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- SASDAY8: HCoV-229E Nsp10 in the presence of Zn (HCoV-229E Non-structural p... -

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Basic information

Entry
Database: SASBDB / ID: SASDAY8
SampleHCoV-229E Nsp10 in the presence of Zn
  • HCoV-229E Non-structural protein 10 (protein), Nsp10, Human coronavirus 229E
Function / homology
Function and homology information


host cell membrane / viral genome replication / transferase activity / omega peptidase activity / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity / symbiont-mediated perturbation of host ubiquitin-like protein modification / ubiquitinyl hydrolase 1 / cysteine-type deubiquitinase activity / Hydrolases; Acting on peptide bonds (peptidases); Cysteine endopeptidases / host cell perinuclear region of cytoplasm ...host cell membrane / viral genome replication / transferase activity / omega peptidase activity / symbiont-mediated suppression of host cytoplasmic pattern recognition receptor signaling pathway via inhibition of IRF3 activity / symbiont-mediated perturbation of host ubiquitin-like protein modification / ubiquitinyl hydrolase 1 / cysteine-type deubiquitinase activity / Hydrolases; Acting on peptide bonds (peptidases); Cysteine endopeptidases / host cell perinuclear region of cytoplasm / viral protein processing / induction by virus of host autophagy / cysteine-type endopeptidase activity / virus-mediated perturbation of host defense response / proteolysis / RNA binding / zinc ion binding / membrane
Similarity search - Function
Alphacoronavirus nsp1 domain superfamily / Non-structural protein 5, alphacoronavirus / Non-structural protein 6, alphacoronavirus / Nonstructural protein 2, HCoV-229E-like / Pectin lyase fold/virulence factor / P-type ATPase, transmembrane domain superfamily / : / Coronavirus 3Ecto domain profile. / : / Coronavirus (CoV) Nsp2 middle domain profile. ...Alphacoronavirus nsp1 domain superfamily / Non-structural protein 5, alphacoronavirus / Non-structural protein 6, alphacoronavirus / Nonstructural protein 2, HCoV-229E-like / Pectin lyase fold/virulence factor / P-type ATPase, transmembrane domain superfamily / : / Coronavirus 3Ecto domain profile. / : / Coronavirus (CoV) Nsp2 middle domain profile. / Coronavirus (CoV) Nsp2 N-terminal domain profile. / Coronavirus (CoV) Nsp2 C-terminal domain profile. / NSP1, globular domain, alpha/betacoronavirus / : / Coronavirus (CoV) Nsp3 Y domain profile. / Coronavirus (CoV) Nsp1 globular domain profile. / Coronavirus replicase NSP2, N-terminal / Nonstructural protein 2, N-terminal domain, coronavirus / Coronavirus replicase NSP2, C-terminal / Non-structural protein 2, C-terminal domain, coronavirus / Coronavirus Nsp3a Ubl domain profile. / Coronavirus Nsp3d Ubl domain profile. / Coronavirus RNA-dependent RNA polymerase (RdRp) Nsp7 cofactor domain profile. / Coronavirus RNA-dependent RNA polymerase (RdRp) Nsp8 cofactor domain profile. / Coronavirus Nsp9 single-stranded RNA (ssRNA)-binding domain profile. / Coronavirus (CoV) ExoN/MTase coactivator domain profile. / NSP3, first ubiquitin-like (Ubl) domain, coronavirus / NSP3, second ubiquitin-like (Ubl) domain, coronavirus / Coronavirus Nsp4 C-terminal (Nsp4C) domain profile. / Papain-like protease, thumb domain superfamily, coronavirus / Coronavirus replicase NSP7 / Peptidase family C16 domain profile. / Non-structural protein NSP7, coronavirus / Peptidase C30, coronavirus / Peptidase C16, coronavirus / Non-structural protein NSP9, coronavirus / Non-structural protein NSP8, coronavirus / RNA synthesis protein NSP10, coronavirus / Non-structural protein NSP4, C-terminal, coronavirus / RNA synthesis protein NSP10 superfamily, coronavirus / Non-structural protein NSP9 superfamily, coronavirus / Non-structural protein NSP7 superfamily, coronavirus / Non-structural protein NSP8 superfamily, coronavirus / Non-structural protein NSP4, C-terminal superfamily, coronavirus / Peptidase C30, domain 3, coronavirus / Non-structural protein 6, coronavirus / Coronavirus replicase NSP3, C-terminal / Non-structural protein NSP4, N-terminal, coronavirus / Coronavirus endopeptidase C30 / Coronavirus papain-like peptidase / Coronavirus replicase NSP8 / Coronavirus RNA synthesis protein NSP10 / Coronavirus replicase NSP4, C-terminal / Coronavirus replicase NSP6 / Coronavirus replicase NSP4, N-terminal / Coronavirus replicase NSP3, C-terminal / Coronavirus main protease (M-pro) domain profile. / Coronavirus replicase NSP9 / Non-structural protein 3, X-domain-like / Macro domain / Appr-1"-p processing enzyme / Macro domain / Macro domain profile. / Macro domain-like / Peptidase S1, PA clan, chymotrypsin-like fold / Peptidase S1, PA clan
Similarity search - Domain/homology
Replicase polyprotein 1a
Similarity search - Component
Biological speciesHuman coronavirus 229E
Contact author
  • Al Kikhney
  • Sven Falke

