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BMRB: 17244

2L43

Structural basis for histone code recognition by BRPF2-PHD1 finger

Authors

Qin, S., Zhang, J., Wu, J., Shi, Y.

Assembly

PROTEIN

Entity

1. BRPF2-PHD1 (polymer, Thiol state: all other bound), 88 monomers, 9775.829 Da Detail

ARTKQTARKS TGGSSGSSQS LIDEDAVCSI CMDGESQNSN VILFCDMCNL AVHQECYGVP YIPEGQWLCR HCLQSRARPA LEHHHHHH

2. ZN (non-polymer, Thiol state: not present), 65.409 × 2 Da

Total weight

9906.647 Da

Max. entity weight

9775.829 Da

Entity Connection

na 8 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:HIS53:ND1	2:ZN1:ZN
2	na	sing	1:CYS28:SG	2:ZN1:ZN
3	na	sing	1:CYS48:SG	2:ZN1:ZN
4	na	sing	1:CYS72:SG	2:ZN1:ZN
5	na	sing	1:CYS31:SG	2:ZN1:ZN
6	na	sing	1:CYS45:SG	2:ZN1:ZN
7	na	sing	1:CYS69:SG	2:ZN1:ZN
8	na	sing	1:CYS56:SG	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

simulated annealing, torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 92.0 %, Completeness: 71.3 %, Completeness (bb): 73.9 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	71.3 % (689 of 966)	76.4 % (383 of 501)	60.0 % (222 of 370)	88.4 % (84 of 95)
Backbone	73.9 % (386 of 522)	85.5 % (153 of 179)	61.6 % (159 of 258)	87.1 % (74 of 85)
Sidechain	71.7 % (377 of 526)	71.7 % (231 of 322)	70.1 % (136 of 194)	100.0 % (10 of 10)
Aromatic	14.3 % (10 of 70)	14.3 % (5 of 35)	11.8 % (4 of 34)	100.0 % (1 of 1)
Methyl	81.1 % (60 of 74)	83.8 % (31 of 37)	78.4 % (29 of 37)

1. BRPF2-PHD1

ARTKQTARKS TGGSSGSSQS LIDEDAVCSI CMDGESQNSN VILFCDMCNL AVHQECYGVP YIPEGQWLCR HCLQSRARPA LEHHHHHH

Show sample condition

Sample #1

Solvent system 90% H2O/10% D2O, Pressure 1 atm, Temperature 293 K, pH 6.7

#	Name	Isotope labeling	Concentration
1	BRPF2-PHD1	[U-100% 13C; U-100% 15N]	0.8 mM
2	ZINC ION	natural abundance	1.6 mM
3	Bis-Tris	natural abundance	20 mM
4	sodium chloride	natural abundance	150 mM
5	H2O	natural abundance	90 %
6	D2O	natural abundance	10 %

Sample #2

Solvent system 100% D2O, Pressure 1 atm, Temperature 293 K, pH 6.7

#	Name	Isotope labeling	Concentration
7	BRPF2-PHD1	[U-100% 13C; U-100% 15N]	0.8 mM
8	ZINC ION	natural abundance	1.6 mM
9	Bis-Tris	natural abundance	20 mM
10	sodium chloride	natural abundance	150 mM
11	D2O	natural abundance	100 %

LACS Plot; CA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: -0.14 ppm, Outliers: 2 Detail

LACS Plot; CB

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: -0.14 ppm, Outliers: 2 Detail

LACS Plot; HA

Atom type	Mol. common name	Atom group	Ref. method	Ref. type	Shift ratio
¹³C	DSS	methyl protons	na	indirect	0.2514495
¹H	DSS	methyl protons	internal	direct	1.0
¹⁵N	DSS	methyl protons	na	indirect	0.1013291

Referencing offset: 0.06 ppm, Outliers: 3 Detail

Protein Blocks Logo

Calculated from 20 models in PDB: 2L43, Strand ID: A Detail

Release date

2012-07-24

Citation

Solution structure of an atypical PHD finger in BRPF2 and its interaction with DNA
Liu, L., Qin, S., Zhang, J., Ji, P., Shi, Y., Wu, J.
J. Struct. Biol. (2012), 180, 165-173, PubMed 22820306 , DOI 10.1016/j.jsb.2012.06.014 , Abstract

Related entities 1. BRPF2-PHD1, : 1 : 13 entities Detail

Experiments performed 8 experiments Detail

1 2D 1H-15N HSQC