BMRB Entry 25221

Name: Solution structure of the PHD domain of Yeast YNG2
Published: 2014-12-22

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PDB ID: 2mum
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR25221
MolProbity Validation Chart

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Nicholas Rego and David Koes
3Dmol.js: molecular visualization with WebGL
Bioinformatics (2015) 31 (8): 1322-1324 doi:10.1093/bioinformatics/btu829

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Title:

Solution structure of the PHD domain of Yeast YNG2

Deposition date:

2014-09-12

Original release date:

2014-12-22

Authors:

Taeb, Samira; Kaustov, Lilia; Lemak, Alexander; Farhadi, Sahar; Sheng, Yi

Citation:

Citation: Taeb, Samira; Kaustov, Lilia; Lemak, Alexander; Farhadi, Sahar; Sheng, Yi. "Solution structure of the PHD domain of Yeast YNG2" .

Assembly members:

Assembly members:
entity_1, polymer, 50 residues, 5938.856 Da.
ZINC ION, non-polymer, 65.409 Da.

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: pET15b

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: TLYCFCQRVSFGEMVACDGP NCKYEWFHYDCVNLKEPPKG TWYCPECKIE

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
1H chemical shifts	340
13C chemical shifts	213
15N chemical shifts	49

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	entity_1	1
2	ZINC ION_1	2
3	ZINC ION_2	2

Entities:

Entity 1, entity_1 50 residues - 5938.856 Da.

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

Entity 2, ZINC ION_1 - Zn - 65.409 Da.

1

ZN

Name	Sample	Sample state	Sample conditions
3D 1H-15N NOESY	sample_1	isotropic	sample_conditions_1
3D 1H-13C NOESY	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D CBCA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D HBHA(CO)NH	sample_1	isotropic	sample_conditions_1
3D HCCH-TOCSY	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1

DBJ	GAA23808
EMBL	CAY80101
GB	AAB68930 AHY77791 AJP39190 AJU16386 AJU16646
REF	NP_011958
SP	P38806
TPG	DAA06786
AlphaFold	P38806

BMRB Entry 25221

Additional metadata:

Assembly:

Entities:

Samples:

Experiments:

Software:

NMR spectrometers:

Related Database Links:

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

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

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