BMRB Entry 10261

Name: Solution structures of the WHEP-TRS domain of human methionyl-tRNA synthetase
Published: 2009-11-24

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PDB ID: 2djv
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR10261
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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:

Solution structures of the WHEP-TRS domain of human methionyl-tRNA synthetase

Deposition date:

2008-11-21

Original release date:

2009-11-24

Authors:

Sato, M.; Sasagawa, A.; Tochio, N.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.

Citation:

Citation: Sato, M.; Sasagawa, A.; Tochio, N.; Koshiba, S.; Inoue, M.; Kigawa, T.; Yokoyama, S.. "Solution structures of the WHEP-TRS domain of human methionyl-tRNA synthetase" .

Assembly members:

Assembly members:
WHEP-TRS domain, polymer, 79 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: cell free synthesis Vector: P050704-14

Entity Sequences (FASTA):

Entity Sequences (FASTA):
WHEP-TRS domain: GSSGSSGTTAKPQQIQALMD EVTKQGNIVRELKAQKADKN EVAAEVAKLLDLKKQLAVAE GKPPEAPKGKKKKSGPSSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	290
15N chemical shifts	69
1H chemical shifts	480

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	WHEP-TRS domain	1

Entities:

Entity 1, WHEP-TRS domain 79 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

THR

ALA

2

LYS

PRO

GLN

ILE

GLN

ALA

LEU

MET

ASP

3

GLU

VAL

THR

LYS

GLN

GLY

ASN

ILE

VAL

ARG

4

GLU

LEU

LYS

ALA

GLN

LYS

ALA

ASP

LYS

ASN

5

GLU

VAL

ALA

GLU

VAL

ALA

LYS

LEU

6

ASP

LEU

LYS

GLN

LEU

ALA

VAL

ALA

GLU

7

GLY

LYS

PRO

GLU

ALA

PRO

LYS

GLY

LYS

8

LYS

SER

GLY

PRO

SER

GLY

Samples:

sample_1: WHWP-TRS domain, [U-13C; U-15N], 1 mM; d-Tris HCl 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 296 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 13C-separated NOESY	sample_1	isotropic	condition_1
3D 15N-separated NOESY	sample_1	isotropic	condition_1

Software:

xwinnmr v3.5, Bruker - collection

NMRPipe v20031121, Delaglio, F. - processing

NMRView v5.0.4, Johnson, B.A. - data analysis

Kujira v0.932, Kobayashi, N. - data analysis

CYANA v2.0.17, Guntert, P. - refinement, structure solution

NMR spectrometers:

Bruker AVANCE 700 MHz

PDB	2DJV
DBJ	BAA95668 BAD96487 BAF83546 BAJ20957
EMBL	CAA64381 CAA89153
GB	AAH02384 AAH06328 AAH11639 AAH11849 AAH15011
REF	NP_001253877 NP_004981 XP_002823470 XP_004053501 XP_005571392
SP	P56192
AlphaFold	P56192