SASBDB entries for UniProt ID:

SASDM63 – RRM1-ZnF1-RRM2 triple domains of RNA-binding protein 5 (C191G mutant) in complex with GGCU_12 RNA

UniProt ID: P52756 (94-315) RNA Binding Motif protein 5 (I107T, C191G)

UniProt ID: None (None-None) Caspase-2 derived RNA GGCU_12
RNA Binding Motif protein 5 (I107T, C191G)Caspase-2 derived RNA GGCU_12 experimental SAS data
OTHER model
Sample: RNA Binding Motif protein 5 (I107T, C191G) monomer, 26 kDa Homo sapiens protein
Caspase-2 derived RNA GGCU_12 monomer, 4 kDa RNA
Buffer: 20 mM MES, 100 mM NaCl, 1 mM DTT, pH: 6.5
Experiment: SAXS data collected at Rigaku BioSAXS-1000, SFB 1035, Technische Universität München on 2017 Mar 1
Structural basis for specific RNA recognition by the alternative splicing factor RBM5. Nat Commun 14(1):4233 (2023)
Soni K, Jagtap PKA, Martínez-Lumbreras S, Bonnal S, Geerlof A, Stehle R, Simon B, Valcárcel J, Sattler M
RgGuinier 2.2 nm
Dmax 7.5 nm
VolumePorod 42 nm3

SASDMG3 – Tetrameric zinc-finger associated domain of Drosophila Pita protein

UniProt ID: Q95RQ8 (1-111) LD15650p (Pita, isoform A)
LD15650p (Pita, isoform A) experimental SAS data
OTHER model
Sample: LD15650p (Pita, isoform A) tetramer, 52 kDa Drosophila melanogaster protein
Buffer: 20 mM Tris, 100 mM NaCl, 5 mM DTT, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2018 Jul 8
Structural insights into highly similar spatial organization of zinc-finger associated domains with a very low sequence similarity. Structure (2022)
Bonchuk AN, Boyko KM, Nikolaeva AY, Burtseva AD, Popov VO, Georgiev PG
RgGuinier 2.4 nm
Dmax 7.6 nm
VolumePorod 62 nm3

SASDMH3 – Zinc-finger associated domain of Drosophila Pita protein L45A

UniProt ID: Q95RQ8 (1-111) LD15650p (Pita, isoform A; L45A)
LD15650p (Pita, isoform A; L45A) experimental SAS data
OTHER model
Sample: LD15650p (Pita, isoform A; L45A) dimer, 26 kDa Drosophila melanogaster protein
Buffer: 20 mM Tris, 100 mM NaCl, 5 mM DTT, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2018 Dec 17
Structural insights into highly similar spatial organization of zinc-finger associated domains with a very low sequence similarity. Structure (2022)
Bonchuk AN, Boyko KM, Nikolaeva AY, Burtseva AD, Popov VO, Georgiev PG
RgGuinier 2.3 nm
Dmax 9.5 nm
VolumePorod 35 nm3

SASDMJ3 – Zinc-finger-associated domain from Drosophila Motif 1 binding protein (M1BP)

UniProt ID: Q9VHM3 (1-98) LD30467p (Motif 1 binding protein)
LD30467p (Motif 1 binding protein) experimental SAS data
OTHER model
Sample: LD30467p (Motif 1 binding protein) dimer, 22 kDa Drosophila melanogaster protein
Buffer: 20 mM Bis-Tris-Propane, 100 mM NaCl, 5 mM DTT, pH: 8.5
Experiment: SAXS data collected at BM29, ESRF on 2018 Dec 17
Structural insights into highly similar spatial organization of zinc-finger associated domains with a very low sequence similarity. Structure (2022)
Bonchuk AN, Boyko KM, Nikolaeva AY, Burtseva AD, Popov VO, Georgiev PG
RgGuinier 2.3 nm
Dmax 9.1 nm
VolumePorod 33 nm3

SASDMK3 – Mycobacterium phage TipsytheTRex apo protein

UniProt ID: A0A2D1GKF7 (1-183) Immunity repressor
Immunity repressor experimental SAS data
BILBOMD model
Sample: Immunity repressor monomer, 24 kDa Mycobacterium phage TipsytheTRex protein
Buffer: 20 mM Tris pH 7.5, 0.5 M NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Sep 10
A monomeric mycobacteriophage immunity repressor utilizes two domains to recognize an asymmetric DNA sequence. Nat Commun 13(1):4105 (2022)
McGinnis RJ, Brambley CA, Stamey B, Green WC, Gragg KN, Cafferty ER, Terwilliger TC, Hammel M, Hollis TJ, Miller JM, Gainey MD, Wallen JR
RgGuinier 2.3 nm
Dmax 9.0 nm
VolumePorod 43 nm3

