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92 hits found for Ubiquitin

SASDBN2 – ...ubiquitin

Linear di-ubiquitin experimental SAS data
Human linear diubiquitin Rg histogram
Sample: ...ubiquitin monomer, 17 kDa Homo sapiens protein
Buffer: 50 mM Tris 150 mM NaCl 1 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at 5C, Pohang Accelerator Laboratory on 2014 Nov 3
...ubiquitin chains from crystallographic and solution-scattering studies expand the conformational space of polyubiquitin. Acta Crystallogr D Struct Biol 72(Pt 4):524-35 (2016)
Thach TT, Shin D, Han S, Lee S
RgGuinier 2.1 nm
Dmax 6.6 nm
VolumePorod 20 nm3

SASDBP2 – ...ubiquitin

Human linear tri-ubiquitin experimental SAS data
Human linear triubiquitin Rg histogram
Sample: ...ubiquitin monomer, 26 kDa Homo sapiens protein
Buffer: 50 mM Tris 150mM NaCl 0.5 mM EDTA, pH: 7.5
Experiment: SAXS data collected at 5C, Pohang Accelerator Laboratory on 2014 Nov 3
...ubiquitin chains from crystallographic and solution-scattering studies expand the conformational space of polyubiquitin. Acta Crystallogr D Struct Biol 72(Pt 4):524-35 (2016)
Thach TT, Shin D, Han S, Lee S
RgGuinier 2.5 nm
Dmax 8.6 nm
VolumePorod 36 nm3

SASDTP2 – Ubiquitin carboxy-terminal hydrolase L1 (UCHL1) wild type

Ubiquitin carboxyl-terminal hydrolase isozyme L1 experimental SAS data
Ubiquitin carboxyl-terminal hydrolase isozyme L1 Kratky plot
Sample: Ubiquitin carboxyl-terminal hydrolase isozyme L1 monomer, 26 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.03% NaN3, pH: 7.5
Experiment: SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2023 Sep 2
Altered protein dynamics and a more reactive catalytic cysteine in a neurodegeneration-associated UCHL1 mutant. J Mol Biol :168438 (2024)
Kenny S, Lai CH, Chiang TS, Brown K, Hewitt CS, Krabill AD, Chang HT, Wang YS, Flaherty DP, Danny Hsu ST, Das C
RgGuinier 1.9 nm
Dmax 5.9 nm
VolumePorod 26 nm3

SASDAQ2 – Ubiquitin in sodium acetate

Ubiquitin experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Ubiquitin monomer, 9 kDa Bos taurus protein
Buffer: 40 mM Sodium acetate 150 mM NaCl, pH: 5.5
Experiment: SAXS data collected at EMBL X33, DORIS III, DESY on 2012 Sep 18
Standard proteins
Darja Ruskule
RgGuinier 1.3 nm
Dmax 4.9 nm
VolumePorod 12 nm3

SASDBQ2 – ...ubiquitin

Human linear tetra-ubiquitin experimental SAS data
Human linear tetraubiquitin Rg histogram
Sample: ...ubiquitin monomer, 34 kDa Homo sapiens protein
Buffer: 50 mM Tris 150mM NaCl 0.5 mM EDTA, pH: 7.5
Experiment: SAXS data collected at 5C, Pohang Accelerator Laboratory on 2014 Nov 3
...ubiquitin chains from crystallographic and solution-scattering studies expand the conformational space of polyubiquitin. Acta Crystallogr D Struct Biol 72(Pt 4):524-35 (2016)
Thach TT, Shin D, Han S, Lee S
RgGuinier 3.1 nm
Dmax 11.2 nm
VolumePorod 49 nm3

SASDTQ2 – Ubiquitin carboxy-terminal hydrolase L1 (UCHL1) R178Q mutant

Ubiquitin carboxyl-terminal hydrolase isozyme L1 (R178Q) experimental SAS data
Ubiquitin carboxyl-terminal hydrolase isozyme L1 (R178Q) Kratky plot
Sample: Ubiquitin carboxyl-terminal hydrolase isozyme L1 (R178Q) monomer, 26 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.03% NaN3, pH: 7.5
Experiment: SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2023 Sep 2
Altered protein dynamics and a more reactive catalytic cysteine in a neurodegeneration-associated UCHL1 mutant. J Mol Biol :168438 (2024)
Kenny S, Lai CH, Chiang TS, Brown K, Hewitt CS, Krabill AD, Chang HT, Wang YS, Flaherty DP, Danny Hsu ST, Das C
RgGuinier 1.9 nm
Dmax 5.8 nm
VolumePorod 25 nm3

SASDN63 – Microtubule affinity regulating kinase (isoform MARK2, T208E point mutant)

Serine/threonine-protein kinase MARK2 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Serine/threonine-protein kinase MARK2 monomer, 36 kDa Homo sapiens protein
Buffer: 0.1 M Bis-Tris, 0.2 M ammonium citrate, 1mM DTT, pH: 6.5
Experiment: SAXS data collected at EMBL X33, DORIS III, DESY on 2006 May 16
...Ubiquitin-associated Domains of Microtubule-associated Protein/Microtubule Affinity Regulating Kinase (MARK) 1 and MARK2 Journal of Biological Chemistry 281(37):27586-27599 (2006)
Marx A, Nugoor C, Müller J, Panneerselvam S, Timm T, Bilang M, Mylonas E, Svergun D, Mandelkow E, Mandelkow E
RgGuinier 2.4 nm
Dmax 8.0 nm
VolumePorod 61 nm3

SASDJ73 – Ubiquitin-like UHRF1 with PHD and RING finger domains (TTD-L2 (123-301))

E3 ubiquitin-protein ligase UHRF1 experimental SAS data
E3 ubiquitin-protein ligase UHRF1 Kratky plot
Sample: ...ubiquitin-protein ligase UHRF1 monomer, 21 kDa Homo sapiens protein
Buffer: SAXS Buffer, pH: 7.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2018 Nov 26
Serine 298 Phosphorylation in Linker 2 of UHRF1 Regulates Ligand-Binding Property of its Tandem Tudor Domain Journal of Molecular Biology (2020)
Kori S, Jimenji T, Ekimoto T, Sato M, Kusano F, Oda T, Unoki M, Ikeguchi M, Arita K
RgGuinier 2.0 nm
Dmax 6.6 nm
VolumePorod 26 nm3

