Structural analyses of an RNA stability element interacting with poly(A)

Torabi S, Chen Y, Zhang K, Wang J, DeGregorio S, Vaidya A, Su Z, Pabit S, Chiu W, Pollack L, Steitz J
Proceedings of the National Academy of Sciences 118(14):e2026656118 (2021 Mar 30)

doi: 10.1073/pnas.2026656118

Submitted to SASBDB: 2020 Nov 6 Published in SASBDB: 2021 Mar 2

SASDKT2 – Wild type double Element for Nuclear Expression (dENE) Sample: Wild type dENE monomer, 23 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 2.8 nm Dmax 10.8 nm VolumePorod 31 nm3

SASDKU2 – Wild type double Element for Nuclear Expression (dENE) + Poly(A)20 Sample: Wild type dENE + Poly(A)20 monomer, 30 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 2.8 nm Dmax 10.7 nm

SASDKV2 – Wild type double Element for Nuclear Expression (dENE) + Poly(A)25 Sample: Wild type dENE + Poly(A)25 monomer, 31 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 2.9 nm Dmax 10.4 nm

SASDKW2 – Wild type double Element for Nuclear Expression (dENE) + Poly(A)30 Sample: Wild type dENE + Poly(A)30 monomer, 33 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 2.9 nm Dmax 10.6 nm

SASDKX2 – double Element for Nuclear Expression (dENE) Mutant A Sample: A dENE monomer, 27 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 3.2 nm Dmax 10.9 nm

SASDKY2 – double Element for Nuclear Expression (dENE) Mutant A + Poly(A)20 Sample: A dENE + Poly(A)20 monomer, 34 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 3.2 nm Dmax 11.5 nm

SASDK23 – double Element for Nuclear Expression (dENE) Mutant A + Poly(A)30 Sample: A dENE + Poly(A)30 monomer, 37 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 3.3 nm Dmax 13.3 nm

SASDK33 – double Element for Nuclear Expression (dENE) Mutant B Sample: B dENE monomer, 24 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 2.9 nm Dmax 10.8 nm

SASDK43 – double Element for Nuclear Expression (dENE) Mutant B + Poly(A)30 Sample: B dENE + Poly(A)30 monomer, 34 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 3.2 nm Dmax 11.8 nm

SASDK63 – double Element for Nuclear Expression (dENE) Mutant C Sample: C dENE monomer, 29 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 3.4 nm Dmax 12.4 nm

SASDK73 – double Element for Nuclear Expression (dENE) Crystal Structure Sample: Xtal dENE monomer, 28 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at G1, Cornell High Energy Synchrotron Source (CHESS) on 2019 Dec 5 RgGuinier 3.1 nm Dmax 11.0 nm

SASDK83 – double Element for Nuclear Expression (dENE) Mutant C + Poly(A)30 Sample: C dENE + Poly(A)30 monomer, 39 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 3.6 nm Dmax 14.8 nm

SASDKA3 – double Element for Nuclear Expression (dENE) Crystal Structure + Poly(A)25 Sample: Xtal dENE + Poly(A)25 monomer, 36 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at G1, Cornell High Energy Synchrotron Source (CHESS) on 2019 Dec 5 RgGuinier 3.3 nm Dmax 12.4 nm

SASDKB3 – double Element for Nuclear Expression (dENE) Crystal Structure + Poly(A)30 Sample: Xtal dENE + Poly(A)30 monomer, 38 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at G1, Cornell High Energy Synchrotron Source (CHESS) on 2019 Dec 5 RgGuinier 3.5 nm Dmax 13.2 nm

SASDKC3 – double Element for Nuclear Expression (dENE) Mutant A + Poly(A)25 Sample: A dENE + Poly(A)25 monomer, 36 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Jun 7 RgGuinier 3.3 nm Dmax 12.4 nm

SASDKD3 – double Element for Nuclear Expression (dENE) Mutant B + Hairpin - Poly(A)30 Sample: B dENE + Hairpin - Poly(A)30 monomer, 39 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2019 Sep 20 RgGuinier 3.5 nm Dmax 14.0 nm

SASDKE3 – double Element for Nuclear Expression (dENE) Crystal Structure + Poly(A)20 Sample: Xtal dENE + Poly(A)20 monomer, 34 kDa RNA Buffer: 50 mM KCl, 1.0 mM MgCl2, 10 mM MOPS, 25 uM EDTA, pH: 7 Experiment: SAXS data collected at G1, Cornell High Energy Synchrotron Source (CHESS) on 2019 Dec 5 RgGuinier 3.2 nm Dmax 11.8 nm