BMRB Entry 52578

Name: Relaxation data of PHDvC5HCH of NSD3
Published: 2024-10-25

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR52578

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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:

Relaxation data of PHDvC5HCH of NSD3

Deposition date:

2024-08-06

Original release date:

2024-10-25

Authors:

Berardi, Andrea; Quilici, Giacomo; Musco, Giovanna

Citation:

Citation: Berardi, Andrea; Leonie Kaestner, Charlotte; Ghitti, Michela; Quilici, Giacomo; Cocomazzi, Paolo; Li, Jianping; Ballabio, Federico; Zucchelli, Chiara; Knapp, Stefan; Licht, Jonathan; Musco, Giovanna. "The C-terminal PHDVC5HCH tandem domain of NSD2 is a combinatorial reader of unmodified H3K4 and tri-methylated H3K27 that regulates transcription of cell adhesion genes in multiple myeloma" Nucleic Acids Res. ., .-..

Assembly members:

Assembly members:
entity_1, polymer, 105 residues, Formula weight is not available
entity_ZN, 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: into petM11

Entity Sequences (FASTA):

Entity Sequences (FASTA):
entity_1: SRKIKTEPKQMHEDYCFQCG DGGELVMCDKKDCPKAYHLL CLNLTQPPYGKWECPWHQCD ECSSAAVSFCEFCPHSFCKD HEKGALVPSALEGRLCCSEH DPMAP

Data sets:

heteronucl_NOEs
- heteronucl_NOEs_1
heteronucl_T1_relaxation
- heteronucl_T1_relaxation_1
heteronucl_T2_relaxation
- heteronucl_T2_relaxation_1

Data type	Count
T1 relaxation values	81
T2 relaxation values	81
heteronuclear NOE values	84

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PHDvC5HCH domain of NSD3	1
2	ZINC ION, 1	2
3	ZINC ION, 2	2
4	ZINC ION, 3	2
5	ZINC ION, 4	2

Entities:

Entity 1, PHDvC5HCH domain of NSD3 105 residues - Formula weight is not available

The N-terminal Serine does not correspond to the natural sequence

1

SER

ARG

LYS

ILE

LYS

THR

GLU

PRO

LYS

GLN

2

MET

HIS

GLU

ASP

TYR

CYS

PHE

GLN

CYS

GLY

3

ASP

GLY

GLU

LEU

VAL

MET

CYS

ASP

LYS

4

LYS

ASP

CYS

PRO

LYS

ALA

TYR

HIS

LEU

5

CYS

LEU

ASN

LEU

THR

GLN

PRO

TYR

GLY

6

LYS

TRP

GLU

CYS

PRO

TRP

HIS

GLN

CYS

ASP

7

GLU

CYS

SER

ALA

VAL

SER

PHE

CYS

8

GLU

PHE

CYS

PRO

HIS

SER

PHE

CYS

LYS

ASP

9

HIS

GLU

LYS

GLY

ALA

LEU

VAL

PRO

SER

ALA

10

LEU

GLU

GLY

ARG

LEU

CYS

SER

GLU

HIS

11

ASP

PRO

MET

ALA

PRO

Entity 2, ZINC ION, 1 - Zn - 65.409 Da.

1

ZN

Samples:

sample_1: PHDvC5HCH of NSD2, [U-99% 15N], 0.3 mM; ZnCl2 10 mM; NaH2PO4/Na2HPO4 20 mM; NaCl 150 mM; TCEP 1 mM

sample_conditions_1: ionic strength: 170 mM; pH: 6.3; pressure: 1 atm; temperature: 295 K

Experiments:

Name	Sample	Sample state	Sample conditions
1H-15N heteronoe	sample_1	isotropic	sample_conditions_1
T1/R1 relaxation	sample_1	isotropic	sample_conditions_1
T2/R2 relaxation	sample_1	isotropic	sample_conditions_1

Software:

CcpNMR v2.5 - data analysis

NMR spectrometers:

Bruker AVANCE III 600 MHz