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Open data
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Basic information
Entry | Database: PDB / ID: 5yb2 | ||||||
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Title | Crystal structure of LP-11/N44 | ||||||
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![]() | VIRAL PROTEIN / 6-HB / HIV-1 | ||||||
Function / homology | ![]() Synthesis and processing of ENV and VPU / evasion of host immune response / Alpha-defensins / Dectin-2 family / Binding and entry of HIV virion / positive regulation of plasma membrane raft polarization / positive regulation of receptor clustering / positive regulation of establishment of T cell polarity / host cell endosome membrane / actin filament organization ...Synthesis and processing of ENV and VPU / evasion of host immune response / Alpha-defensins / Dectin-2 family / Binding and entry of HIV virion / positive regulation of plasma membrane raft polarization / positive regulation of receptor clustering / positive regulation of establishment of T cell polarity / host cell endosome membrane / actin filament organization / Assembly Of The HIV Virion / Budding and maturation of HIV virion / clathrin-dependent endocytosis of virus by host cell / viral protein processing / symbiont entry into host cell / fusion of virus membrane with host plasma membrane / virus-mediated perturbation of host defense response / fusion of virus membrane with host endosome membrane / viral envelope / virion attachment to host cell / apoptotic process / host cell plasma membrane / structural molecule activity / virion membrane / membrane / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhang, X. / Wang, X. / He, Y. | ||||||
![]() | ![]() Title: Structural Insights into the Mechanisms of Action of Short-Peptide HIV-1 Fusion Inhibitors Targeting the Gp41 Pocket Authors: Zhang, X. / Zhu, Y. / Hu, H. / Zhang, S. / Wang, P. / Chong, H. / He, J. / Wang, X. / He, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 181.9 KB | Display | ![]() |
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PDB format | ![]() | 152.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 8020.283 Da / Num. of mol.: 5 / Fragment: UNP residues 426-467 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() #2: Protein/peptide | Mass: 5037.884 Da / Num. of mol.: 2 / Fragment: UNP residues 27-70 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() #3: Protein/peptide | Mass: 3000.415 Da / Num. of mol.: 7 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.08 Å3/Da / Density % sol: 40.98 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, sitting drop / Details: 0.1 M HEPES pH 7.5, 2.0 M Ammonium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 17, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9796 Å / Relative weight: 1 |
Reflection | Resolution: 3.8→27.72 Å / Num. obs: 5647 / % possible obs: 100 % / Redundancy: 5.7 % / Net I/σ(I): 14.4 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 3.8→27.72 Å
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LS refinement shell | Resolution: 3.8002→4.7846 Å /
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Refinement TLS params. | Method: refined / Origin x: -28.4142 Å / Origin y: 72.9693 Å / Origin z: 7.0774 Å
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Refinement TLS group | Selection details: all |