SASBDB entries for UniProt ID:

SASDBM6 – Nucleolysin TIA-1 isoform p40

UniProt ID: P31483-2 (93-274) Nucleolysin TIA-1 isoform p40
Nucleolysin TIA-1 isoform p40 experimental SAS data
Nucleolysin TIA-1 isoform p40 Kratky plot
Sample: Nucleolysin TIA-1 isoform p40 monomer, 21 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 100 mM NaCl, 3% v/v glycerol, pH: 7
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2015 Jul 2
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
RgGuinier 2.3 nm
Dmax 8.8 nm
VolumePorod 26 nm3

SASDBC7 – Human NEI like DNA glycosylase 1 (NEIL1)

UniProt ID: Q96FI4 (None-None) Endonuclease 8-like 1
Endonuclease 8-like 1 experimental SAS data
GASBOR model
Sample: Endonuclease 8-like 1 monomer, 45 kDa Homo sapiens protein
Buffer: 25mM HEPES 300mM NaCl 1mM DTT 10% Glycerol, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2015 Mar 13
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
RgGuinier 3.6 nm
Dmax 15.0 nm
VolumePorod 81 nm3

SASDBG7 – Dps1, DNA binding protein under starvation conditions (SEC-SAXS)

UniProt ID: Q9RS64 (1-207) DNA protection during starvation protein 1
DNA protection during starvation protein 1 experimental SAS data
GASBOR model
Sample: DNA protection during starvation protein 1 dodecamer, 276 kDa Deinococcus radiodurans R1 protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2013 Nov 22
SAXS Structural Studies of Dps from Deinococcus radiodurans Highlights the Conformation of the Mobile N-Terminal Extensions. J Mol Biol 429(5):667-687 (2017)
Santos SP, Cuypers MG, Round A, Finet S, Narayanan T, Mitchell EP, Romão CV
RgGuinier 4.2 nm
Dmax 12.8 nm
VolumePorod 437 nm3

SASDBV9 – Immunoglobulin domain 4 of Nucleoporin Pom152 (Pom152 Ig-4: amino acids 718-820)

UniProt ID: P39685 (None-None) Nucleoporin POM152
Nucleoporin POM152 experimental SAS data
MODELLER model
Sample: Nucleoporin POM152 monomer, 12 kDa Saccharomyces cerevisiae protein
Buffer: 10mM HEPES, 150mM NaCl, 10%(v/v) glycerol, 5mM DTT, pH: 7.5
Experiment: SAXS data collected at BL4-2, Stanford Synchrotron Radiation Lightsource (SSRL) on 2015 Apr 12
Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex. Structure 25(3):434-445 (2017)
Upla P, Kim SJ, Sampathkumar P, Dutta K, Cahill SM, Chemmama IE, Williams R, Bonanno JB, Rice WJ, Stokes DL, Cowburn D, Almo SC, Sali A, Rout MP, Fernandez-Martinez J
RgGuinier 1.8 nm
Dmax 6.7 nm
VolumePorod 18 nm3

SASDCT2 – Bromodomain-containing protein 2 (BRD2) tandem bromodomains

UniProt ID: P25440 (71-455) Bromodomain-containing protein 2
Bromodomain-containing protein 2 experimental SAS data
DAMMIN model
Sample: Bromodomain-containing protein 2 monomer, 43 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 2% glycerol, 0.5 mM TCEP, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2017 Jan 13
Interactome Rewiring Following Pharmacological Targeting of BET Bromodomains. Mol Cell (2018)
Lambert JP, Picaud S, Fujisawa T, Hou H, Savitsky P, Uusküla-Reimand L, Gupta GD, Abdouni H, Lin ZY, Tucholska M, Knight JDR, Gonzalez-Badillo B, St-Denis N, Newman JA, Stucki M, Pelletier L, Bandeira N, Wilson MD, Filippakopoulos P, Gingras AC
RgGuinier 5.7 nm
Dmax 21.0 nm
VolumePorod 220 nm3

