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Open data
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Basic information
Entry | Database: PDB / ID: 6oam | ||||||
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Title | Crystal Structure of ChlaDUB2 DUB domain | ||||||
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![]() | HYDROLASE/PROTEIN TRANSPORT / ![]() ![]() ![]() | ||||||
Function / homology | ![]() deNEDDylase activity / protein deneddylation / hypothalamus gonadotrophin-releasing hormone neuron development / female meiosis I / positive regulation of protein monoubiquitination / mitochondrion transport along microtubule / fat pad development / female gonad development / seminiferous tubule development / protein deubiquitination ...deNEDDylase activity / protein deneddylation / hypothalamus gonadotrophin-releasing hormone neuron development / female meiosis I / positive regulation of protein monoubiquitination / mitochondrion transport along microtubule / fat pad development / female gonad development / seminiferous tubule development / protein deubiquitination / male meiosis I / positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator / ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hausman, J.M. / Das, C. | ||||||
Funding support | ![]()
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![]() | ![]() Title: The Two Deubiquitinating Enzymes fromChlamydia trachomatisHave Distinct Ubiquitin Recognition Properties. Authors: Hausman, J.M. / Kenny, S. / Iyer, S. / Babar, A. / Qiu, J. / Fu, J. / Luo, Z.Q. / Das, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.2 KB | Display | ![]() |
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PDB format | ![]() | 106.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6mrnSC ![]() 1ubqS S: Starting model for refinement C: citing same article ( |
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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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Components
#1: Protein | Mass: 28602.465 Da / Num. of mol.: 2 / Fragment: residues 88-338 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: 434/Bu / ATCC VR-902B / Gene: cdu2, CTL0246 / Plasmid: pGEX-6P-1 / Production host: ![]() ![]() ![]() References: UniProt: B0B999, ![]() #2: Protein | ![]() Mass: 8558.857 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.47 Å3/Da / Density % sol: 50.3 % |
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Crystal grow![]() | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 0.1 M HEPES sodium pH 7.5, 0.8 M sodium phosphate monobasic monohydrate, 0.8 M sodium phosphate monobasic, 0.1M Cesium chloride |
-Data collection
Diffraction | Mean temperature: 193 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Dec 16, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.5→48.61 Å / Num. obs: 25243 / % possible obs: 99.78 % / Redundancy: 6.7 % / Rmerge(I) obs: 0.074 / Rpim(I) all: 0.031 / Net I/σ(I): 22.22 |
Reflection shell | Resolution: 2.5→2.61 Å / Num. unique obs: 3083 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 6MRN,1UBQ Resolution: 2.503→48.609 Å / SU ML: 0.35 / Cross valid method: FREE R-VALUE / σ(F): 0 / Phase error: 33.13 / Stereochemistry target values: ML
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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: 2.503→48.609 Å
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Refine LS restraints |
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LS refinement shell |
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