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 27774

Title: Backbone 1H, 13C, and 15N Chemical Shift Assignments for PhDim1   PubMed: 31069720

Deposition date: 2019-02-04 Original release date: 2019-08-28

Authors: Kaiser, Marco; Hacker, Carolin; Durchardt-Ferner, Elke; Woehnert, Jens

Citation: Kaiser, Marco; Hacker, Carolin; Durchardt-Ferner, Elke; Woehnert, Jens. "1H, 13C, 15N backbone NMR resonance assignments for the rRNA methyltransferase Dim1 from the hyperthermophilic archaeon Pyrococcus horikoshii"  Biomol. NMR Assignments 13, 309-314 (2019).

Assembly members:
Pyrococcus_horikoshii_Dim1, polymer, 268 residues, Formula weight is not available

Natural source:   Common Name: Pyrococcus horikoshii   Taxonomy ID: 53953   Superkingdom: Archaea   Kingdom: not available   Genus/species: Pyrococcus horikoshii

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

Entity Sequences (FASTA):
Pyrococcus_horikoshii_Dim1: MRDRLFFLLSKYGIRPRDSI GQHFLIIEDVIEKAIETANV NENDVILEVGPGLGFLTDEL AKRAKKVYTIEIDQKIIEIL KKEYSWNNVKIIQGDAVRVE WPKFNKVVSNIPYKISSPFT FKLLKTDFERAVVMYQLEFA LRMVAKPGSRNYSRLSLMAQ ALGNVEIVMKIGKGAFYPRP KVDSALVLIEPRKDKIVLNE NLVKALFQHRRKTVPRALKD SIHMLGVSKDEIRGIINNVP HSNKRVFQLYPEEVKDIEEY LKKHGIIS

Data sets:
Data typeCount
13C chemical shifts733
15N chemical shifts230
1H chemical shifts230

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1PhDim11

Entities:

Entity 1, PhDim1 268 residues - Formula weight is not available

1   METARGASPARGLEUPHEPHELEULEUSER
2   LYSTYRGLYILEARGPROARGASPSERILE
3   GLYGLNHISPHELEUILEILEGLUASPVAL
4   ILEGLULYSALAILEGLUTHRALAASNVAL
5   ASNGLUASNASPVALILELEUGLUVALGLY
6   PROGLYLEUGLYPHELEUTHRASPGLULEU
7   ALALYSARGALALYSLYSVALTYRTHRILE
8   GLUILEASPGLNLYSILEILEGLUILELEU
9   LYSLYSGLUTYRSERTRPASNASNVALLYS
10   ILEILEGLNGLYASPALAVALARGVALGLU
11   TRPPROLYSPHEASNLYSVALVALSERASN
12   ILEPROTYRLYSILESERSERPROPHETHR
13   PHELYSLEULEULYSTHRASPPHEGLUARG
14   ALAVALVALMETTYRGLNLEUGLUPHEALA
15   LEUARGMETVALALALYSPROGLYSERARG
16   ASNTYRSERARGLEUSERLEUMETALAGLN
17   ALALEUGLYASNVALGLUILEVALMETLYS
18   ILEGLYLYSGLYALAPHETYRPROARGPRO
19   LYSVALASPSERALALEUVALLEUILEGLU
20   PROARGLYSASPLYSILEVALLEUASNGLU
21   ASNLEUVALLYSALALEUPHEGLNHISARG
22   ARGLYSTHRVALPROARGALALEULYSASP
23   SERILEHISMETLEUGLYVALSERLYSASP
24   GLUILEARGGLYILEILEASNASNVALPRO
25   HISSERASNLYSARGVALPHEGLNLEUTYR
26   PROGLUGLUVALLYSASPILEGLUGLUTYR
27   LEULYSLYSHISGLYILEILESER

Samples:

15NValPhDim1: Pyrococcus horikoshii Dim1, [U-100% 13C; U-100% 15N; U-100% 2H], 305 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

1H15N13CPhDim1: Pyrococcus horikoshii Dim1, [U-100% 13C; U-100% 15N], 400 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

1H15N13C_Thr_PhDim1: Pyrococcus horikoshii Dim1, [U-100% 13C; U-100% 15N]-Thr, 210 uM

15NArg13CProPhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Arg [U-100% 13C]-Pro, 200 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

15NGlyPhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Gly, 200 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

15NIlePhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Ile, 350 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

15NPhePhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Phe, 210 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

15NTyrPhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Arg [U-100% 13C]-Pro, 210 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

15NLeuPhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Leu, 280 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

15NLys13CProPhDim1: Pyrococcus horikoshii Dim1, [U-100% 15N]-Lys [U-100% 13C]-Pro, 300 uM; bis-tris ph 6.5 50 mM; sodium chloride 150 mM

2H15N13CPhDim1: bis-tris ph 6.5 50 mM; sodium chloride 150 mM; Pyrococcus horikoshii Dim1, [U-100% 13C; U-100% 15N; U-100% 2H], 210 uM

sample_conditions_1: ionic strength: 150 mM; pH: 6.5; pressure: 1 atm; temperature: 315 K

Experiments:

NameSampleSample stateSample conditions
trhncocagp3d1H15N13CPhDim1isotropicsample_conditions_1
b_trhncagp3d.21H15N13CPhDim1isotropicsample_conditions_1
trosyf3gpphsi19.21H15N13C_Thr_PhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NArg13CProPhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NGlyPhDim1isotropicsample_conditions_1
trhncogp2h3d15NArg13CProPhDim1isotropicsample_conditions_1
trosyf3gpphsi19.22H15N13CPhDim1isotropicsample_conditions_1
trhncocacbgp2h3d2H15N13CPhDim1isotropicsample_conditions_1
trhncocagp2h3d2H15N13CPhDim1isotropicsample_conditions_1
trhncacogp3d1H15N13CPhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NIlePhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NPhePhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NTyrPhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NLeuPhDim1isotropicsample_conditions_1
trosyf3gpphsi19.215NValPhDim1isotropicsample_conditions_1
trhncacbgp2h3d2H15N13CPhDim1isotropicsample_conditions_1
trhncogp2h3d2H15N13CPhDim1isotropicsample_conditions_1
trhncagp2h3d22H15N13CPhDim1isotropicsample_conditions_1
b_trosyetf3gpsi.215NLys13CProPhDim1isotropicsample_conditions_1
b_trhncogp3d.215NLys13CProPhDim1isotropicsample_conditions_1
trhncacogp2h3d2H15N13CPhDim1isotropicsample_conditions_1
trhncagp2h3d22H15N13CPhDim1isotropicsample_conditions_1

Software:

TOPSPIN v3.5, Bruker Biospin - collection, data analysis

Cara, Keller and Wuthrich - chemical shift assignment

NMR spectrometers:

  • Bruker Avance 600 MHz
  • Bruker Avance 800 MHz
  • Bruker Avance 700 MHz
  • Bruker Avance 599 MHz

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