BMRB Entry 19041

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, SPARTA
BMRB Entry DOI: doi:10.13018/BMR19041
MolProbity Validation Chart

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Title:
Spatial structure of dimeric VEGFR2 membrane domain in DPC micelles
Deposition date:
2013-02-19
Original release date:
2014-03-10
Authors:
Mineev, Konstantin; Arseniev, Alexander; Shulepko, Mikhail; Lyukmanova, Ekaterina
Citation:

Citation: Mineev, Konstantin; Arseniev, Alexander; Shulepko, Mikhail; Lyukmanova, Ekaterina. "Spatial structure of dimeric VEGFR2 membrane domain in DPC micelles"  To be Published ., .-..

Assembly members:

Assembly members:
VEGFR2tm, polymer, 37 residues, 4131.105 Da.

Natural source:

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

Experimental source:

Experimental source:   Production method: cell free synthesis   Host organism: Escherichia coli   Vector: pET20b(+)

Entity Sequences (FASTA):

Entity Sequences (FASTA):
VEGFR2tm: EKTNLEIIILVGTAVIAMFF WLLLVIILRTVKRANGG

Data sets:
Data typeCount
13C chemical shifts169
15N chemical shifts42
1H chemical shifts310

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1VEGFR2tm_11
2VEGFR2tm_21

Entities:

Entity 1, VEGFR2tm_1 37 residues - 4131.105 Da.

1   GLULYSTHRASNLEUGLUILEILEILELEU
2   VALGLYTHRALAVALILEALAMETPHEPHE
3   TRPLEULEULEUVALILEILELEUARGTHR
4   VALLYSARGALAASNGLYGLY

Samples:

sample_1: VEGFR2tm 0.6 mM; VEGFR2tm, [U-100% 13C; U-100% 15N], 0.6 mM; DPC, [U-100% 2H], 48 mM; sodium acetate, [U-99% 2H], 20 mM; sodium azide 3 mM; H2O 90%; D2O 10%

sample_conditions_1: ionic strength: 20 mM; pH: 4.5; pressure: 1 atm; temperature: 318 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
13C,15N - filtered NOESY-HSQCsample_1isotropicsample_conditions_1

Software:

CYANA v3.0, Guntert, Mumenthaler and Wuthrich - structure solution

CARA v1.8.4, Keller and Wuthrich - chemical shift assignment, data analysis

TOPSPIN v3.0, Bruker Biospin - collection

qMDD v2.1, Orekhov, Mayzel - processing

NMR spectrometers:

  • Bruker Avance 600 MHz

Related Database Links:

UNP P35968
BMRB 19531
PDB
DBJ BAD93138
EMBL CAA58268
GB AAB34594 AAB88005 AAC16450 AAI31823 AAR26285
PIR I51296
REF NP_001004368 NP_002244 XP_001086814 XP_002745866 XP_002814831
SP P35968 P52583
AlphaFold Q14178 P35968 P52583

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks