work: 0.179 (Depositor), 0.180 (DCC)
R-Value Observed: 0.180 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.251	α = 90
b = 166.12	β = 90
c = 94.26	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2017-03-01

Deposition Author(s):

Mascarenhas, R.

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	CHE-1308672

Revision History (Full details and data files)

Version 1.0: 2017-03-01
Type: Initial release
Version 1.1: 2017-09-27
Changes: Author supporting evidence
Version 1.2: 2019-11-27
Changes: Author supporting evidence
Version 1.3: 2024-11-20
Changes: Data collection, Database references, Structure summary

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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.