Small Angle Scattering Biological Data Bank SASBDB

MACROMOLECULE TYPE: heterocomplex

SASDBQ6 – Nucleolysin TIA-1 isoform p40 in complex with TTTTTACTCC DNA

Nucleolysin TIA-1 isoform p40DNA (TTTTTACTCC) experimental SAS data

Nucleolysin TIA-1 isoform p40 DNA (TTTTTACTCC) Kratky plot

Sample:	Nucleolysin TIA-1 isoform p40 monomer, 21 kDa Homo sapiens protein DNA (TTTTTACTCC) monomer, 1 kDa DNA
Buffer:	20 mM HEPES, 100 mM NaCl, 3% v/v glycerol, pH: 7
Experiment:	SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2016 May 27

TIA-1 RRM23 binding and recognition of target oligonucleotides. Nucleic Acids Res 45(8):4944-4957 (2017)
Waris S, García-Mauriño SM, Sivakumaran A, Beckham SA, Loughlin FE, Gorospe M, Díaz-Moreno I, Wilce MCJ, Wilce JA

R_g^Guinier	2.1	nm
D_max	7.1	nm
Volume^Porod	32	nm³

SASDBR6 – Nucleolysin TIA-1 isoform p40 in complex with UUUUUACUCC RNA

Nucleolysin TIA-1 isoform p40RNA (UUUUUACU) experimental SAS data

Nucleolysin TIA-1 isoform p40 RNA (UUUUUACU) Kratky plot

Sample:	Nucleolysin TIA-1 isoform p40 monomer, 21 kDa Homo sapiens protein RNA (UUUUUACU) monomer, 1 kDa RNA
Buffer:	20 mM HEPES, 100 mM NaCl, 3% v/v glycerol, pH: 7
Experiment:	SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2016 May 27

R_g^Guinier	2.1	nm
D_max	6.5	nm
Volume^Porod	26	nm³

SASDJC2 – Restriction endonuclease R.AgeI complex with cognate DNA

Type-2 restriction enzyme AgeICognate DNA oligoduplex with 5'-T overhang experimental SAS data

Sample:	Type-2 restriction enzyme AgeI dimer, 61 kDa Thalassobius gelatinovorus protein Cognate DNA oligoduplex with 5'-T overhang dimer, 8 kDa DNA
Buffer:	10 mM Tris-HCl, pH 7.5, 150 mM NaCl, 5 mM CaCl₂, pH: 7.5
Experiment:	SAXS data collected at EMBL P12, PETRA III on 2013 Nov 14

Restriction endonuclease AgeI is a monomer which dimerizes to cleave DNA. Nucleic Acids Res 45(6):3547-3558 (2017)
Tamulaitiene G, Jovaisaite V, Tamulaitis G, Songailiene I, Manakova E, Zaremba M, Grazulis S, Xu SY, Siksnys V

R_g^Guinier	2.4	nm
D_max	7.4	nm
Volume^Porod	69	nm³

SASDBA7 – Human NEI like DNA glycosylase 1 (NEIL1) bound to Proliferating Cell Nuclear Antigen (PCNA) and DNA

Endonuclease 8-like 1dsDNAProliferating cell nuclear antigen experimental SAS data

Sample:	Endonuclease 8-like 1 monomer, 45 kDa Homo sapiens protein DsDNA monomer, 2 kDa DNA Proliferating cell nuclear antigen monomer, 30 kDa Homo sapiens protein
Buffer:	25mM HEPES 100mM NaCl 1mM DTT, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2016 Jan 20

Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase. Nucleic Acids Res 45(5):2897-2909 (2017)
Prakash A, Moharana K, Wallace SS, Doublié S

R_g^Guinier	3.4	nm
D_max	16.4	nm
Volume^Porod	113	nm³

SASDBB7 – Human NEI like DNA glycosylase 1 (NEIL1) bound to DNA

Endonuclease 8-like 1dsDNA experimental SAS data

Sample:	Endonuclease 8-like 1 monomer, 45 kDa Homo sapiens protein DsDNA monomer, 2 kDa DNA
Buffer:	25mM HEPES 100mM NaCl 1mM DTT, pH: 7.5
Experiment:	SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2016 Jan 20

Destabilization of the PCNA trimer mediated by its interaction with the NEIL1 DNA glycosylase. Nucleic Acids Res 45(5):2897-2909 (2017)
Prakash A, Moharana K, Wallace SS, Doublié S

R_g^Guinier	3.3	nm
D_max	17.5	nm
Volume^Porod	92	nm³

SASDBS7 – Nucleosome Core Particle: 1.2 M NaCl, 50% sucrose, 50ms - 10s time resolved data

Nucleasome Core Particle with Widom 601 DNA - HISTONE H2A-H2B HeterodimerNucleasome Core Particle with Widom 601 DNA - HISTONE H3-H4 HeterodimerNucleasome Core Particle with Widom 601 DNA - dsDNA experimental SAS data

