BMRB: 11327

Solution structure of the B-box domain of the human tripartite motif-containing 63 protein

Authors

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

Assembly

Ubiquitin ligase TRIM63

Entity

1. zf-B box (polymer, Thiol state: all other bound), 64 monomers, 6776.617 Da Detail

GSSGSSGHPM CKEHEDEKIN IYCLTCEVPT CSMCKVFGIH KACEVAPLQS VFQGQKTESG PSSG

2. ZN (non-polymer), 65.409 × 2 Da

Total weight

6907.435 Da

Max. entity weight

6776.617 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:HIS14:ND1	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:CYS23:SG	2:ZN1:ZN
6	na	sing	1:CYS26:SG	2:ZN1:ZN
7	na	sing	1:HIS40:ND1	2:ZN1:ZN
8	na	sing	1:CYS43:SG	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: 90.6 %, Completeness: 89.1 %, Completeness (bb): 86.4 % Detail

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Polymer type: polypeptide(L)

	Total	1H	13C	15N
All	89.1 % (616 of 691)	87.5 % (315 of 360)	91.8 % (245 of 267)	87.5 % (56 of 64)
Backbone	86.4 % (325 of 376)	83.2 % (109 of 131)	88.1 % (163 of 185)	88.3 % (53 of 60)
Sidechain	91.9 % (342 of 372)	90.0 % (206 of 229)	95.7 % (133 of 139)	75.0 % (3 of 4)
Aromatic	100.0 % (40 of 40)	100.0 % (20 of 20)	100.0 % (20 of 20)
Methyl	97.8 % (45 of 46)	95.7 % (22 of 23)	100.0 % (23 of 23)

1. zf-B box

GSSGSSGHPM CKEHEDEKIN IYCLTCEVPT CSMCKVFGIH KACEVAPLQS VFQGQKTESG PSSG

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 2.09mM 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	2.09 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: -0.12 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; CB

Referencing offset: -0.12 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; 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: 0.2 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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Protein Blocks Logo

Calculated from 20 models in PDB: 2D8U, Strand ID: A Detail

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Release date

2011-08-18

Citation

Solution structure of the B-box domain of the human tripartite motif-containing 63 protein
Miyamoto, K., Kigawa, T., Tomizawa, T., Koshiba, S., Inoue, M., Yokoyama, S.

Related entities 1. zf-B box, : 1 : 61 entities Detail

Experiments performed 2 experiments Detail