36YZ | pdb_000036yz

Crystal structure of DUF190 bound to Mg2+

PDB DOI: https://doi.org/10.2210/pdb36YZ/pdb

Classification: SIGNALING PROTEIN
Organism(s): Nitratiruptor tergarcus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2026-07-07 Released: 2026-11-04
Deposition Author(s): Stockbridge, R.B., Peralta, C.M.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free:
0.264 (Depositor), 0.264 (DCC)
R-Value Work:
0.239 (Depositor), 0.239 (DCC)
R-Value Observed:
0.240 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Discovery of an ancient channel regulatory subunit that links fluoride efflux to cellular energy state in bacteria and archaea

Stockbridge, R.B., Peralta, C.M., Kang, C.Y., Banerjee, A.

To be published.

Macromolecule Content

Total Structure Weight: 41.46 kDa
Atom Count: 2,385
Modeled Residue Count: 295
Deposited Residue Count: 366
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DUF190	A, B, C	122	Nitratiruptor tergarcus	Mutation(s): 0 Gene Names: SAMN05660197_1958
UniProt
Find proteins for A0A1W1WVA9 (Nitratiruptor tergarcus DSM 16512) Explore A0A1W1WVA9 Go to UniProtKB: A0A1W1WVA9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A1W1WVA9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 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]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.264 (Depositor), 0.264 (DCC)
R-Value Work: 0.239 (Depositor), 0.239 (DCC)
R-Value Observed: 0.240 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.469	α = 115.61
b = 45.92	β = 93.5
c = 49.84	γ = 106.53

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data reduction
DIALS	data scaling
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-11-04

Deposition Author(s):

Stockbridge, R.B.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-11-04
Type: Initial release