BMRB Entry 31060

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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/BMR31060
MolProbity Validation Chart

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Title:
Structure of N-terminal of Schistosoma japonicum asparaginyl-tRNA synthetase
Deposition date:
2022-11-25
Original release date:
2023-08-29
Authors:
Peck, Y.; Daly, N.; Mobli, M.
Citation:

Citation: Peck, Yoshimi; Pickering, Darren; Mobli, Mehdi; Liddell, Michael; Wilson, David; Ruscher, Roland; Ryan, Stephanie; Buitrago, Geraldine; McHugh, Connor; Love, Nicholas; Pinlac, Theresa; Haertlein, Michael; Kron, Michael; Loukas, Alex; Daly, Norelle. "Solution structure of the N-terminal extension domain of a Schistosoma japonicum asparaginyl-tRNA synthetase"  J. Biomol. Struct. Dyn. ., 1-11 (2023).
PubMed: 37572327

Assembly members:

Assembly members:
entity_1, polymer, 120 residues, 13576.252 Da.

Natural source:

Natural source:   Common Name: Schistosoma japonicum   Taxonomy ID: 6182   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Schistosoma japonicum

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: MQIYTSEKRGSDTAGNGTEE APLKTVLQAIVKLDGKIEAD TRIWVDGTGDEMWDVVSKSK LKKATKQYHIQTKKQEKAPH EKIVSYENGDNVNLSEAINV QLTLDTKLPEAKELHHHHHH

Data sets:
Data typeCount
13C chemical shifts421
15N chemical shifts120
1H chemical shifts632

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1unit_11

Entities:

Entity 1, unit_1 120 residues - 13576.252 Da.

1   METGLNILETYRTHRSERGLULYSARGGLY
2   SERASPTHRALAGLYASNGLYTHRGLUGLU
3   ALAPROLEULYSTHRVALLEUGLNALAILE
4   VALLYSLEUASPGLYLYSILEGLUALAASP
5   THRARGILETRPVALASPGLYTHRGLYASP
6   GLUMETTRPASPVALVALSERLYSSERLYS
7   LEULYSLYSALATHRLYSGLNTYRHISILE
8   GLNTHRLYSLYSGLNGLULYSALAPROHIS
9   GLULYSILEVALSERTYRGLUASNGLYASP
10   ASNVALASNLEUSERGLUALAILEASNVAL
11   GLNLEUTHRLEUASPTHRLYSLEUPROGLU
12   ALALYSGLULEUHISHISHISHISHISHIS

Samples:

sample_1: N-terminal tRNA synthetase, [U-100% 13C; U-100% 15N], 0.1 mM

sample_conditions_1: pH: 7.1; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1
3D H(CCO)NHsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_1isotropicsample_conditions_1

Software:

TopSpin, Bruker Biospin - collection

CcpNmr Analysis, CCPN - chemical shift assignment

CYANA, Guntert, Mumenthaler and Wuthrich - refinement, structure calculation

NMR spectrometers:

  • Bruker AVANCE 900 MHz

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