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 17546

Title: Refined Structural Basis for the Photoconversion of A Phytochrome to the Activated FAR-RED LIGHT-ABSORBING Form   PubMed: 20075921

Deposition date: 2011-03-23 Original release date: 2011-05-03

Authors: Cornilescu, Claudia; Cornilescu, Gabriel; Ulijasz, Andrew; Vierstra, Richard; Markley, John

Citation: Ulijasz, Andrew; Cornilescu, Gabriel; Cornilescu, Claudia; Zhang, Junrui; Rivera, Mario; Markley, John; Vierstra, Richard. "Structural basis for the photoconversion of a phytochrome to the activated Pfr form"  Nature 463, 250-254 (2010).

Assembly members:
Phytochrome, polymer, 164 residues, 18968.801 Da.

Natural source:   Common Name: Synechococcus SP   Taxonomy ID: 1131   Superkingdom: Bacteria   Kingdom: not available   Genus/species: Synechococcus SP

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

Entity Sequences (FASTA):
Phytochrome: PSRLIRQSLDQILRATVEEV RAFLGTDRVKVYRFDPEGHG TVVAEARGGERLPSLLGLTF AGDIEARRLFRLAQVRVIVD VEAQSRSISQWSARVEPLQR PVDPXHVHYLKSMGVASSLV VPLMHHQELWGLLVSHHAEP YSQEQVVLLADQVSIAIAQA ELSL

Data sets:
Data typeCount
13C chemical shifts587
15N chemical shifts148
1H chemical shifts755

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1Phytochrome1

Entities:

Entity 1, Phytochrome 164 residues - 18968.801 Da.

1   PROSERARGLEUILEARGGLNSERLEUASP
2   GLNILELEUARGALATHRVALGLUGLUVAL
3   ARGALAPHELEUGLYTHRASPARGVALLYS
4   VALTYRARGPHEASPPROGLUGLYHISGLY
5   THRVALVALALAGLUALAARGGLYGLYGLU
6   ARGLEUPROSERLEULEUGLYLEUTHRPHE
7   ALAGLYASPILEGLUALAARGARGLEUPHE
8   ARGLEUALAGLNVALARGVALILEVALASP
9   VALGLUALAGLNSERARGSERILESERGLN
10   TRPSERALAARGVALGLUPROLEUGLNARG
11   PROVALASPPROCYCHISVALHISTYRLEU
12   LYSSERMETGLYVALALASERSERLEUVAL
13   VALPROLEUMETHISHISGLNGLULEUTRP
14   GLYLEULEUVALSERHISHISALAGLUPRO
15   TYRSERGLNGLUGLNVALVALLEULEUALA
16   ASPGLNVALSERILEALAILEALAGLNALA
17   GLULEUSERLEU

Samples:

sample_1: Phytochrome, [U-13C; U-15N], 1 – 2 mM; H2O 93%; D2O 7%

sample_conditions_1: ionic strength: 10 mM; pH: 8.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_1isotropicsample_conditions_1

Software:

X-PLOR NIH, Schwieters, Kuszewski, Tjandra and Clore - geometry optimization, refinement, structure solution

PIPP, Garrett - chemical shift assignment, data analysis, peak picking

NMR spectrometers:

  • Varian INOVA 800 MHz

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