Small Angle Scattering Biological Data Bank SASBDB

SASBDB entries for UniProt ID:

SASDSZ6 – Outer membrane protein MIP (LpMIP) with bound inhibitor JK095

UniProt ID: Q5ZXE0 (21-233) Outer membrane protein MIP

Outer membrane protein MIP experimental SAS data

Sample:	Outer membrane protein MIP dimer, 46 kDa Legionella pneumophila subsp. … protein
Buffer:	20 mM Tris-HCl, 150 mM NaCl, 10 mM DTT, pH: 7.5
Experiment:	SAXS data collected at EMBL P12, PETRA III on 2021 Mar 16

Legionella pneumophila macrophage infectivity potentiator protein appendage domains modulate protein dynamics and inhibitor binding International Journal of Biological Macromolecules :126366 (2023)
Wiedemann C, Whittaker J, Carrillo V, Goretzki B, Dajka M, Tebbe F, Harder J, Krajczy P, Joseph B, Hausch F, Guskov A, Hellmich U

R_g^Guinier	3.1	nm
D_max	10.2	nm
Volume^Porod	65	nm³

SASDS27 – Outer membrane protein MIP (LpMIP) with bound inhibitor JK236

UniProt ID: Q5ZXE0 (21-233) Outer membrane protein MIP

Sample:	Outer membrane protein MIP dimer, 46 kDa Legionella pneumophila subsp. … protein
Buffer:	20 mM Tris-HCl, 150 mM NaCl, 10 mM DTT, pH: 7.5
Experiment:	SAXS data collected at EMBL P12, PETRA III on 2021 Mar 16

R_g^Guinier	3.1	nm
D_max	9.4	nm
Volume^Porod	63	nm³

SASDS47 – 1-Deoxy-D-xylulose-5-phosphate reductoisomerase (DXR)

UniProt ID: V5B5Y5 (183-632) 1-deoxy-D-xylulose-5-phosphate reductoisomerase (G328C, K361E, S551G)

1-deoxy-D-xylulose-5-phosphate reductoisomerase (G328C, K361E, S551G) experimental SAS data

1-Deoxy-D-xylulose-5-phosphate reductoisomerase (DXR) Rg histogram

Sample:	1-deoxy-D-xylulose-5-phosphate reductoisomerase (G328C, K361E, S551G) dimer, 104 kDa Toxoplasma gondii (strain … protein
Buffer:	20 mM Tris/HCl, 150 mM NaCl, 40 mM MgCl2, 2% glycerol,, pH: 7.5
Experiment:	SAXS data collected at BM29, ESRF on 2023 Apr 25

1-deoxy-D-xylulose 5-phosphate reductoisomerase (DXR) as target for anti Toxoplasma gondii agents: crystal structure, biochemical characterisation and biological evaluation of inhibitors Biochemical Journal (2024)
Mazzone F, Hoeppner A, Reiners J, Gertzen C, Applegate V, Abdullaziz M, Gottstein J, Degrandi D, Wesemann M, Kurz T, Smits S, Pfeffer K

R_g^Guinier	3.3	nm
D_max	10.4	nm
Volume^Porod	176	nm³

SASDS57 – Heterotrimeric membrane protein complex FtsB-FtsL-FtsQ

UniProt ID: P0A6S5 (1-103) Cell division protein FtsB

UniProt ID: P0AEN4 (1-121) Cell division protein FtsL

UniProt ID: P06136 (1-276) Cell division protein FtsQ

Cell division protein FtsBCell division protein FtsLCell division protein FtsQ experimental SAS data

Sample:	Cell division protein FtsB hexamer, 70 kDa Escherichia coli (strain … protein Cell division protein FtsL hexamer, 82 kDa Escherichia coli (strain … protein Cell division protein FtsQ hexamer, 189 kDa Escherichia coli (strain … protein
Buffer:	20 mM HEPES pH 7.5, 200 mM NaCl, 0.2% of Cymal-5, pH: 7.5
Experiment:	SAXS data collected at 13A, Taiwan Photon Source, NSRRC on 2022 Sep 23

Structure of the heterotrimeric membrane protein complex FtsB-FtsL-FtsQ of the bacterial divisome Nature Communications 14(1) (2023)
Nguyen H, Chen X, Parada C, Luo A, Shih O, Jeng U, Huang C, Shih Y, Ma C

R_g^Guinier	5.3	nm
D_max	16.5	nm
Volume^Porod	421	nm³

SASDS67 – Complex of BCL-6 corepressor linker-PUFD bound to Polycomb group RING finger protein 1 RAWUL, Lysine-specific demethylase 2B F-box-LRRs, and S-phase kinase-associated protein 1

UniProt ID: Q6W2J9 (1607-1748) BCL-6 corepressor

UniProt ID: Q8NHM5 (1059-1336) Lysine-specific demethylase 2B

UniProt ID: Q9BSM1 (150-255) Polycomb group RING finger protein 1

UniProt ID: P63208 (1-163) S-phase kinase-associated protein 1

BCL-6 corepressorLysine-specific demethylase 2BPolycomb group RING finger protein 1S-phase kinase-associated protein 1 experimental SAS data

Sample:	BCL-6 corepressor monomer, 16 kDa Homo sapiens protein Lysine-specific demethylase 2B monomer, 32 kDa Homo sapiens protein Polycomb group RING finger protein 1 monomer, 13 kDa Homo sapiens protein S-phase kinase-associated protein 1 monomer, 19 kDa Homo sapiens protein
Buffer:	20 mM Tris-HCl, 150 mM NaCl, pH: 7.5
Experiment:	SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2022 Sep 1

