1JUP

Crystal structure of the multidrug binding transcriptional repressor QacR bound to malachite green

PDB DOI: https://doi.org/10.2210/pdb1JUP/pdb

Classification: TRANSCRIPTION
Organism(s): Staphylococcus aureus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2001-08-24 Released: 2001-12-12
Deposition Author(s): Schumacher, M.A., Miller, M.C., Grkovic, S., Brown, M.H., Skurray, R.A., Brennan, R.G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.95 Å
R-Value Free: 0.281
R-Value Work: 0.238
R-Value Observed: 0.238

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.5 of the entry. See complete history.

Literature

Structural mechanisms of QacR induction and multidrug recognition.

Schumacher, M.A., Miller, M.C., Grkovic, S., Brown, M.H., Skurray, R.A., Brennan, R.G.

(2001) Science 294: 2158-2163

PubMed: 11739955 Search on PubMed
DOI: https://doi.org/10.1126/science.1066020
Primary Citation of Related Structures:
1JT6, 1JTX, 1JTY, 1JUM, 1JUP, 1JUS

PubMed Abstract:
The Staphylococcus aureus multidrug binding protein QacR represses transcription of the qacA multidrug transporter gene and is induced by structurally diverse cationic lipophilic drugs. Here, we report the crystal structures of six QacR-drug complexes. Compared to the DNA bound structure, drug binding elicits a coil-to-helix transition that causes induction and creates an expansive multidrug-binding pocket, containing four glutamates and multiple aromatic and polar residues. These structures indicate the presence of separate but linked drug-binding sites within a single protein. This multisite drug-binding mechanism is consonant with studies on multidrug resistance transporters.

Organizational Affiliation

Department of Biochemistry and Molecular Biology, Oregon Health & Science University, Portland, OR 97201, USA.

Macromolecule Content

Total Structure Weight: 94.37 kDa
Atom Count: 6,330
Modelled Residue Count: 744
Deposited Residue Count: 776
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HYPOTHETICAL TRANSCRIPTIONAL REGULATOR IN QACA 5'REGION	A [auth B], B [auth D], C [auth A], D [auth E]	194	Staphylococcus aureus	Mutation(s): 2
UniProt
Find proteins for P0A0N4 (Staphylococcus aureus) Explore P0A0N4 Go to UniProtKB: P0A0N4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0A0N4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MGR Query on MGR Download Ideal Coordinates CCD File SDF format, chain S [auth A] MOL2 format, chain S [auth A]	S [auth A]	MALACHITE GREEN C₂₃ H₂₅ N₂ VFCNQNZNPKRXIT-UHFFFAOYSA-N		Interactions Focus chain S [auth A] Interactions & Density Focus chain S [auth A]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain J [auth D] SDF format, chain Y [auth E] SDF format, chain AA [auth E] SDF format, chain E [auth B] SDF format, chain F [auth B] SDF format, chain G [auth B] SDF format, chain H [auth B] SDF format, chain K [auth D] SDF format, chain L [auth D] SDF format, chain M [auth D] SDF format, chain N [auth A] SDF format, chain O [auth A] SDF format, chain P [auth A] SDF format, chain Q [auth A] SDF format, chain R [auth A] SDF format, chain T [auth E] SDF format, chain U [auth E] SDF format, chain V [auth E] SDF format, chain W [auth E] SDF format, chain X [auth E] SDF format, chain Z [auth E] MOL2 format, chain I [auth B] MOL2 format, chain J [auth D] MOL2 format, chain Y [auth E] MOL2 format, chain AA [auth E] MOL2 format, chain E [auth B] MOL2 format, chain F [auth B] MOL2 format, chain G [auth B] MOL2 format, chain H [auth B] MOL2 format, chain K [auth D] MOL2 format, chain L [auth D] MOL2 format, chain M [auth D] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] MOL2 format, chain P [auth A] MOL2 format, chain Q [auth A] MOL2 format, chain R [auth A] MOL2 format, chain T [auth E] MOL2 format, chain U [auth E] MOL2 format, chain V [auth E] MOL2 format, chain W [auth E] MOL2 format, chain X [auth E] MOL2 format, chain Z [auth E]	AA [auth E] E [auth B] F [auth B] G [auth B] H [auth B] AA [auth E], E [auth B], F [auth B], G [auth B], H [auth B], I [auth B], J [auth D], K [auth D], L [auth D], M [auth D], N [auth A], O [auth A], P [auth A], Q [auth A], R [auth A], T [auth E], U [auth E], V [auth E], W [auth E], X [auth E], Y [auth E], Z [auth E]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain AA [auth E] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth D] Focus chain K [auth D] Focus chain L [auth D] Focus chain M [auth D] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain T [auth E] Focus chain U [auth E] Focus chain V [auth E] Focus chain W [auth E] Focus chain X [auth E] Focus chain Y [auth E] Focus chain Z [auth E] Interactions & Density Focus chain AA [auth E] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth D] Focus chain K [auth D] Focus chain L [auth D] Focus chain M [auth D] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth A] Focus chain Q [auth A] Focus chain R [auth A] Focus chain T [auth E] Focus chain U [auth E] Focus chain V [auth E] Focus chain W [auth E] Focus chain X [auth E] Focus chain Y [auth E] Focus chain Z [auth E]