BMRB Entry 15019

Name: NMR assignments for a helical diacylglycerol kinase (DAGK), 40 kDa membrane protein from E. coli
Published: 2006-12-06

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR15019

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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:

NMR assignments for a helical diacylglycerol kinase (DAGK), 40 kDa membrane protein from E. coli

Deposition date:

2006-11-08

Original release date:

2006-12-06

Authors:

Kim, Hak Jun; Oxenoid, Kirill; Jacob, Jaison; Sonnichsen, Frank; Sanders, Chuck

Citation:

Citation: Oxenoid, Kirill; Kim, Hak Jun; Jacob, Jaison; Sonnichsen, Frank; Sanders, Chuck. "NMR assignments for a helical 40 kDa membrane protein" J. Am. Chem. Soc. 126, 5048-5049 (2004).
PubMed: 15099070

Assembly members:

Assembly members:
DAGK, polymer, 122 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: pSD005

Entity Sequences (FASTA):

Entity Sequences (FASTA):
DAGK: MANNTTGFTRIIKAAGYSWK GLRAAWINEAAFRQEGVAVL LAVVIACWLDVDAITRVLLI SSVMLVMIVEILNSAIEAVV DRIGSEYHELSGRAKDMGSA AVLIAIIVAVITWCILLWSH FG

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	320
15N chemical shifts	109
1H chemical shifts	109

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	DAGK monomer 1	1
2	DAGK monomer 2	1
3	DAGK monomer 3	1

Entities:

Entity 1, DAGK monomer 1 122 residues - Formula weight is not available

1

MET

ALA

ASN

THR

GLY

PHE

THR

ARG

2

ILE

LYS

ALA

GLY

TYR

SER

TRP

LYS

3

GLY

LEU

ARG

ALA

TRP

ILE

ASN

GLU

ALA

4

ALA

PHE

ARG

GLN

GLU

GLY

VAL

ALA

VAL

LEU

5

LEU

ALA

VAL

ILE

ALA

CYS

TRP

LEU

ASP

6

VAL

ASP

ALA

ILE

THR

ARG

VAL

LEU

ILE

7

SER

VAL

MET

LEU

VAL

MET

ILE

VAL

GLU

8

ILE

LEU

ASN

SER

ALA

ILE

GLU

ALA

VAL

9

ASP

ARG

ILE

GLY

SER

GLU

TYR

HIS

GLU

LEU

10

SER

GLY

ARG

ALA

LYS

ASP

MET

GLY

SER

ALA

11

ALA

VAL

LEU

ILE

ALA

ILE

VAL

ALA

VAL

12

ILE

THR

TRP

CYS

ILE

LEU

TRP

SER

HIS

13

PHE

GLY

Samples:

sample_1: DAGK, [U-13C; U-15N; U-2H], 3 mM

sample_conditions_1: pH: 6.5; temperature: 318 K

Experiments:

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

Software:

NMRPipe, F Delaglio, S Grzesiek, GW Vuister, G Zhu, J Pfeifer and A Bax - processing

NMRView, B Johnson, One Moon Scientific - chemical shift assignment

NMR spectrometers:

Bruker Avance 800 MHz
Bruker Avance 600 MHz

PDB	2KDC 3ZE4 4UP6
DBJ	BAB38448 BAE78044 BAG79858 BAI28303 BAI33480
EMBL	CAP78501 CAQ34391 CAR01021 CAR05676 CAR10862
GB	AAA24394 AAC43136 AAC77012 AAG59241 AAN45585
REF	NP_313052 NP_418466 NP_709878 WP_000002899 WP_000002905
SP	P0ABN1 P0ABN2 P0ABN3 P0ABN4
AlphaFold	P0ABN3 P0ABN4 P0ABN1 P0ABN2