SASDCS4 – Collagenase ColG s2s3as3b at pCa 3

UniProt ID: Q9X721 (787-1118) Collagenase ColG segement s2s3as3b
Collagenase ColG segement s2s3as3b experimental SAS data
DAMMIF model
Sample: Collagenase ColG segement s2s3as3b monomer, 37 kDa Hathewaya histolytica protein
Buffer: 10mM HEPES 100mM NaCl 0.2mM EGTA, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2016 Oct 12
Ca2+ - Induced Structural Change of Multi-Domain Collagen Binding Segments of Collagenases ColG and ColH from Hathewaya histolytica University of Arkansas Dissertation - (2018)
Christopher E Ruth
RgGuinier 3.0 nm
Dmax 12.7 nm
VolumePorod 52 nm3

SASDDD8 – class II apurinic/apyrimidinic-endonuclease/3'-5' exonuclease III

UniProt ID: A0A0T9L251 (1-291) Probable exodeoxyribonuclease III protein XthA
Probable exodeoxyribonuclease III protein XthA experimental SAS data
DAMMIF model
Sample: Probable exodeoxyribonuclease III protein XthA monomer, 32 kDa Mycobacterium tuberculosis protein
Buffer: 50 mM Tris-HCl 500 mM NaCl 5mM β-mercaptoethanol, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2017 May 12
M. tuberculosis class II apurinic/ apyrimidinic-endonuclease/3'-5' exonuclease (XthA) engages with NAD+-dependent DNA ligase A (LigA) to counter futile cleavage and ligation cycles in base excision repair. Nucleic Acids Res (2020)
Khanam T, Afsar M, Shukla A, Alam F, Kumar S, Soyar H, Dolma K, Pasupuleti M, Srivastava KK, Ampapathi RS, Ramachandran R
RgGuinier 2.4 nm
Dmax 7.3 nm
VolumePorod 56 nm3

SASDDQ9 – N-terminal half of herpes simplex virus type-1 inner tegument protein UL37

UniProt ID: P10221 (None-None) Inner tegument protein
Inner tegument protein experimental SAS data
DAMFILT model
Sample: Inner tegument protein monomer, 62 kDa Human alphaherpesvirus 1 protein
Buffer: 100 mM HEPES 150 mM NaCl 5% glycerol 0.1 mM tris(2-carboxyethyl)phosphine (TCEP), pH: 7.5
Experiment: SAXS data collected at G1, Cornell High Energy Synchrotron Source (CHESS) on 2017 Jun 3
The dynamic nature of the conserved tegument protein UL37 of herpesviruses. J Biol Chem 293(41):15827-15839 (2018)
Koenigsberg AL, Heldwein EE
RgGuinier 3.3 nm
Dmax 10.4 nm
VolumePorod 91 nm3

SASDDY9 – Protein translocase subunit SecA (full length, amino acids 1-901)

UniProt ID: P10408 (None-None) Protein translocase subunit SecA
Protein translocase subunit SecA experimental SAS data
Protein translocase subunit SecA Kratky plot
Sample: Protein translocase subunit SecA dimer, 204 kDa Escherichia coli protein
Buffer: 20mM HEPES, 100mM NaCl, 1mM TCEP, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2016 Jul 18
The C-terminal tail of the bacterial translocation ATPase SecA modulates its activity. Elife 8 (2019)
Jamshad M, Knowles TJ, White SA, Ward DG, Mohammed F, Rahman KF, Wynne M, Hughes GW, Kramer G, Bukau B, Huber D
RgGuinier 4.2 nm
Dmax 14.9 nm
VolumePorod 424 nm3

SASDEP3 – Senescence-associated E3 ubiquitin ligase 1, 7.3 mg/ml

UniProt ID: Q9LM76 (None-None) Senescence-associated E3 ubiquitin ligase 1
Senescence-associated E3 ubiquitin ligase 1 experimental SAS data
SASREF MX model
Sample: Senescence-associated E3 ubiquitin ligase 1 tetramer, 355 kDa Arabidopsis thaliana protein
Buffer: 50 mM Tris, 250 mM NaCl, pH: 9
Experiment: SAXS data collected at EMBL P12, PETRA III on 2015 Jun 2
Senescence-associated ubiquitin ligase 1 (SAUL1)
Haifa El Kilani, Al Kikhney
RgGuinier 6.5 nm
Dmax 24.0 nm