BMRB Entry 16623

Name: The U-box domain of mus musculus E4B
Published: 2010-01-28

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR16623

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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:

The U-box domain of mus musculus E4B

Deposition date:

2009-12-03

Original release date:

2010-01-28

Authors:

Nordquist, Kyle; Soss, Sarah; Chazin, Walter

Citation:

Citation: Nordquist, Kyle; Dimitrova, Yoana; Brzovic, Peter; Ridenour, Whitney; Munro, Kim; Soss, Sarah; Caprioli, Richard; Klevit, Rachel; Chazin, Walter. "Structural and functional characterization of the monomeric U-box domain from E4B." Biochemistry 49, 347-355 (2010).
PubMed: 20017557

Assembly members:

Assembly members:
E4B, polymer, 85 residues, 9779.069 Da.

Natural source:

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

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: pBG102

Entity Sequences (FASTA):

Entity Sequences (FASTA):
E4B: PGSAEIDYSDAPDEFRDPLM DTLMTDPVRLPSGTVMDRSI ILRHLLNSPTDPFNRQMLTE SMLEPVPELKEQIQAWMREK QSSDH

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	210
15N chemical shifts	76
1H chemical shifts	555

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	E4B	1

Entities:

Entity 1, E4B 85 residues - 9779.069 Da.

1

PRO

GLY

SER

ALA

GLU

ILE

ASP

TYR

SER

ASP

2

ALA

PRO

ASP

GLU

PHE

ARG

ASP

PRO

LEU

MET

3

ASP

THR

LEU

MET

THR

ASP

PRO

VAL

ARG

LEU

4

PRO

SER

GLY

THR

VAL

MET

ASP

ARG

SER

ILE

5

ILE

LEU

ARG

HIS

LEU

ASN

SER

PRO

THR

6

ASP

PRO

PHE

ASN

ARG

GLN

MET

LEU

THR

GLU

7

SER

MET

LEU

GLU

PRO

VAL

PRO

GLU

LEU

LYS

8

GLU

GLN

ILE

GLN

ALA

TRP

MET

ARG

GLU

LYS

9

GLN

SER

ASP

HIS

Samples:

sample_1: U-box domain of E4B, [U-100% 13C; U-100% 15N], 750 uM; H2O 90%; D2O 10%

sample_2: U-box domain of E4B 1 mM; H2O 90%; D2O 10%

sample_conditions_1: 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
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
2D DQF-COSY	sample_1	isotropic	sample_conditions_1
2D 1H-1H NOESY	sample_2	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HN(CO)CA	sample_1	isotropic	sample_conditions_1
3D H(CCO)NH	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1
3D HCCH-COSY	sample_1	isotropic	sample_conditions_1

Software:

NMRPipe v2009.015.15.35, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

SPARKY v3.113, Goddard - chemical shift assignment, peak picking

CYANA v2..1, Guntert, Mumenthaler and Wuthrich - structure solution

AMBER v9, Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm - refinement

NMR spectrometers:

Bruker Avance 600 MHz
Bruker Avance 800 MHz

PDB	2KR4
DBJ	BAC26672 BAC56586 BAC65627
GB	AAG17287 AAH67402 AAH75620
REF	NP_001258127 NP_071305 XP_005353748 XP_005353749 XP_006239449
SP	Q9ES00
AlphaFold	Q9ES00