BMRB Entry 16209
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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR16209
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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
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 199 |
| 15N chemical shifts | 57 |
| 1H chemical shifts | 309 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | JARID1A PHD finger 3 | 1 |
| 2 | ZINC ION_1 | 2 |
| 3 | ZINC ION_2 | 2 |
Entities:
Entity 1, JARID1A PHD finger 3 52 residues - 5802.505 Da.
| 1 | SER | VAL | CYS | ALA | ALA | GLN | ASN | CYS | GLN | ARG | ||||
| 2 | PRO | CYS | LYS | ASP | LYS | VAL | ASP | TRP | VAL | GLN | ||||
| 3 | CYS | ASP | GLY | GLY | CYS | ASP | GLU | TRP | PHE | HIS | ||||
| 4 | GLN | VAL | CYS | VAL | GLY | VAL | SER | PRO | GLU | MET | ||||
| 5 | ALA | GLU | ASN | GLU | ASP | TYR | ILE | CYS | ILE | ASN | ||||
| 6 | CYS | ALA |
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:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 1H,15N-HSQC | sample_1 | isotropic | sample_conditions_1 |
| 1H,13C-HSQC | sample_1 | isotropic | sample_conditions_1 |
| HNCACB | sample_1 | isotropic | sample_conditions_1 |
| HBHACONH | sample_1 | isotropic | sample_conditions_1 |
| CBCACONH | sample_1 | isotropic | sample_conditions_1 |
| 2D 1H, 1H-NOESY | sample_1 | isotropic | sample_conditions_1 |
| HCCHTOCSY | sample_1 | isotropic | sample_conditions_1 |
| 15N-EDITED 1H,1H-NOESY | sample_1 | isotropic | sample_conditions_1 |
| 13C-EDITED 1H,1H-NOESY | sample_1 | isotropic | sample_conditions_1 |
| 15N IPAP HSQC | sample_2 | isotropic | sample_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 |
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