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- SASDHD2: Urate Oxidase (Uricase) from Aspergillus flavus, measured by SEC-SAXS -

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Open data


ID or keywords:

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Basic information

Entry
Database: SASBDB / ID: SASDHD2
SampleUrate Oxidase (Uricase) from Aspergillus flavus, measured by SEC-SAXS
  • Urate Oxidase (Uricase) from Aspergillus flavus (protein), Urate Oxidase, Aspergillus flavus
Function / homology
Function and homology information


purine nucleobase catabolic process / urate oxidase activity / factor-independent urate hydroxylase / urate catabolic process / peroxisome
Similarity search - Function
Uricase, conserved site / Uricase signature. / Uricase / Uricase
Similarity search - Domain/homology
Biological speciesAspergillus flavus (mold)
Contact author
  • Tsutomu Matsui (SLAC, Stanford Synchrotron Radiation Lightsource, Menlo Park, CA, USA)

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #3924
Type: mix / Radius of dummy atoms: 1.90 A / Symmetry: P222 / Chi-square value: 0.24 / P-value: 0.063771
Model #3925
Type: dummy / Radius of dummy atoms: 2.75 A / Symmetry: P22
Comment: An averaged model was calculated from 10 independent DAMMIF models and then further refined by DAMMI
Chi-square value: 0.224 / P-value: 0.025627

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Sample

SampleName: Urate Oxidase (Uricase) from Aspergillus flavus, measured by SEC-SAXS
Specimen concentration: 5 mg/ml
BufferName: 20 mM Tris. 150 mM NaCl, 1 mM EDTA, 5 mM DTT / Concentration: 20.00 mM / pH: 8 / Composition: 150mM NaCl, 1mM EDTA, 5mM DTT
Entity #1967Name: Urate Oxidase / Type: protein
Description: Urate Oxidase (Uricase) from Aspergillus flavus
Formula weight: 34.24 / Num. of mol.: 4 / Source: Aspergillus flavus / References: UniProt: Q00511
Sequence: MSAVKAARYG KDNVRVYKVH KDEKTGVQTV YEMTVCVLLE GEIETSYTKA DNSVIVATDS IKNTIYITAK QNPVTPPELF GSILGTHFIE KYNHIHAAHV NIVCHRWTRM DIDGKPHPHS FIRDSEEKRN VQVDVVEGKG IDIKSSLSGL TVLKSTNSQF WGFLRDEYTT ...Sequence:
MSAVKAARYG KDNVRVYKVH KDEKTGVQTV YEMTVCVLLE GEIETSYTKA DNSVIVATDS IKNTIYITAK QNPVTPPELF GSILGTHFIE KYNHIHAAHV NIVCHRWTRM DIDGKPHPHS FIRDSEEKRN VQVDVVEGKG IDIKSSLSGL TVLKSTNSQF WGFLRDEYTT LKETWDRILS TDVDATWQWK NFSGLQEVRS HVPKFDATWA TAREVTLKTF AEDNSASVQA TMYKMAEQIL ARQQLIETVE YSLPNKHYFE IDLSWHKGLQ NTGKNAEVFA PQSDPNGLIK CTVGRSSLKS KL

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Experimental information

BeamInstrument name: Stanford Synchrotron Radiation Lightsource (SSRL) BL4-2
City: Menlo Park, CA / 国: USA / Type of source: X-ray synchrotron / Wavelength: 0.112709 Å / Dist. spec. to detc.: 1.7 mm
DetectorName: Pilatus3 X 1M / Pixsize x: 0.172 mm
Scan
Title: Urate Oxidase (Uricase) from Aspergillus flavus, measured by SEC-SAXS
Measurement date: Jul 1, 2019 / Storage temperature: 7 °C / Cell temperature: 23 °C / Exposure time: 1 sec. / Number of frames: 500 / Unit: 1/A /
MinMax
Q0.0082 0.3
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 437 /
MinMax
Q0.010869 0.24216
P(R) point1 437
R0 92.59
Result
Type of curve: sec /
ExperimentalPorod
MW141 kDa141 kDa
Volume-225 nm3

P(R)GuinierGuinier error
Forward scattering, I00.08257 0.084 0.00021
Radius of gyration, Rg3.2 nm3.303 nm0.054

MinMax
D-9.26
Guinier point8 61

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