BMRB Entry 11354

Name: Solution structure of PHD domain in ING1-like protein BAC25079
Published: 2011-09-07

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PDB ID: 1wen
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR11354
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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 PHD domain in ING1-like protein BAC25079

Deposition date:

2010-09-07

Original release date:

2011-09-07

Authors:

He, F.; Muto, Y.; Inoue, M.; Kigawa, T.; Shirouzu, M.; Terada, T.; Yokoyama, S.

Citation:

Citation: He, F.; Muto, Y.; Inoue, M.; Kigawa, T.; Shirouzu, M.; Terada, T.; Yokoyama, S.. "Solution structure of PHD domain in ING1-like protein BAC25079" .

Assembly members:

Assembly members:
PHD domain, polymer, 71 residues, Formula weight is not available
ZN, non-polymer, 65.409 Da.

Natural source:

Natural source: Common Name: house mouse Taxonomy ID: 10090 Superkingdom: Eukaryota Kingdom: Metazoa Genus/species: Mus musculus

Experimental source:

Experimental source: Production method: cell free synthesis Host organism: E. coli - cell free Vector: P030408-71

Entity Sequences (FASTA):

Entity Sequences (FASTA):
PHD domain: GSSGSSGDMPVDPNEPTYCL CHQVSYGEMIGCDNPDCSIE WFHFACVGLTTKPRGKWFCP RCSQESGPSSG

Data sets:

assigned_chemical_shifts
- chemical_shift_1

Data type	Count
13C chemical shifts	287
15N chemical shifts	65
1H chemical shifts	422

Additional metadata:

Assembly
Samples and Experiments
Software
Spectrometers
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Assembly:

Entity Assembly ID	Entity Name	Entity ID
1	PHD domain	1
2	ZINC ION no.1	2
3	ZINC ION no.2	2

Entities:

Entity 1, PHD domain 71 residues - Formula weight is not available

1

GLY

SER

GLY

SER

GLY

ASP

MET

PRO

2

VAL

ASP

PRO

ASN

GLU

PRO

THR

TYR

CYS

LEU

3

CYS

HIS

GLN

VAL

SER

TYR

GLY

GLU

MET

ILE

4

GLY

CYS

ASP

ASN

PRO

ASP

CYS

SER

ILE

GLU

5

TRP

PHE

HIS

PHE

ALA

CYS

VAL

GLY

LEU

THR

6

THR

LYS

PRO

ARG

GLY

LYS

TRP

PHE

CYS

PRO

7

ARG

CYS

SER

GLN

GLU

SER

GLY

PRO

SER

8

GLY

Entity 2, ZINC ION no.1 - Zn - 65.409 Da.

1

ZN

Samples:

sample_1: PHD domain, [U-13C; U-15N], 0.8 mM; d-Tris-HCl 20 mM; NaCl 100 mM; ZnCl2 0.1 mM; d-DTT 1 mM; NaN3 0.02%; H2O 90%; D2O 10%

condition_1: ionic strength: 120 mM; pH: 7.0; pressure: 1 atm; temperature: 293 K

Experiments:

Name	Sample	Sample state	Sample conditions
3D 15N-separated NOESY	sample_1	isotropic	condition_1
3D 13C-separated NOESY	sample_1	isotropic	condition_1

Software:

xwinnmr v2.6, Bruker - collection

NMRPipe v20020425, Delaglio, F. - processing

NMRView v5.0.4, Johnson, B.A. - data analysis

Kujira v0.863, Cobayashi, N. - data analysis

CYANA v2.0.17, Guntert, P. - refinement, structure solution

NMR spectrometers:

Bruker AVANCE 800 MHz

PDB	1WEN 1WEU 2K1J 2PNX 2VNF
DBJ	BAB26183 BAC27489 BAC34304 BAF30477 BAF30478
EMBL	CAF97848 CAG31609
GB	AAD48585 AAH07781 AAH09127 AAH13038 AAH95434
REF	NP_001006251 NP_001030466 NP_001073356 NP_001121054 NP_001121055
SP	Q3T095 Q5ZKY4 Q8C0D7 Q9UNL4
TPG	DAA29237
AlphaFold	Q3T095 Q5ZKY4 Q8C0D7 Q9UNL4