SASBDB entries for UniProt ID:

SASDH59 – Human Cation-independent mannose-6-phosphate receptor domains 9-10 wih mannose-6-phosphate

UniProt ID: P11717 (1222-1510) Cation-independent mannose-6-phosphate receptor
Cation-independent mannose-6-phosphate receptor experimental SAS data
OTHER model
Sample: Cation-independent mannose-6-phosphate receptor dimer, 67 kDa Homo sapiens protein
Buffer: 25 mM Tris, 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2020 Jan 25
Structure of the Human Cation-Independent Mannose 6-Phosphate/IGF2 Receptor Domains 7–11 Uncovers the Mannose 6-Phosphate Binding Site of Domain 9 Structure (2020)
Bochel A, Williams C, McCoy A, Hoppe H, Winter A, Nicholls R, Harlos K, Jones E, Berger I, Hassan A, Crump M
RgGuinier 3.3 nm
Dmax 9.1 nm
VolumePorod 88 nm3

SASDHW9 – Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein (amino acids 38-499): DHPHDEP1

UniProt ID: Q8TCU6 (38-499) Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein
Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein experimental SAS data
Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein (amino acids 38-499): DHPHDEP1 Rg histogram
Sample: Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 1 protein monomer, 54 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 300 mM NaCl, pH: 7
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2019 Oct 19
The first DEP domain of the RhoGEF P-Rex1 autoinhibits activity andcontributes to membrane binding. J Biol Chem (2020)
Ravala SK, Hopkins JB, Plescia CB, Allgood SR, Kane MA, Cash JN, Stahelin RV, Tesmer JJG
RgGuinier 3.0 nm
Dmax 10.4 nm
VolumePorod 77 nm3

SASDJQ2 – Dephosphorylated tyrosyl-DNA phosphodiesterase 1 (TDP1-Ppi)

UniProt ID: Q9NUW8 (1-608) Tyrosyl-DNA phosphodiesterase 1 (dephosphorylated)
Tyrosyl-DNA phosphodiesterase 1 (dephosphorylated) experimental SAS data
BILBOMD model
Sample: Tyrosyl-DNA phosphodiesterase 1 (dephosphorylated) monomer, 71 kDa Homo sapiens protein
Buffer: 200 mM NaCl, 20 mM Tris-HCl, pH 7.5, 2% glycerol, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Jun 26
Direct interaction of DNA repair protein tyrosyl DNA phosphodiesterase 1 and the DNA ligase III catalytic domain is regulated by phosphorylation of its flexible N-terminus. J Biol Chem :100921 (2021)
Rashid I, Hammel M, Sverzhinsky A, Tsai MS, Pascal JM, Tainer JA, Tomkinson AE
RgGuinier 3.2 nm
Dmax 16.5 nm
VolumePorod 141 nm3

SASDJP4 – Mitochondrial import inner membrane translocase subunits TIM9-TIM10 in complex with TIM23

UniProt ID: O74700 (1-87) Mitochondrial import inner membrane translocase subunit TIM9

UniProt ID: P87108 (2-93) Mitochondrial import inner membrane translocase subunit TIM10

UniProt ID: P32897 (1-222) Mitochondrial import inner membrane translocase subunit TIM23
Mitochondrial import inner membrane translocase subunit TIM9Mitochondrial import inner membrane translocase subunit TIM10Mitochondrial import inner membrane translocase subunit TIM23 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Mitochondrial import inner membrane translocase subunit TIM9 trimer, 31 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM10 trimer, 31 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM23 monomer, 24 kDa Saccharomyces cerevisiae protein
Buffer: 50 mM Tris, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2017 May 18
Structural basis of client specificity in mitochondrial membrane-protein chaperones. Sci Adv 6(51) (2020)
Sučec I, Wang Y, Dakhlaoui O, Weinhäupl K, Jores T, Costa D, Hessel A, Brennich M, Rapaport D, Lindorff-Larsen K, Bersch B, Schanda P
RgGuinier 3.2 nm
Dmax 7.7 nm
VolumePorod 146 nm3

SASDJU4 – X-ray repair cross-complementing proteins 5 and 6

UniProt ID: P12956 (1-609) X-ray repair cross-complementing protein 6

UniProt ID: P13010 (1-732) X-ray repair cross-complementing protein 5
X-ray repair cross-complementing protein 6X-ray repair cross-complementing protein 5 experimental SAS data
BILBOMD model
Sample: X-ray repair cross-complementing protein 6 monomer, 70 kDa Homo sapiens protein
X-ray repair cross-complementing protein 5 monomer, 83 kDa Homo sapiens protein
Buffer: 50 mM Hepes, 50 mM KCl, 5 mM MgCl2, 5% glycerol and 0.2 mM DTT, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Mar 12
Visualizing functional dynamicity in the DNA-dependent protein kinase holoenzyme DNA-PK complex by integrating SAXS with cryo-EM. Prog Biophys Mol Biol (2020)
Hammel M, Rosenberg DJ, Bierma J, Hura GL, Lees-Miller SP, Tainer JA
RgGuinier 4.2 nm
Dmax 14.9 nm
VolumePorod 253 nm3

