BMRB Entry 16657

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR16657

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Title:
Assignment and structural characterization of intrinsically disordered CDK inhibitor Sic1 from yeast
Deposition date:
2009-12-23
Original release date:
2010-05-05
Authors:
Mittag, Tanja; Choy, Wing-Yiu; Marsh, Joseph; Orlicky, Stephen; Grishaev, Alexander; Lin, Hong; Sicheri, Frank; Tyers, Mike; Forman-Kay, Julie
Citation:

Citation: Mittag, Tanja; Marsh, Joseph; Grishaev, Alexander; Orlicky, Stephen; Lin, Hong; Sicheri, Frank; Tyers, Mike; Forman-Kay, Julie. "Structure/function implications in a dynamic complex of the intrinsically disordered Sic1 with the Cdc4 subunit of an SCF ubiquitin ligase."  Structure (Cambridge, MA, U. S.) 18, 494-506 (2010).
PubMed: 20399186

Assembly members:

Assembly members:
Sic1, polymer, 92 residues, 9727.079 Da.
Sic1_G-1X, polymer, 92 residues, Formula weight is not available
Sic1_N21X, polymer, 92 residues, Formula weight is not available
Sic1_S38X, polymer, 92 residues, Formula weight is not available
Sic1_N64X, polymer, 92 residues, Formula weight is not available
Sic1_P83X, polymer, 92 residues, Formula weight is not available
Sic1_T90X, polymer, 92 residues, Formula weight is not available

Natural source:

Natural source:   Common Name: Baker's yeast   Taxonomy ID: 4932   Superkingdom: Eukaryota   Kingdom: Fungi   Genus/species: Saccharomyces cerevisiae

Experimental source:

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

Entity Sequences (FASTA):

Entity Sequences (FASTA):
Sic1: GSMTPSTPPRSRGTRYLAQP SGNTSSSALMQGQKTPQKPS QNLVPVTPSTTKSFKNAPLL APPNSNMGMTSPFNGLTSPQ RSPFPKSSVKRT
Sic1_G-1X: XSMTPSTPPRSRGTRYLAQP SGNTSSSALMQGQKTPQKPS QNLVPVTPSTTKSFKNAPLL APPNSNMGMTSPFNGLTSPQ RSPFPKSSVKRT
Sic1_N21X: GSMTPSTPPRSRGTRYLAQP SGXTSSSALMQGQKTPQKPS QNLVPVTPSTTKSFKNAPLL APPNSNMGMTSPFNGLTSPQ RSPFPKSSVKRT
Sic1_S38X: GSMTPSTPPRSRGTRYLAQP SGNTSSSALMQGQKTPQKPX QNLVPVTPSTTKSFKNAPLL APPNSNMGMTSPFNGLTSPQ RSPFPKSSVKRT
Sic1_N64X: GSMTPSTPPRSRGTRYLAQP SGNTSSSALMQGQKTPQKPS QNLVPVTPSTTKSFKNAPLL APPNSXMGMTSPFNGLTSPQ RSPFPKSSVKRT
Sic1_P83X: GSMTPSTPPRSRGTRYLAQP SGNTSSSALMQGQKTPQKPS QNLVPVTPSTTKSFKNAPLL APPNSNMGMTSPFNGLTSPQ RSPFXKSSVKRT
Sic1_T90X: GSMTPSTPPRSRGTRYLAQP SGNTSSSALMQGQKTPQKPS QNLVPVTPSTTKSFKNAPLL APPNSNMGMTSPFNGLTSPQ RSPFPKSSVKRX

Data sets:
Data typeCount
13C chemical shifts263
15N chemical shifts90
1H chemical shifts159
heteronuclear NOE values70
residual dipolar couplings67
T1 relaxation values71
T2 relaxation values70

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1Sic11

Entities:

Entity 1, Sic1 92 residues - 9727.079 Da.

The first two residues represent a non-native artifact from cleavage of an affinity tag and are therefore numbered -1 and 0. Residue M1 is the actual beginning of the native Sic1 sequence. The construct used represents the first 90 residues of Sic1, the so-called targeting region.

