2GOF

Three-dimensional structure of the trans-membrane domain of Vpu from HIV-1 in aligned phospholipid bicelles

DOI: 10.2210/pdb2GOF/pdb

Classification: VIRAL PROTEIN
Organism(s): Human immunodeficiency virus 1
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-04-12 Released: 2006-08-08
Deposition Author(s): Park, S.H., De Angelis, A.A., Nevzorov, A.A., Wu, C.H., Opella, S.J.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 21
Selection Criteria: first 20 structures

wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Three-Dimensional Structure of the Transmembrane Domain of Vpu from HIV-1 in Aligned Phospholipid Bicelles.

Park, S.H., De Angelis, A.A., Nevzorov, A.A., Wu, C.H., Opella, S.J.

(2006) Biophys J 91: 3032-3042

PubMed: 16861273 Search on PubMedSearch on PubMed Central
DOI: 10.1529/biophysj.106.087106
Primary Citation of Related Structures:
2GOH, 2GOF

PubMed Abstract:

The three-dimensional backbone structure of the transmembrane domain of Vpu from HIV-1 was determined by solid-state NMR spectroscopy in two magnetically-aligned phospholipid bilayer environments (bicelles) that differed in their hydrophobic thickness. Isotopically labeled samples of Vpu(2-30+), a 36-residue polypeptide containing residues 2-30 from the N-terminus of Vpu, were incorporated into large (q = 3.2 or 3.0) phospholipid bicelles composed of long-chain ether-linked lipids (14-O-PC or 16-O-PC) and short-chain lipids (6-O-PC). The protein-containing bicelles are aligned in the static magnetic field of the NMR spectrometer. Wheel-like patterns of resonances characteristic of tilted transmembrane helices were observed in two-dimensional (1)H/(15)N PISEMA spectra of uniformly (15)N-labeled Vpu(2-30+) obtained on bicelle samples with their bilayer normals aligned perpendicular or parallel to the direction of the magnetic field. The NMR experiments were performed at a (1)H resonance frequency of 900 MHz, and this resulted in improved data compared to lower-resonance frequencies. Analysis of the polarity-index slant-angle wheels and dipolar waves demonstrates the presence of a transmembrane alpha-helix spanning residues 8-25 in both 14-O-PC and 16-O-PC bicelles, which is consistent with results obtained previously in micelles by solution NMR and mechanically aligned lipid bilayers by solid-state NMR. The three-dimensional backbone structures were obtained by structural fitting to the orientation-dependent (15)N chemical shift and (1)H-(15)N dipolar coupling frequencies. Tilt angles of 30 degrees and 21 degrees are observed in 14-O-PC and 16-O-PC bicelles, respectively, which are consistent with the values previously determined for the same polypeptide in mechanically-aligned DMPC and DOPC bilayers. The difference in tilt angle in C14 and C16 bilayer environments is also consistent with previous results indicating that the transmembrane helix of Vpu responds to hydrophobic mismatch by changing its tilt angle. The kink found in the middle of the helix in the longer-chain C18 bilayers aligned on glass plates was not found in either of these shorter-chain (C14 or C16) bilayers.

Organizational Affiliation:

Department of Chemistry and Biochemistry, University of California at San Diego, La Jolla, California 92093-0307, USA.

Macromolecules

Find similar proteins by:

(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
VPU protein	A	35	Human immunodeficiency virus 1	Mutation(s): 1 Gene Names: vpu
Find proteins for Q70625 (Human immunodeficiency virus type 1 group M subtype B (isolate LW123)) Explore Q70625 Go to UniProtKB: Q70625
Protein Feature View Expand
Reference Sequence