Browse by MODEL: Ab initio only

SASDNF2 – Serine/threonine-protein phosphatase (PP1) bound to Protein phosphatase 1 (PTG)

Serine/threonine-protein phosphatase PP1-alpha catalytic subunitProtein phosphatase 1 regulatory subunit 3C experimental SAS data
DAMMIF model
Sample: Serine/threonine-protein phosphatase PP1-alpha catalytic subunit monomer, 37 kDa Homo sapiens protein
Protein phosphatase 1 regulatory subunit 3C monomer, 23 kDa Homo sapiens protein
Buffer: 50 mM Tris pH 8.0, 0.5 M NaCl, 10% glycerol, 1 mM DTT, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 7
Molecular architecture of the glycogen- committed PP1/PTG holoenzyme. Nat Commun 13(1):6199 (2022)
Semrau MS, Giachin G, Covaceuszach S, Cassetta A, Demitri N, Storici P, Lolli G
RgGuinier 3.3 nm
Dmax 11.9 nm
VolumePorod 87 nm3

SASDNG2 – Serine/threonine-protein phosphatase (PP1) bound to Protein phosphatase 1 (PTG) and cyclodextrin

Serine/threonine-protein phosphatase PP1-alpha catalytic subunitProtein phosphatase 1 regulatory subunit 3C experimental SAS data
DAMFILT model
Sample: Serine/threonine-protein phosphatase PP1-alpha catalytic subunit monomer, 37 kDa Homo sapiens protein
Protein phosphatase 1 regulatory subunit 3C monomer, 23 kDa Homo sapiens protein
Buffer: 50 mM Tris pH 8.0, 0.5 M NaCl, 10% glycerol, 1 mM DTT, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 7
Molecular architecture of the glycogen- committed PP1/PTG holoenzyme. Nat Commun 13(1):6199 (2022)
Semrau MS, Giachin G, Covaceuszach S, Cassetta A, Demitri N, Storici P, Lolli G
RgGuinier 3.6 nm
Dmax 12.3 nm
VolumePorod 89 nm3

SASDNH2 – Complex of Geobacter sulfurreducens pAgo with Sir2-like effector protein

Piwi domain proteinSir2 superfamily protein experimental SAS data
GASBOR model
Sample: Piwi domain protein monomer, 53 kDa Geobacter sulfurreducens (strain … protein
Sir2 superfamily protein monomer, 68 kDa Geobacter sulfurreducens (strain … protein
Buffer: 20 mM TrisHCl, pH 7.5, 5 mM MgCl2, 150 mM NaCl and 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Sep 27
Short prokaryotic Argonautes provide defence against incoming mobile genetic elements through NAD+ depletion Nature Microbiology (2022)
Zaremba M, Dakineviciene D, Golovinas E, Zagorskaitė E, Stankunas E, Lopatina A, Sorek R, Manakova E, Ruksenaite A, Silanskas A, Asmontas S, Grybauskas A, Tylenyte U, Jurgelaitis E, Grigaitis R, Timinskas K, Venclovas Č, Siksnys V
RgGuinier 3.6 nm
Dmax 11.4 nm
VolumePorod 185 nm3

SASDQB5 – Elongation factor Tu from Mycobacterium tuberculosis

Elongation factor Tu experimental SAS data
DAMMIN model
Sample: Elongation factor Tu monomer, 44 kDa Mycobacterium tuberculosis (strain … protein
Buffer: 20 mM Tris, 100 mM NaCl, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 Jul 12
Structural insights of the elongation factor EF-Tu complexes in protein translation of Mycobacterium tuberculosis. Commun Biol 5(1):1052 (2022)
Zhan B, Gao Y, Gao W, Li Y, Li Z, Qi Q, Lan X, Shen H, Gan J, Zhao G, Li J
RgGuinier 3.5 nm
Dmax 9.0 nm
VolumePorod 94 nm3

SASDQC5 – Elongation factor Ts from Mycobacterium tuberculosis

Elongation factor Ts experimental SAS data
DAMMIN model
Sample: Elongation factor Ts monomer, 29 kDa Mycobacterium tuberculosis (strain … protein
Buffer: 20 mM Tris, 100 mM NaCl, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 Jul 12
Structural insights of the elongation factor EF-Tu complexes in protein translation of Mycobacterium tuberculosis. Commun Biol 5(1):1052 (2022)
Zhan B, Gao Y, Gao W, Li Y, Li Z, Qi Q, Lan X, Shen H, Gan J, Zhao G, Li J
RgGuinier 2.7 nm
Dmax 10.1 nm
VolumePorod 46 nm3