Calcium modulates the tethering of BCOR-PRC1.1 enzymatic core to KDM2B via liquid-liquid phase separation. Commun Biol 7(1):1112 (2024)
Chen R, Shen F, Zhang Y, Sun M, Dong Y, Yin Y, Su C, Peng C, Liu J, Xu J

R_g^Guinier	3.3	nm
D_max	11.5	nm
Volume^Porod	118	nm³

SASDS77 – Complex of BCL-6 corepressor ANK-linker-PUFD bound to Polycomb group RING finger protein 1 RAWUL, Lysine-specific demethylase 2B F-box-LRRs, and S-phase kinase-associated protein 1

UniProt ID: Q8NHM5 (1059-1336) Lysine-specific demethylase 2B

UniProt ID: Q9BSM1 (150-255) Polycomb group RING finger protein 1

UniProt ID: P63208 (1-163) S-phase kinase-associated protein 1

UniProt ID: Q6W2J9 (1461-1748) BCL-6 corepressor

Lysine-specific demethylase 2BPolycomb group RING finger protein 1S-phase kinase-associated protein 1BCL-6 corepressor experimental SAS data

Sample:	Lysine-specific demethylase 2B monomer, 32 kDa Homo sapiens protein Polycomb group RING finger protein 1 monomer, 13 kDa Homo sapiens protein S-phase kinase-associated protein 1 monomer, 19 kDa Homo sapiens protein BCL-6 corepressor monomer, 32 kDa Homo sapiens protein
Buffer:	20 mM Tris-HCl, 150 mM NaCl, pH: 7.5
Experiment:	SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 Jul 16

R_g^Guinier	3.9	nm
D_max	16.5	nm
Volume^Porod	190	nm³

SASDS87 – polymerase alpha-primase polΔcat-prim in the absence of substrate

UniProt ID: Q14181 (155-598) DNA polymerase alpha subunit B

UniProt ID: P09884 (1265-1462) DNA polymerase alpha catalytic subunit

UniProt ID: P49643 (1-509) DNA primase large subunit

UniProt ID: P49642 (1-420) DNA primase small subunit

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase large subunitDNA primase small subunit experimental SAS data

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase large subunit monomer, 59 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MgCl2, 1 mM TCEP, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Dec 13

Flexibility and distributive synthesis regulate RNA priming and handoff in human DNA polymerase α-primase Journal of Molecular Biology :168330 (2023)
Cordoba J, Mullins E, Salay L, Eichman B, Chazin W

R_g^Guinier	4.6	nm
D_max	15.1	nm
Volume^Porod	300	nm³

SASDS97 – polymerase alpha-primase polΔcat-prim bound to DNA in the presence of RNA initiation factors

UniProt ID: Q14181 (155-598) DNA polymerase alpha subunit B

UniProt ID: P09884 (1265-1462) DNA polymerase alpha catalytic subunit

UniProt ID: P49643 (1-509) DNA primase large subunit

UniProt ID: P49642 (1-420) DNA primase small subunit

UniProt ID: None (None-None) 22mer DNA template

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase large subunitDNA primase small subunit22mer DNA template experimental SAS data

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase large subunit monomer, 59 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein 22mer DNA template monomer, 7 kDa DNA
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MnCl2, 1 mM TCEP, 1 mM 5'-guanylylmethylenediphosphonate (GMPCPP), pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2020 Dec 4

R_g^Guinier	4.6	nm
D_max	14.2	nm
Volume^Porod	310	nm³

SASDSA7 – polymerase alpha-primase polΔcat-prim bound to DNA in the presence of an RNA-primed template

UniProt ID: Q14181 (155-598) DNA polymerase alpha subunit B

UniProt ID: P09884 (1265-1462) DNA polymerase alpha catalytic subunit

UniProt ID: P49643 (1-509) DNA primase large subunit

UniProt ID: P49642 (1-420) DNA primase small subunit

UniProt ID: None (None-None) 29 mer DNA template

UniProt ID: None (None-None) 8mer RNA primer

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase large subunitDNA primase small subunit29 mer DNA template8mer RNA primer experimental SAS data

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase large subunit monomer, 59 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein 29 mer DNA template monomer, 9 kDa DNA 8mer RNA primer monomer, 3 kDa RNA
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MgCl2, 1 mM TCEP, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2023 Mar 28

R_g^Guinier	4.9	nm
D_max	15.3	nm
Volume^Porod	344	nm³

SASDSB7 – polymerase alpha-primase polΔcat-primΔ2C in the absence of substrate

UniProt ID: Q14181 (155-598) DNA polymerase alpha subunit B

UniProt ID: P09884 (1265-1462) DNA polymerase alpha catalytic subunit

UniProt ID: P49642 (1-420) DNA primase small subunit

UniProt ID: P49643 (1-265) DNA primase large subunit

DNA polymerase alpha subunit BDNA polymerase alpha catalytic subunitDNA primase small subunitDNA primase large subunit experimental SAS data

DNA polymerase alpha subunit B DNA polymerase alpha catalytic subunit DNA primase small subunit DNA primase large subunit Kratky plot

Sample:	DNA polymerase alpha subunit B monomer, 49 kDa Homo sapiens protein DNA polymerase alpha catalytic subunit monomer, 23 kDa Homo sapiens protein DNA primase small subunit monomer, 50 kDa Homo sapiens protein DNA primase large subunit monomer, 31 kDa Homo sapiens protein
Buffer:	20 mM HEPES, 150 mM NaCl, 5 mM MgCl2, 1 mM TCEP, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Apr 15

R_g^Guinier	4.5	nm
D_max	14.5	nm
Volume^Porod	221	nm³

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