SASDN73 – Microtubule affinity regulating kinase (isoform MARK2, wild type)

Serine/threonine-protein kinase MARK2 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Serine/threonine-protein kinase MARK2 monomer, 36 kDa Homo sapiens protein
Buffer: 0.1 M Bis-Tris, 0.2 M ammonium citrate, 1mM DTT, pH: 6.5
Experiment: SAXS data collected at EMBL X33, DORIS III, DESY on 2006 May 16
...Ubiquitin-associated Domains of Microtubule-associated Protein/Microtubule Affinity Regulating Kinase (MARK) 1 and MARK2 Journal of Biological Chemistry 281(37):27586-27599 (2006)
Marx A, Nugoor C, Müller J, Panneerselvam S, Timm T, Bilang M, Mylonas E, Svergun D, Mandelkow E, Mandelkow E
RgGuinier 2.3 nm
Dmax 8.0 nm
VolumePorod 62 nm3

SASDJ83 – ...ubiquitin-like UHRF1 with PHD and RING finger domains (phTTD-L2 (123-301)

E3 ubiquitin-protein ligase UHRF1 experimental SAS data
E3 ubiquitin-protein ligase UHRF1 Kratky plot
Sample: ...ubiquitin-protein ligase UHRF1 monomer, 21 kDa Homo sapiens protein
Buffer: SAXS buffer, pH: 7.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2018 Nov 26
Serine 298 Phosphorylation in Linker 2 of UHRF1 Regulates Ligand-Binding Property of its Tandem Tudor Domain Journal of Molecular Biology (2020)
Kori S, Jimenji T, Ekimoto T, Sato M, Kusano F, Oda T, Unoki M, Ikeguchi M, Arita K
RgGuinier 2.1 nm
Dmax 7.0 nm
VolumePorod 29 nm3

SASDN83 – Microtubule affinity regulating kinase (isoform MARK1)

Serine/threonine-protein kinase MARK1 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Serine/threonine-protein kinase MARK1 monomer, 37 kDa Homo sapiens protein
Buffer: 0.1 M Bis-Tris, 0.2 M ammonium citrate, 1mM DTT, pH: 6.5
Experiment: SAXS data collected at EMBL X33, DORIS III, DESY on 2006 May 16
...Ubiquitin-associated Domains of Microtubule-associated Protein/Microtubule Affinity Regulating Kinase (MARK) 1 and MARK2 Journal of Biological Chemistry 281(37):27586-27599 (2006)
Marx A, Nugoor C, Müller J, Panneerselvam S, Timm T, Bilang M, Mylonas E, Svergun D, Mandelkow E, Mandelkow E
RgGuinier 2.3 nm
Dmax 8.0 nm
VolumePorod 64 nm3

SASDJ93 – Ubiquitin carboxyl-terminal hydrolase, MINDY2, wild-type apo-form

Ubiquitin carboxyl-terminal hydrolase MINDY-2 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Ubiquitin carboxyl-terminal hydrolase MINDY-2 monomer, 31 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Nov 23
...ubiquitinase activity in MINDY1 and MINDY2. Mol Cell (2021)
Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Gräwert TW, Knebel A, Svergun DI, Kulathu Y
RgGuinier 2.1 nm
Dmax 6.5 nm
VolumePorod 45 nm3

SASDJA3 – Ubiquitin carboxyl-terminal hydrolase, MINDY2, wild-type bound to mono-ubiquitin

Ubiquitin carboxyl-terminal hydrolase MINDY-2Polyubiquitin-C experimental SAS data
CUSTOM IN-HOUSE model
Sample: Ubiquitin carboxyl-terminal hydrolase MINDY-2 monomer, 31 kDa Homo sapiens protein
...ubiquitin-C monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Nov 23
...ubiquitinase activity in MINDY1 and MINDY2. Mol Cell (2021)
Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Gräwert TW, Knebel A, Svergun DI, Kulathu Y
RgGuinier 2.3 nm
Dmax 6.8 nm
VolumePorod 58 nm3

SASDJB3 – Ubiquitin carboxyl-terminal hydrolase, MINDY2 (C266A mutant), bound to di-ubiquitin

Ubiquitin carboxyl-terminal hydrolase C266A mutantPolyubiquitin-C experimental SAS data
CUSTOM IN-HOUSE model
Sample: Ubiquitin carboxyl-terminal hydrolase C266A mutant monomer, 31 kDa Homo sapiens protein
...ubiquitin-C dimer, 17 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Nov 23
...ubiquitinase activity in MINDY1 and MINDY2. Mol Cell (2021)
Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Gräwert TW, Knebel A, Svergun DI, Kulathu Y
RgGuinier 2.5 nm
Dmax 8.0 nm
VolumePorod 68 nm3

SASDJC3 – Ubiquitin carboxyl-terminal hydrolase, MINDY2 (C266A mutant), bound to tri-ubiquitin

Ubiquitin carboxyl-terminal hydrolase C266A mutantPolyubiquitin-C experimental SAS data
CUSTOM IN-HOUSE model
Sample: Ubiquitin carboxyl-terminal hydrolase C266A mutant monomer, 31 kDa Homo sapiens protein
...ubiquitin-C trimer, 26 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 May 26
...ubiquitinase activity in MINDY1 and MINDY2. Mol Cell (2021)
Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Gräwert TW, Knebel A, Svergun DI, Kulathu Y
RgGuinier 2.8 nm
Dmax 8.8 nm
VolumePorod 97 nm3

SASDJD3 – Ubiquitin carboxyl-terminal hydrolase, MINDY2 (C266A mutant), bound to tetra-ubiquitin

Ubiquitin carboxyl-terminal hydrolase C266A mutantPolyubiquitin-C experimental SAS data
CUSTOM IN-HOUSE model
Sample: Ubiquitin carboxyl-terminal hydrolase C266A mutant monomer, 31 kDa Homo sapiens protein
...ubiquitin-C tetramer, 34 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 May 26
...ubiquitinase activity in MINDY1 and MINDY2. Mol Cell (2021)
Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Gräwert TW, Knebel A, Svergun DI, Kulathu Y
RgGuinier 2.9 nm
Dmax 9.2 nm
VolumePorod 111 nm3

SASDJE3 – Ubiquitin carboxyl-terminal hydrolase, MINDY2 (C266A mutant), bound to penta-ubiquitin