Sample:	Nucleasome Core Particle with Widom 601 DNA - HISTONE H2A-H2B Heterodimer dimer, 48 kDa Xenopus laevis protein Nucleasome Core Particle with Widom 601 DNA - HISTONE H3-H4 Heterodimer dimer, 46 kDa Xenopus laevis protein Nucleasome Core Particle with Widom 601 DNA - dsDNA monomer, 92 kDa Xenopus laevis DNA
Buffer:	20 mM Tris-Cl, 0.1 mM EDTA, 0.1 mM DTT, 50% sucrose, 1.2 M NaCl, pH: 7.5
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2014 Apr 14

Asymmetric unwrapping of nucleosomal DNA propagates asymmetric opening and dissociation of the histone core. Proc Natl Acad Sci U S A 114(2):334-339 (2017)
Chen Y, Tokuda JM, Topping T, Meisburger SP, Pabit SA, Gloss LM, Pollack L

R_g^Guinier

5.8

SASDBT7 – Nucleosome Core Particle: 1.9 M NaCl, 50% sucrose, 50ms - 10s time resolved data

Sample:	Nucleasome Core Particle with Widom 601 DNA - HISTONE H2A-H2B Heterodimer dimer, 48 kDa Xenopus laevis protein Nucleasome Core Particle with Widom 601 DNA - HISTONE H3-H4 Heterodimer dimer, 46 kDa Xenopus laevis protein Nucleasome Core Particle with Widom 601 DNA - dsDNA monomer, 92 kDa Xenopus laevis DNA
Buffer:	20 mM Tris-Cl, 0.1 mM EDTA, 0.1 mM DTT, 50% sucrose, 1.9 M NaCl, pH: 7.5
Experiment:	SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2014 Apr 14

R_g^Guinier

6.8

SASDAZ7 – IL-6R AIR-3A 2:4 complex

AIR-3AInterleukin-6 receptor subunit alpha experimental SAS data

Sample:	AIR-3A tetramer, 26 kDa RNA Interleukin-6 receptor subunit alpha dimer, 82 kDa Homo sapiens protein
Buffer:	water, pH: 7.5
Experiment:	SAXS data collected at B21, Diamond Light Source on 2014 Oct 1

Structure and target interaction of a G-quadruplex RNA-aptamer. RNA Biol 13(10):973-987 (2016)
Szameit K, Berg K, Kruspe S, Valentini E, Magbanua E, Kwiatkowski M, Chauvot de Beauchêne I, Krichel B, Schamoni K, Uetrecht C, Svergun DI, Schlüter H, Zacharias M, Hahn U

R_g^Guinier	6.7	nm
D_max	25.0	nm
Volume^Porod	150	nm³

SASDAQ7 – PBX1-PREB1-DNA complex

Pre-B-cell leukemia transcription factor 1Homeobox protein PKNOX1DNA 22mer experimental SAS data

Sample:	Pre-B-cell leukemia transcription factor 1 monomer, 34 kDa Homo sapiens protein Homeobox protein PKNOX1 monomer, 38 kDa Homo sapiens protein DNA 22mer monomer, 12 kDa DNA
Buffer:	20 mM Tris-HCl 150 mM NaCl 5% glycerol 1 mM DTT, pH: 7.4
Experiment:	SAXS data collected at EMBL P12, PETRA III on 2013 Dec 6

The flexibility of a homeodomain transcription factor heterodimer and its allosteric regulation by DNA binding. FEBS J 283(16):3134-54 (2016)
Mathiasen L, Valentini E, Boivin S, Cattaneo A, Blasi F, Svergun DI, Bruckmann C

R_g^Guinier	4.8	nm
D_max	16.3	nm
Volume^Porod	173	nm³

SASDBZ3 – Aureochrome 1a bZIP-LOV module: PtAUREO1a bZIP-LOV (Light oxygen voltage)/DNA complex (light state)

Aureobox dsDNAAureochrome 1a bZIP-LOV module experimental SAS data

Sample:	Aureobox dsDNA monomer, 13 kDa synthetic construct DNA Aureochrome 1a bZIP-LOV module dimer, 57 kDa Phaeodactylum tricornutum protein
Buffer:	50 mM Tris 50 mM boric acid 1 mM EDTA, pH: 8
Experiment:	SAXS data collected at BM29, ESRF on 2014 Nov 6

Allosteric communication between DNA-binding and light-responsive domains of diatom class I aureochromes. Nucleic Acids Res 44(12):5957-70 (2016)
Banerjee A, Herman E, Serif M, Maestre-Reyna M, Hepp S, Pokorny R, Kroth PG, Essen LO, Kottke T

R_g^Guinier	4.5	nm
D_max	16.7	nm
Volume^Porod	97	nm³

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