BMRB Entry 17828

Name: Ubiquitin-like domain from HOIL-1
Published: 2012-04-30

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PDB ID: 2lgy
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR17828
MolProbity Validation Chart

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Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title: Ubiquitin-like domain from HOIL-1 PubMed: 22517668

Deposition date: 2011-08-03 Original release date: 2012-04-30

Authors: Beasley, Steven; Shaw, Gary; Beasley, Steven

Citation: Beasley, Steven; Safadi, Susan; Barber, Kathryn; Shaw, Gary. "Solution structure of the E3 ligase HOIL-1 Ubl domain." Protein Sci. 21, 1085-1092 (2012).

Assembly members:
HOIL-1_Ubl, polymer, 90 residues, 10353.854 Da.

Natural source: Common Name: Human Taxonomy ID: 9606 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Homo sapiens

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

Entity Sequences (FASTA):
HOIL-1_Ubl: MPTQDIRLWVSVEDAQMHTV TIWLTVRPDMTVASLKDMVF LDYGFPPVLQQWVIGQRLAR DQETLHSHGVRQNGDSAYLY LLSARNTSLN

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	391
15N chemical shifts	90
1H chemical shifts	633

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	HOIL-1_Ubl	1

Entities:

Entity 1, HOIL-1_Ubl 90 residues - 10353.854 Da.

1	MET	PRO	THR	GLN	ASP	ILE	ARG	LEU	TRP	VAL
2	SER	VAL	GLU	ASP	ALA	GLN	MET	HIS	THR	VAL
3	THR	ILE	TRP	LEU	THR	VAL	ARG	PRO	ASP	MET
4	THR	VAL	ALA	SER	LEU	LYS	ASP	MET	VAL	PHE
5	LEU	ASP	TYR	GLY	PHE	PRO	PRO	VAL	LEU	GLN
6	GLN	TRP	VAL	ILE	GLY	GLN	ARG	LEU	ALA	ARG
7	ASP	GLN	GLU	THR	LEU	HIS	SER	HIS	GLY	VAL
8	ARG	GLN	ASN	GLY	ASP	SER	ALA	TYR	LEU	TYR
9	LEU	LEU	SER	ALA	ARG	ASN	THR	SER	LEU	ASN

Samples:

sample_1: HOIL-1 Ubl, [U-15N], 0.2 mM; potassium phosphate 10 mM; EDTA 1 mM; potassium chloride 50 mM; DSS 30 uM; H2O 90%; D2O 10%

sample_2: HOIL-1 Ubl, [U-13C; U-15N], 0.2 mM; potassium phosphate 10 mM; EDTA 1 mM; potassium chloride 50 mM; DSS 30 uM; H2O 90%; D2O 10%

sample_3: HOIL-1 Ubl, [U-13C; U-15N], 0.2 mM; potassium phosphate 10 mM; EDTA 1 mM; potassium chloride 50 mM; DSS 30 uM; D2O 100%

sample_conditions_1: ionic strength: 61 mM; pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_2	isotropic	sample_conditions_1
3D HN(CA)CO	sample_2	isotropic	sample_conditions_1
3D HNCA	sample_2	isotropic	sample_conditions_1
3D HN(CO)CA	sample_2	isotropic	sample_conditions_1
3D HNCACB	sample_2	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_2	isotropic	sample_conditions_1
3D C(CO)NH	sample_2	isotropic	sample_conditions_1
3D H(CCO)NH	sample_2	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_3	isotropic	sample_conditions_1
3D HCCH-COSY aromatic	sample_3	isotropic	sample_conditions_1
2D 1H-13C HSQC aromatic	sample_3	isotropic	sample_conditions_1
2D 1H-13C HSQC aliphatic	sample_3	isotropic	sample_conditions_1
3D 1H-13C NOESY aliphatic	sample_3	isotropic	sample_conditions_1
3D 1H-13C NOESY aromatic	sample_3	isotropic	sample_conditions_1
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1

Software:

NMRPipe v5.0, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

NMRDraw v5.0, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

CYANA v2.1, Guntert, Mumenthaler and Wuthrich - structure solution

X-PLOR NIH v2.11.0, Schwieters, Kuszewski, Tjandra and Clore - refinement

TALOS vtalosplus, Cornilescu, Delaglio and Bax - geometry optimization

NMRView v8.0.rc47, Johnson, One Moon Scientific - chemical shift assignment, data analysis, peak picking

Procheck, Laskowski, MacArthur, Smith, Jones, Hutchinson, Morris, Moss and Tho - structure verification

VNMRJ v2.1B, Varian - collection

NMR spectrometers:

Varian INOVA 600 MHz

BMRB	17959
PDB	2LGY 4DBG
DBJ	BAC75409 BAG59927 BAG64417
GB	AAD00162 AAH15219 AIC59659 EAX10673 EAX10675
REF	NP_001253226 NP_006453 NP_112506 XP_001152050 XP_002747461
SP	Q9BYM8

Biological Magnetic Resonance Data Bank