7PKA | pdb_00007pka

Synechocystis sp. PCC6803 glutathione transferase Chi 1, GSOH bound

PDB DOI: https://doi.org/10.2210/pdb7PKA/pdb

Classification: TRANSFERASE
Organism(s): Synechocystis sp. PCC 6803
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2021-08-25 Released: 2022-09-07
Deposition Author(s): Didierjean, C., Mocchetti, E., Hecker, A., Favier, F.
Funding Organization(s): Centre National de la Recherche Scientifique (CNRS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free:
0.232 (Depositor), 0.224 (DCC)
R-Value Work:
0.216 (Depositor), 0.207 (DCC)
R-Value Observed:
0.217 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Structure and functions of glutathione transferase Chi 1 from cyanobacterium Synechocystis sp. PCC 6803

Mocchetti, E., Hecker, A., Mathiot, S., Favier, F., Cassier-Chauvat, C., Chauvat, F., Didierjean, C.

To be published.

Macromolecule Content

Total Structure Weight: 43.62 kDa
Atom Count: 3,302
Modeled Residue Count: 366
Deposited Residue Count: 384
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutathione S-transferase	A, B	192	Synechocystis sp. PCC 6803	Mutation(s): 0 Gene Names: gst
UniProt
Find proteins for Q55139 (Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa)) Explore Q55139 Go to UniProtKB: Q55139
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q55139
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GS8 Query on GS8 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]	S-Hydroxy-Glutathione C₁₀ H₁₇ N₃ O₇ S PFXSQLOWBQWLCX-WDSKDSINSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]
K Query on K Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free: 0.232 (Depositor), 0.224 (DCC)
R-Value Work: 0.216 (Depositor), 0.207 (DCC)
R-Value Observed: 0.217 (Depositor)

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.613	α = 90
b = 92.613	β = 90
c = 193.561	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
MoRDa	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-09-07

Deposition Author(s):

Funding Organization	Location	Grant Number
Centre National de la Recherche Scientifique (CNRS)	France	--

Revision History (Full details and data files)

Version 1.0: 2022-09-07
Type: Initial release
Version 1.1: 2024-01-31
Changes: Data collection, Refinement description

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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.