36UP | pdb_000036up

S. aureus DNA Gyrase in complex with OSUAB-0284 and DNA

PDB DOI: https://doi.org/10.2210/pdb36UP/pdb
EM Map EMD-77872: EMDB EMDataResource

Classification: DNA BINDING PROTEIN/DNA
Organism(s): synthetic construct, Staphylococcus aureus subsp. aureus N315
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2026-07-01 Released: 2026-10-07
Deposition Author(s): Wheat, C.T., Bell, C.E.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.75 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 36UP

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

Literature

In vitro and in vivo activity of OSUAB-0284, a preclinical candidate for Staphylococcus aureus infection

Mann, C.A., West, J.C., Cassel, S.R., Wheat, C.T., Landgraf, A.D., Tomkovicz, J.V., Zhao, X., Eaton, S., Dellos-Nolan, S., Baldridge, I., Srivastava, P., Kennedy-Mendez, A., Pillar, C.M., Hufnagel, D.A., Kebriaei, R., Bell, C.E., Wozniak, D.J., Yalowich, J.C., Mitton-Fry, M.J.

To be published.

Macromolecule Content

Total Structure Weight: 169.2 kDa
Atom Count: 11,536
Modeled Residue Count: 1,384
Deposited Residue Count: 1,426
Unique protein chains: 1
Unique nucleic acid chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA Gyrase subunit B, DNA Gyrase subunit A	C [auth A], D [auth B]	693	Staphylococcus aureus subsp. aureus N315	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar nucleic acids by: Sequence

Molecule	Chains	Length	Organism	Image
Entity ID: 1
DNA (5'-D(PAPGPCPCPGPTPAPGPGPGPCPCPCPTPAPCPGPGPCPT)-3')	A [auth C], B [auth D]	20	synthetic construct
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1DL2( Subject of Investigation/LOI) Query on A1DL2 Download:Ideal Coordinates CCD File SDF format, chain E [auth C] MOL2 format, chain E [auth C] mmCIF format, chain E [auth C]	E [auth C]	6-[({(2r,5S)-2-[(1S)-2-(3-fluoro-6-methoxy-1,5-naphthyridin-4-yl)-1-hydroxyethyl]-1,3-dioxan-5-yl}amino)methyl]-2H-pyrazino[2,3-b][1,4]oxazin-3(4H)-one C₂₂ H₂₃ F N₆ O₆ OQSUGFUSYFLCSY-IEBOFQNGSA-N		Interactions Focus chain E [auth C] Interactions & Density Focus chain E [auth C]
MN Query on MN Download:Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain G [auth B] MOL2 format, chain F [auth A] MOL2 format, chain G [auth B] mmCIF format, chain F [auth A] mmCIF format, chain G [auth B]	F [auth A], G [auth B]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth B] Interactions & Density Focus chain F [auth A] Focus chain G [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.75 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC	4.6.2

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-07

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01AI173072

Revision History (Full details and data files)

Version 1.0: 2026-10-07
Type: Initial release