Small Angle Scattering Biological Data Bank SASBDB

Browse by MODEL: Hybrid

SASDMF6 – 1XAV

cMyc promoter modified GQ parallel experimental SAS data

Sample:	CMyc promoter modified GQ parallel monomer, 7 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Aug 11

Long promoter sequences form higher-order G-quadruplexes: an integrative structural biology study of c-Myc, k-Ras and c-Kit promoter sequences. Nucleic Acids Res (2022)
Monsen RC, DeLeeuw LW, Dean WL, Gray RD, Chakravarthy S, Hopkins JB, Chaires JB, Trent JO

R_g^Guinier	1.3	nm
D_max	4.1	nm
Volume^Porod	9	nm³

SASDMG6 – 5CMX

two-tetrad antiparallel GQ with duplex junction experimental SAS data

Sample:	Two-tetrad antiparallel GQ with duplex junction monomer, 10 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Oct 3

R_g^Guinier	1.5	nm
D_max	5.2	nm
Volume^Porod	12	nm³

SASDMH6 – 2M27

VEGF promoter GQ parallel experimental SAS data

Sample:	VEGF promoter GQ parallel monomer, 7 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Nov 20

R_g^Guinier	1.3	nm
D_max	3.8	nm
Volume^Porod	8	nm³

SASDMJ6 – cMyc-8

cMyc promoter 8-tract G-quadruplex experimental SAS data

Sample:	CMyc promoter 8-tract G-quadruplex monomer, 11 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Feb 19

R_g^Guinier	1.4	nm
D_max	4.6	nm
Volume^Porod	13	nm³

SASDMK6 – cKit-8

cKit promoter 8-tract G-quadruplex experimental SAS data

Sample:	CKit promoter 8-tract G-quadruplex monomer, 12 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Feb 19

R_g^Guinier	1.5	nm
D_max	4.7	nm
Volume^Porod	15	nm³

SASDML6 – kRas-8

kRas promoter 8-tract G-quadruplex experimental SAS data

Sample:	KRas promoter 8-tract G-quadruplex monomer, 14 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Feb 19

R_g^Guinier	1.7	nm
D_max	5.6	nm
Volume^Porod	16	nm³

SASDMN6 – cKit-12

cKit promoter 12-tract G-quadruplex experimental SAS data

Sample:	CKit promoter 12-tract G-quadruplex monomer, 20 kDa synthetic construct DNA
Buffer:	6 mM Na2HPO4, 2 mM NaH2PO4, 1 mM Na2EDTA, 185 mM KCl, pH: 7.2
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2020 Mar 22

R_g^Guinier	2.5	nm
D_max	9.0	nm
Volume^Porod	26	nm³

SASDMA5 – cone-rod homeobox protein (a peptide of the DNA binding domain of CRX)

Cone-rod homeobox protein experimental SAS data

Sample:	Cone-rod homeobox protein monomer, 7 kDa Homo sapiens protein
Buffer:	50 mM sodium phosphate,100 mM NaCl, and 5 mM imidazole, pH: 7
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 Jun 15

Structural and functional analysis of the human Cone-rod homeobox transcription factor. Proteins (2022)
Clanor PB, Buchholz C, Hayes JE, Friedman MA, White AM, Enke RA, Berndsen CE

R_g^Guinier	1.2	nm
D_max	4.0	nm
Volume^Porod	10	nm³

SASDKY7 – α-L-Fucosidase isoenzyme 2 from Paenibacillus thiaminolyticus - wild type

Alpha-L-fucosidase experimental SAS data

Sample:	Alpha-L-fucosidase tetramer, 297 kDa Paenibacillus thiaminolyticus (Bacillus … protein
Buffer:	50 mM potassium phosphate, pH: 7.4
Experiment:	SAXS data collected at Anton Paar SAXSpoint 2.0, Institute of Biotechnology, Czech Academy of Sciences/Centre of Molecular Structure on 2019 Jul 16

The first structure–function study of GH151 α‐ l ‐fucosidase uncovers new oligomerization pattern, active site complementation, and selective substrate specificity The FEBS Journal (2022)
Koval'ová T, Kovaľ T, Stránský J, Kolenko P, Dušková J, Švecová L, Vodičková P, Spiwok V, Benešová E, Lipovová P, Dohnálek J

R_g^Guinier	4.2	nm
D_max	13.2	nm
Volume^Porod	418	nm³

SASDKZ7 – α-L-Fucosidase isoenzyme 2 from Paenibacillus thiaminolyticus - mutant H503A

Alpha-L-fucosidase H503A experimental SAS data

Sample:	Alpha-L-fucosidase H503A tetramer, 297 kDa Paenibacillus thiaminolyticus (Bacillus … protein
Buffer:	50 mM potassium phosphate, pH: 7.4
Experiment:	SAXS data collected at Anton Paar SAXSpoint 2.0, Institute of Biotechnology, Czech Academy of Sciences/Centre of Molecular Structure on 2019 Jul 16

R_g^Guinier	4.5	nm
D_max	13.5	nm
Volume^Porod	433	nm³

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