1   GLYSERMETTHRPROSERTHRPROPROARG
2   SERARGGLYTHRARGTYRLEUALAGLNPRO
3   SERGLYASNTHRSERSERSERALALEUMET
4   GLNGLYGLNLYSTHRPROGLNLYSPROSER
5   GLNASNLEUVALPROVALTHRPROSERTHR
6   THRLYSSERPHELYSASNALAPROLEULEU
7   ALAPROPROASNSERASNMETGLYMETTHR
8   SERPROPHEASNGLYLEUTHRSERPROGLN
9   ARGSERPROPHEPROLYSSERSERVALLYS
10   ARGTHR

Samples:

sample_1: Sic1, [U-13C; U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_2: Sic1, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_3: Sic1, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; PEG(C12E5)/hexanol 0.08 v/v; D2O 90%; H2O 10%

sample_4: Sic1_G-1X, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_5: Sic1_N21X, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_6: Sic1_S38X, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_7: Sic1_N64X, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_8: Sic1_P83X, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_9: Sic1_T90X, [U-15N], 0.5 mM; potassium phosphate 50 mM; sodium chloride 150 mM; sodium azide 0.02%; EDTA 1 mM; DSS 1 mM; D2O 90%; H2O 10%

sample_conditions_1: ionic strength: 0.2 M; pH: 7.0; pressure: 1 atm; temperature: 278 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_2isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D C(CO)NHsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
pseudo3D 15N T1sample_2isotropicsample_conditions_1
pseudo3D 15N T1rhosample_2isotropicsample_conditions_1
pseudo3D 1H-15N hetNOEsample_2isotropicsample_conditions_1
2D 1H-15N IPAPsample_3anisotropicsample_conditions_1
pseudo3D NH R2 for PREsample_4isotropicsample_conditions_1
pseudo3D NH R2 for PREsample_5isotropicsample_conditions_1
pseudo3D NH R2 for PREsample_6isotropicsample_conditions_1
pseudo3D NH R2 for PREsample_7isotropicsample_conditions_1
pseudo3D NH R2 for PREsample_8isotropicsample_conditions_1
pseudo3D NH R2 for PREsample_9isotropicsample_conditions_1

Software:

ENSEMBLE, Marsh, Choy, Forman-Kay - ensemble generation

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

NMRView, Johnson, One Moon Scientific - chemical shift assignment

FuDA, Kristensen and Hansen - peak integration, RDC analysis

NMR spectrometers:

  • Varian INOVA 500 MHz
  • Varian INOVA 600 MHz
  • Varian INOVA 800 MHz

Related Database Links:

DBJ GAA24963 GAA24963 GAA24963 GAA24963 GAA24963 GAA24963 GAA24963
EMBL CAA55118 CAA97638 CAY81316 CAA55118 CAA97638 CAY81316 CAA55118 CAA97638 CAY81316 CAA55118 CAA97638 CAY81316 CAA55118 CAA97638 CAY81316 CAA55118 CAA97638 CAY81316 CAA55118 CAA97638 CAY81316
GB AAA20052 AAB67583 AHY78481 AJP40260 AJV46162 AAA20052 AAB67583 AHY78481 EDN59624 EDV09382 AAA20052 AAB67583 AHY78481 EDV09382 EDZ70684 AAA20052 AAB67583 AHY78481 EDV09382 EDZ70684 AAA20052 AAB67583 AHY78481 EDN59624 EDV09382 AAA20052 AAB67583 AHY78481 EDV09382 EDZ70684 AAA20052 AAB67583 AHY78481 EDN59624 EDV09382
REF NP_013180 NP_013180 NP_013180 NP_013180 NP_013180 NP_013180 NP_013180
SP P38634 P38634 P38634 P38634 P38634 P38634 P38634
TPG DAA09395 DAA09395 DAA09395 DAA09395 DAA09395 DAA09395 DAA09395
AlphaFold P38634 P38634 P38634 P38634 P38634 P38634 P38634

Download HSQC peak lists in one of the following formats:
CSV: Backbone or all simulated peaks
SPARKY: Backbone or all simulated peaks