BMRB Entry 51820

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51820

NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
XML gzip file.
RDF gzip file.
All files associated with the entry

Title:
13C,15N solid-state NMR assignments of H2B globular domain in NCP
Deposition date:
2023-02-03
Original release date:
2023-06-26
Authors:
Shi, Xiangyan
Citation:

Citation: Shi, Xiangyan; Kannaian, Bhuvaneswari; Prasanna, Chinmayi; Soman, Aghil; Nordenskiold, Lars. "Structural and dynamical investigation of histone H2B in well-hydrated nucleosome core particles by solid-state NMR"  Commun. Biol. 6, 672-672 (2023).
PubMed: 37355718

Assembly members:

Assembly members:
entity_1, polymer, 122 residues, Formula weight is not available
entity_2, polymer, 129 residues, Formula weight is not available
entity_3, polymer, 135 residues, Formula weight is not available
entity_4, polymer, 102 residues, Formula weight is not available
entity_5, polymer, 145 residues, Formula weight is not available
entity_6, polymer, 145 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: African clawed frog   Taxonomy ID: 8355   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Xenopus laevis

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET-3a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: AKSAPAPKKGSKKAVTKAQK KDGKKRRKTRKESYAIYVYK VLKQVHPDTGISSKAMSIMN SFVNDVFERIAGEASRLAHY NKRSTITSREIQTAVRLLLP GELAKHAVSEGTKAVTKYTS AK
entity_2: SGRGKQGGKARAKAKTRSSR AGLQFPVGRVHRLLRKGNYS ERVGAGAPVYLAAVLEYLTA EILELAGNAARDNKKTRIIP RHLQLAIRNDEELNKLLGRV TIAQGGVLPNIQAVLLPKKT ESHHKAKGK
entity_3: ARTKQTARKSTGGKAPRKQL ATKAARKSAPATGGVKKPHR YRPGTVALREIRRYQKSTEL LIRKLPFQRLVREIAQDFKT DLRFQSSAVMALQEACEAYL VGLFEDTNLCAIHAKRVTIM PKDIQLARRIRGERA
entity_4: SGRGKGGKGLGKGGAKRHRK VLRDNIQGITKPAIRRLARR GGVKRISGLIYEETRGVLKV FLENVIRDAVTYTEHAKRKT VTAMDVVYALKRQGRTLYGF GG
entity_5: ATCAGAATCCCGGTGCCGAG GCCGCTCAATTGGTCGTAGA CAGCTCTAGCACCGCTTAAA CGCACGTACGCGCTGTCCCC CGCGTTTTAACCGCCAAGGG GATTACTCCCTAGTCTCCAG GCACGTGTCAGATATATACA TCGAT
entity_6: ATCGATGTATATATCTGACA CGTGCCTGGAGACTAGGGAG TAATCCCCTTGGCGGTTAAA ACGCGGGGGACAGCGCGTAC GTGCGTTTAAGCGGTGCTAG AGCTGTCTACGACCAATTGA GCGGCCTCGGCACCGGGATT CTGAT

Data sets:
Data typeCount
13C chemical shifts380
15N chemical shifts93

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1H2B1
2H2A2
3H33
4H44
5DNA 15
6DNA 26

Entities:

Entity 1, H2B 122 residues - Formula weight is not available

1   ALALYSSERALAPROALAPROLYSLYSGLY
2   SERLYSLYSALAVALTHRLYSALAGLNLYS
3   LYSASPGLYLYSLYSARGARGLYSTHRARG
4   LYSGLUSERTYRALAILETYRVALTYRLYS
5   VALLEULYSGLNVALHISPROASPTHRGLY
6   ILESERSERLYSALAMETSERILEMETASN
7   SERPHEVALASNASPVALPHEGLUARGILE
8   ALAGLYGLUALASERARGLEUALAHISTYR
9   ASNLYSARGSERTHRILETHRSERARGGLU
10   ILEGLNTHRALAVALARGLEULEULEUPRO
11   GLYGLULEUALALYSHISALAVALSERGLU
12   GLYTHRLYSALAVALTHRLYSTYRTHRSER
13   ALALYS

Entity 2, H2A 129 residues - Formula weight is not available

1   SERGLYARGGLYLYSGLNGLYGLYLYSALA
2   ARGALALYSALALYSTHRARGSERSERARG
3   ALAGLYLEUGLNPHEPROVALGLYARGVAL
4   HISARGLEULEUARGLYSGLYASNTYRSER
5   GLUARGVALGLYALAGLYALAPROVALTYR
6   LEUALAALAVALLEUGLUTYRLEUTHRALA
7   GLUILELEUGLULEUALAGLYASNALAALA
8   ARGASPASNLYSLYSTHRARGILEILEPRO
9   ARGHISLEUGLNLEUALAILEARGASNASP
10   GLUGLULEUASNLYSLEULEUGLYARGVAL
11   THRILEALAGLNGLYGLYVALLEUPROASN
12   ILEGLNALAVALLEULEUPROLYSLYSTHR
13   GLUSERHISHISLYSALALYSGLYLYS