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Models

Model #340
Type: atomic / Software: CORAL / Radius of dummy atoms: 1.90 A / Chi-square value: 0.741 / P-value: 0.008510
Search similar-shape structures of this assembly by Omokage search (details)
Model #341
Type: dummy / Software: DAMMIF (r4456) / Radius of dummy atoms: 1.20 A / Chi-square value: 0.391876 / P-value: 0.046000
Search similar-shape structures of this assembly by Omokage search (details)

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Sample

SampleName: HCoV-229E Nsp10 in the presence of Zn / Specimen concentration: 1.50-3.10
BufferName: HEPES / Concentration: 25.00 mM / pH: 7.6 / Comment: buffer D / Composition: 280 mM NaCl 2 mM DTT 500 µM ZnCl2
Entity #206Name: Nsp10 / Type: protein / Description: HCoV-229E Non-structural protein 10 / Formula weight: 14.5 / Num. of mol.: 1 / Source: Human coronavirus 229E / References: UniProt: P0C6U2
Sequence:
AGKQTEFVSN SHLLTHCSFA VDPAAAYLDA VKQGAKPVGN CVKMLTNGSG SGQAITCTID SNTTQDTYGG ASVCIYCRAH VAHPTMDGFC QYKGKWVQVP IGTNDPIRFC LENTVCKVCG CWLNHGCTCD RTAIQ

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Experimental information

BeamInstrument name: DORIS III X33 / City: Hamburg / 国: Germany / Shape: 0.6 / Type of source: X-ray synchrotron / Wavelength: 0.15 Å / Dist. spec. to detc.: 2.7 mm
DetectorName: Pilatus 1M-W / Pixsize x: 0.172 mm
Scan
Title: Nsp10 in presence of Zn / Measurement date: Sep 25, 2012 / Cell temperature: 10 °C / Exposure time: 15 sec. / Number of frames: 8 / Unit: 1/nm /
MinMax
Q0.0871 6.0145
Distance distribution function P(R)
Sofotware P(R): GNOM 5.0 / Number of points: 1553 /
MinMax
Q0.275774 4.52174
P(R) point1 1553
R0 5.8
Result
Type of curve: merged / Standard: BSA /
ExperimentalStandardPorod
MW13.4 kDa10 kDa13.6 kDa

GuinierP(R)P(R) errorGuinier error
Forward scattering, I09.99 ---
Radius of gyration, Rg1.74 nm1.83 nm0.05 0.03

MinMax
D-5.8
Guinier point80 242

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