BMRB Entry 51340

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR51340
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Title:
Backbone and side chain solution NMR assignment of truncated form of small hepatitis D virus antigen Delta60-S-HDAg
Deposition date:
2022-02-28
Original release date:
2022-06-20
Authors:
Yang, Yang; Bockmann, Anja; Lecoq, Lauriane
Citation:

Citation: Yang, Yang; Delcourte, Loic; Fogeron, Marie-Laure; Bockmann, Anja; Lecoq, Lauriane. "1H, 15N and 13C backbone and side chain solution NMR assignments of the truncated small hepatitis delta antigen Delta60-S-HDAg"  Biomol. NMR Assign. 16, 311-316 (2022).
PubMed: 35749039

Assembly members:

Assembly members:
entity_1, polymer, 140 residues, 15120 Da.

Natural source:

Natural source:   Common Name: Hepatitis delta virus   Taxonomy ID: 12475   Superkingdom: Viruses   Kingdom: not available   Genus/species: Deltavirus Hepatitis D virus

Experimental source:

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pGEX-6P-1-GST

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: GPLGSKDKDGEGAPPAKRAR TDQMEVDSGPGKRPLRGGFT DKERQDHRRRKALENKKKQL SAGGKNLSKEEEEELRRLTE EDERRERRVAGPPVGGVNPL EGGSRGAPGGGFVPNLQGVP ESPFSRTGEGLDIRGNQGFP

Data sets:
Data typeCount
13C chemical shifts544
15N chemical shifts136
1H chemical shifts811

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1delta60_SHDAg1

Entities:

Entity 1, delta60_SHDAg 140 residues - 15120 Da.

The first 5 residues (GPLGS) are from GST-cleavage

1   GLYPROLEUGLYSERLYSASPLYSASPGLY
2   GLUGLYALAPROPROALALYSARGALAARG
3   THRASPGLNMETGLUVALASPSERGLYPRO
4   GLYLYSARGPROLEUARGGLYGLYPHETHR
5   ASPLYSGLUARGGLNASPHISARGARGARG
6   LYSALALEUGLUASNLYSLYSLYSGLNLEU
7   SERALAGLYGLYLYSASNLEUSERLYSGLU
8   GLUGLUGLUGLULEUARGARGLEUTHRGLU
9   GLUASPGLUARGARGGLUARGARGVALALA
10   GLYPROPROVALGLYGLYVALASNPROLEU
11   GLUGLYGLYSERARGGLYALAPROGLYGLY
12   GLYPHEVALPROASNLEUGLNGLYVALPRO
13   GLUSERPROPHESERARGTHRGLYGLUGLY
14   LEUASPILEARGGLYASNGLNGLYPHEPRO

Samples:

sample_1: delta60_SHDAg, [U-99% 13C; U-99% 15N], 200 uM; phosphate buffer 50 mM; NaCl 50 mM

sample_2: delta60_SHDAg, [U-99% 13C; U-99% 15N], 200 uM; phosphate buffer 50 mM; NaCl 50 mM

sample_conditions_1: ionic strength: 50 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCACOsample_1isotropicsample_conditions_1
3D H(CCO)NHsample_1isotropicsample_conditions_1
3D C(CO)NHsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D (H)CCH-TOCSYsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_2isotropicsample_conditions_1
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_2isotropicsample_conditions_1

Software:

TOPSPIN v4.0.5 - collection, processing

CcpNMR v2.5 - chemical shift assignment, data analysis, peak picking

ARIA2 - refinement, structure solution

NMR spectrometers:

  • Bruker AVANCE III 600 MHz
  • Bruker AVANCE III 950 MHz

Related Database Links:

NCBI AJ000558.1

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