BMRB Entry 19134

Name: Backbone assignments of 8M urea-denatured YbeA from Escherichia coli
Published: 2014-09-26

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR19134

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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 8M urea-denatured YbeA from Escherichia coli

Deposition date:

2013-04-02

Original release date:

2014-09-26

Authors:

Hsieh, Shu-Ju Micky; Hsu, Shang-Te Danny

Citation:

Citation: Hsieh, Shu-Ju Micky; Mallam, Anna; Jackson, Sophie; Hsu, Shang-Te Danny. "Backbone NMR assignments of a topologically knotted protein in urea-denatured state." Biomol. NMR Assign. 8, 283-285 (2014).
PubMed: 23821130

Assembly members:

Assembly members:
YbeA, polymer, 155 residues, Formula weight is not available

Natural source:

Natural source: Common Name: E. coli Taxonomy ID: 562 Superkingdom: Bacteria Kingdom: not available Genus/species: Escherichia coli

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: Pet 17b

Entity Sequences (FASTA):

Entity Sequences (FASTA):
YbeA: MKLQLVAVGTKMPDWVQTGF TEYLRRFPKDMPFELIEIPA GKRGKNADIKRILDKEGEQM LAAAGKNRIVTLDIPGKPWD TPQLAAELERWKLDGRDVSL LIGGPEGLSPACKAAAEQSW SLSALTLPHPLVRVLVAESL YRAWSITTNHPYHRE

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	422
15N chemical shifts	135
1H chemical shifts	135

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	YbeA	1

Entities:

Entity 1, YbeA 155 residues - Formula weight is not available

1

MET

LYS

LEU

GLN

LEU

VAL

ALA

VAL

GLY

THR

2

LYS

MET

PRO

ASP

TRP

VAL

GLN

THR

GLY

PHE

3

THR

GLU

TYR

LEU

ARG

PHE

PRO

LYS

ASP

4

MET

PRO

PHE

GLU

LEU

ILE

GLU

ILE

PRO

ALA

5

GLY

LYS

ARG

GLY

LYS

ASN

ALA

ASP

ILE

LYS

6

ARG

ILE

LEU

ASP

LYS

GLU

GLY

GLU

GLN

MET

7

LEU

ALA

GLY

LYS

ASN

ARG

ILE

VAL

8

THR

LEU

ASP

ILE

PRO

GLY

LYS

PRO

TRP

ASP

9

THR

PRO

GLN

LEU

ALA

GLU

LEU

GLU

ARG

10

TRP

LYS

LEU

ASP

GLY

ARG

ASP

VAL

SER

LEU

11

LEU

ILE

GLY

PRO

GLU

GLY

LEU

SER

PRO

12

ALA

CYS

LYS

ALA

GLU

GLN

SER

TRP

13

SER

LEU

SER

ALA

LEU

THR

LEU

PRO

HIS

PRO

14

LEU

VAL

ARG

VAL

LEU

VAL

ALA

GLU

SER

LEU

15

TYR

ARG

ALA

TRP

SER

ILE

THR

ASN

HIS

16

PRO

TYR

HIS

ARG

GLU

Samples:

sample_1: YbeA, [U-13C; U-15N], 350 uM; D2O 10%; H2O 90%; TRIS 50 mM; potassium chloride 200 mM; glycerol 10%; urea 7.2 M

sample_conditions_1: pH: 7.5; pressure: 1 atm; temperature: 278 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HNCACB	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HCACO	sample_1	isotropic	sample_conditions_1

Software:

No software information available

NMR spectrometers:

Bruker Avance 700 MHz

PDB	1NS5
DBJ	BAA35283 BAB34097 BAG76228 BAI24039 BAI29506
EMBL	CAA28200 CAD05118 CAP75135 CAQ31111 CAQ89966
GB	AAB40836 AAC73737 AAG54970 AAL19592 AAN42281
PIR	AD0581
REF	NP_308701 NP_415169 NP_455217 NP_459633 NP_706574
SP	A1A8R1 A4W822 A7ZJ25 A7ZXR2 A8AJG7
AlphaFold	A1A8R1 A4W822 A7ZJ25 A7ZXR2 A8AJG7