Ubiquitin carboxyl-terminal hydrolase C266A mutantPolyubiquitin-C experimental SAS data
CUSTOM IN-HOUSE model
Sample: Ubiquitin carboxyl-terminal hydrolase C266A mutant monomer, 31 kDa Homo sapiens protein
...ubiquitin-C pentamer, 43 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 5 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 May 26
...ubiquitinase activity in MINDY1 and MINDY2. Mol Cell (2021)
Abdul Rehman SA, Armstrong LA, Lange SM, Kristariyanto YA, Gräwert TW, Knebel A, Svergun DI, Kulathu Y
RgGuinier 2.8 nm
Dmax 9.0 nm
VolumePorod 116 nm3

SASDBR3 – ...Ubiquitin

E3 ubiquitin-protein ligase RNF8Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A)Polyubiquitin-C experimental SAS data
MES-FOXS model
Sample: ...ubiquitin-protein ligase RNF8 dimer, 35 kDa Homo sapiens protein
Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A) dimer, 36 kDa Homo sapiens protein
...ubiquitin-C dimer, 17 kDa Homo sapiens protein
Buffer: 20 mM HEPES 200 mM NaCl 0.01 mM ZnSO4 1 mM DTT, pH: 6.8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2015 Sep 8
...Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. J Biol Chem 291(18):9396-410 (2016)
Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer JA, Hendzel MJ, Glover JN
RgGuinier 4.5 nm
Dmax 18.9 nm
VolumePorod 119 nm3

SASDBS3 – ...Ubiquitin

E3 ubiquitin-protein ligase RNF8Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A)Polyubiquitin-CUbiquitin-conjugating enzyme E2 variant 2 experimental SAS data
MES-FOXS model
Sample: ...ubiquitin-protein ligase RNF8 dimer, 35 kDa Homo sapiens protein
Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A) dimer, 36 kDa Homo sapiens protein
...ubiquitin-C dimer, 17 kDa Homo sapiens protein
Ubiquitin-conjugating enzyme E2 variant 2 dimer, 34 kDa Homo sapiens protein
Buffer: 20 mM HEPES 200 mM NaCl 0.01 mM ZnSO4 1 mM DTT, pH: 6.8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2015 Sep 8
...Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. J Biol Chem 291(18):9396-410 (2016)
Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer JA, Hendzel MJ, Glover JN
RgGuinier 5.4 nm
Dmax 23.8 nm
VolumePorod 214 nm3

SASDBT3 – ...Ubiquitin

Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A)Polyubiquitin-CE3 ubiquitin-protein ligase RNF8 mutant (L451D) experimental SAS data
MES-FOXS model
Sample: Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A) dimer, 36 kDa Homo sapiens protein
...ubiquitin-C dimer, 17 kDa Homo sapiens protein
...ubiquitin-protein ligase RNF8 mutant (L451D) dimer, 35 kDa Homo sapiens protein
Buffer: 20 mM HEPES 200 mM NaCl 0.01 mM ZnSO4 1 mM DTT, pH: 6.8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2015 Sep 8
...Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. J Biol Chem 291(18):9396-410 (2016)
Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer JA, Hendzel MJ, Glover JN
RgGuinier 4.3 nm
Dmax 18.9 nm
VolumePorod 111 nm3

SASDBU3 – ...Ubiquitin

Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A)Polyubiquitin-CUbiquitin-conjugating enzyme E2 variant 2E3 ubiquitin-protein ligase RNF8 mutant (L451D) experimental SAS data
MES-FOXS model
Sample: Ubiquitin-conjugating enzyme E2 N double mutant (C87K, K92A) dimer, 36 kDa Homo sapiens protein
...ubiquitin-C dimer, 17 kDa Homo sapiens protein
Ubiquitin-conjugating enzyme E2 variant 2 dimer, 34 kDa Homo sapiens protein
...ubiquitin-protein ligase RNF8 mutant (L451D) dimer, 35 kDa Homo sapiens protein
Buffer: 20 mM HEPES 200 mM NaCl 0.01 mM ZnSO4 1 mM DTT, pH: 6.8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2015 Sep 8
...Ubiquitin Ligase Stimulates Ubc13 E2 Conjugating Activity That Is Essential for DNA Double Strand Break Signaling and BRCA1 Tumor Suppressor Recruitment. J Biol Chem 291(18):9396-410 (2016)
Hodge CD, Ismail IH, Edwards RA, Hura GL, Xiao AT, Tainer JA, Hendzel MJ, Glover JN
RgGuinier 5.2 nm
Dmax 23.8 nm
VolumePorod 192 nm3

SASDF24 – Full-length X-chromosome linked inhibitor of apoptosis protein (XIAP)

E3 ubiquitin-protein ligase XIAP experimental SAS data
HADDOCK model
Sample: ...ubiquitin-protein ligase XIAP dimer, 113 kDa Homo sapiens protein
Buffer: Xiap buffer, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 Sep 15
Conformational characterization of full-length X-chromosome-linked inhibitor of apoptosis protein (XIAP) through an integrated approach. IUCrJ 6(Pt 5):948-957 (2019)
Polykretis P, Luchinat E, Bonucci A, Giachetti A, Graewert MA, Svergun DI, Banci L
RgGuinier 3.9 nm
Dmax 12.8 nm
VolumePorod 207 nm3

SASDP34 – Ubiquitin-conjugating enzyme E2 conjugated to deuterated Ubiquitin (SANS data at 0% v/v D2O, plus additional SANS with contrast variation and SAXS datasets)

Ubiquitin-conjugating enzyme E2 D1 (S22R, C85K, D87S)Ubiquitin experimental SAS data
MONSA model
Sample: Ubiquitin-conjugating enzyme E2 D1 (S22R, C85K, D87S) monomer, 17 kDa Homo sapiens protein
Ubiquitin monomer, 9 kDa Homo sapiens protein
Buffer: 50 mM Tris, 150 mM NaCl, 1 mM TCEP, pH: 8
Experiment: SANS data collected at Quokka - Small Angle Neutron Scattering, Australian Centre for Neutron Scattering (ANSTO) on 2019 May 24
Production and characterisation of modularly deuterated UBE2D1–Ub conjugate by small angle neutron and X-ray scattering European Biophysics Journal (2022)
Pietras Z, Duff A, Morad V, Wood K, Jeffries C, Sunnerhagen M
RgGuinier 2.1 nm
Dmax 7.4 nm

