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 26967

Title: Assignments of Dictyostelium GlcNAc-Skp1   PubMed: 29251491

Deposition date: 2016-12-07 Original release date: 2018-02-09

Authors: Xu, Xianzhong; Eletsky, Alexander; Sheikh, M. Osman; Prestegard, James; West, Christopher

Citation: Xu, Xianzhong; Eletsky, Alexander; Sheikh, M. Osman; Prestegard, James; West, Christopher. "Glycosylation Promotes the Random Coil to Helix Transition in a Region of a Protist Skp1 Associated with F-Box Binding.'"  Biochemistry 57, 511-515 (2018).

Assembly members:
GlcNAc-Skp1, polymer, 161 residues, Formula weight is not available

Natural source:   Common Name: "cellular slime molds   Taxonomy ID: 44689   Superkingdom: Eukaryota   Kingdom: not available   Genus/species: Dictyostelium discoideum

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli   Vector: pET19b-Skp1-P4H1

Entity Sequences (FASTA):
GlcNAc-Skp1: SLVKLESSDEKVFEIEKEIA CMSVTIKNMIEDIGESDSPI PLPNVTSTILEKVLDYCRHH HQHPSPQGDDKKDEKRLDDI PPYDRDFCKVDQPTLFELIL AANYLDIKPLLDVTCKTVAN MIRGKTPEEIRKIFNIKNDF TPEEEEQIRKENEWCEDKGG N

Data sets:
Data typeCount
13C chemical shifts476
15N chemical shifts136
1H chemical shifts273

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1GlcNAc-Skp11

Entities:

Entity 1, GlcNAc-Skp1 161 residues - Formula weight is not available

1   SERLEUVALLYSLEUGLUSERSERASPGLU
2   LYSVALPHEGLUILEGLULYSGLUILEALA
3   CYSMETSERVALTHRILELYSASNMETILE
4   GLUASPILEGLYGLUSERASPSERPROILE
5   PROLEUPROASNVALTHRSERTHRILELEU
6   GLULYSVALLEUASPTYRCYSARGHISHIS
7   HISGLNHISPROSERPROGLNGLYASPASP
8   LYSLYSASPGLULYSARGLEUASPASPILE
9   PROPROTYRASPARGASPPHECYSLYSVAL
10   ASPGLNPROTHRLEUPHEGLULEUILELEU
11   ALAALAASNTYRLEUASPILELYSPROLEU
12   LEUASPVALTHRCYSLYSTHRVALALAASN
13   METILEARGGLYLYSTHRPROGLUGLUILE
14   ARGLYSILEPHEASNILELYSASNASPPHE
15   THRPROGLUGLUGLUGLUGLNILEARGLYS
16   GLUASNGLUTRPCYSGLUASPLYSGLYGLY
17   ASN

Samples:

ILV_GlcNAc_Skp1: GlcNAc-Skp1, [U-13C; U-15N; U-2H] and methyls of I(CD1/HD1)LV protonated, 1 mM; sodium phosphate 20 mM; sodium chloride 50 mM; sodium azide 0.05% w/w; DSS 50 uM; magnesium chloride 1 mM; TCEP 1 mM; D2O, [U-100% 2H], 10% v/v

sample_conditions_1: pH: 7.0; pressure: 1 atm; temperature: 308.2 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCILV_GlcNAc_Skp1isotropicsample_conditions_1
2D 1H-15N HSQC(TROSY)ILV_GlcNAc_Skp1isotropicsample_conditions_1
2D ct-1H-13C HSQC aliphaticILV_GlcNAc_Skp1isotropicsample_conditions_1
3D TROSY-HNCAILV_GlcNAc_Skp1isotropicsample_conditions_1
3D TROSY-HNCOILV_GlcNAc_Skp1isotropicsample_conditions_1
3D TROSY-HNCACBILV_GlcNAc_Skp1isotropicsample_conditions_1
3D TROSY-HN(CO)CAILV_GlcNAc_Skp1isotropicsample_conditions_1
3D TROSY-HN(COCA)CBILV_GlcNAc_Skp1isotropicsample_conditions_1
3D HMCM(CG)CBCAILV_GlcNAc_Skp1isotropicsample_conditions_1
3D TROSY-HN(CA)COILV_GlcNAc_Skp1isotropicsample_conditions_1
3D 15N/13Cali/13Caro-resolved-1H-1H NOESYILV_GlcNAc_Skp1isotropicsample_conditions_1

Software:

NMRPipe vlinux212_64, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

CARA vcara1.2.4, Keller and Wuthrich - chemical shift assignment, data analysis, peak picking

SPARKY, TD Goddard and DG Kneller - data analysis

VNMRJ v4.2, Agilent - collection

NMR spectrometers:

  • Agilent INOVA 900 MHz

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