5HHA | pdb_00005hha

Structure of PvdO from Pseudomonas aeruginosa

PDB DOI: https://doi.org/10.2210/pdb5HHA/pdb

Classification: HYDROLASE
Organism(s): Pseudomonas aeruginosa PAO1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-01-10 Released: 2017-01-18
Deposition Author(s): Bai, G., Yuan, Z., Shang, G., Xia, H., Gu, L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.24 Å
R-Value Free:
0.165 (Depositor), 0.162 (DCC)
R-Value Work:
0.150 (Depositor), 0.148 (DCC)
R-Value Observed:
0.151 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5HHA

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

Literature

Crystal structure of Chromophore maturation protein from Pseudomonas aeruginosa

Yuan, Z., Shang, G., Bai, G., Xia, H., Gu, L.

To be published.

Macromolecule Content

Total Structure Weight: 63.33 kDa
Atom Count: 5,183
Modeled Residue Count: 533
Deposited Residue Count: 572
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PvdO	A, B	286	Pseudomonas aeruginosa PAO1	Mutation(s): 0 Gene Names: pvdO, PA2395
UniProt
Find proteins for Q9I185 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9I185 Go to UniProtKB: Q9I185
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9I185
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.24 Å
R-Value Free: 0.165 (Depositor), 0.162 (DCC)
R-Value Work: 0.150 (Depositor), 0.148 (DCC)
R-Value Observed: 0.151 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.978	α = 90
b = 78.924	β = 93.89
c = 58.205	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2017-01-18

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2017-01-18
Type: Initial release
Version 1.1: 2017-01-25
Changes: Structure summary
Version 1.2: 2024-11-20
Changes: Data collection, Database references, Derived calculations, 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.