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Open data
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Basic information
Entry | Database: PDB / ID: 4co7 | ||||||
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Title | Crystal structure of human GATE-16 | ||||||
![]() | GAMMA-AMINOBUTYRIC ACID RECEPTOR-ASSOCIATED PROTEIN-LIKE 2 | ||||||
![]() | PROTEIN TRANSPORT / AUTOPHAGY / BETA-GRASP FOLD / UBIQUITIN SUPERFAMILY | ||||||
Function / homology | ![]() negative regulation of proteasomal protein catabolic process / protein localization to endoplasmic reticulum / GABA receptor binding / intra-Golgi vesicle-mediated transport / cellular response to nitrogen starvation / phosphatidylethanolamine binding / positive regulation of ATP-dependent activity / TBC/RABGAPs / Macroautophagy / beta-tubulin binding ...negative regulation of proteasomal protein catabolic process / protein localization to endoplasmic reticulum / GABA receptor binding / intra-Golgi vesicle-mediated transport / cellular response to nitrogen starvation / phosphatidylethanolamine binding / positive regulation of ATP-dependent activity / TBC/RABGAPs / Macroautophagy / beta-tubulin binding / autophagosome membrane / autophagosome maturation / autophagosome assembly / autophagosome / SNARE binding / autophagy / protein transport / ATPase binding / cytoplasmic vesicle / microtubule binding / Golgi membrane / ubiquitin protein ligase binding / endoplasmic reticulum membrane / Golgi apparatus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Weiergraeber, O.H. / Ma, P. / Willbold, D. | ||||||
![]() | ![]() Title: Conformational Polymorphism in Autophagy-Related Protein Gate-16. Authors: Ma, P. / Schillinger, O. / Schwarten, M. / Lecher, J. / Hartmann, R. / Stoldt, M. / Mohrluder, J. / Olubiyi, O. / Strodel, B. / Willbold, D. / Weiergraber, O.H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 61 KB | Display | ![]() |
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PDB format | ![]() | 45.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 414.1 KB | Display | ![]() |
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Full document | ![]() | 415.7 KB | Display | |
Data in XML | ![]() | 11.8 KB | Display | |
Data in CIF | ![]() | 16.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1eo6S S: Starting model for refinement |
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Similar 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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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.9998, -0.01669, 0.008549), Vector: |
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Components
#1: Protein | Mass: 13830.964 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Water | ChemComp-HOH / | Sequence details | PURIFIED PROTEIN CONTAINS CLONING ARTIFACT (GS) AT N- TERMINUS | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 40 % / Description: NONE |
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Crystal grow | pH: 7 Details: 100 MM SODIUM PHOSPHATE PH 7.0, 50 MM POTASSIUM CHLORIDE, 10 MM DITHIOTHREITOL |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jul 22, 2011 / Details: FOCUSSING MIRROR |
Radiation | Monochromator: SI CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0092 Å / Relative weight: 1 |
Reflection twin | Operator: h,-k,-l / Fraction: 0.49 |
Reflection | Resolution: 2→44.29 Å / Num. obs: 14406 / % possible obs: 94.8 % / Redundancy: 2.2 % / Biso Wilson estimate: 23.3 Å2 / Rmerge(I) obs: 0.04 / Net I/σ(I): 14.2 |
Reflection shell | Resolution: 2→2.11 Å / Redundancy: 2.2 % / Rmerge(I) obs: 0.12 / Mean I/σ(I) obs: 5.8 / % possible all: 94.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1EO6 Resolution: 2→29.36 Å / σ(F): 1.43 / Phase error: 23.96 / Stereochemistry target values: TWIN_LSQ_F
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.6 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→29.36 Å
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Refine LS restraints |
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LS refinement shell |
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