5D73 | pdb_00005d73

Structure of Wuchereria bancrofti pi-class glutathione S-transferase

PDB DOI: https://doi.org/10.2210/pdb5D73/pdb
Entry: 5D73 supersedes: 3T2U

Classification: TRANSFERASE
Organism(s): Wuchereria bancrofti
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-08-13 Released: 2015-11-11
Deposition Author(s): Prince, P.R., Sakthidevi, M., Madhumathi, J., Perbandt, M., Betzel, C., Kaliraj, P.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.33 Å
R-Value Free:
0.258 (Depositor), 0.260 (DCC)
R-Value Work:
0.202 (Depositor), 0.206 (DCC)
R-Value Observed:
0.205 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

STRUCTURE OF WUCHERERIA BANCROFTI PI-CLASS GLUTATHIONE S-TRANSFERASE

Prince, P.R., Sakthidevi, M., Madhumathi, J., Perbandt, M., Betzel, C., Kaliraj, P.

To be published.

Macromolecule Content

Total Structure Weight: 49.15 kDa
Atom Count: 3,741
Modeled Residue Count: 414
Deposited Residue Count: 416
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	208	Wuchereria bancrofti	Mutation(s): 0 EC: 2.5.1.18
UniProt
Find proteins for Q86LL8 (Wuchereria bancrofti) Explore Q86LL8 Go to UniProtKB: Q86LL8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q86LL8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GSH Query on GSH 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]	Glutathione C₁₀ H₁₇ N₃ O₆ S RWSXRVCMGQZWBV-WDSKDSINSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Biologically Interesting Molecules (External Reference)

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_002593 (GSH) Query on PRD_002593	C [auth A], D [auth B]	Glutathione	Peptide-like / Oxidation-reduction		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: 2.33 Å
R-Value Free: 0.258 (Depositor), 0.260 (DCC)
R-Value Work: 0.202 (Depositor), 0.206 (DCC)
R-Value Observed: 0.205 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.39	α = 90
b = 93.15	β = 90
c = 115.42	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2015-11-11

Deposition Author(s):

This entry supersedes: 3T2U

Revision History (Full details and data files)

Version 1.0: 2015-11-11
Type: Initial release
Version 1.1: 2015-11-25
Changes: Database references, Source and taxonomy, Structure summary
Version 1.2: 2019-07-17
Changes: Data collection
Version 1.3: 2024-01-10
Changes: Data collection, Database references, Refinement description