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BMRB: 17285

2L5U

Structure of the first PHD finger (PHD1) from CHD4 (Mi2b).

Authors

Mansfield, R.E., Kwan, A.H., Mackay, J.P.

Assembly

PHD finger (PHD1) from CHD4 (Mi2b)

Entity

1. CHD4 PHD1 (polymer, Thiol state: all other bound), 61 monomers, 6845.614 Da Detail

GPLGSYETDH QDYCEVCQQG GEIILCDTCP RAYHMVCLDP DMEKAPEGKW SCPHCEKEGI Q

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

Total weight

6976.4316 Da

Max. entity weight

6845.614 Da

Entity Connection

na 8 Detail

ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS14:SG	2:ZN1:ZN
2	na	sing	1:CYS17:SG	2:ZN1:ZN
3	na	sing	1:HIS34:ND1	2:ZN1:ZN
4	na	sing	1:CYS37:SG	2:ZN1:ZN
5	na	sing	1:CYS26:SG	2:ZN1:ZN
6	na	sing	1:CYS29:SG	2:ZN1:ZN
7	na	sing	1:CYS52:SG	2:ZN1:ZN
8	na	sing	1:CYS55:SG	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 93.4 %, Completeness: 88.4 %, Completeness (bb): 91.3 % Detail

Polymer type: polypeptide(L)

	Total	¹H	¹³C	¹⁵N
All	88.4 % (597 of 675)	91.8 % (325 of 354)	83.1 % (216 of 260)	91.8 % (56 of 61)
Backbone	91.3 % (325 of 356)	91.1 % (112 of 123)	91.5 % (162 of 177)	91.1 % (51 of 56)
Sidechain	86.6 % (324 of 374)	92.2 % (213 of 231)	76.8 % (106 of 138)	100.0 % (5 of 5)
Aromatic	50.0 % (24 of 48)	95.8 % (23 of 24)	0.0 % (0 of 23)	100.0 % (1 of 1)
Methyl	90.0 % (36 of 40)	90.0 % (18 of 20)	90.0 % (18 of 20)

1. CHD4 PHD1

GPLGSYETDH QDYCEVCQQG GEIILCDTCP RAYHMVCLDP DMEKAPEGKW SCPHCEKEGI Q

Show sample condition

Sample #1

Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Concentration
1	CHD4 PHD1	[U-100% 13C; U-100% 15N]	0.7 mM
2	sodium phosphate	natural abundance	10 mM
3	sodium chloride	natural abundance	50 mM
4	DTT	natural abundance	1 mM
5	DSS	natural abundance	20 uM
6	H2O	natural abundance	93 %
7	D2O	natural abundance	7 %

Sample #2

Solvent system 93% H2O/7% D2O, Pressure 1 atm, Temperature 298 K, pH 7.5

#	Name	Isotope labeling	Concentration
8	CHD4 PHD1	natural abundance	1 mM
9	sodium phosphate	natural abundance	10 mM
10	sodium chloride	natural abundance	50 mM
11	DTT	natural abundance	1 mM
12	DSS	natural abundance	20 uM
13	H2O	natural abundance	93 %
14	D2O	natural abundance	7 %

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: -0.36 ppm, Outliers: 4 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: -0.36 ppm, Outliers: 4 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: 0.01 ppm, Outliers: 2 Detail

LACS Plot; CO

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: 0.25 ppm, Outliers: 4 Detail

Release date

2011-01-31

Citation

Plant homeodomain (PHD) fingers of CHD4 are histone H3-binding modules with preference for unmodified H3K4 and methylated H3K9
Mansfield, R.E., Musselman, C.A., Kwan, A.H., Oliver, S.S., Garske, A.L., Davrazou, F., Denu, J.M., Kutateladze, T.G., Mackay, J.P.
J. Biol. Chem. (2011), 286, 11779-11791, PubMed 21278251 , DOI 10.1074/jbc.M110.208207 , Abstract

Related entities 1. CHD4 PHD1, : 1 : 7 : 145 entities Detail

Interaction partners 1. CHD4 PHD1, : 69 interactors Detail

More details for 69 interactors identified by 34 citations

Experiments performed 16 experiments Detail

1 2D 1H-1H NOESY