BMRB: 11352

Solution structure of PHD domain in inhibitor of growth family, member 1-like

Authors

He, F., Muto, Y., Inoue, M., Kigawa, T., Shirouzu, M., Terada, T., Yokoyama, S.

Assembly

inhibitor of growth family, member 1-like

Entity

1. PHD domain (polymer, Thiol state: all other bound), 71 monomers, 7737.521 Da Detail

GSSGSSGEFA IDPNEPTYCL CNQVSYGEMI GCDNEQCPIE WFHFSCVSLT YKPKGKWYCP KCRGDSGPSS G

2. ZN (non-polymer), 65.409 × 2 Da

Total weight

7868.339 Da

Max. entity weight

7737.521 Da

Entity Connection

na 8 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS19:SG	2:ZN1:ZN
2	na	sing	1:CYS46:SG	2:ZN1:ZN
3	na	sing	1:HIS43:ND1	2:ZN1:ZN
4	na	sing	1:CYS21:SG	2:ZN1:ZN
5	na	sing	1:CYS37:SG	2:ZN1:ZN
6	na	sing	1:CYS59:SG	2:ZN1:ZN
7	na	sing	1:CYS62:SG	2:ZN1:ZN
8	na	sing	1:CYS32:SG	2:ZN1:ZN

Source organism

Mus musculus

Exptl. method

solution NMR

Refine. method

Torsion angle dynamics

Data set

assigned_chemical_shifts

Chem. Shift Complete

Sequence coverage: 94.4 %, Completeness: 95.5 %, Completeness (bb): 93.0 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	95.5 % (750 of 785)	95.4 % (391 of 410)	96.7 % (293 of 303)	91.7 % (66 of 72)
Backbone	93.0 % (385 of 414)	91.0 % (132 of 145)	95.1 % (194 of 204)	90.8 % (59 of 65)
Sidechain	98.2 % (425 of 433)	97.7 % (259 of 265)	98.8 % (159 of 161)	100.0 % (7 of 7)
Aromatic	100.0 % (90 of 90)	100.0 % (45 of 45)	100.0 % (43 of 43)	100.0 % (2 of 2)
Methyl	100.0 % (34 of 34)	100.0 % (17 of 17)	100.0 % (17 of 17)

1. PHD domain

GSSGSSGEFA IDPNEPTYCL CNQVSYGEMI GCDNEQCPIE WFHFSCVSLT YKPKGKWYCP KCRGDSGPSS G

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 293 (±0.1) K, pH 7.0 (±0.05), Details 0.8mM {U-15,13C;} 20mM d-Tris-HCl(pH {7.0);} 100mM {NaCl;} 0.1mM {ZnCl2;} 1mM {d-DTT;} 0.02% {NaN3;} 90%H2O, 10%D2O

#	Name	Isotope labeling	Type	Concentration
1	PHD domain	[U-13C; U-15N]	protein	0.8 mM
2	d-Tris-HCl	natural abundance	buffer	20 mM
3	NaCl	natural abundance	salt	100 mM
4	ZnCl2	natural abundance	salt	0.1 mM
5	d-DTT	natural abundance	salt	1 mM
6	NaN3	natural abundance	salt	0.02 %
7	H2O		solvent	90 %
8	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: 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; CO

Referencing offset: 0.35 ppm, Outliers: 5 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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Protein Blocks Logo

Calculated from 20 models in PDB: 1WES, Strand ID: A Detail

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Release date

2011-09-06

Citation

Solution structure of PHD domain in inhibitor of growth family, member 1-like
He, F., Muto, Y., Inoue, M., Kigawa, T., Shirouzu, M., Terada, T., Yokoyama, S.

Related entities 1. PHD domain, : 1 : 1 : 64 entities Detail

Interaction partners 1. PHD domain, : 12 interactors Detail

Experiments performed 2 experiments Detail