BMRB: 10257

Solution structures of the C2H2 type zinc finger domain of human zinc finger BED domain containing protein 2

Authors

Sato, M., Sasagawa, A., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.

Assembly

Zinc finger BED domain-containing protein 2

Entity

1. C2H2 type zinc finger domain (polymer, Thiol state: all other bound), 76 monomers, 8071.767 Da Detail

GSSGSSGSEA WEYFHLAPAR AGHHPNQYAT CRLCGRQVSR GPGVNVGTTA LWKHLKSMHR EELEKSGHGQ SGPSSG

2. ZN (non-polymer), 65.409 Da

Total weight

8137.1763 Da

Max. entity weight

8071.767 Da

Entity Connection

na 4 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS31:SG	2:ZN1:ZN
2	na	sing	1:CYS34:SG	2:ZN1:ZN
3	na	sing	1:HIS54:NE2	2:ZN1:ZN
4	na	sing	1:HIS59:NE2	2:ZN1:ZN

Source organism

Homo sapiens

Exptl. method

solution NMR

Refine. method

torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 89.5 %, Completeness: 88.4 %, Completeness (bb): 82.4 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	88.4 % (721 of 816)	88.7 % (377 of 425)	91.0 % (284 of 312)	75.9 % (60 of 79)
Backbone	82.4 % (369 of 448)	80.0 % (128 of 160)	87.0 % (188 of 216)	73.6 % (53 of 72)
Sidechain	95.1 % (411 of 432)	94.0 % (249 of 265)	96.9 % (155 of 160)	100.0 % (7 of 7)
Aromatic	100.0 % (74 of 74)	100.0 % (37 of 37)	100.0 % (35 of 35)	100.0 % (2 of 2)
Methyl	100.0 % (50 of 50)	100.0 % (25 of 25)	100.0 % (25 of 25)

1. C2H2 type zinc finger domain

GSSGSSGSEA WEYFHLAPAR AGHHPNQYAT CRLCGRQVSR GPGVNVGTTA LWKHLKSMHR EELEKSGHGQ SGPSSG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 298 (±0.1) K, pH 7.0 (±0.05)

#	Name	Isotope labeling	Type	Concentration
1	C2H2 type zinc finger domain	[U-13C; U-15N]	protein	1 mM
2	d-Tris-HCl		buffer	20 mM
3	NaCl		salt	100 mM
4	d-DTT		salt	1 mM
5	NaN3		salt	0.02 %
6	ZnCl2		salt	0.05 mM
7	IDA		salt	1 mM
8	H2O		solvent	90 %
9	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.12 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CB

Referencing offset: -0.12 ppm, Outliers: 1 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; HA

Referencing offset: -0.01 ppm, Outliers: 3 Detail

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Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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LACS Plot; CO

Referencing offset: -0.19 ppm, Outliers: 1 Detail

Show chemical shift referencing parameters

Chemical shift reference

Atom type	Mol. common name	Atom group	Value	Ref. method	Ref. type	Shift ratio
13C	DSS	methyl protons	0.0 ppm	null	indirect	0.2514495
1H	DSS	methyl protons	0.0 ppm	null	indirect	1.0
15N	DSS	methyl protons	0.0 ppm	null	indirect	0.1013291

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Protein Blocks Logo

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

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Release date

2009-11-23

Citation

Solution structures of the DNA-binding domains of immune-related zinc-finger protein ZFAT
Sato, M., Sasagawa, A., Tochio, N., Koshiba, S., Inoue, M., Kigawa, T., Yokoyama, S.
J. Struct. Funct. Genomics (2015), 16, 55-65, PubMed 25801860 , DOI 10.1007/s10969-015-9196-3 , Abstract

Related entities 1. C2H2 type zinc finger domain, : 1 : 23 entities Detail

Interaction partners 1. C2H2 type zinc finger domain, : 1 interactors Detail

Experiments performed 2 experiments Detail