2X64 | pdb_00002x64

GLUTATHIONE-S-TRANSFERASE FROM XYLELLA FASTIDIOSA

PDB DOI: https://doi.org/10.2210/pdb2X64/pdb

Classification: TRANSFERASE
Organism(s): Xylella fastidiosa 9a5c
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2010-02-14 Released: 2010-03-02
Deposition Author(s): Muniz, J.R.C., Rodrigues, N.C., Bleicher, L., Travensolo, R.F., Garcia, W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.219 (Depositor), 0.206 (DCC)
R-Value Work:
0.167 (Depositor)
R-Value Observed:
0.169 (Depositor)

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structural and Biophysical Characterization of the Recombinant Glutathione-S-Transferase from Xylella

Rodrigues, N.C., Muniz, J.R.C., Bleicher, L., Garcia, W., Travensolo, R.F., Ulian-De-Araujo, A.P., Carrilho, E., Garratt, R.

To be published.

Macromolecule Content

Total Structure Weight: 139.99 kDa
Atom Count: 10,446
Modeled Residue Count: 1,237
Deposited Residue Count: 1,242
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUTATHIONE-S-TRANSFERASE	A, B, C, D, E A, B, C, D, E, F	207	Xylella fastidiosa 9a5c	Mutation(s): 0
UniProt
Find proteins for Q9PE18 (Xylella fastidiosa (strain 9a5c)) Explore Q9PE18 Go to UniProtKB: Q9PE18
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9PE18
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GSH Query on GSH Download:Ideal Coordinates CCD File SDF format, chain R [auth F] SDF format, chain P [auth E] SDF format, chain N [auth D] SDF format, chain K [auth C] SDF format, chain I [auth B] SDF format, chain H [auth A] MOL2 format, chain R [auth F] MOL2 format, chain P [auth E] MOL2 format, chain N [auth D] MOL2 format, chain K [auth C] MOL2 format, chain I [auth B] MOL2 format, chain H [auth A] mmCIF format, chain R [auth F] mmCIF format, chain P [auth E] mmCIF format, chain N [auth D] mmCIF format, chain K [auth C] mmCIF format, chain I [auth B] mmCIF format, chain H [auth A]	H [auth A] I [auth B] K [auth C] N [auth D] P [auth E] H [auth A], I [auth B], K [auth C], N [auth D], P [auth E], R [auth F]	Glutathione C₁₀ H₁₇ N₃ O₆ S RWSXRVCMGQZWBV-WDSKDSINSA-N		Interactions Focus chain H [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain N [auth D] Focus chain P [auth E] Focus chain R [auth F] Interactions & Density Focus chain H [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain N [auth D] Focus chain P [auth E] Focus chain R [auth F]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain Q [auth F] SDF format, chain O [auth E] SDF format, chain M [auth D] SDF format, chain L [auth C] SDF format, chain J [auth B] SDF format, chain G [auth A] MOL2 format, chain Q [auth F] MOL2 format, chain O [auth E] MOL2 format, chain M [auth D] MOL2 format, chain L [auth C] MOL2 format, chain J [auth B] MOL2 format, chain G [auth A] mmCIF format, chain Q [auth F] mmCIF format, chain O [auth E] mmCIF format, chain M [auth D] mmCIF format, chain L [auth C] mmCIF format, chain J [auth B] mmCIF format, chain G [auth A]	G [auth A] J [auth B] L [auth C] M [auth D] O [auth E] G [auth A], J [auth B], L [auth C], M [auth D], O [auth E], Q [auth F]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain G [auth A] Focus chain J [auth B] Focus chain L [auth C] Focus chain M [auth D] Focus chain O [auth E] Focus chain Q [auth F] Interactions & Density Focus chain G [auth A] Focus chain J [auth B] Focus chain L [auth C] Focus chain M [auth D] Focus chain O [auth E] Focus chain Q [auth F]

Biologically Interesting Molecules (External Reference)

1 Unique

Entity ID: 3
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002593 (GSH) Query on PRD_002593	H [auth A] I [auth B] K [auth C] N [auth D] P [auth E] H [auth A], I [auth B], K [auth C], N [auth D], P [auth E], R [auth F]	Glutathione	Peptide-like / Oxidation-reduction		Interactions Focus chain H [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain N [auth D] Focus chain P [auth E] Focus chain R [auth F] Interactions & Density Focus chain H [auth A] Focus chain I [auth B] Focus chain K [auth C] Focus chain N [auth D] Focus chain P [auth E] Focus chain R [auth F]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.219 (Depositor), 0.206 (DCC)
R-Value Work: 0.167 (Depositor)
R-Value Observed: 0.169 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.67	α = 116.53
b = 87.89	β = 99.33
c = 90.78	γ = 94.49

Software Package:

Software Name	Purpose
BUSTER	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2010-03-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-03-02
Type: Initial release
Version 1.1: 2011-12-07
Changes: Advisory, Atomic model, Derived calculations, Non-polymer description, Refinement description, Version format compliance
Version 1.2: 2024-05-08
Changes: Data collection, Database references, Derived calculations, Other

2X64 | pdb_00002x64

GLUTATHIONE-S-TRANSFERASE FROM XYLELLA FASTIDIOSA

Literature

Structural and Biophysical Characterization of the Recombinant Glutathione-S-Transferase from Xylella

Biological Assembly 1

Biological Assembly 2

Biological Assembly 3

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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