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 26813

Title: 13C Chemical Shifts - Metarhodopsin II   PubMed: 27585742

Authors: Kimata, Naoki; Pope, Andreyah; Eilers, Markus; Opefi, Chikwado; Ziliox, Martine; Hirschfeld, Amiram; Zaitseva, Ekaterina; Vogel, Reiner; Sheves, Mordechai; Reeves, Philip; Smith, Steven

Citation: Kimata, Naoki; Pope, Andreyah; Eilers, Markus; Opefi, Chikwado; Ziliox, Martine; Hirschfeld, Amiram; Zaitseva, Ekaterina; Vogel, Reiner; Sheves, Mordechai; Reeves, Philip; Smith, Steven. "Retinal orientation and interactions in rhodopsin reveal a two-stage trigger mechanism for activation"  Nat. Commun. 7, 12683-12683 (2016).

Assembly members:
Rhodopsin, polymer, 348 residues, Formula weight is not available
entity_RET, non-polymer, 284.436 Da.

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

Experimental source:   Production method: recombinant technology

Entity Sequences (FASTA):
Rhodopsin: MNGTEGPNFYVPFSNKTGVV RSPFEAPQYYLAEPWQFSML AAYMFLLIMLGFPINFLTLY VTVQHKKLRTPLNYILLNLA VADLFMVFGGFTTTLYTSLH GYFVFGPTGCNLEGFFATLG GEIALWSLVVLAIERYVVVC KPMSNFRFGENHAIMGVAFT WVMALACAAPPLVGWSRYIP EGMQCSCGIDYYTPHEETNN ESFVIYMFVVHFIIPLIVIF FCYGQLVFTVKEAAAQQQES ATTQKAEKEVTRMVIIMVIA FLICWLPYAGVAFYIFTHQG SDFGPIFMTIPAFFAKTSSV YNPVIYIMMNKQFRNCMVTT LCCGKNPLGDDEASTTVSKT ETSQVAPA

Data sets:
Data typeCount
13C chemical shifts36

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1Opsin1
2Retinal2

Entities:

Entity 1, Opsin 348 residues - Formula weight is not available

1   METASNGLYTHRGLUGLYPROASNPHETYR
2   VALPROPHESERASNLYSTHRGLYVALVAL
3   ARGSERPROPHEGLUALAPROGLNTYRTYR
4   LEUALAGLUPROTRPGLNPHESERMETLEU
5   ALAALATYRMETPHELEULEUILEMETLEU
6   GLYPHEPROILEASNPHELEUTHRLEUTYR
7   VALTHRVALGLNHISLYSLYSLEUARGTHR
8   PROLEUASNTYRILELEULEUASNLEUALA
9   VALALAASPLEUPHEMETVALPHEGLYGLY
10   PHETHRTHRTHRLEUTYRTHRSERLEUHIS
11   GLYTYRPHEVALPHEGLYPROTHRGLYCYS
12   ASNLEUGLUGLYPHEPHEALATHRLEUGLY
13   GLYGLUILEALALEUTRPSERLEUVALVAL
14   LEUALAILEGLUARGTYRVALVALVALCYS
15   LYSPROMETSERASNPHEARGPHEGLYGLU
16   ASNHISALAILEMETGLYVALALAPHETHR
17   TRPVALMETALALEUALACYSALAALAPRO
18   PROLEUVALGLYTRPSERARGTYRILEPRO
19   GLUGLYMETGLNCYSSERCYSGLYILEASP
20   TYRTYRTHRPROHISGLUGLUTHRASNASN
21   GLUSERPHEVALILETYRMETPHEVALVAL
22   HISPHEILEILEPROLEUILEVALILEPHE
23   PHECYSTYRGLYGLNLEUVALPHETHRVAL
24   LYSGLUALAALAALAGLNGLNGLNGLUSER
25   ALATHRTHRGLNLYSALAGLULYSGLUVAL
26   THRARGMETVALILEILEMETVALILEALA
27   PHELEUILECYSTRPLEUPROTYRALAGLY
28   VALALAPHETYRILEPHETHRHISGLNGLY
29   SERASPPHEGLYPROILEPHEMETTHRILE
30   PROALAPHEPHEALALYSTHRSERSERVAL
31   TYRASNPROVALILETYRILEMETMETASN
32   LYSGLNPHEARGASNCYSMETVALTHRTHR
33   LEUCYSCYSGLYLYSASNPROLEUGLYASP
34   ASPGLUALASERTHRTHRVALSERLYSTHR
35   GLUTHRSERGLNVALALAPROALA

Entity 2, Retinal - C20 H28 O - 284.436 Da.

1   RET

Samples:

sample_1: Rhodopsin, Specific 13C, 5 mg; Retinal, Specific 13C, 50 ug; sodium phosphate 2 mM; DDM 0.02%

sample_conditions_1: ionic strength: 2 mM; pH: 6; pressure: 1 atm; temperature: 190 K

Experiments:

NameSampleSample stateSample conditions
2D 13C DARRsample_1isotropicsample_conditions_1

Software:

TOPSPIN, Bruker Biospin - processing

NMR spectrometers:

  • Bruker Avance 600 MHz

Related Database Links: