BMRB Entry 27137

Name: HypF-N backbone assignment in toxic oligomer solution condition
Published: 2018-06-21

Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR27137

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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:

HypF-N backbone assignment in toxic oligomer solution condition

Deposition date:

2017-06-12

Original release date:

2018-06-21

Authors:

Patel, Jayneil; De Simone, Alfonso; Xu, Yingqi

Citation:

Citation: Patel, Jayneil; Xu, Yingqi; Capitini, Claudia; Chiti, Fabrizio; De Simone, Alfonso. "Backbone NMR assignments of HypF-N under conditions generating toxic and non-toxic oligomers" Biomol. NMR Assign. 12, 273-277 (2018).
PubMed: 29786756

Assembly members:

Assembly members:
N_terminal_domain_of_HypF_(HypF-N), polymer, 92 residues, 10464.89 Da.

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: pQE_Th

Entity Sequences (FASTA):

Entity Sequences (FASTA):
N_terminal_domain_of_HypF_(HypF-N): GSAKNTSCGVQLRIRGKVQG VGFRPFVWQLAQQLNLHGDV CNDGDGVEVRLREDPETFLV QLYQHCPPLARIDSVEREPF IWSQLPTEFTIR

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	236
15N chemical shifts	77
1H chemical shifts	148

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	HypF-N	1

Entities:

Entity 1, HypF-N 92 residues - 10464.89 Da.

1

GLY

SER

ALA

LYS

ASN

THR

SER

CYS

GLY

VAL

2

GLN

LEU

ARG

ILE

ARG

GLY

LYS

VAL

GLN

GLY

3

VAL

GLY

PHE

ARG

PRO

PHE

VAL

TRP

GLN

LEU

4

ALA

GLN

LEU

ASN

LEU

HIS

GLY

ASP

VAL

5

CYS

ASN

ASP

GLY

ASP

GLY

VAL

GLU

VAL

ARG

6

LEU

ARG

GLU

ASP

PRO

GLU

THR

PHE

LEU

VAL

7

GLN

LEU

TYR

GLN

HIS

CYS

PRO

LEU

ALA

8

ARG

ILE

ASP

SER

VAL

GLU

ARG

GLU

PRO

PHE

9

ILE

TRP

SER

GLN

LEU

PRO

THR

GLU

PHE

THR

10

ILE

ARG

Samples:

HypFN_toxic: N terminal domain of HypF (HypF-N), [U-100% 13C; U-100% 15N], 50 uM; D2O, [U-100% 2H], 10%; DTT 2 mM; sodium acetate 50 mM; TFE 12%

sample_conditions_1: ionic strength: 50 mM; pH: 5.5; pressure: 1 atm; temperature: 283 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	HypFN_toxic	isotropic	sample_conditions_1
3D CBCA(CO)NH	HypFN_toxic	isotropic	sample_conditions_1
3D HNCACB	HypFN_toxic	isotropic	sample_conditions_1
3D HNCO	HypFN_toxic	isotropic	sample_conditions_1
3D HN(CO)CA	HypFN_toxic	isotropic	sample_conditions_1

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

CCPN_Analysis v2.4, W.F. Vranken, W Boucher, T.J. Stevens, R.H. Fogh, A Pajon, M. Llinas, E.L. Ulrich, J.L. Markley, J Ionides and E.D. Laue - chemical shift assignment, peak picking

NMR spectrometers:

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