SASDD65 – Ubiquitinating/deubiquitinating enzyme SdeA 207 914

Ubiquitinating/deubiquitinating enzyme SdeA experimental SAS data
OTHER model
Sample: Ubiquitinating/deubiquitinating enzyme SdeA monomer, 72 kDa Legionella pneumophila subsp. … protein
Buffer: 10 mM HEPES 150 mM NaCl 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 Nov 26
...ubiquitination. Nature 557(7707):734-738 (2018)
Kalayil S, Bhogaraju S, Bonn F, Shin D, Liu Y, Gan N, Basquin J, Grumati P, Luo ZQ, Dikic I
RgGuinier 3.5 nm
Dmax 11.2 nm
VolumePorod 128 nm3

SASDJ95 – ...ubiquitin-protein ligase BRE1 complexed with E2 ubiquitin conjugating enzyme RAD6

E3 ubiquitin-protein ligase BRE1Ubiquitin-conjugating enzyme E2 2 experimental SAS data
SREFLEX model
Sample: ...ubiquitin-protein ligase BRE1 dimer, 50 kDa Saccharomyces cerevisiae (strain … protein
Ubiquitin-conjugating enzyme E2 2 monomer, 20 kDa Saccharomyces cerevisiae (strain … protein
Buffer: 50 mM Tris, 150 mM NaCl, 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2014 Feb 11
...ubiquitin-conjugating enzyme (Rad6) in E3 ligase (Bre1) mediated recognition of histones International Journal of Biological Macromolecules :127717 (2023)
Yadav P, Gupta M, Wazahat R, Islam Z, Tsutakawa S, Kamthan M, Kumar P
RgGuinier 4.1 nm
Dmax 10.4 nm
VolumePorod 105 nm3

SASDJA5 – ...ubiquitin conjugating enzyme RAD6

Ubiquitin-conjugating enzyme E2 2 experimental SAS data
SREFLEX model
Sample: Ubiquitin-conjugating enzyme E2 2 monomer, 20 kDa Saccharomyces cerevisiae (strain … protein
Buffer: 50 mM Tris, 150 mM NaCl, 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2014 Feb 11
...ubiquitin-conjugating enzyme (Rad6) in E3 ligase (Bre1) mediated recognition of histones International Journal of Biological Macromolecules :127717 (2023)
Yadav P, Gupta M, Wazahat R, Islam Z, Tsutakawa S, Kamthan M, Kumar P
RgGuinier 2.3 nm
Dmax 6.6 nm
VolumePorod 31 nm3

SASDTC5 – ...ubiquitin-protein ligase HACE1

E3 ubiquitin-protein ligase HACE1 experimental SAS data
GASBOR model
Sample: ...ubiquitin-protein ligase HACE1 dimer, 205 kDa Homo sapiens protein
Buffer: 50 mM HEPES, 50 mM NaCl, 5 mM DTT, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2023 Apr 21
...ubiquitin ligase HACE1 Nature Structural & Molecular Biology (2024)
Düring J, Wolter M, Toplak J, Torres C, Dybkov O, Fokkens T, Bohnsack K, Urlaub H, Steinchen W, Dienemann C, Lorenz S
RgGuinier 5.2 nm
Dmax 16.4 nm
VolumePorod 379 nm3

SASDTD5 – ...ubiquitin-protein ligase HACE1

E3 ubiquitin-protein ligase HACE1 experimental SAS data
MULTIFOXS model
Sample: ...ubiquitin-protein ligase HACE1 monomer, 100 kDa Homo sapiens protein
Buffer: 50 mM HEPES, 50 mM NaCl, 5 mM DTT, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2023 Apr 21
...ubiquitin ligase HACE1 Nature Structural & Molecular Biology (2024)
Düring J, Wolter M, Toplak J, Torres C, Dybkov O, Fokkens T, Bohnsack K, Urlaub H, Steinchen W, Dienemann C, Lorenz S
RgGuinier 4.6 nm
Dmax 17.8 nm
VolumePorod 219 nm3

SASDLP5 – ...ubiquitin

Josephin domain of ataxin-3Polyubiquitin-B experimental SAS data
DAMMIF model
Sample: Josephin domain of ataxin-3 monomer, 21 kDa Homo sapiens protein
...ubiquitin-B monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Na-phosphate, 2 mM DTT, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Oct 7
...ubiquitination. Front Mol Biosci 2:2 (2015)
Faggiano S, Menon RP, Kelly GP, Todi SV, Scaglione KM, Konarev PV, Svergun DI, Paulson HL, Pastore A
RgGuinier 2.1 nm
Dmax 6.5 nm
VolumePorod 45 nm3

SASDK86 – wild-type TRIM72 (Tripartite motif-containing protein 72)

Tripartite motif-containing protein 72 experimental SAS data
DAMMIN model
Sample: Tripartite motif-containing protein 72 dimer, 105 kDa Mus musculus protein
Buffer: 25 mM Tris-HCl, pH 8.0, 300 mM NaCl, 1 mM TCEP, 1 mM DTT, pH: 8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 7
...ubiquitin ligase TRIM72 on the membrane. Nat Struct Mol Biol (2023)
Park SH, Han J, Jeong BC, Song JH, Jang SH, Jeong H, Kim BH, Ko YG, Park ZY, Lee KE, Hyun J, Song HK
RgGuinier 6.9 nm
Dmax 24.0 nm
VolumePorod 384 nm3

SASDK96 – tripartite motif-containing protein 72 (TRIM72) lacking the zinc finger RING domain (ΔRING)

Tripartite motif-containing protein 72 experimental SAS data
OTHER model
Sample: Tripartite motif-containing protein 72 dimer, 88 kDa Mus musculus protein
Buffer: 25 mM Tris-HCl, pH 8.0, 300 mM NaCl, 1 mM TCEP, 1 mM DTT, pH: 8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 7
...ubiquitin ligase TRIM72 on the membrane. Nat Struct Mol Biol (2023)
Park SH, Han J, Jeong BC, Song JH, Jang SH, Jeong H, Kim BH, Ko YG, Park ZY, Lee KE, Hyun J, Song HK
RgGuinier 5.1 nm
Dmax 18.7 nm
VolumePorod 142 nm3

SASDED6 – Proliferating cell nuclear antigen - UbPCNA - Split Fusion Trimer

Proliferating cell nuclear antigen experimental SAS data
UIOWA_BD model
Sample: Proliferating cell nuclear antigen trimer, 117 kDa Saccharomyces cerevisiae protein
Buffer: 20 mM Tris, 150 mM NaCl, 5% glycerol, 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2018 Aug 6
...Ubiquitin-Modified and SUMO-Modified PCNA Shown by Full-Ensemble Hybrid Methods. J Mol Biol 430(24):5294-5303 (2018)
Powers KT, Lavering ED, Washington MT
RgGuinier 4.1 nm
Dmax 14.0 nm
VolumePorod 238 nm3

SASDEE6 – Proliferating cell nuclear antigen - SUMOPCNA - Split Fusion Trimer

Proliferating cell nuclear antigen experimental SAS data
UIOWA_BD model
Sample: Proliferating cell nuclear antigen trimer, 125 kDa Saccharomyces cerevisiae protein
Buffer: 20 mM Tris, 150 mM NaCl, 5% glycerol, 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2018 Aug 6
...Ubiquitin-Modified and SUMO-Modified PCNA Shown by Full-Ensemble Hybrid Methods. J Mol Biol 430(24):5294-5303 (2018)
Powers KT, Lavering ED, Washington MT
RgGuinier 4.7 nm
Dmax 16.9 nm
VolumePorod 310 nm3

SASDCL6 – ...ubiquitin

Polyubiquitin-C experimental SAS data
Polyubiquitin-C Kratky plot
Sample: ...ubiquitin-C dimer, 17 kDa Homo sapiens protein
Buffer: 100mM NaCl, 10mM sodium acetate, pH: 6
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2016 Mar 24
...ubiquitin chain adopts multiple conformational states for specific target recognition. Elife 4 (2015)
Liu Z, Gong Z, Jiang WX, Yang J, Zhu WK, Guo DC, Zhang WP, Liu ML, Tang C
RgGuinier 2.1 nm
Dmax 6.5 nm
VolumePorod 24 nm3

SASDCM6 – ...ubiquitin at K116

Monoubiquitinated Rab5 at K165 experimental SAS data
Small GTPase Rab5 conjugated with ubiquitin at K116 Rg histogram
Sample: ...ubiquitinated Rab5 at K165 monomer, 32 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl, 150 mM NaCl, 10 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2016 Nov 21
...ubiquitination downregulates Rab5 by disrupting effector binding and guanine nucleotide conversion. Elife 6 (2017)
Shin D, Na W, Lee JH, Kim G, Baek J, Park SH, Choi CY, Lee S
RgGuinier 2.6 nm
Dmax 8.7 nm

SASDCN6 – ...ubiquitin at K140

Monoubiquitinated Rab5 at K165 experimental SAS data
Small GTPase Rab5 conjugated with ubiquitin at K140 Rg histogram
Sample: ...ubiquitinated Rab5 at K165 monomer, 32 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl, 150 mM NaCl, 10 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2016 Nov 21
...ubiquitination downregulates Rab5 by disrupting effector binding and guanine nucleotide conversion. Elife 6 (2017)
Shin D, Na W, Lee JH, Kim G, Baek J, Park SH, Choi CY, Lee S
RgGuinier 2.3 nm
Dmax 8.4 nm

SASDCP6 – ...ubiquitin at K165

Monoubiquitinated Rab5 at K165 experimental SAS data
Small GTPase Rab5 conjugated with ubiquitin at K165 Rg histogram
Sample: ...ubiquitinated Rab5 at K165 monomer, 32 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl, 150 mM NaCl, 10 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2016 Nov 21
...ubiquitination downregulates Rab5 by disrupting effector binding and guanine nucleotide conversion. Elife 6 (2017)
Shin D, Na W, Lee JH, Kim G, Baek J, Park SH, Choi CY, Lee S
RgGuinier 2.7 nm
Dmax 9.4 nm

SASDMQ6 – ...ubiquitin-protein ligase DTX3L (M1-Q200)

E3 ubiquitin-protein ligase DTX3L experimental SAS data
E3 ubiquitin-protein ligase DTX3L Kratky plot
Sample: ...ubiquitin-protein ligase DTX3L pentamer, 114 kDa Homo sapiens protein
Buffer: 30 mM HEPES, 350 mM NaCl, 10% glycerol, 0.5 mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Feb 6
Reconstitution of the DTX3L-PARP9 complex reveals determinants for high affinity heterodimerization and multimeric assembly. Biochem J (2022)
Ashok Y, Vela-Rodríguez C, Yang CS, Alanen HI, Liu F, Paschal BM, Lehtiö L
RgGuinier 4.7 nm
Dmax 17.0 nm
VolumePorod 200 nm3

SASDR37 – ...ubiquitin

HOTag-GS-Ubiquitin experimental SAS data
HOTag-GS-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 51 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 16
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.7 nm
Dmax 14.0 nm
VolumePorod 74 nm3

SASDR47 – ...ubiquitin

HOTag6-(GS)2-Ubiquitin experimental SAS data
HOTag6-(GS)2-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 52 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 21
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.7 nm
Dmax 13.7 nm
VolumePorod 69 nm3

SASDR57 – ...ubiquitin

HOTag-(GS)4-Ubiquitin experimental SAS data
HOTag-(GS)4-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 53 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 16
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.8 nm
Dmax 14.3 nm
VolumePorod 76 nm3

SASDR67 – ...ubiquitin

HOTag-(GS)10-Ubiquitin experimental SAS data
HOTag-(GS)10-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 56 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 16
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 4.0 nm
Dmax 14.8 nm
VolumePorod 84 nm3

SASDR77 – ...ubiquitin

HOTag6-(GS)25-Ubiquitin experimental SAS data
HOTag6-(GS)25-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 65 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 21
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 4.7 nm
Dmax 19.3 nm
VolumePorod 117 nm3

SASDR87 – ...ubiquitin

HOTag-(GS)50-Ubiquitin experimental SAS data
HOTag-(GS)50-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 80 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 16
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 5.6 nm
Dmax 22.7 nm
VolumePorod 193 nm3

SASDR97 – ...ubiquitin

HOTag-PA-Ubiquitin experimental SAS data
HOTag-PA-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 51 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 16
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.7 nm
Dmax 12.9 nm
VolumePorod 73 nm3

SASDRA7 – ...ubiquitin

HOTag6-(PA)2-Ubiquitin experimental SAS data
HOTag6-(PA)2-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 52 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.8 nm
Dmax 15.0 nm
VolumePorod 74 nm3

SASDRB7 – ...ubiquitin

HOTag-(PA)4-Ubiquitin experimental SAS data
HOTag-(PA)4-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 53 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 8
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 4.1 nm
Dmax 14.4 nm
VolumePorod 78 nm3

SASDRC7 – ...ubiquitin

HOTag-(PA)25-Ubiquitin experimental SAS data
HOTag-(PA)25-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 68 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 8
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 5.1 nm
Dmax 18.4 nm
VolumePorod 106 nm3

SASDRD7 – ...ubiquitin with 200 mM NaCl

HOTag6-(GS)-Ubiquitin experimental SAS data
HOTag6-(GS)-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 51 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.5 mM EDTA, 0.02% NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 19
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.6 nm
Dmax 12.6 nm
VolumePorod 70 nm3

SASDRE7 – ...ubiquitin with 200 mM NaCl

HOTag6-(GS)4-Ubiquitin experimental SAS data
HOTag6-(GS)4-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 53 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.5 mM EDTA, 0.02% NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 19
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.8 nm
Dmax 12.8 nm
VolumePorod 114 nm3

SASDRF7 – ...ubiquitin with 200 mM NaCl

HOTag6-(GS)10-Ubiquitin experimental SAS data
HOTag6-(GS)10-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 56 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.5 mM EDTA, 0.02% NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 19
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 4.1 nm
Dmax 14.2 nm
VolumePorod 86 nm3

SASDCG7 – ...ubiquitin at pH7.4

Polyubiquitin-C experimental SAS data
Polyubiquitin-C Kratky plot
Sample: ...ubiquitin-C dimer, 17 kDa Homo sapiens protein
Buffer: 20mM HEPES, 150mM NaCl, pH: 7.4
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2016 Mar 24
Characterizing Protein Dynamics with Integrative Use of Bulk and Single-Molecule Techniques. Biochemistry 57(3):305-313 (2018)
Liu Z, Gong Z, Cao Y, Ding YH, Dong MQ, Lu YB, Zhang WP, Tang C
RgGuinier 2.0 nm
Dmax 7.0 nm
VolumePorod 22 nm3

SASDRG7 – ...ubiquitin with 200 mM NaCl

HOTag6-(PA)-Ubiquitin experimental SAS data
HOTag6-(PA)-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 51 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.5 mM EDTA, 0.02% NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 19
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.7 nm
Dmax 12.4 nm
VolumePorod 71 nm3

SASDRH7 – ...ubiquitin with 200 mM NaCl

HOTag6-(PA)4-Ubiquitin experimental SAS data
HOTag6-(PA)4-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 53 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.5 mM EDTA, 0.02% NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 19
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 4.1 nm
Dmax 14.7 nm
VolumePorod 80 nm3

SASDRJ7 – ...ubiquitin with 200 mM NaCl

HOTag6-(PA)10-Ubiquitin experimental SAS data
HOTag6-(PA)10-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 57 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.5 mM EDTA, 0.02% NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Feb 19
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 5.1 nm
Dmax 19.0 nm
VolumePorod 105 nm3

SASDRK7 – ...ubiquitin, M1(1-72)-Ub4

Polyubiquitin-B experimental SAS data
Polyubiquitin-B Kratky plot
Sample: ...ubiquitin-B monomer, 33 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.2 nm
Dmax 12.5 nm
VolumePorod 41 nm3

SASDRL7 – ...ubiquitin, M1(1-73)-Ub4

Polyubiquitin-B experimental SAS data
Polyubiquitin-B Kratky plot
Sample: ...ubiquitin-B monomer, 33 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.3 nm
Dmax 12.8 nm
VolumePorod 41 nm3

SASDRM7 – ...ubiquitin, M1(1-74)-Ub4

Polyubiquitin-B experimental SAS data
Polyubiquitin-B Kratky plot
Sample: ...ubiquitin-B monomer, 34 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.2 nm
Dmax 12.2 nm
VolumePorod 43 nm3

SASDRN7 – ...ubiquitin Pro-Ser/Gly-Ser fusion, M1(1-76)-PS(GS)4-Ub4

Tetraubiquitin, M1(1-76)-PS(GS)4-Ub4 experimental SAS data
Tetraubiquitin, M1(1-76)-PS(GS)4-Ub4 Kratky plot
Sample: ...ubiquitin, M1(1-76)-PS(GS)4-Ub4 monomer, 36 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 3.4 nm
Dmax 13.9 nm
VolumePorod 50 nm3

SASDRP7 – ...ubiquitin Glu-Ala-Lys fusion, M1(1-74)-A(EA3K)3A-Ub4

Tetraubiquitin, M1(1-74)-A(EA3K)3A-Ub experimental SAS data
Tetraubiquitin, M1(1-74)-A(EA3K)3A-Ub Kratky plot
Sample: ...ubiquitin, M1(1-74)-A(EA3K)3A-Ub monomer, 39 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 4.2 nm
Dmax 18.2 nm
VolumePorod 62 nm3

SASDRQ7 – ...ubiquitin Glu-Ala-Lys fusion, M1(1-74)-A(EA3K)6A-Ub4

Tetraubiquitin, M1(1-74)-A(EA3K)6A-Ub experimental SAS data
Tetraubiquitin, M1(1-74)-A(EA3K)6A-Ub Kratky plot
Sample: ...ubiquitin, M1(1-74)-A(EA3K)6A-Ub monomer, 43 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Nov 28
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 5.2 nm
Dmax 21.2 nm
VolumePorod 108 nm3

SASDQZ7 – Ubiquitin-specific protease 14 (USP14)

Ubiquitin carboxyl-terminal hydrolase 14 experimental SAS data
OTHER [STATIC IMAGE] model
Sample: Ubiquitin carboxyl-terminal hydrolase 14 monomer, 56 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 2 mM TCEP, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2018 Oct 18
Transient interdomain interactions in free USP14 shape its conformational ensemble. Protein Sci 33(5):e4975 (2024)
Salomonsson J, Wallner B, Sjöstrand L, D'Arcy P, Sunnerhagen M, Ahlner A
RgGuinier 3.1 nm
Dmax 12.5 nm
VolumePorod 111 nm3