SASDJC5 – LINC complex between the SUN domain of SUN1 and KASH domain of Nesprin-4 - SUN1-KASH4 6:6 complex

UniProt ID: O94901 (616-812) SUN domain-containing protein 1

UniProt ID: Q8N205 (376-404) Nesprin-4
SUN domain-containing protein 1Nesprin-4 experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: SUN domain-containing protein 1 hexamer, 135 kDa Homo sapiens protein
Nesprin-4 hexamer, 20 kDa Homo sapiens protein
Buffer: 20 mM Tris pH 8.0, 150 mM KCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 May 21
A molecular mechanism for LINC complex branching by structurally diverse SUN-KASH 6:6 assemblies. Elife 10 (2021)
Gurusaran M, Davies OR
RgGuinier 4.0 nm
Dmax 13.5 nm
VolumePorod 240 nm3

SASDJQ5 – Chitin-binding protein CbpD (Pseudomonas aeruginosa) at 24 °C

UniProt ID: Q9I589 (26-389) Chitin-binding protein CbpD
Chitin-binding protein CbpD experimental SAS data
OTHER model
Sample: Chitin-binding protein CbpD monomer, 39 kDa Pseudomonas aeruginosa protein
Buffer: 15 mM Tris-HCl 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at Bruker Nanostar with InCoatec Cu microsource, RECX, University of Oslo on 2019 Jul 19
The lytic polysaccharide monooxygenase CbpD promotes Pseudomonas aeruginosa virulence in systemic infection. Nat Commun 12(1):1230 (2021)
Askarian F, Uchiyama S, Masson H, Sørensen HV, Golten O, Bunæs AC, Mekasha S, Røhr ÅK, Kommedal E, Ludviksen JA, Arntzen MØ, Schmidt B, Zurich RH, van Sorge NM, Eijsink VGH, Krengel U, Mollnes TE, Lewis NE, Nizet V, Vaaje-Kolstad G
RgGuinier 3.3 nm
Dmax 12.1 nm
VolumePorod 50 nm3

SASDJF6 – Apo-full-length protein titrated with Cd(II) ions

UniProt ID: Q39459 (2-79) Metallothionein-like protein 2
Metallothionein-like protein 2 experimental SAS data
Apo-full-length protein titrated with Cd(II) ions Rg histogram
Sample: Metallothionein-like protein 2 monomer, 8 kDa Cicer arietinum protein
Buffer: 10 mM Tris, 50 mM NaCl + 1mM TCEP (apoMT), pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Aug 8
Structural Characterization of Plant Metallothionein
Dima Molodenskiy
RgGuinier 2.6 nm
Dmax 10.0 nm
VolumePorod 13 nm3

SASDK32 – Mammalian cell entry protein 1A (Mce1A38-454)

UniProt ID: Q79FZ9 (38-454) Mce-family protein Mce1A

UniProt ID: None (None-None) n-Dodecyl-β-D-Maltopyranoside
Mce-family protein Mce1An-Dodecyl-β-D-Maltopyranoside experimental SAS data
CUSTOM IN-HOUSE model
Sample: Mce-family protein Mce1A monomer, 48 kDa Mycobacterium tuberculosis protein
N-Dodecyl-β-D-Maltopyranoside 0, 112 kDa
Buffer: 50 mM Tris, 500 mM NaCl, 10% Glycerol, 5mM DDM, 1 mM β-ME, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 May 13
Structural insights into the substrate-binding proteins Mce1A and Mce4A from Mycobacterium tuberculosis IUCrJ 8(5) (2021)
Asthana P, Singh D, Pedersen J, Hynönen M, Sulu R, Murthy A, Laitaoja M, Jänis J, Riley L, Venkatesan R
RgGuinier 5.3 nm
Dmax 21.6 nm
VolumePorod 362 nm3

SASDKD6 – NURS complex subunit red1

UniProt ID: Q9UTR8 (288-345) NURS complex subunit red1
NURS complex subunit red1 experimental SAS data
NURS complex subunit red1 Kratky plot
Sample: NURS complex subunit red1 monomer, 8 kDa Schizosaccharomyces pombe (strain … protein
Buffer: 20 mM HEPES, pH 7.5, 150 mM NaCl, 1mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Nov 12
Mechanistic insights into RNA surveillance by the canonical poly(A) polymerase Pla1 of the MTREC complex. Nat Commun 14(1):772 (2023)
Soni K, Sivadas A, Horvath A, Dobrev N, Hayashi R, Kiss L, Simon B, Wild K, Sinning I, Fischer T
RgGuinier 2.5 nm
Dmax 8.7 nm
VolumePorod 12 nm3