BMRB Entry 30969

Title:
Solution Structure of Sds3 Capped Tudor Domain
Deposition date:
2021-11-23
Original release date:
2022-01-14
Authors:
Marcum, R.; Radhakrishnan, I.
Citation:

Citation: Marcum, R.; Hsieh, J.; Giljen, M.; Justice, E.; Daffern, N.; Zhang, Y.; Radhakrishnan, I.. "A Capped Tudor Domain within a Core Subunit of the Sin3L/Rpd3L Histone Deacetylase Complex Binds to Nucleic Acid G-Quadruplexes"  J. Biol. Chem. 298, 101558-101558 (2021).
PubMed: 34979096

Assembly members:

Assembly members:
entity_1, polymer, 79 residues, 9390.714 Da.

Natural source:

Natural source:   Common Name: Mouse   Taxonomy ID: 10090   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Mus musculus

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):

Data sets:
Data typeCount
13C chemical shifts349
15N chemical shifts89
1H chemical shifts534

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1unit_11

Entities:

Entity 1, unit_1 79 residues - 9390.714 Da.

1   SERASNALAGLNARGPHEGLUALAARGILE
2   GLUASPGLYLYSLEUTYRTYRASPLYSARG
3   TRPTYRHISLYSSERGLNALAILETYRLEU
4   GLUSERLYSASPASNGLNLYSLEUSERCYS
5   VALILESERSERVALGLYALAASNGLUILE
6   TRPVALARGLYSTHRSERASPSERTHRLYS
7   METARGILETYRVALGLYGLNLEUGLNARG
8   GLYLEUPHEVALILEARGARGARGSER

Samples:

sample_1: Sds3 CTD, [U-100% 15N], 0.35 mM; sodium phosphate buffer 20 mM; NaCl 50 mM; DTT 1 mM

sample_2: Sds3 CTD, [U-100% 13C; U-100% 15N], 0.35 mM; sodium phosphate buffer 20 mM; NaCl 50 mM; DTT 1 mM

sample_conditions_1: ionic strength: 0.07 M; pH: 6.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_2isotropicsample_conditions_1
2D 1H-1H NOESYsample_2isotropicsample_conditions_1
3D CBCA(CO)NHsample_2isotropicsample_conditions_1
3D HNCACBsample_2isotropicsample_conditions_1
3D C(CO)NHsample_2isotropicsample_conditions_1
3D HCCH-TOCSYsample_2isotropicsample_conditions_1
3D HCCH-COSYsample_2isotropicsample_conditions_1

Software:

Felix, Accelrys Software Inc. - processing

CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure calculation

NMRFAM-SPARKY, Lee W, Tonelli M, Markley JL. Bioinformatics. 2015 Apr 15; 31(8):1325-7. - chemical shift assignment, peak picking

NMR spectrometers:

  • Agilent Direct Drive 600 MHz

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks