BMRB Entry 10112

Name: Solution structure of the ubiquitin domain from mouse D7Wsu128e protein
Published: 2008-08-29

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PDB ID: 1v86
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR10112
MolProbity Validation Chart

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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 structure of the ubiquitin domain from mouse D7Wsu128e protein

Deposition date:

2007-02-13

Original release date:

2008-08-29

Authors:

Tomizawa, T.; Kigawa, T.; Koshiba, S.; Inoue, M.; Yokoyama, S.

Citation:

Citation: Tomizawa, T.; Kigawa, T.; Koshiba, S.; Inoue, M.; Yokoyama, S.. "Solution structure of the ubiquitin domain from mouse D7Wsu128e protein" .

Assembly members:

Assembly members:
D7Wsu128e protein, polymer, 95 residues, Formula weight is not available

Natural source:

Natural source: Common Name: mouse Taxonomy ID: 10090 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Mus musculus

Experimental source:

Experimental source: Production method: cell free synthesis Vector: P030414-68

Entity Sequences (FASTA):

Entity Sequences (FASTA):
D7Wsu128e protein: GSSGSSGDAGGGVGKELVDL KIIWNKTKHDVKVPLDSTGS ELKQKIHSITGLPPAMQKVM YKGLVPEDKTLREIKVTSGA KIMVVGSTISGPSSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	408
15N chemical shifts	93
1H chemical shifts	657

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	DNA segment, Chr 7, Wayne State University 128, expressed	1

Entities:

Entity 1, DNA segment, Chr 7, Wayne State University 128, expressed 95 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

ASP

ALA

GLY

2

GLY

VAL

GLY

LYS

GLU

LEU

VAL

ASP

LEU

3

LYS

ILE

TRP

ASN

LYS

THR

LYS

HIS

ASP

4

VAL

LYS

VAL

PRO

LEU

ASP

SER

THR

GLY

SER

5

GLU

LEU

LYS

GLN

LYS

ILE

HIS

SER

ILE

THR

6

GLY

LEU

PRO

ALA

MET

GLN

LYS

VAL

MET

7

TYR

LYS

GLY

LEU

VAL

PRO

GLU

ASP

LYS

THR

8

LEU

ARG

GLU

ILE

LYS

VAL

THR

SER

GLY

ALA

9

LYS

ILE

MET

VAL

GLY

SER

THR

ILE

SER

10

GLY

PRO

SER

GLY

Samples:

sample_1: ubiquitin domain, [U-13C; U-15N], 0.39 mM; sodium phosphate 20 mM; NaCl 100 mM; d-DTT 1 mM; NaN3 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 6.0; pressure: 1 atm; temperature: 298 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 v2.6, Bruker - collection

NMRPipe v20020425, Delaglio, F. - processing

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

Kujira v0.863, Kobayashi, N. - data analysis

CYANA v1.0.7, Guntert, P. - refinement, structure solution

NMR spectrometers:

Bruker AVANCE 800 MHz

PDB	1V86
DBJ	BAB30974
GB	AAH11313 EDL17262
REF	NP_613055 XP_006507976 XP_006507977 XP_006507978 XP_012320157
SP	Q78JW9
AlphaFold	Q78JW9