BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 16209

Title: Solution Structure of JARID1A C-terminal PHD finger   PubMed: 19430464

Deposition date: 2009-03-11 Original release date: 2009-05-29

Authors: Song, Jikui; Wang, Zhanxin; Patel, Dinshaw

Citation: Wang, Gang; Song, Jikui; Wang, Zhanxin; Dormann, Holger; Casadio, Fabio; Li, Haitao; Luo, Jun-Li; Patel, Dinshaw; Allis, C.. "Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger"  Nature 459, 847-851 (2009).

Assembly members:
JARID1A_PHD_finger_3, polymer, 52 residues, 5802.505 Da.
ZN, non-polymer, 65.409 Da.

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

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

Entity Sequences (FASTA):
JARID1A_PHD_finger_3: SVCAAQNCQRPCKDKVDWVQ CDGGCDEWFHQVCVGVSPEM AENEDYICINCA

Data sets:
Data typeCount
13C chemical shifts199
15N chemical shifts57
1H chemical shifts309

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1JARID1A PHD finger 31
2ZINC ION_12
3ZINC ION_22

Entities:

Entity 1, JARID1A PHD finger 3 52 residues - 5802.505 Da.

1   SERVALCYSALAALAGLNASNCYSGLNARG
2   PROCYSLYSASPLYSVALASPTRPVALGLN
3   CYSASPGLYGLYCYSASPGLUTRPPHEHIS
4   GLNVALCYSVALGLYVALSERPROGLUMET
5   ALAGLUASNGLUASPTYRILECYSILEASN
6   CYSALA

Entity 2, ZINC ION_1 - Zn - 65.409 Da.

1   ZN

Samples:

sample_1: JARID1A PHD finger 3, [U-100% 13C; U-100% 15N], 0.2-0.5 mM; sodium phosphate 20 mM; ZnCl2 1 mM; DTT 5 mM; H2O 90%; D2O 10%

sample_2: JARID1A PHD finger 3, [U-100% 15N], 0.2-0.5 mM; MOPS 10 mM; ZnCl2 1 mM; DTT 5 mM; H2O 90%; D2O 10%; NaCl 200 mM; bacteriophage Pf1 12 mg/ml

sample_conditions_1: ionic strength: 20 mM; pH: 7.0; pressure: 1 atm; temperature: 293.2 K

sample_conditions_2: ionic strength: 200 mM; pH: 7.0; pressure: 1 atm; temperature: 298.2 K

Experiments:

NameSampleSample stateSample conditions
1H,15N-HSQCsample_1isotropicsample_conditions_1
1H,13C-HSQCsample_1isotropicsample_conditions_1
HNCACBsample_1isotropicsample_conditions_1
HBHACONHsample_1isotropicsample_conditions_1
CBCACONHsample_1isotropicsample_conditions_1
2D 1H, 1H-NOESYsample_1isotropicsample_conditions_1
HCCHTOCSYsample_1isotropicsample_conditions_1
15N-EDITED 1H,1H-NOESYsample_1isotropicsample_conditions_1
13C-EDITED 1H,1H-NOESYsample_1isotropicsample_conditions_1
15N IPAP HSQCsample_2isotropicsample_conditions_2

Software:

CNS, Brunger A. T. et.al. - refinement

NMR spectrometers:

  • Bruker DMX 800 MHz

Related Database Links:

BMRB 16210
PDB
DBJ BAE06081 BAG10524
GB ACH71258 ELK02599 ELK24529 ELV13200 EOB07246
REF NP_001036068 NP_001264106 XP_001373115 XP_001914992 XP_002712829
SP P29375

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts