SASBDB entries for UniProt ID: P0DTC2

SASDJG4 – SARS-CoV-2 spike protein ACE2 receptor binding domain (RBD)

UniProt ID: P0DTC2 (319-566) Spike glycoprotein (ACE2 receptor binding domain)
Spike glycoprotein (ACE2 receptor binding domain) experimental SAS data
SASREF model
Sample: Spike glycoprotein (ACE2 receptor binding domain) monomer, 29 kDa Severe acute respiratory … protein
Buffer: 25 mM Tris 100 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 May 1
Selection, biophysical and structural analysis of synthetic nanobodies that effectively neutralize SARS-CoV-2 Nature Communications 11(1) (2020)
Custódio T, Das H, Sheward D, Hanke L, Pazicky S, Pieprzyk J, Sorgenfrei M, Schroer M, Gruzinov A, Jeffries C, Graewert M, Svergun D, Dobrev N, Remans K, Seeger M, McInerney G, Murrell B, Hällberg B, Löw C
RgGuinier 3.0 nm
Dmax 13.1 nm
VolumePorod 64 nm3

SASDJH4 – SARS-CoV-2 spike protein ACE2 receptor binding domain (RBD) bound to the synthetic nanobody Sybody 23 (Sy23)

UniProt ID: None (None-None) Synthetic nanobody Sybody 23

UniProt ID: P0DTC2 (319-566) Spike glycoprotein (ACE2 receptor binding domain)
Synthetic nanobody Sybody 23Spike glycoprotein (ACE2 receptor binding domain) experimental SAS data
CORAL model
Sample: Synthetic nanobody Sybody 23 monomer, 16 kDa synthetic construct protein
Spike glycoprotein (ACE2 receptor binding domain) monomer, 29 kDa Severe acute respiratory … protein
Buffer: 25 mM Tris 100 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 May 10
Selection, biophysical and structural analysis of synthetic nanobodies that effectively neutralize SARS-CoV-2 Nature Communications 11(1) (2020)
Custódio T, Das H, Sheward D, Hanke L, Pazicky S, Pieprzyk J, Sorgenfrei M, Schroer M, Gruzinov A, Jeffries C, Graewert M, Svergun D, Dobrev N, Remans K, Seeger M, McInerney G, Murrell B, Hällberg B, Löw C
RgGuinier 3.5 nm
Dmax 15.1 nm
VolumePorod 87 nm3

SASDQ39 – SARS-CoV-2 spike protein ACE2 receptor binding domain (RBD) - reservoir sample storage with liquid jet delivery measured using XFEL

UniProt ID: P0DTC2 (319-566) Spike glycoprotein (ACE2 receptor binding domain)
Spike glycoprotein (ACE2 receptor binding domain) experimental SAS data
Spike glycoprotein (ACE2 receptor binding domain) Kratky plot
Sample: Spike glycoprotein (ACE2 receptor binding domain) monomer, 29 kDa Severe acute respiratory … protein
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SANS data collected at SPB/SFX, European XFEL on 2021 May 14
Form factor determination of biological molecules with X-ray free electron laser small-angle scattering (XFEL-SAS). Commun Biol 6(1):1057 (2023)
Blanchet CE, Round A, Mertens HDT, Ayyer K, Graewert M, Awel S, Franke D, Dörner K, Bajt S, Bean R, Custódio TF, de Wijn R, Juncheng E, Henkel A, Gruzinov A, Jeffries CM, Kim Y, Kirkwood H, Kloos M, Knoška J, Koliyadu J, Letrun R, Löw C, Makroczyova J, Mall A, Meijers R, Pena Murillo GE, Oberthür D, Round E, Seuring C, Sikorski M, Vagovic P, Valerio J, Wollweber T, Zhuang Y, Schulz J, Haas H, Chapman HN, Mancuso AP, Svergun D
RgGuinier 3.0 nm

SASDXX6 – Angiotensin converting Enzyme 2 bound to Receptor binding domain

UniProt ID: P0DTC2 (437-508) Receptor Binding Domain

UniProt ID: Q9BYF1 (None-None) Angiotensin converting Enzyme 2
Receptor Binding DomainAngiotensin converting Enzyme 2 experimental SAS data
Receptor Binding Domain Angiotensin converting Enzyme 2 Kratky plot
Sample: Receptor Binding Domain monomer, 25 kDa Severe acute respiratory … protein
Angiotensin converting Enzyme 2 monomer, 92 kDa Homo sapiens protein
Buffer: 50mM Tris, 200mM NaCl, pH: 8
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR-Central Drug Research Institute on 2021 Jul 29
ACE2 RBD Complex
Raja Tripathi
RgGuinier 6.7 nm
Dmax 21.4 nm
VolumePorod 783 nm3

SASDXZ6 – Receptor Binding Domain of SARS CoV-2

UniProt ID: P0DTC2 (319-541) Receptor Binding Domain of SARS CoV-2
Receptor Binding Domain of SARS CoV-2 experimental SAS data
Receptor Binding Domain of SARS CoV-2 Kratky plot
Sample: Receptor Binding Domain of SARS CoV-2 monomer, 25 kDa protein
Buffer: 50mM Tris, 200mM NaCl, pH: 8
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR-Central Drug Research Institute on 2021 Jul 29
Receptor Binding Domain of SARS CoV-2
Raja Tripathi
RgGuinier 2.9 nm
Dmax 6.1 nm
VolumePorod 52 nm3

SASDYG7 – Angiotensin-converting Enzyme 2 with Spike glycoprotein Receptor binding domain, along with Umifenovir compound

UniProt ID: Q9BYF1 (1-805) Angiotensin-converting enzyme 2

UniProt ID: P0DTC2 (319-541) Spike glycoprotein
Angiotensin-converting enzyme 2Spike glycoprotein experimental SAS data
Angiotensin-converting enzyme 2 Spike glycoprotein Kratky plot
Sample: Angiotensin-converting enzyme 2 hexamer, 555 kDa Homo sapiens protein
Spike glycoprotein hexamer, 150 kDa Severe acute respiratory … protein
Buffer: 50mM Tris, 150mM NaCl, pH: 8
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR-Central Drug Research Institute on 2021 Oct 21
ACE 2 RBD
Raja Tripathi
RgGuinier 4.4 nm
Dmax 11.4 nm