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- PDB-1pje: Structure of the channel-forming trans-membrane domain of Virus p... -
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Basic information
Entry | Database: PDB / ID: 1pje | ||||||
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Title | Structure of the channel-forming trans-membrane domain of Virus protein "u"(Vpu) from HIV-1 | ||||||
![]() | VPU protein | ||||||
![]() | VIRAL PROTEIN / ALPHA-HELIX | ||||||
Function / homology | ![]() receptor catabolic process / CD4 receptor binding / viral release from host cell / host cell membrane / monoatomic cation channel activity / suppression by virus of host tetherin activity / symbiont-mediated suppression of host type I interferon-mediated signaling pathway / membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | SOLID-STATE NMR / Direct structural fitting of 2D solid-state NMR data | ||||||
![]() | Park, S.H. / Mrse, A.A. / Nevzorov, A.A. / Mesleh, M.F. / Oblatt-Montal, M. / Montal, M. / Opella, S.J. | ||||||
![]() | ![]() Title: Three-dimensional structure of the channel-forming trans-membrane domain of Virus protein "u" (Vpu) from HIV-1 Authors: Park, S.H. / Mrse, A.A. / Nevzorov, A.A. / Mesleh, M.F. / Oblatt-Montal, M. / Montal, M. / Opella, S.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 11.1 KB | Display | ![]() |
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PDB format | ![]() | 4.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 249.4 KB | Display | ![]() |
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Full document | ![]() | 249.1 KB | Display | |
Data in XML | ![]() | 1.4 KB | Display | |
Data in CIF | ![]() | 1.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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NMR ensembles |
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Components
#1: Protein/peptide | Mass: 3873.885 Da / Num. of mol.: 1 / Fragment: Trans-membrane domain / Mutation: Y29G Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: SOLID-STATE NMR |
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NMR experiment | Type: PISEMA |
NMR details | Text: PISEMA: Polarization Inversion Spin Exchange at the Magic Angle |
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Sample preparation
Details | Contents: Completely aligned sample in glass plates: 3.5 mg Vpu2-30+ U-15N, 75 mg lipid mixture (DOPC:DOPG, 9:1) |
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Sample conditions | pH: 7.0 / Pressure: ambient / Temperature: 293 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
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Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
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Processing
NMR software |
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Refinement | Method: Direct structural fitting of 2D solid-state NMR data Software ordinal: 1 Details: This structure was calculated by using a structural fitting algorithm that finds torsion angles between consecutive residues based on their NMR frequencies | ||||||||||||||||
NMR representative | Selection criteria: minimized average structure | ||||||||||||||||
NMR ensemble | Conformer selection criteria: minimized average structure / Conformers calculated total number: 100 / Conformers submitted total number: 1 |