BMRB Entry 17285

Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR17285

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Title:
Structure of the first PHD finger (PHD1) from CHD4 (Mi2b).
Deposition date:
2010-11-08
Original release date:
2011-02-01
Authors:
Mansfield, Robyn; Kwan, Ann; Mackay, Joel
Citation:

Citation: Mansfield, Robyn; Musselman, Catherine; Kwan, Ann; Oliver, Samuel; Garske, Adam; Davrazou, Foteini; Denu, John; Kutateladze, Tatiana; Mackay, Joel. "Plant Homeodomain (PHD) Fingers of CHD4 Are Histone H3-binding Modules with Preference for Unmodified H3K4 and Methylated H3K9."  J. Biol. Chem. 286, 11779-11791 (2011).
PubMed: 21278251

Assembly members:

Assembly members:
CHD4_PHD1, polymer, 61 residues, 6852.700 Da.
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: pGEX-6PE

Entity Sequences (FASTA):

Entity Sequences (FASTA):
CHD4_PHD1: GPLGSYETDHQDYCEVCQQG GEIILCDTCPRAYHMVCLDP DMEKAPEGKWSCPHCEKEGI Q

Data sets:
Data typeCount
13C chemical shifts215
15N chemical shifts55
1H chemical shifts372

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1CHD4_PHD11
2ZINC ION_12
3ZINC ION_22

Entities:

Entity 1, CHD4_PHD1 61 residues - 6852.700 Da.

1   GLYPROLEUGLYSERTYRGLUTHRASPHIS
2   GLNASPTYRCYSGLUVALCYSGLNGLNGLY
3   GLYGLUILEILELEUCYSASPTHRCYSPRO
4   ARGALATYRHISMETVALCYSLEUASPPRO
5   ASPMETGLULYSALAPROGLUGLYLYSTRP
6   SERCYSPROHISCYSGLULYSGLUGLYILE
7   GLN

Entity 2, ZINC ION_1 - Zn - 65.409 Da.

1   ZN

Samples:

double_labelled: CHD4 PHD1, [U-100% 13C; U-100% 15N], 0.7 mM; sodium phosphate 10 mM; sodium chloride 50 mM; DTT 1 mM; DSS 20 uM; H2O 93%; D2O 7%

unlabelled: CHD4 PHD1 1 mM; sodium phosphate 10 mM; sodium chloride 50 mM; DTT 1 mM; DSS 20 uM; H2O 93%; D2O 7%

sample_conditions_1: ionic strength: 60 mM; pH: 7.5; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-1H NOESYunlabelledisotropicsample_conditions_1
2D 1H-15N HSQCdouble_labelledisotropicsample_conditions_1
2D 1H-13C HSQCdouble_labelledisotropicsample_conditions_1
3D HNCAdouble_labelledisotropicsample_conditions_1
3D CBCA(CO)NHdouble_labelledisotropicsample_conditions_1
3D HNCACBdouble_labelledisotropicsample_conditions_1
3D HNHAdouble_labelledisotropicsample_conditions_1
3D HBHA(CO)NHdouble_labelledisotropicsample_conditions_1
3D HNCOdouble_labelledisotropicsample_conditions_1
3D HN(CA)COdouble_labelledisotropicsample_conditions_1
3D HCCH-TOCSYdouble_labelledisotropicsample_conditions_1
3D HNHBdouble_labelledisotropicsample_conditions_1
2D (HB)CB(CGCD)HDdouble_labelledisotropicsample_conditions_1
2D (HB)CB(CGCDCE)HEdouble_labelledisotropicsample_conditions_1
3D 1H-15N NOESYdouble_labelledisotropicsample_conditions_1
2D 1H-1H TOCSYunlabelledisotropicsample_conditions_1

Software:

TOPSPIN, Bruker Biospin - collection, processing

SPARKY, Goddard - data analysis

ARIA v1.2, Linge, O'Donoghue and Nilges - structure solution

TALOS, Cornilescu, Delaglio and Bax - dihedral angles from chemical shifts

NMR spectrometers:

  • Bruker DRX 600 MHz

Related Database Links:

PDB
GB ELK10391 KKF19752
REF XP_010589128 XP_011483884 XP_014057096

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