6XQJ

Structure of HIV-1 Vpr in complex with the human nucleotide excision repair protein hHR23A

SOLUTION NMR

NMR Experiment
Experiment	Type	Sample Contents	Solvent	Ionic Strength	pH	Pressure	Temperature (K)	Spectrometer
1	3D TROSY-HNCACB	927 uM [U-100% 2H; U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 700
2	3D TROSY-HNCOCACB	927 uM [U-100% 2H; U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 700
3	3D HNCA	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 700
4	3D HCCH-TOCSY	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 700
13	3D 1H-15N NOESY	1110 uM [U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900
5	3D similtaneously 13C/15C-edited NOESY (aliphatic)	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900
6	3D similtaneously 13C/15C-edited NOESY (aliphatic)	745 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.5	1 atm	298	Bruker AVANCE 900
7	3D similtaneously 13C/15C-edited NOESY (aromatic)	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900
8	2D 1H-15N HSQC	1110 uM [U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900
17	2D 1H-15N HSQC	1110 uM [U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 800
9	2D 1H-15N HSQC	927 uM [U-100% 2H; U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 700
10	2D 1H-15N HSQC	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900
11	2D 1H-15N HSQC	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.5	1 atm	298	Bruker AVANCE 900
12	2D 1H-13C HSQC aliphatic	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900
14	2D 1H-13C HSQC aromatic	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 600
15	3D HBHA(CO)NH	1100 uM [U-100% 13C; U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 700
16	2D NOESY	1000 uM [U-100% 15N] Vpr-hHR23A complex, 25 mM sodium phosphate, 50 mM sodium chloride, 2 mM DTT, 1 mM TCEP, 0.1 mM ZnSO4, 0.1 mM EDTA, 0.02 % sodium azide	93% H2O/7% D2O	100 mM	7.2	1 atm	298	Bruker AVANCE 900

NMR Spectrometer Information
Spectrometer	Manufacturer	Model	Field Strength
1	Bruker	AVANCE	900
2	Bruker	AVANCE	800
3	Bruker	AVANCE	700
4	Bruker	AVANCE	600

NMR Refinement
Method	Details	Software
simulated annealing		X-PLOR NIH

NMR Ensemble Information
Conformer Selection Criteria	lowest energy structures
Conformers Calculated Total Number	960
Conformers Submitted Total Number	55
Representative Model	1 (lowest energy)

Computation: NMR Software
#	Classification	Version	Software Name	Author
1	collection	TopSpin	3.1	Bruker Biospin
2	processing	NMRPipe	8.7	Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax
3	chemical shift assignment	CcpNmr Analysis	2.3.1	CCPN
4	structure calculation	X-PLOR NIH	2.48	Schwieters, Kuszewski, Tjandra and Clore
5	data analysis	TALOS+		Yang Shen, Frank Delaglio, Gabriel Cornilescu, and Ad Bax

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.