BMRB Entry 27566

Name: Backbone assignments of the N domain of bacterial tRNA-(N1G37) methyltransferase (TrmD)
Published: 2018-11-15

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR27566

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Backbone assignments of the N domain of bacterial tRNA-(N1G37) methyltransferase (TrmD)

Deposition date:

2018-07-31

Original release date:

2018-11-15

Authors:

Li, Yan; Ng, Hui Qi; Kang, CongBao

Citation:

Citation: Li, Yan; Zhong, Wenhe; Koay, Ann Zhufang; Ng, Hui Qi; Koh-Stenta, Xiaoying; Nah, Qianhui; Lim, Siau Hoi; Larsson, Andreas; Lescar, Julien; Hill, Jeffrey; Dedon, Peter; Kang, CongBao. "Backbone resonance assignment for the N-terminal region of bacterial tRNA-(N'1G37) methyltransferase" Biomol. NMR Assign. 13, 49-53 (2019).
PubMed: 30298375

Assembly members:

Assembly members:
N_domain_of_bacterial_tRNA-(N1G37)_methyltransferase_(TrmD), polymer, 172 residues, Formula weight is not available
Nilotinib, non-polymer, 529.516 Da.

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 Vector: pET29b

Entity Sequences (FASTA):

Entity Sequences (FASTA):
N_domain_of_bacterial_tRNA-(N1G37)_methyltransferase_(TrmD): MDKRLWVGVVSIFPEMFRAI SDYGITSRAVKQGLLTLTCW NPRVYTEDRHQTVDDRPFGG GPGMVMKIKPLEGALADARQ AAGGRKAKVIYLSPQGRQLT QAGVRELAEEEALILIAGRY EGIDERFIEEHVDEEWSIGD YVLSGGELPAMVLVDAVTRL LPGALGHHHHHH

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	446
15N chemical shifts	144
1H chemical shifts	144

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	N domain of bacterial tRNA-(N1G37) methyltransferase (TrmD)	1

Entities:

Entity 1, N domain of bacterial tRNA-(N1G37) methyltransferase (TrmD) 172 residues - Formula weight is not available

1

MET

ASP

LYS

ARG

LEU

TRP

VAL

GLY

VAL

2

SER

ILE

PHE

PRO

GLU

MET

PHE

ARG

ALA

ILE

3

SER

ASP

TYR

GLY

ILE

THR

SER

ARG

ALA

VAL

4

LYS

GLN

GLY

LEU

THR

LEU

THR

CYS

TRP

5

ASN

PRO

ARG

VAL

TYR

THR

GLU

ASP

ARG

HIS

6

GLN

THR

VAL

ASP

ARG

PRO

PHE

GLY

7

GLY

PRO

GLY

MET

VAL

MET

LYS

ILE

LYS

PRO

8

LEU

GLU

GLY

ALA

LEU

ALA

ASP

ALA

ARG

GLN

9

ALA

GLY

ARG

LYS

ALA

LYS

VAL

ILE

10

TYR

LEU

SER

PRO

GLN

GLY

ARG

GLN

LEU

THR

11

GLN

ALA

GLY

VAL

ARG

GLU

LEU

ALA

GLU

12

GLU

ALA

LEU

ILE

LEU

ILE

ALA

GLY

ARG

TYR

13

GLU

GLY

ILE

ASP

GLU

ARG

PHE

ILE

GLU

14

HIS

VAL

ASP

GLU

TRP

SER

ILE

GLY

ASP

15

TYR

VAL

LEU

SER

GLY

GLU

LEU

PRO

ALA

16

MET

VAL

LEU

VAL

ASP

ALA

VAL

THR

ARG

LEU

17

LEU

PRO

GLY

ALA

LEU

GLY

HIS

18

HIS

Samples:

sample_1: N domain of bacterial tRNA-(N1G37) methyltransferase (TrmD), [U-13C; U-15N; U-2H], 0.5 mM; sodium phosphate 20 mM; sodium chloride 150 mM; DTT 1 mM

sample_conditions_1: ionic strength: 170 mM; pH: 6.5; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HN(CO)CACB	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HN(CO)CA	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HN(CA)CO	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1

Software:

NMRPipe, Bruker Biospin, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax, Johnson, One Moon Scientific, Keller and Wuthrich - chemical shift assignment, processing

NMR spectrometers:

Bruker Avance 700 MHz
Bruker Avance 600 MHz

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