SASDML3 – Mycobacterium phage TipsytheTRex immunity repressor bound to 24mer DNA

UniProt ID: A0A2D1GKF7 (1-183) Immunity repressor

UniProt ID: None (None-None) 24mer dsDNA
Immunity repressor24mer dsDNA experimental SAS data
BILBOMD model
Sample: Immunity repressor monomer, 21 kDa Mycobacterium phage TipsytheTRex protein
24mer dsDNA monomer, 15 kDa DNA
Buffer: 20 mM Tris pH 7.5, 0.5 M NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Sep 10
A monomeric mycobacteriophage immunity repressor utilizes two domains to recognize an asymmetric DNA sequence. Nat Commun 13(1):4105 (2022)
McGinnis RJ, Brambley CA, Stamey B, Green WC, Gragg KN, Cafferty ER, Terwilliger TC, Hammel M, Hollis TJ, Miller JM, Gainey MD, Wallen JR
RgGuinier 2.4 nm
Dmax 9.0 nm
VolumePorod 43 nm3

SASDMM3 – Mycobacterium phage TipsytheTRex immunity repressor mixed with 13mer DNA

UniProt ID: A0A2D1GKF7 (1-183) Immunity repressor

UniProt ID: None (None-None) 13mer dsDNA
Immunity repressor13mer dsDNA experimental SAS data
BILBOMD model
Sample: Immunity repressor monomer, 21 kDa Mycobacterium phage TipsytheTRex protein
13mer dsDNA monomer, 8 kDa DNA
Buffer: 20 mM Tris pH 7.5, 0.5 M NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Dec 10
A monomeric mycobacteriophage immunity repressor utilizes two domains to recognize an asymmetric DNA sequence. Nat Commun 13(1):4105 (2022)
McGinnis RJ, Brambley CA, Stamey B, Green WC, Gragg KN, Cafferty ER, Terwilliger TC, Hammel M, Hollis TJ, Miller JM, Gainey MD, Wallen JR
RgGuinier 2.0 nm
Dmax 8.5 nm
VolumePorod 18 nm3

SASDMN3 – Wild type E3 ubiquitin-protein ligase LRSAM1

UniProt ID: Q6UWE0 (1-723) E3 ubiquitin-protein ligase LRSAM1
E3 ubiquitin-protein ligase LRSAM1 experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 monomer, 84 kDa Homo sapiens protein
Buffer: 25 mM Tris-HCl pH 8.0, 150 mM NaCl, 1 mM TCEP, pH: 8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 7
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 6.1 nm
Dmax 19.4 nm
VolumePorod 250 nm3

SASDMP3 – Wild type E3 ubiquitin-protein ligase LRSAM1 (1-632): C-terminal PTAP/PSAP motif and RING domain deletion mutant, ΔPTAP/PSAP-RING

UniProt ID: Q6UWE0 (1-632) E3 ubiquitin-protein ligase LRSAM1 - ΔPTAP/PSAP-RING
E3 ubiquitin-protein ligase LRSAM1 - ΔPTAP/PSAP-RING experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 - ΔPTAP/PSAP-RING monomer, 74 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl pH 8.0, 300 mM NaCl, 1 mM TCEP, 5% w/v glycerol, pH: 8
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2017 Oct 24
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 5.5 nm
Dmax 18.0 nm
VolumePorod 322 nm3

SASDMQ3 – Wild type E3 ubiquitin-protein ligase LRSAM1 (1-307): N-terminal LRR containing domain

UniProt ID: Q6UWE0 (1-307) E3 ubiquitin-protein ligase LRSAM1 - LRR containing N-terminal domain
E3 ubiquitin-protein ligase LRSAM1 - LRR containing N-terminal domain experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 - LRR containing N-terminal domain monomer, 35 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl pH 8.0, 300 mM NaCl, 1 mM TCEP, 5% w/v glycerol, pH: 8
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2017 Oct 23
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 3.4 nm
Dmax 8.2 nm
VolumePorod 105 nm3