BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 17780

Title: Human prion protein with E219K protective polymorphism   PubMed: 22676969

Deposition date: 2011-07-14 Original release date: 2012-06-25

Authors: Biljan, Ivana; Ilc, Gregor; Giancin, Gabriele; Zhukov, Igor; Plavec, Janez; Legname, Guiseppe

Citation: Biljan, Ivana; Giachin, Gabriele; Ilc, Gregor; Zhukov, Igor; Plavec, Janez; Legname, Giuseppe. "Structural basis for the protective effect of the human prion protein carrying the dominant-negative E219K polymorphism."  Biochem. J. 446, 243-251 (2012).

Assembly members:
Hpp_E219K, polymer, 142 residues, 16169.169 Da.

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

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

Entity Sequences (FASTA):
Hpp_E219K: GQGGGTHSQWNKPSKPKTNM KHMAGAAAAGAVVGGLGGYM LGSAMSRPIIHFGSDYEDRY YRENMHRYPNQVYYRPMDEY SNQNNFVHDCVNITIKQHTV TTTTKGENFTETDVKMMERV VEQMCITQYKRESQAYYQRG SS

Data sets:
Data typeCount
13C chemical shifts461
15N chemical shifts148
1H chemical shifts1281

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1Human prion protein with E219K protective polymorphism1

Entities:

Entity 1, Human prion protein with E219K protective polymorphism 142 residues - 16169.169 Da.

1   GLYGLNGLYGLYGLYTHRHISSERGLNTRP
2   ASNLYSPROSERLYSPROLYSTHRASNMET
3   LYSHISMETALAGLYALAALAALAALAGLY
4   ALAVALVALGLYGLYLEUGLYGLYTYRMET
5   LEUGLYSERALAMETSERARGPROILEILE
6   HISPHEGLYSERASPTYRGLUASPARGTYR
7   TYRARGGLUASNMETHISARGTYRPROASN
8   GLNVALTYRTYRARGPROMETASPGLUTYR
9   SERASNGLNASNASNPHEVALHISASPCYS
10   VALASNILETHRILELYSGLNHISTHRVAL
11   THRTHRTHRTHRLYSGLYGLUASNPHETHR
12   GLUTHRASPVALLYSMETMETGLUARGVAL
13   VALGLUGLNMETCYSILETHRGLNTYRLYS
14   ARGGLUSERGLNALATYRTYRGLNARGGLY
15   SERSER

Samples:

sample_1: Hpp_E219K, [U-100% 13C; U-100% 15N], 1.5 mM; H2O 90%; D2O 10%; buffer sodium acetate-d3 20 mM; NaCl 0.1 M

sample_2: Hpp_E219K, [U-100% 13C; U-100% 15N], 1.5 mM; D2O 100%; buffer sodium acetate-d3 20 mM; NaCl 0.1 M

sample_conditions_1: ionic strength: 0.1 M; pH: 5.5; pressure: 1 atm; temperature: 298 K

sample_conditions_2: ionic strength: 0.1 M; pD: 5.9; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_2isotropicsample_conditions_2
3D 1H-13C NOESY aliphaticsample_2isotropicsample_conditions_2
3D 1H-13C NOESY aromaticsample_2isotropicsample_conditions_2

Software:

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

SPARKY, Goddard - data analysis

CYANA, Guntert, Mumenthaler and Wuthrich - structure solution

YASARA, (YASARA) - refinement

NMR spectrometers:

  • Varian Uniform NMR System 800 MHz

Related Database Links:

BMRB 15676 16743 16757 17714 17756 17757 18426 18550 19268 4379 4402 4434 4620 4641 4736
PDB
DBJ BAA00011 BAF62360 BAG32276 BAG32277 BAG32278
EMBL CAA58442 CAG46836 CAG46869
GB AAA19664 AAA60182 AAA68632 AAA68633 AAB59442
REF NP_000302 NP_001009093 NP_001073590 NP_001073591 NP_001073592
SP P04156 P40252 P61766 P61767 P61768

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts