SASDA56: BAZ2B in Tris (Bromodomain adjacent to zinc finger domain protein...

Basic information

• Entry: Database: SASBDB / ID: SASDA56

Sample

BAZ2B in Tris

• Bromodomain adjacent to zinc finger domain protein 2B, C-terminal (protein), BAZ2B, Homo sapiens

• Biological species: Homo sapiens (human)
• Citation: Journal: Structure / Year: 2015; Title: Molecular basis of histone tail recognition by human TIP5 PHD finger and bromodomain of the chromatin remodeling complex NoRC.; Authors: Cynthia Tallant / Erica Valentini / Oleg Fedorov / Lois Overvoorde / Fleur M Ferguson / Panagis Filippakopoulos / Dmitri I Svergun / Stefan Knapp / Alessio Ciulli / ; Abstract: Binding of the chromatin remodeling complex NoRC to RNA complementary to the rDNA promoter mediates transcriptional repression. TIP5, the largest subunit of NoRC, is involved in recruitment to rDNA by interactions with promoter-bound TTF-I, pRNA, and acetylation of H4K16. TIP5 domains that recognize posttranslational modifications on histones are essential for recruitment of NoRC to chromatin, but how these reader modules recognize site-specific histone tails has remained elusive. Here, we report crystal structures of PHD zinc finger and bromodomains from human TIP5 and BAZ2B in free form and bound to H3 and/or H4 histones. PHD finger functions as an independent structural module in recognizing unmodified H3 histone tails, and the bromodomain prefers H3 and H4 acetylation marks followed by a key basic residue, KacXXR. Further low-resolution analyses of PHD-bromodomain modules provide molecular insights into their trans histone tail recognition, required for nucleosome recruitment and transcriptional repression of the NoRC complex.

Contact author

• Erica Valentini (EMBL-Hamburg, European Molecular Biology Laboratory (EMBL) - Hamburg outstation, Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany)

Models

• Model #159: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)
• Model #160: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)
• Model #161: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)
• Model #162: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)
• Model #163: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)
• Model #164: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)
• Model #165: ; Type: mix / Software: EOM / Radius of dummy atoms: 1.90 A / Chi-square value: 1.028196; Search similar-shape structures of this assembly by Omokage search (details)

Sample

• Sample: Name: BAZ2B in Tris / Specimen concentration: 10 mg/ml
• Buffer: Name: Tris / Concentration: 20.00 mM / pH: 8 ; Composition: NaCl 500.000 mM, DTT 2.000 mM, ZnCl2 10.000 microM

Entity #115

Name: BAZ2B / Type: protein
Description: Bromodomain adjacent to zinc finger domain protein 2B, C-terminal
Formula weight: 27.67 / Num. of mol.: 1 / Source: Homo sapiens
Sequence:

AMASIMKVYC QICRKGDNEE LLLLCDGCDK GCHTYCHRPK ITTIPDGDWF CPACIAKASG QTLKIKKLHV KGKKTNESKK GKKVTLTGDT EDEDSASTSS SLKRGNKDLK KRKMEENTSI NLSKQESFTS VKKPKRDDSK DLALCSMILT EMETHEDAWP FLLPVNLKLV PGYKKVIKKP MDFSTIREKL SSGQYPNLET FALDVRLVFD NCETFNEDDS DIGRAGHNMR KYFEKKWTDT FKVS

Experimental information

• Beam: Instrument name: DORIS III X33 / City: Hamburg / 国: Germany / Shape: 0.6 / Type of source: X-ray synchrotronSynchrotron / Wavelength: 0.15 Å / Dist. spec. to detc.: 2.7 mm
• Detector: Name: Pilatus 1M-W / Pixsize x: 0.172 mm

Scan

Title: BAZ2B in Tris / Measurement date: Sep 24, 2012 / Storage temperature: 10 °C / Cell temperature: 10 °C / Exposure time: 15 sec. / Number of frames: 8 / Unit: 1/nm /

	Min	Max
Q	0.0871	6.0145

Distance distribution function P(R)

Sofotware P(R): GNOM 4.6 / Number of points: 434 /

	Min	Max
Q	0.09259	6.012
P(R) point	1	434
R	0	15

Result

Type of curve: single_conc /

	Experimental	Standard	Porod
MW	25 kDa	33 kDa	25 kDa
Volume	-	-	43 nm3

	P(R)	Guinier
Forward scattering, I0	28.5	28
Radius of gyration, Rg	4.2 nm	4 nm

	Min	Max
D	-	14.5
Guinier point	30	91