BMRB Entry 27654

Name: Backbone 1H, 13C, and 15N Chemical Shift Assignments for the Plant Homeodomain (PHD) of ING5
Published: 2019-06-18

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR27654

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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:

Backbone 1H, 13C, and 15N Chemical Shift Assignments for the Plant Homeodomain (PHD) of ING5

Deposition date:

2018-10-17

Original release date:

2019-06-18

Authors:

Blanco, Francisco J; Ibanez de Opakua, Alain; Ormaza, Georgina

Citation:

Citation: Ormaza, Georgina; Rodriguez, Jhon; Ibanez de Opakua, Alain; Merino, Nekane; Villate, Maider; Gorrono, Irantzu; Rabano, Miriam; Palmero, Ignacio; Vilaseca, Marta; Kypta, Robert; Vivanco, Maria; Rojas, Adriana; Blanco, Francisco. "The Tumor Suppressor ING5 Is a Dimeric, Bivalent Recognition Molecule of the Histone H3K4me3 Mark." J. Mol. Biol. 431, 2298-2319 (2019).
PubMed: 31026448

Assembly members:

Assembly members:
ING5_PHD, polymer, 66 residues, Formula weight is not available
ZINC ION, non-polymer, 65.409 Da.

Natural source:

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

Experimental source:

Experimental source: Production method: recombinant technology Host organism: Escherichia coli Vector: p29

Entity Sequences (FASTA):

Entity Sequences (FASTA):
ING5_PHD: GAMDMPVDPNEPTYCLCHQV SYGEMIGCDNPDCPIEWFHF ACVDLTTKPKGKWFCPRCVQ EKRKKK

Data sets:

assigned_chemical_shifts
- assigned_chem_shift_list_1

Data type	Count
13C chemical shifts	182
15N chemical shifts	55
1H chemical shifts	108

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	ING5 PHD	1
2	Zn2+ ion 1	2
3	Zn2+ ion 2	2

Entities:

Entity 1, ING5 PHD 66 residues - Formula weight is not available

1

GLY

ALA

MET

ASP

MET

PRO

VAL

ASP

PRO

ASN

2

GLU

PRO

THR

TYR

CYS

LEU

CYS

HIS

GLN

VAL

3

SER

TYR

GLY

GLU

MET

ILE

GLY

CYS

ASP

ASN

4

PRO

ASP

CYS

PRO

ILE

GLU

TRP

PHE

HIS

PHE

5

ALA

CYS

VAL

ASP

LEU

THR

LYS

PRO

LYS

6

GLY

LYS

TRP

PHE

CYS

PRO

ARG

CYS

VAL

GLN

7

GLU

LYS

ARG

LYS

Entity 2, Zn2+ ion 1 - Zn - 65.409 Da.

1

ZN

Samples:

sample_1: ING5 PHD, [U-99% 13C; U-99% 15N], 215 uM; Divalent zinc 430 uM; TRIS 20 mM; sodium chloride 300 mM; DTT 1 mM; DSS 25 uM; D2O, [U-100% 2H], 5 % v/v

sample_conditions_1: pH: 8.0; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
2D 1H-15N HSQC	sample_1	isotropic	sample_conditions_1
2D 1H-13C HSQC	sample_1	isotropic	sample_conditions_1
3D HNCO	sample_1	isotropic	sample_conditions_1
3D HN(CA)CO	sample_1	isotropic	sample_conditions_1
3D HNCA	sample_1	isotropic	sample_conditions_1
3D HN(CO)CA	sample_1	isotropic	sample_conditions_1
3D HNCB	sample_1	isotropic	sample_conditions_1
3D HN(CO)CB	sample_1	isotropic	sample_conditions_1
3D HN(CA)HA	sample_1	isotropic	sample_conditions_1
3D HN(COCA)HA	sample_1	isotropic	sample_conditions_1

Software:

TOPSPIN, Bruker Biospin - collection, processing

SPARKY, Goddard - chemical shift assignment, data analysis, peak picking

MARS, Zweckstetter - chemical shift assignment

NMR spectrometers:

Bruker Avance 800 MHz

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