BMRB Entry 17244
Click here to enlarge.
PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR17244
MolProbity Validation Chart
NMR-STAR file interactive viewer.
NMR-STAR v3 text file.
NMR-STAR v2.1 text file (deprecated)
XML gzip file.
RDF gzip file.
All files associated with the entry
Title: Structural basis for histone code recognition by BRPF2-PHD1 finger PubMed: 22820306
Deposition date: 2010-10-10 Original release date: 2012-07-25
Authors: Qin, Su; Zhang, Jiahai; Wu, Jihui; Shi, Yunyu
Citation: Liu, Lei; Qin, Su; Zhang, Jiahai; Ji, Peng; Shi, Yunyu; Wu, Jihui. "Solution structure of an atypical PHD finger in BRPF2 and its interaction with DNA." J. Struct. Biol. 180, 165-173 (2012).
Assembly members:
BRPF2-PHD1, polymer, 88 residues, 8719.837 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):
BRPF2-PHD1: ARTKQTARKSTGGSSGSSQS
LIDEDAVCSICMDGESQNSN
VILFCDMCNLAVHQECYGVP
YIPEGQWLCRHCLQSRARPA
LEHHHHHH
- assigned_chemical_shifts
| Data type | Count |
| 13C chemical shifts | 206 |
| 15N chemical shifts | 82 |
| 1H chemical shifts | 426 |
Additional metadata:
Assembly:
| Entity Assembly ID | Entity Name | Entity ID |
|---|---|---|
| 1 | BRPF2-PHD1 | 1 |
| 2 | Zinc 1 | 2 |
| 3 | Zinc 2 | 2 |
Entities:
Entity 1, BRPF2-PHD1 88 residues - 8719.837 Da.
Histone H3(1-12) fused to the N-ternimal of BRPF2-PHD1 finger, linked by GSSGSS
| 1 | ALA | ARG | THR | LYS | GLN | THR | ALA | ARG | LYS | SER | ||||
| 2 | THR | GLY | GLY | SER | SER | GLY | SER | SER | GLN | SER | ||||
| 3 | LEU | ILE | ASP | GLU | ASP | ALA | VAL | CYS | SER | ILE | ||||
| 4 | CYS | MET | ASP | GLY | GLU | SER | GLN | ASN | SER | ASN | ||||
| 5 | VAL | ILE | LEU | PHE | CYS | ASP | MET | CYS | ASN | LEU | ||||
| 6 | ALA | VAL | HIS | GLN | GLU | CYS | TYR | GLY | VAL | PRO | ||||
| 7 | TYR | ILE | PRO | GLU | GLY | GLN | TRP | LEU | CYS | ARG | ||||
| 8 | HIS | CYS | LEU | GLN | SER | ARG | ALA | ARG | PRO | ALA | ||||
| 9 | LEU | GLU | HIS | HIS | HIS | HIS | HIS | HIS |
Entity 2, Zinc 1 - Zn - 65.409 Da.
| 1 | ZN |
Samples:
sample_1: BRPF2-PHD1, [U-100% 13C; U-100% 15N], 0.8 mM; ZINC ION 1.6 mM; Bis-Tris 20 mM; sodium chloride 150 mM; H2O 90%; D2O 10%
sample_2: BRPF2-PHD1, [U-100% 13C; U-100% 15N], 0.8 mM; ZINC ION 1.6 mM; Bis-Tris 20 mM; sodium chloride 150 mM; D2O 100%
sample_conditions_1: ionic strength: 0.15 M; pH: 6.7; pressure: 1 atm; temperature: 293 K
Experiments:
| Name | Sample | Sample state | Sample conditions |
|---|---|---|---|
| 2D 1H-15N HSQC | sample_1 | isotropic | sample_conditions_1 |
| 3D CBCA(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D HNCACB | sample_1 | isotropic | sample_conditions_1 |
| 3D C(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D HBHA(CO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D H(CCO)NH | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-15N NOESY | sample_1 | isotropic | sample_conditions_1 |
| 3D 1H-13C NOESY | sample_2 | isotropic | sample_conditions_1 |
Software:
NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing
SPARKY v3, Goddard - chemical shift assignment, data analysis, peak picking
TALOS, Cornilescu, Delaglio and Bax - chemical shift calculation, data analysis
ProcheckNMR, Laskowski and MacArthur - data analysis
CNS v1.2, Brunger, Adams, Clore, Gros, Nilges and Read - refinement, structure solution
Molmol, Koradi, Billeter and Wuthrich - data analysis
NMR spectrometers:
- Bruker DMX 500 MHz
Related Database Links:
| GB | NP_055392 NP_003484 |
| BMRB | 16721 |
| PDB | |
| REF | XP_009232775 XP_009232776 XP_009232777 XP_009232778 XP_009232779 |
Download simulated HSQC data in one of the following formats:
CSV: Backbone
or all simulated shifts
SPARKY: Backbone
or all simulated shifts