Entity 3, H3 135 residues - Formula weight is not available

1   ALAARGTHRLYSGLNTHRALAARGLYSSER
2   THRGLYGLYLYSALAPROARGLYSGLNLEU
3   ALATHRLYSALAALAARGLYSSERALAPRO
4   ALATHRGLYGLYVALLYSLYSPROHISARG
5   TYRARGPROGLYTHRVALALALEUARGGLU
6   ILEARGARGTYRGLNLYSSERTHRGLULEU
7   LEUILEARGLYSLEUPROPHEGLNARGLEU
8   VALARGGLUILEALAGLNASPPHELYSTHR
9   ASPLEUARGPHEGLNSERSERALAVALMET
10   ALALEUGLNGLUALACYSGLUALATYRLEU
11   VALGLYLEUPHEGLUASPTHRASNLEUCYS
12   ALAILEHISALALYSARGVALTHRILEMET
13   PROLYSASPILEGLNLEUALAARGARGILE
14   ARGGLYGLUARGALA

Entity 4, H4 102 residues - Formula weight is not available

1   SERGLYARGGLYLYSGLYGLYLYSGLYLEU
2   GLYLYSGLYGLYALALYSARGHISARGLYS
3   VALLEUARGASPASNILEGLNGLYILETHR
4   LYSPROALAILEARGARGLEUALAARGARG
5   GLYGLYVALLYSARGILESERGLYLEUILE
6   TYRGLUGLUTHRARGGLYVALLEULYSVAL
7   PHELEUGLUASNVALILEARGASPALAVAL
8   THRTYRTHRGLUHISALALYSARGLYSTHR
9   VALTHRALAMETASPVALVALTYRALALEU
10   LYSARGGLNGLYARGTHRLEUTYRGLYPHE
11   GLYGLY

Entity 5, DNA 1 145 residues - Formula weight is not available

1   DADTDCDADGDADADTDCDC
2   DCDGDGDTDGDCDCDGDADG
3   DGDCDCDGDCDTDCDADADT
4   DTDGDGDTDCDGDTDADGDA
5   DCDADGDCDTDCDTDADGDC
6   DADCDCDGDCDTDTDADADA
7   DCDGDCDADCDGDTDADCDG
8   DCDGDCDTDGDTDCDCDCDC
9   DCDGDCDGDTDTDTDTDADA
10   DCDCDGDCDCDADADGDGDG
11   DGDADTDTDADCDTDCDCDC
12   DTDADGDTDCDTDCDCDADG
13   DGDCDADCDGDTDGDTDCDA
14   DGDADTDADTDADTDADCDA
15   DTDCDGDADT

Entity 6, DNA 2 145 residues - Formula weight is not available

1   DADTDCDGDADTDGDTDADT
2   DADTDADTDCDTDGDADCDA
3   DCDGDTDGDCDCDTDGDGDA
4   DGDADCDTDADGDGDGDADG
5   DTDADADTDCDCDCDCDTDT
6   DGDGDCDGDGDTDTDADADA
7   DADCDGDCDGDGDGDGDGDA
8   DCDADGDCDGDCDGDTDADC
9   DGDTDGDCDGDTDTDTDADA
10   DGDCDGDGDTDGDCDTDADG
11   DADGDCDTDGDTDCDTDADC
12   DGDADCDCDADADTDTDGDA
13   DGDCDGDGDCDCDTDCDGDG
14   DCDADCDCDGDGDGDADTDT
15   DCDTDGDADT

Samples:

sample_1: NCP(13C, 15N labeled H2B ), [U-98% 13C; U-98% 15N], 33 % w/w

sample_conditions_1: temperature: 285 K

Experiments:

NameSampleSample stateSample conditions
2D DARRsample_1isotropicsample_conditions_1
2D NCAsample_1isotropicsample_conditions_1
2D NCOsample_1isotropicsample_conditions_1
3D CANCOsample_1isotropicsample_conditions_1
3D NCACXsample_1isotropicsample_conditions_1
3D NCOCXsample_1isotropicsample_conditions_1
1D 1H-13C CPsample_1isotropicsample_conditions_1
2D CC DREAMsample_1isotropicsample_conditions_1

Software:

SPARKY - chemical shift assignment

NMRPipe - data analysis

TOPSPIN - collection

NMR spectrometers:

  • Bruker AVANCE III 800 MHz