BMRB Entry 27791

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR27791

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Title:
Structural basis of specific H2A K13/K15 ubiquitination by RNF168
Deposition date:
2019-02-18
Original release date:
2019-04-18
Authors:
Horn, Velten; Uckelmann, Michael; Zhang, Heyi; Eerland, Jelmer; Aarsman, Ivette; Le Paige, Ulric; Davidovich, Chen; Sixma, Titia; van Ingen, Hugo
Citation:

Citation: Horn, Velten; Uckelmann, Michael; Zhang, Heyi; Eerland, Jelmer; Aarsman, Ivette; Le Paige, Ulric; Davidovich, Chen; Sixma, Titia; van Ingen, Hugo. "Structural basis of specific H2A K13/K15 ubiquitination by RNF168."  Nat. Commun. 10, 1751-1751 (2019).
PubMed: 30988309

Assembly members:

Assembly members:
RNF168_RING, polymer, 113 residues, Formula weight is not available
Histone_H2A, polymer, 123 residues, Formula weight is not available
Histone_H2B, polymer, 122 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
RNF168_RING: MALPKDAIPSLSECQCGICM EILVEPVTLPCNHTLCKPCF QSTVEKASLCCPFCRRRVSS WTRYHTRRNSLVNVELWTII QKHYPRECKLRASGQESEEV ADDYQPVRLLSKP
Histone_H2A: SGRGKGGKVKGKAKSRSNRA GLQFPVGRIHRLLRKGNYAE RVGAGAPVYLAAVMEYLAAE VLELAGNAARDNKKTRIIPR HLQLAIRNDEELNKLLSGVT IAQGGVLPNIQAVLLPKKTE KKA
Histone_H2B: PPKTSGKAAKKAGKAQKNIT KTDKKKKRKRKESYAIYIYK VLKQVHPDTGISSKAMSIMN SFVNDIFERIAAEASRLAHY NKRSTITSREIQTAVRLLLP GELAKHAVSEGTKAVTKYTS SK

Data typeCount
15N chemical shifts400
1H chemical shifts400

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1RNF1681
2Histone H2A2
3Histone H2B3

Entities:

Entity 1, RNF168 113 residues - Formula weight is not available

1   METALALEUPROLYSASPALAILEPROSER
2   LEUSERGLUCYSGLNCYSGLYILECYSMET
3   GLUILELEUVALGLUPROVALTHRLEUPRO
4   CYSASNHISTHRLEUCYSLYSPROCYSPHE
5   GLNSERTHRVALGLULYSALASERLEUCYS
6   CYSPROPHECYSARGARGARGVALSERSER
7   TRPTHRARGTYRHISTHRARGARGASNSER
8   LEUVALASNVALGLULEUTRPTHRILEILE
9   GLNLYSHISTYRPROARGGLUCYSLYSLEU
10   ARGALASERGLYGLNGLUSERGLUGLUVAL
11   ALAASPASPTYRGLNPROVALARGLEULEU
12   SERLYSPRO

Entity 2, Histone H2A 123 residues - Formula weight is not available

1   SERGLYARGGLYLYSGLYGLYLYSVALLYS
2   GLYLYSALALYSSERARGSERASNARGALA
3   GLYLEUGLNPHEPROVALGLYARGILEHIS
4   ARGLEULEUARGLYSGLYASNTYRALAGLU
5   ARGVALGLYALAGLYALAPROVALTYRLEU
6   ALAALAVALMETGLUTYRLEUALAALAGLU
7   VALLEUGLULEUALAGLYASNALAALAARG
8   ASPASNLYSLYSTHRARGILEILEPROARG
9   HISLEUGLNLEUALAILEARGASNASPGLU
10   GLULEUASNLYSLEULEUSERGLYVALTHR
11   ILEALAGLNGLYGLYVALLEUPROASNILE
12   GLNALAVALLEULEUPROLYSLYSTHRGLU
13   LYSLYSALA

Entity 3, Histone H2B 122 residues - Formula weight is not available

1   PROPROLYSTHRSERGLYLYSALAALALYS
2   LYSALAGLYLYSALAGLNLYSASNILETHR
3   LYSTHRASPLYSLYSLYSLYSARGLYSARG
4   LYSGLUSERTYRALAILETYRILETYRLYS
5   VALLEULYSGLNVALHISPROASPTHRGLY
6   ILESERSERLYSALAMETSERILEMETASN
7   SERPHEVALASNASPILEPHEGLUARGILE
8   ALAALAGLUALASERARGLEUALAHISTYR
9   ASNLYSARGSERTHRILETHRSERARGGLU
10   ILEGLNTHRALAVALARGLEULEULEUPRO
11   GLYGLULEUALALYSHISALAVALSERGLU
12   GLYTHRLYSALAVALTHRLYSTYRTHRSER
13   SERLYS

Samples:

sample_1: Histone H2A, [U-15N], 110 uM; Histone H2B 110 uM; Tris 25 mM; NaCl 100 mM; ZnCl2 10 mM; DTT 3 mM

sample_2: Histone H2A, [U-15N], 110 uM; Histone H2B 110 uM; RNF168 RING 5.5 uM; Tris 25 mM; NaCl 100 mM; ZnCl2 10 mM; DTT 3 mM

sample_3: Histone H2A, [U-15N], 110 uM; Histone H2B 110 uM; RNF168 RING 27.5 uM; Tris 25 mM; NaCl 100 mM; ZnCl2 10 mM; DTT 3 mM

sample_4: Histone H2A, [U-15N], 110 uM; Histone H2B 110 uM; RNF168 RING 38.5 uM; Tris 25 mM; NaCl 100 mM; ZnCl2 10 mM; DTT 3 mM

sample_5: Histone H2A, [U-15N], 110 uM; Histone H2B 110 uM; RNF168 RING 71.5 uM; Tris 25 mM; NaCl 100 mM; ZnCl2 10 mM; DTT 3 mM

sample_conditions_1: ionic strength: 100 mM; pH: 8.0; pressure: 1 atm; temperature: 293 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N TROSYsample_1isotropicsample_conditions_1
2D 1H-15N TROSYsample_2isotropicsample_conditions_1
2D 1H-15N TROSYsample_3isotropicsample_conditions_1
2D 1H-15N TROSYsample_4isotropicsample_conditions_1
2D 1H-15N TROSYsample_5isotropicsample_conditions_1

Software:

SPARKY, Goddard - data analysis

NMR spectrometers:

  • Bruker Avance III HD 850 MHz

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