negative regulation of cellular response to oxidative stress / TCF dependent signaling in response to WNT / positive regulation of protein polyubiquitination / Degradation of AXIN / Regulation of PTEN stability and activity / poly-ADP-D-ribose binding / Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase / Inactivation of APC/C via direct inhibition of the APC/C complex / APC/C:Cdc20 mediated degradation of mitotic proteins / Aberrant regulation of mitotic exit in cancer due to RB1 defects ...negative regulation of cellular response to oxidative stress / TCF dependent signaling in response to WNT / positive regulation of protein polyubiquitination / Degradation of AXIN / Regulation of PTEN stability and activity / poly-ADP-D-ribose binding / Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase / Inactivation of APC/C via direct inhibition of the APC/C complex / APC/C:Cdc20 mediated degradation of mitotic proteins / Aberrant regulation of mitotic exit in cancer due to RB1 defects / (E3-independent) E2 ubiquitin-conjugating enzyme / Phosphorylation of the APC/C / Signaling by BMP / Ub-specific processing proteases / E2 ubiquitin-conjugating enzyme / ubiquitin conjugating enzyme activity / Regulation of APC/C activators between G1/S and early anaphase / Transcriptional Regulation by VENTX / negative regulation of BMP signaling pathway / protein K48-linked ubiquitination / protein autoubiquitination / ubiquitin ligase complex / negative regulation of TORC1 signaling / APC/C:Cdc20 mediated degradation of Cyclin B / APC-Cdc20 mediated degradation of Nek2A / Synthesis of active ubiquitin: roles of E1 and E2 enzymes / TICAM1, RIP1-mediated IKK complex recruitment / IKK complex recruitment mediated by RIP1 / Autodegradation of Cdh1 by Cdh1:APC/C / positive regulation of protein ubiquitination / APC/C:Cdc20 mediated degradation of Securin / Assembly of the pre-replicative complex / Negative regulators of DDX58/IFIH1 signaling / Cdc20:Phospho-APC/C mediated degradation of Cyclin A / Peroxisomal protein import / Regulation of TNFR1 signaling / Downregulation of SMAD2/3:SMAD4 transcriptional activity / APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1 / RING-type E3 ubiquitin transferase / Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha / Inactivation of CSF3 (G-CSF) signaling / CDK-mediated phosphorylation and removal of Cdc6 / CLEC7A (Dectin-1) signaling / Wnt signaling pathway / FCERI mediated NF-kB activation / cellular response to hydrogen peroxide / protein polyubiquitination / Separation of Sister Chromatids / ubiquitin-protein transferase activity / ubiquitin protein ligase activity / Ovarian tumor domain proteases / positive regulation of canonical Wnt signaling pathway / Antigen processing: Ubiquitination & Proteasome degradation / Downstream TCR signaling / E3 ubiquitin ligases ubiquitinate target proteins / Neddylation / Senescence-Associated Secretory Phenotype (SASP) / ubiquitin-dependent protein catabolic process / proteasome-mediated ubiquitin-dependent protein catabolic process / ubiquitin protein ligase binding / negative regulation of transcription by RNA polymerase II / enzyme binding / protein-containing complex / zinc ion binding / nucleoplasm / ATP binding / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function
E3 ubiquitin-protein ligase RNF146 / RNF146, RING finger, HC subclass / Signal recognition particle alu RNA binding heterodimer, srp9/1 - #50 / WWE domain, subgroup / Domain in Deltex and TRIP12 homologues. Possibly involved in regulation of ubiquitin-mediated proteolysis. / Signal recognition particle alu RNA binding heterodimer, srp9/1 / WWE domain / WWE domain superfamily / WWE domain / WWE domain profile. ...E3 ubiquitin-protein ligase RNF146 / RNF146, RING finger, HC subclass / Signal recognition particle alu RNA binding heterodimer, srp9/1 - #50 / WWE domain, subgroup / Domain in Deltex and TRIP12 homologues. Possibly involved in regulation of ubiquitin-mediated proteolysis. / Signal recognition particle alu RNA binding heterodimer, srp9/1 / WWE domain / WWE domain superfamily / WWE domain / WWE domain profile. / Ubiquitin Conjugating Enzyme / Ubiquitin Conjugating Enzyme / Zinc finger, C3HC4 type (RING finger) / Ubiquitin-conjugating enzyme, active site / Ubiquitin-conjugating (UBC) active site signature. / Ubiquitin-conjugating enzyme E2, catalytic domain homologues / Ubiquitin-conjugating enzyme E2 / Ubiquitin-conjugating enzyme / Ubiquitin-conjugating (UBC) core domain profile. / Ubiquitin-conjugating enzyme/RWD-like / Zinc finger, RING-type, conserved site / Zinc finger RING-type signature. / Ring finger / Zinc finger RING-type profile. / Zinc finger, RING-type / Zinc finger, RING/FYVE/PHD-type / Roll / 2-Layer Sandwich / Alpha Beta Similarity search - Domain/homology
Mass: 18.015 Da / Num. of mol.: 371 / Source method: isolated from a natural source / Formula: H2O
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Experimental details
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Experiment
Experiment
Method: X-RAY DIFFRACTION / Number of used crystals: 1
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Sample preparation
Crystal
Density Matthews: 2.75 Å3/Da / Density % sol: 55.25 %
Crystal grow
Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 0.8 M sodium citrate, 80 mM Tris HCl pH7.0, 160 mM NaCl, 4 mMDTT, 20 mM trimethylamin HCl, VAPOR DIFFUSION, HANGING DROP, temperature 295K
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Data collection
Diffraction
Mean temperature: 100 K
Diffraction source
Source: SYNCHROTRON / Site: ALS / Beamline: 8.2.1 / Wavelength: 1.283 Å
Resolution: 1.9→1.96 Å / Χ2: 0.807 / % possible all: 71.4
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Processing
Software
Name
Version
Classification
NB
DENZO
datareduction
SCALEPACK
datascaling
REFMAC
5.8.0049
refinement
PDB_EXTRACT
3.14
dataextraction
HKL-2000
datacollection
HKL-2000
datareduction
SOLVE
phasing
Refinement
Method to determine structure: SAD / Resolution: 1.9→50 Å / Cor.coef. Fo:Fc: 0.964 / Cor.coef. Fo:Fc free: 0.948 / SU B: 4.656 / SU ML: 0.08 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.145 / ESU R Free: 0.135 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED
Rfactor
Num. reflection
% reflection
Selection details
Rfree
0.222
2994
5.1 %
RANDOM
Rwork
0.1864
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-
-
all
0.1882
58752
-
-
obs
0.1882
55779
94.94 %
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Solvent computation
Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK
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