SASDQ28 – ...ubiquitin-specific protease 14 (USP14)

Ubiquitin carboxyl-terminal hydrolase 14 experimental SAS data
DAMMIN model
Sample: Ubiquitin carboxyl-terminal hydrolase 14 monomer, 46 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 2 mM TCEP, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jul 5
Transient interdomain interactions in free USP14 shape its conformational ensemble. Protein Sci 33(5):e4975 (2024)
Salomonsson J, Wallner B, Sjöstrand L, D'Arcy P, Sunnerhagen M, Ahlner A
RgGuinier 2.6 nm
Dmax 8.3 nm
VolumePorod 88 nm3

SASDK78 – ...ubiquitin/ISG15 ligase TRIM25, apo form (TRIM25 apo)

E3 ubiquitin/ISG15 ligase TRIM25 experimental SAS data
E3 ubiquitin/ISG15 ligase TRIM25 Kratky plot
Sample: ...ubiquitin/ISG15 ligase TRIM25 dimer, 100 kDa Homo sapiens protein
Buffer: 20 mM MES, 75 mM NaCl, 1 mM TCEP, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Nov 19
...ubiquitination by TRIM25
Kevin Haubrich
RgGuinier 6.8 nm
Dmax 30.2 nm

SASDK88 – ...ubiquitin/ISG15 ligase TRIM25 bound to pre-let-7-a-1@1 RNA (TRIM25/pre-let-7)

E3 ubiquitin/ISG15 ligase TRIM25pre-let-7-a-1@1 experimental SAS data
E3 ubiquitin/ISG15 ligase TRIM25 pre-let-7-a-1@1 Kratky plot
Sample: ...ubiquitin/ISG15 ligase TRIM25 dimer, 100 kDa Homo sapiens protein
pre-let-7-a-1@1 monomer, 9 kDa synthetic construct RNA
Buffer: 20 mM MES, 75 mM NaCl, 1 mM TCEP, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 May 14
...ubiquitination by TRIM25
Kevin Haubrich
RgGuinier 5.7 nm
Dmax 19.8 nm

SASDK98 – ...ubiquitin/ISG15 ligase TRIM25 bound to pre-let-7-a-1@1 RNA (TRIM25/pre-let-7): SEC-SAXS

E3 ubiquitin/ISG15 ligase TRIM25pre-let-7-a-1@1 experimental SAS data
E3 ubiquitin/ISG15 ligase TRIM25 pre-let-7-a-1@1 Kratky plot
Sample: ...ubiquitin/ISG15 ligase TRIM25 dimer, 100 kDa Homo sapiens protein
pre-let-7-a-1@1 monomer, 9 kDa synthetic construct RNA
Buffer: 20 mM MES, 75 mM NaCl, 1 mM TCEP, pH: 6.5
Experiment: SAXS data collected at BM29, ESRF on 2018 Jun 4
...ubiquitination by TRIM25
Kevin Haubrich
RgGuinier 5.7 nm
Dmax 23.0 nm

SASDKA8 – ...ubiquitin/ISG15 ligase TRIM25 bound to lnczc3h7a_304-326 RNA (TRIM25/lnczc3h7a)

E3 ubiquitin/ISG15 ligase TRIM25lnczc3h7a_304-326 experimental SAS data
E3 ubiquitin/ISG15 ligase TRIM25 lnczc3h7a_304-326 Kratky plot
Sample: ...ubiquitin/ISG15 ligase TRIM25 dimer, 100 kDa Homo sapiens protein
lnczc3h7a_304-326 monomer, 8 kDa Homo sapiens RNA
Buffer: 20 mM MES, 75 mM NaCl, 1 mM TCEP, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Jun 12
...ubiquitination by TRIM25
Kevin Haubrich
RgGuinier 5.8 nm
Dmax 16.6 nm

SASDRK8 – ...ubiquitin

HOTag-(PA)25-Ubiquitin experimental SAS data
HOTag-(PA)25-Ubiquitin Kratky plot
Sample: ...Ubiquitin tetramer, 68 kDa synthetic construct protein
Buffer: 20 mM sodium phosphate, 0.5 mM EDTA, 0.02 % NaN3, pH: 6.8
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Mar 22
...ubiquitin ligand-induced phase transitions are optimized by spacing between ubiquitin units Proceedings of the National Academy of Sciences 120(42) (2023)
Galagedera S, Dao T, Enos S, Chaudhuri A, Schmit J, Castañeda C
RgGuinier 6.3 nm
Dmax 24.9 nm
VolumePorod 180 nm3

SASDCT8 – Uncharacterized protein CTHT_0072540 (Core) from Chaetomium thermophilum

hypothetical protein CTHT_0072540 experimental SAS data
DAMMIF model
Sample: hypothetical protein CTHT_0072540 tetramer, 62 kDa Chaetomium thermophilum protein
Buffer: 20 mM HEPES, 100 mM NaCl, 2 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Jul 30
...Ubiquitin Ligase Activated by Stepwise Assembly of Three Splicing Factors. Mol Cell 69(6):979-992.e6 (2018)
de Moura TR, Mozaffari-Jovin S, Szabó CZK, Schmitzová J, Dybkov O, Cretu C, Kachala M, Svergun D, Urlaub H, Lührmann R, Pena V
RgGuinier 4.1 nm
Dmax 16.2 nm
VolumePorod 145 nm3

SASDCU8 – Uncharacterized protein CTHT_0072540 (WD40) from Chaetomium thermophilum

hypothetical protein CTHT_0072540 experimental SAS data
SASREF model
Sample: hypothetical protein CTHT_0072540 monomer, 35 kDa Chaetomium thermophilum protein
Buffer: 20 mM HEPES, 100 mM NaCl, 2 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Jul 19
...Ubiquitin Ligase Activated by Stepwise Assembly of Three Splicing Factors. Mol Cell 69(6):979-992.e6 (2018)
de Moura TR, Mozaffari-Jovin S, Szabó CZK, Schmitzová J, Dybkov O, Cretu C, Kachala M, Svergun D, Urlaub H, Lührmann R, Pena V
RgGuinier 2.3 nm
Dmax 5.8 nm
VolumePorod 68 nm3

SASDCV8 – Uncharacterized protein CTHT_0072540 (Prp19 full-length) from Chaetomium thermophilum