SASDQD5 – Elongation factor-Tu and Elongation factor-Ts complex from Mycobacterium tuberculosis

Elongation factor TuElongation factor Ts experimental SAS data
DAMMIN model
Sample: Elongation factor Tu monomer, 44 kDa Mycobacterium tuberculosis (strain … protein
Elongation factor Ts monomer, 29 kDa Mycobacterium tuberculosis (strain … protein
Buffer: 20 mM Tris, 100 mM NaCl, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 Jul 12
Structural insights of the elongation factor EF-Tu complexes in protein translation of Mycobacterium tuberculosis. Commun Biol 5(1):1052 (2022)
Zhan B, Gao Y, Gao W, Li Y, Li Z, Qi Q, Lan X, Shen H, Gan J, Zhao G, Li J
RgGuinier 3.1 nm
Dmax 11.2 nm
VolumePorod 111 nm3

SASDP79 – Chromatin assembly factor 1 - long alpha-helix domain

Chromatin assembly factor 1 subunit A experimental SAS data
DAMMIN model
Sample: Chromatin assembly factor 1 subunit A monomer, 18 kDa Homo sapiens protein
Buffer: 20 mM sodium phosphate, 200 mM NaCl, 0.1 mM TCEP, pH: 7
Experiment: SAXS data collected at Xenocs BioXolver L with MetalJet, Département de Biochimie, Université de Montréal on 2021 Oct 28
Unorthodox PCNA Binding by Chromatin Assembly Factor 1 International Journal of Molecular Sciences 23(19):11099 (2022)
Gopinathan Nair A, Rabas N, Lejon S, Homiski C, Osborne M, Cyr N, Sverzhinsky A, Melendy T, Pascal J, Laue E, Borden K, Omichinski J, Verreault A
RgGuinier 4.1 nm
Dmax 17.2 nm
VolumePorod 54 nm3

SASDNM3 – Sperm-expressed surface protein

Sperm acrosome membrane-associated protein 6 experimental SAS data
DAMFILT model
Sample: Sperm acrosome membrane-associated protein 6 monomer, 25 kDa Homo sapiens protein
Buffer: 2.7 mM KCl, 137 mM NaCl, 10 mM Na2HPO4, 1.8 mM KH2PO4, pH: 7.4
Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2021 Dec 11
SPACA6 ectodomain structure reveals a conserved superfamily of gamete fusion-associated proteins. Commun Biol 5(1):984 (2022)
Vance TDR, Yip P, Jiménez E, Li S, Gawol D, Byrnes J, Usón I, Ziyyat A, Lee JE
RgGuinier 3.0 nm
Dmax 9.5 nm
VolumePorod 34 nm3

SASDNQ5 – Meiosis protein TEX12 (Testis-expressed protein 12) – L110E, F114E, I117E, L121E mutant

Testis-expressed protein 12 (L110E, F114E, I117E, L121E) experimental SAS data
DAMMIF model
Sample: Testis-expressed protein 12 (L110E, F114E, I117E, L121E) tetramer, 36 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM KCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Sep 15
Coiled-coil structure of meiosis protein TEX12 and conformational regulation by its C-terminal tip Communications Biology 5(1) (2022)
Dunce J, Salmon L, Davies O
RgGuinier 3.3 nm
Dmax 12.9 nm
VolumePorod 59 nm3

SASDMX6 – 40-mer single stranded DNA inhibitor of DNA dC->dU-editing enzyme APOBEC3G

40-mer single stranded inhibitory DNA experimental SAS data
DAMFILT model
Sample: 40-mer single stranded inhibitory DNA monomer, 12 kDa DNA
Buffer: 50 mM phosphate pH 6.0, 200 mM NaCl, 2 mM β-mercaptoethanol (β-ME), 5% glycerol, 200 µM Na2-EDTA, pH: 6
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2019 Aug 8
Small-Angle X-ray Scattering (SAXS) Measurements of APOBEC3G Provide Structural Basis for Binding of Single-Stranded DNA and Processivity Viruses 14(9):1974 (2022)
Barzak F, Ryan T, Mohammadzadeh N, Harjes S, Kvach M, Kurup H, Krause K, Chelico L, Filichev V, Harjes E, Jameson G
RgGuinier 3.2 nm
Dmax 11.8 nm
VolumePorod 26 nm3