+Open data
-Basic information
Entry | Database: PDB / ID: 5zcx | ||||||
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Title | Structure of T20/N39 | ||||||
Components |
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Keywords | SUGAR BINDING PROTEIN / 6-HB / helices | ||||||
Function / homology | Function and homology information virus-mediated perturbation of host defense response => GO:0019049 / : / 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 ...virus-mediated perturbation of host defense response => GO:0019049 / : / 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 / virus-mediated perturbation of host defense response / 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 / membrane => GO:0016020 / viral protein processing / symbiont entry into host cell / fusion of virus membrane with host plasma membrane / fusion of virus membrane with host endosome membrane / viral envelope / virion attachment to host cell / host cell plasma membrane / virion membrane / structural molecule activity / membrane / plasma membrane Similarity search - Function | ||||||
Biological species | Human immunodeficiency virus 1 | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 2.299 Å | ||||||
Authors | Zhang, X.J. / Ding, X.H. | ||||||
Funding support | China, 1items
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Citation | Journal: AIDS / Year: 2019 Title: Structural and functional characterization of HIV-1 cell fusion inhibitor T20. Authors: Zhang, X. / Ding, X. / Zhu, Y. / Chong, H. / Cui, S. / He, J. / Wang, X. / He, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5zcx.cif.gz | 75.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5zcx.ent.gz | 61.6 KB | Display | PDB format |
PDBx/mmJSON format | 5zcx.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zc/5zcx ftp://data.pdbj.org/pub/pdb/validation_reports/zc/5zcx | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein/peptide | Mass: 4237.882 Da / Num. of mol.: 3 / Source method: obtained synthetically / Source: (synth.) Human immunodeficiency virus 1 / References: UniProt: C4MJC7, UniProt: P04578*PLUS #2: Protein/peptide | Mass: 4479.885 Da / Num. of mol.: 3 / Source method: obtained synthetically / Source: (synth.) Human immunodeficiency virus 1 / References: UniProt: Q6TAQ3, UniProt: P04578*PLUS #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.08 Å3/Da / Density % sol: 40.84 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.05 M caesium chloride 0.1 M MES pH 6.5 30 % v/v Jeffamine M-600 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U1 / Wavelength: 0.9796 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 9, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9796 Å / Relative weight: 1 |
Reflection | Resolution: 2.299→40 Å / Num. obs: 9725 / % possible obs: 100 % / Redundancy: 3.7 % / Net I/σ(I): 4.51 |
Reflection shell | Resolution: 2.299→2.381 Å |
-Processing
Software |
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Refinement | Resolution: 2.299→37.535 Å / SU ML: 0.25 / Cross valid method: NONE / σ(F): 1.37 / Phase error: 30.93
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.299→37.535 Å
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Refine LS restraints |
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LS refinement shell |
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