Full-length hypothetical protein CTHT_0072540 experimental SAS data
SASREF model
Sample: Full-length hypothetical protein CTHT_0072540 tetramer, 207 kDa Chaetomium thermophilum protein
Buffer: 20 mM HEPES, 100 mM NaCl, 2 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at I911-4, MAX IV on 2013 Oct 15
...Ubiquitin Ligase Activated by Stepwise Assembly of Three Splicing Factors. Mol Cell 69(6):979-992.e6 (2018)
de Moura TR, Mozaffari-Jovin S, Szabó CZK, Schmitzová J, Dybkov O, Cretu C, Kachala M, Svergun D, Urlaub H, Lührmann R, Pena V
RgGuinier 6.2 nm
Dmax 23.0 nm
VolumePorod 280 nm3

SASDL73 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 2 mg/mL + UFM1 0.5 mg/mL)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 2.9 nm
Dmax 11.0 nm

SASDEP3 – ...ubiquitin ligase 1, 7.3 mg/ml

Senescence-associated E3 ubiquitin ligase 1 experimental SAS data
SASREF MX model
Sample: ...ubiquitin ligase 1 tetramer, 355 kDa Arabidopsis thaliana protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 2
...ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 6.5 nm
Dmax 24.0 nm

SASDL83 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 3 mg/mL + UFM1 0.75 mg/ml)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.0 nm
Dmax 12.0 nm

SASDEQ3 – ...ubiquitin ligase 1, 5.6 mg/ml

Senescence-associated E3 ubiquitin ligase 1 experimental SAS data
SASREF MX model
Sample: ...ubiquitin ligase 1 tetramer, 355 kDa Arabidopsis thaliana protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 2
...ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 5.9 nm
Dmax 22.0 nm

SASDL93 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 4 mg/mL + UFM1 1.0 mg/ml)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.1 nm
Dmax 13.0 nm

SASDER3 – ...ubiquitin ligase 1, 1.8 mg/ml

Senescence-associated E3 ubiquitin ligase 1 experimental SAS data
SASREF MX model
Sample: ...ubiquitin ligase 1 tetramer, 355 kDa Arabidopsis thaliana protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 2
...ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 5.9 nm
Dmax 23.0 nm

SASDLA3 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 5 mg/mL + UFM1 1.25 mg/ml)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.1 nm
Dmax 13.0 nm
VolumePorod 100 nm3

SASDLB3 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 6 mg/mL + UFM1 1.5 mg/mL)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.1 nm
Dmax 13.0 nm
VolumePorod 103 nm3

SASDEV3 – ...ubiquitin ligase 1, 0.6 mg/ml

Senescence-associated E3 ubiquitin ligase 1 experimental SAS data
SASREF MX model
Sample: ...ubiquitin ligase 1 tetramer, 355 kDa Arabidopsis thaliana protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 2
...ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 4.6 nm
Dmax 17.2 nm
VolumePorod 230 nm3

SASDLC3 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 7 mg/mL + UFM1 1.75 mg/mL)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.1 nm
Dmax 13.0 nm
VolumePorod 104 nm3

SASDET3 – Armadillo repeat 7-11 from SAUL1

U-box domain-containing protein 44 experimental SAS data
SASREF MX model
Sample: U-box domain-containing protein 44 tetramer, 185 kDa Arabidopsis thaliana protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 2
...ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 4.5 nm
Dmax 17.4 nm
VolumePorod 245 nm3

SASDLD3 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 8 mg/mL + UFM1 2 mg/mL)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.1 nm
Dmax 13.0 nm
VolumePorod 106 nm3

SASDEU3 – GST-SAUL1

Senescence-associated E3 ubiquitin ligase 1Glutathione S-transferase experimental SAS data
CORAL model
Sample: ...ubiquitin ligase 1 tetramer, 355 kDa Arabidopsis thaliana protein
Glutathione S-transferase tetramer, 106 kDa Schistosoma japonicum protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2014 Jan 20
...ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 7.6 nm
Dmax 28.0 nm
VolumePorod 778 nm3

SASDLE3 – Ubiquitin activating enzyme 5 with ubiquitin-fold modifier 1 (UBA5 9 mg/mL + UFM1 2.25 mg/mL)

Ubiquitin-like modifier-activating enzyme 5Ubiquitin fold modifer 1 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 50 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Oct 29
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.2 nm
Dmax 14.5 nm
VolumePorod 111 nm3

SASDGG6 – Ubiquitin activating enzyme 5 (0.3 mg/ml)

Ubiquitin-like modifier-activating enzyme 5 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 2.8 nm
Dmax 9.0 nm
VolumePorod 74 nm3

SASDGH6 – Ubiquitin activating enzyme 5 (1.0 mg/ml)

Ubiquitin-like modifier-activating enzyme 5 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 2.9 nm
Dmax 10.0 nm
VolumePorod 82 nm3

SASDGM6 – Ubiquitin activating enzyme 5 (1.9 mg/ml)

Ubiquitin-like modifier-activating enzyme 5 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 2.9 nm
Dmax 9.8 nm
VolumePorod 94 nm3

SASDGL6 – Ubiquitin activating enzyme 5 (3.6 mg/ml)

Ubiquitin-like modifier-activating enzyme 5 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.0 nm
Dmax 11.0 nm
VolumePorod 97 nm3

SASDGK6 – Ubiquitin activating enzyme 5 (4.4 mg/ml)

Ubiquitin-like modifier-activating enzyme 5 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.1 nm
Dmax 12.0 nm
VolumePorod 104 nm3

SASDGJ6 – Ubiquitin activating enzyme 5 (6.8 mg/ml)

Ubiquitin-like modifier-activating enzyme 5 experimental SAS data
SASREF model
Sample: Ubiquitin-like modifier-activating enzyme 5 dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 3.2 nm
Dmax 12.0 nm
VolumePorod 108 nm3

SASDM82 – Ubiquitin-fold modifier 1

Ubiquitin fold modifer 1 experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Ubiquitin fold modifer 1 monomer, 9 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM NaCl, 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jun 13
Structure and dynamics of UBA5-UFM1 complex formation showing new insights in the UBA5 activation mechanism Journal of Structural Biology :107796 (2021)
Fuchs S, Kikhney A, Schubert R, Kaiser C, Liebau E, Svergun D, Betzel C, Perbandt M
RgGuinier 1.5 nm
Dmax 5.1 nm
VolumePorod 16 nm3