BMRB Entry 17966

Name: PDGFR beta-TM
Published: 2012-09-20

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR17966

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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:

PDGFR beta-TM

Deposition date:

2011-09-30

Original release date:

2012-09-20

Authors:

Muhle-Goll, Claudia; Hoffmann, Silke; Ulrich, Anne

Citation:

Citation: Muhle-Goll, Claudia; Hoffmann, Silke; Afonin, Sergii; Grage, Stephan; Polyansky, Anton; Windisch, Dirk; Zeitler, Marcel; Burck, Jochen; Ulrich, Anne. "Hydrophobic Matching Controls the Tilt and Stability of the Dimeric Platelet-derived Growth Factor Receptor (PDGFR) Transmembrane Segment." J. Biol. Chem. 287, 26178-26186 (2012).
PubMed: 22619173

Assembly members:

Assembly members:
entity, polymer, 39 residues, 4421.575 Da.

Natural source:

Natural source: Common Name: cow Taxonomy ID: 9913 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Bos taurus

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity: GHSLPFKVVVISAILALVVL TIISLIILIMLWQKKPRYE

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	153
15N chemical shifts	33
1H chemical shifts	289

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PDGFR-TM, chain 1	1
2	PDGFR-TM, chain 2	1

Entities:

Entity 1, PDGFR-TM, chain 1 39 residues - 4421.575 Da.

1

GLY

HIS

SER

LEU

PRO

PHE

LYS

VAL

2

ILE

SER

ALA

ILE

LEU

ALA

LEU

VAL

LEU

3

THR

ILE

SER

LEU

ILE

LEU

ILE

MET

4

LEU

TRP

GLN

LYS

PRO

ARG

TYR

GLU

Samples:

sample_1: PDGFR-TM, [U-100% 15N], 1 mM; DPC, [U-2H], 200 mM

sample_2: PDGFR-TM, [U-100% 13C; U-100% 15N], 1 mM; DPC, [U-2H], 200 mM

sample_3: PDGFR-TM, [U-100% 13C; U-100% 15N], 1 mM; PDGFR-TM 1 mM; DPC 200 mM

sample_4: PDGFR-TM, [U-100% 13C; U-100% 15N], 1 mM; DPC, [U-2H], 200 mM

sample_conditions_1: ionic strength: 120 mM; pH: 6.8; pressure: 1 atm; temperature: 323 K

sample_conditions_2: ionic strength: 120 mM; pH: 6.8; pressure: 1 atm; temperature: 310 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 1H-15N TOCSY	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_2
3D HNCACB	sample_2	isotropic	sample_conditions_1
3D HNCA	sample_2	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_2	isotropic	sample_conditions_1
3D C(CO)NH	sample_2	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_3	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_3	isotropic	sample_conditions_2
3D 13C-filtered 13C-edited NOESY	sample_4	isotropic	sample_conditions_2

Software:

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

NMRView, Johnson, One Moon Scientific - data analysis

ARIA v1.2, Linge, O'Donoghue and Nilges - structure solution

NMR spectrometers:

Bruker Avance 600 MHz
Bruker Avance 900 MHz

PDB	2L6W
DBJ	BAD92894 BAE22283 BAE34383 BAF85782 BAG11039
EMBL	CAA27882
GB	AAA36427 AAA60049 AAH32224 AAH55311 AAS48371
PRF	1210315A
REF	NP_001003382 NP_001069364 NP_001139740 NP_002600 NP_032835
SP	P05622 P09619 Q6QNF3
TPG	DAA27302
AlphaFold	P09619 P05622 Q6QNF3