BMRB Entry 28059

Name: 1H-15N backbone Heteronuclear NOE values for free and ssDNA complex forms of Human YB1 cold shock domain.
Published: 2020-01-17

Chem Shift validation: AVS_full
BMRB Entry DOI: doi:10.13018/BMR28059

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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:

1H-15N backbone Heteronuclear NOE values for free and ssDNA complex forms of Human YB1 cold shock domain.

Deposition date:

2020-01-02

Original release date:

2020-01-17

Authors:

Fan, Jing-Song; Yang, Daiwen

Citation:

Citation: Zhang, Jingfeng; Fan, Jing-Song; Li, Shuangli; Yang, Yunhuang; Sun, Peng; Zhu, Qinjun; Wang, Jiannan; Jiang, Bin; Yang, Daiwen; Liu, Maili. "Structural basis of DNA binding to human YB-1 cold shock domain regulated by phosphorylation" Nucleic Acids Res. 48, 9361-9371 (2020).
PubMed: 32710623

Assembly members:

Assembly members:
CSD, polymer, 117 residues, Formula weight is not available
ssDNA, polymer, 7 residues, Formula weight is not available

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: pet32a

Entity Sequences (FASTA):

Entity Sequences (FASTA):
CSD: MHHHHHHGGGGGGGGSSAAP AGGDKKVIATKVLGTVKWFN VRNGYGFINRNDTKEDVFVH QTAIKKNNPRKYLRSVGDGE TVEFDVVEGEKGAEAANVTG PGGVPVQGSKYAADRNH
ssDNA: AACACCT

Data sets:

heteronucl_NOEs
- heteronuclear_noe_list_1
- heteronuclear_noe_list_2

Data type	Count
heteronuclear NOE values	157

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
Hide all

Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	CSD	1
2	ssDNA	2

Entities:

Entity 1, CSD 117 residues - Formula weight is not available

1

MET

HIS

GLY

2

GLY

SER

ALA

PRO

3

ALA

GLY

ASP

LYS

VAL

ILE

ALA

THR

4

LYS

VAL

LEU

GLY

THR

VAL

LYS

TRP

PHE

ASN

5

VAL

ARG

ASN

GLY

TYR

GLY

PHE

ILE

ASN

ARG

6

ASN

ASP

THR

LYS

GLU

ASP

VAL

PHE

VAL

HIS

7

GLN

THR

ALA

ILE

LYS

ASN

PRO

ARG

8

LYS

TYR

LEU

ARG

SER

VAL

GLY

ASP

GLY

GLU

9

THR

VAL

GLU

PHE

ASP

VAL

GLU

GLY

GLU

10

LYS

GLY

ALA

GLU

ALA

ASN

VAL

THR

GLY

11

PRO

GLY

VAL

PRO

VAL

GLN

GLY

SER

LYS

12

TYR

ALA

ASP

ARG

ASN

HIS

Entity 2, ssDNA 7 residues - Formula weight is not available

1

DA

DC

DA

DC

DT

Samples:

sample_1: CSD, [U-100% 15N], 1 mM; phosphate buffer 20 mM; NaCl 50 mM

sample_2: CSD, [U-100% 15N], 1 mM; phosphate buffer 20 mM; NaCl 50 mM

sample_conditions_1: ionic strength: 20 mM; pH: 7.4; pressure: 1 atm; temperature: 298 K

Experiments:

Name	Sample	Sample state	Sample conditions
1H-15N heteronuckear NOE	sample_1	isotropic	sample_conditions_1
1H-15N heteronuckear NOE	sample_2	isotropic	sample_conditions_1

Software:

SPARKY, Goddard - data analysis

NMR spectrometers:

Bruker Avance 600 MHz
Bruker Avance 700 MHz