BMRB: 11328

Solution structure of the B-box domain of the zinc finger FYVE domain-containing protein 19 from Mus musculus

Authors

Miyamoto, K., Kigawa, T., Sato, M., Koshiba, S., Inoue, M., Yokoyama, S.

Assembly

Zinc finger FYVE domain-containing protein 19

Entity

1. zf-B box (polymer, Thiol state: free and other bound), 67 monomers, 7303.912 Da Detail

GSSGSSGLPW CCICNEDATL RCAGCDGDLY CARCFREGHD NFDLKEHQTS PYHPRRPCQE HSGPSSG

2. ZN (non-polymer), 65.409 × 2 Da

Total weight

7434.73 Da

Max. entity weight

7303.912 Da

Entity Connection

na 8 Detail

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ID	Type	Value order	Atom ID 1	Atom ID 2
1	na	sing	1:CYS11:SG	2:ZN1:ZN
2	na	sing	1:CYS14:SG	2:ZN1:ZN
3	na	sing	1:CYS31:SG	2:ZN1:ZN
4	na	sing	1:CYS34:SG	2:ZN1:ZN
5	na	sing	1:CYS22:SG	2:ZN1:ZN
6	na	sing	1:CYS25:SG	2:ZN1:ZN
7	na	sing	1:HIS39:NE2	2:ZN1:ZN
8	na	sing	1:HIS47:ND1	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: 85.1 %, Completeness: 85.6 %, Completeness (bb): 80.1 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	85.6 % (605 of 707)	85.9 % (318 of 370)	86.7 % (234 of 270)	79.1 % (53 of 67)
Backbone	80.1 % (314 of 392)	78.1 % (107 of 137)	82.4 % (159 of 193)	77.4 % (48 of 62)
Sidechain	91.7 % (343 of 374)	90.6 % (211 of 233)	93.4 % (127 of 136)	100.0 % (5 of 5)
Aromatic	100.0 % (64 of 64)	100.0 % (32 of 32)	100.0 % (31 of 31)	100.0 % (1 of 1)
Methyl	100.0 % (30 of 30)	100.0 % (15 of 15)	100.0 % (15 of 15)

1. zf-B box

GSSGSSGLPW CCICNEDATL RCAGCDGDLY CARCFREGHD NFDLKEHQTS PYHPRRPCQE HSGPSSG

Show sample condition

Sample

Solvent system 90% H2O/10% D2O, Pressure 1 (±0.001) atm, Temperature 296 (±0.1) K, pH 7.0 (±0.05), Details 1.08mM zf-B_box U-13C, {15N;} 20mM {d-Tris-HCl(pH7.0);} 100mM {NaCl;} 1mM {d-DTT;} 0.02% {NaN3;} 0.05mM {ZNCl2;} 1.0mM {IDA;} 90% H2O, 10% D2O

#	Name	Isotope labeling	Type	Concentration
1	zf-B_box	[U-13C; U-15N]	protein	1.08 mM
2	d-Tris-HCl	natural abundance	buffer	20 mM
3	NaCl	natural abundance	salt	100 mM
4	d-DTT	natural abundance	salt	1 mM
5	NaN3	natural abundance	salt	0.02 %
6	ZnCl2	natural abundance	salt	0.05 mM
7	IDA	natural abundance	salt	1.0 mM
8	H2O		solvent	90 %
9	D2O		solvent	10 %

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LACS Plot; CA

Referencing offset: -0.15 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: -0.15 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: 0.05 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: 0.07 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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Protein Blocks Logo

Calculated from 20 models in PDB: 2D8V, Strand ID: A Detail

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Release date

2011-08-18

Citation

Solution structure of the B-box domain of the zinc finger FYVE domain-containing protein 19 from Mus musculus
Miyamoto, K., Kigawa, T., Sato, M., Koshiba, S., Inoue, M., Yokoyama, S.

Related entities 1. zf-B box, : 1 : 2 : 9 entities Detail

Experiments performed 2 experiments Detail