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Open data
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Basic information
Entry | Database: PDB / ID: 8rks | |||||||||
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Title | Structure of VPS29-VPS35 bound to the LFa motif R21 of Fam21. | |||||||||
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Function / homology | ![]() positive regulation of locomotion involved in locomotory behavior / neurotransmitter receptor transport, endosome to plasma membrane / regulation of postsynapse assembly / mitochondrion-derived vesicle / negative regulation of protein localization / negative regulation of protein homooligomerization / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Romano-Moreno, M. / Astorga-Simon, E.N. / Rojas, A.L. / Hierro, A. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Retromer-mediated recruitment of the WASH complex involves discrete interactions between VPS35, VPS29, and FAM21. Authors: Romano-Moreno, M. / Astorga-Simon, E.N. / Rojas, A.L. / Hierro, A. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 382.6 KB | Display | ![]() |
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PDB format | ![]() | 314.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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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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4 | ![]()
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Unit cell |
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Components
#1: Protein | ![]() Mass: 20531.705 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() #2: Protein | ![]() Mass: 35834.652 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() #3: Protein/peptide | Mass: 790.818 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Details: FAM21 Peptide / Source: (gene. exp.) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.64 Å3/Da / Density % sol: 53.41 % |
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Crystal grow![]() | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 8.5 / Details: 0.1 M NaCl, 20% PEG3350 0.1 M Tris pH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Mar 20, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.972→146.15 Å / Num. obs: 31911 / % possible obs: 65.4 % / Redundancy: 7 % / Rmerge(I) obs: 0.166 / Rpim(I) all: 0.067 / Rrim(I) all: 0.18 / Net I/σ(I): 7.4 |
Reflection shell | Resolution: 2.972→3.315 Å / % possible obs: 11.7 % / Redundancy: 7 % / Rmerge(I) obs: 1.576 / Num. measured all: 11011 / Num. unique obs: 1584 / Rpim(I) all: 0.639 / Rrim(I) all: 1.703 / Net I/σ(I) obs: 1.3 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.1→146.15 Å
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Refine LS restraints |
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LS refinement shell |
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